Query psy3902
Match_columns 181
No_of_seqs 170 out of 1305
Neff 8.1
Searched_HMMs 46136
Date Fri Aug 16 20:20:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3902.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3902hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802|consensus 100.0 1E-32 2.2E-37 240.2 2.1 145 10-180 519-663 (935)
2 KOG1803|consensus 100.0 3.3E-31 7.2E-36 229.4 5.7 118 42-181 338-455 (649)
3 TIGR00376 DNA helicase, putati 99.9 2.1E-28 4.5E-33 219.6 6.2 99 61-181 357-455 (637)
4 KOG1805|consensus 99.9 7.7E-28 1.7E-32 216.5 5.8 117 41-180 775-891 (1100)
5 COG1112 Superfamily I DNA and 99.9 3.2E-22 6.9E-27 182.6 5.8 115 44-181 470-584 (767)
6 KOG1804|consensus 99.8 1.4E-20 3E-25 169.5 5.1 133 42-180 419-551 (775)
7 KOG1801|consensus 99.8 3.1E-19 6.7E-24 164.2 4.3 120 41-180 513-632 (827)
8 KOG1807|consensus 99.7 4E-19 8.7E-24 157.6 2.4 115 43-178 699-814 (1025)
9 PF13086 AAA_11: AAA domain; P 99.7 1.7E-17 3.6E-22 130.2 3.3 66 42-111 170-235 (236)
10 KOG1806|consensus 99.2 1.9E-12 4.1E-17 118.3 1.6 149 3-173 931-1088(1320)
11 PF13604 AAA_30: AAA domain; P 98.8 2.9E-09 6.2E-14 83.1 3.0 85 64-176 92-177 (196)
12 TIGR01447 recD exodeoxyribonuc 98.3 2.9E-07 6.3E-12 82.7 2.8 47 64-111 258-304 (586)
13 TIGR01448 recD_rel helicase, p 98.2 1.1E-06 2.4E-11 80.7 4.9 80 64-170 415-496 (720)
14 KOG1803|consensus 98.2 6.6E-07 1.4E-11 79.1 2.7 49 3-55 356-404 (649)
15 PRK10875 recD exonuclease V su 98.2 6.4E-07 1.4E-11 80.8 2.5 48 64-112 264-311 (615)
16 PRK10919 ATP-dependent DNA hel 98.1 4.8E-06 1E-10 76.1 5.4 86 64-172 206-291 (672)
17 PRK13889 conjugal transfer rel 98.0 4.1E-06 8.9E-11 79.0 3.9 47 64-110 432-478 (988)
18 PRK13826 Dtr system oriT relax 98.0 3.8E-06 8.3E-11 79.8 3.5 47 65-111 468-514 (1102)
19 KOG1804|consensus 98.0 3E-06 6.4E-11 77.6 2.4 121 43-178 243-363 (775)
20 TIGR02768 TraA_Ti Ti-type conj 98.0 3.4E-06 7.3E-11 77.9 2.1 48 64-111 438-485 (744)
21 TIGR01073 pcrA ATP-dependent D 98.0 1.2E-05 2.5E-10 74.2 5.6 88 64-174 208-295 (726)
22 PRK13909 putative recombinatio 97.9 1E-05 2.2E-10 76.3 3.8 85 64-172 327-420 (910)
23 TIGR01075 uvrD DNA helicase II 97.9 2E-05 4.3E-10 72.6 5.3 88 64-174 207-294 (715)
24 PRK11773 uvrD DNA-dependent he 97.9 2E-05 4.3E-10 72.6 5.3 88 64-174 212-299 (721)
25 PRK14712 conjugal transfer nic 97.8 1.7E-05 3.6E-10 77.8 4.5 80 65-170 930-1009(1623)
26 COG1074 RecB ATP-dependent exo 97.8 1.6E-05 3.4E-10 76.6 3.9 87 64-173 377-467 (1139)
27 TIGR00609 recB exodeoxyribonuc 97.8 2.9E-05 6.2E-10 74.6 5.4 85 64-173 295-381 (1087)
28 PF01443 Viral_helicase1: Vira 97.8 7.9E-06 1.7E-10 64.5 0.8 44 65-110 62-105 (234)
29 TIGR02785 addA_Gpos recombinat 97.8 3.3E-05 7.2E-10 75.0 5.2 92 64-173 387-481 (1232)
30 TIGR00376 DNA helicase, putati 97.8 1.3E-05 2.8E-10 72.9 2.3 47 2-52 358-404 (637)
31 TIGR02784 addA_alphas double-s 97.8 3.1E-05 6.7E-10 74.7 4.9 96 64-174 390-496 (1141)
32 TIGR01074 rep ATP-dependent DN 97.7 4.1E-05 9E-10 69.8 5.2 86 64-172 205-290 (664)
33 PRK13709 conjugal transfer nic 97.7 3.8E-05 8.2E-10 76.1 4.4 75 65-165 1062-1136(1747)
34 PRK10876 recB exonuclease V su 97.6 7.9E-05 1.7E-09 72.1 4.5 86 64-174 376-463 (1181)
35 PRK11054 helD DNA helicase IV; 97.5 0.00013 2.9E-09 66.8 5.5 85 65-172 430-516 (684)
36 KOG1802|consensus 97.5 7.1E-05 1.5E-09 67.3 3.2 45 3-50 566-610 (935)
37 KOG1805|consensus 97.4 0.00011 2.4E-09 68.3 2.7 51 2-56 793-843 (1100)
38 PF09848 DUF2075: Uncharacteri 97.4 0.00038 8.3E-09 58.9 5.7 95 62-179 80-186 (352)
39 TIGR02760 TraI_TIGR conjugativ 97.3 0.00012 2.6E-09 73.8 2.6 47 64-110 1111-1157(1960)
40 PF05970 PIF1: PIF1-like helic 97.3 9.4E-05 2E-09 62.9 1.6 46 65-112 102-160 (364)
41 TIGR02760 TraI_TIGR conjugativ 97.3 0.00013 2.8E-09 73.6 2.6 47 65-111 529-575 (1960)
42 COG0210 UvrD Superfamily I DNA 97.1 0.00076 1.6E-08 61.4 5.5 87 64-173 212-298 (655)
43 PRK10536 hypothetical protein; 96.7 0.00097 2.1E-08 54.2 2.5 40 66-106 177-216 (262)
44 PF00580 UvrD-helicase: UvrD/R 96.5 0.00099 2.2E-08 54.3 1.1 40 64-104 255-294 (315)
45 COG1112 Superfamily I DNA and 95.9 0.0051 1.1E-07 56.7 2.4 43 5-51 488-530 (767)
46 PF02562 PhoH: PhoH-like prote 95.3 0.012 2.6E-07 46.3 2.3 40 66-106 120-159 (205)
47 COG0507 RecD ATP-dependent exo 94.6 0.015 3.3E-07 53.5 1.3 47 65-112 407-453 (696)
48 PF13604 AAA_30: AAA domain; P 93.7 0.022 4.8E-07 44.2 0.4 46 4-49 92-137 (196)
49 KOG1801|consensus 92.7 0.089 1.9E-06 49.6 2.9 50 3-54 534-583 (827)
50 COG1875 NYN ribonuclease and A 92.0 0.083 1.8E-06 45.1 1.6 61 67-131 353-413 (436)
51 PRK13709 conjugal transfer nic 91.8 0.11 2.5E-06 52.3 2.5 41 66-106 501-541 (1747)
52 PF05127 Helicase_RecD: Helica 90.7 0.19 4.1E-06 38.7 2.3 82 65-172 90-174 (177)
53 COG3973 Superfamily I DNA and 89.3 0.66 1.4E-05 42.2 4.8 88 63-173 526-613 (747)
54 KOG0387|consensus 84.4 1.5 3.2E-05 41.1 4.3 118 43-171 316-439 (923)
55 PRK14712 conjugal transfer nic 83.7 0.64 1.4E-05 46.8 1.9 39 67-106 370-408 (1623)
56 TIGR01447 recD exodeoxyribonuc 82.3 0.72 1.6E-05 41.9 1.5 43 5-48 259-301 (586)
57 PF00580 UvrD-helicase: UvrD/R 80.9 0.55 1.2E-05 38.0 0.3 44 4-48 255-298 (315)
58 PRK04296 thymidine kinase; Pro 79.4 1.6 3.5E-05 33.5 2.4 41 63-104 76-117 (190)
59 COG3972 Superfamily I DNA and 79.0 1.3 2.9E-05 39.5 2.0 41 63-105 293-334 (660)
60 cd00046 DEXDc DEAD-like helica 78.9 1.3 2.8E-05 30.5 1.7 42 42-83 79-121 (144)
61 PF07652 Flavi_DEAD: Flaviviru 77.9 1 2.2E-05 33.6 0.8 27 60-87 90-116 (148)
62 KOG0987|consensus 76.1 1.7 3.6E-05 39.2 1.8 45 67-112 218-271 (540)
63 PF00176 SNF2_N: SNF2 family N 75.4 1.1 2.3E-05 36.1 0.5 64 43-107 108-177 (299)
64 COG1875 NYN ribonuclease and A 74.7 1.5 3.3E-05 37.7 1.1 37 8-45 354-390 (436)
65 PRK10875 recD exonuclease V su 74.4 1.4 3.1E-05 40.3 1.0 43 5-48 265-307 (615)
66 PHA03372 DNA packaging termina 73.4 6.1 0.00013 36.2 4.7 37 61-99 295-333 (668)
67 TIGR02768 TraA_Ti Ti-type conj 73.2 1.7 3.8E-05 40.6 1.3 45 5-49 439-483 (744)
68 PRK10536 hypothetical protein; 71.9 2.4 5.1E-05 34.7 1.6 39 7-46 178-216 (262)
69 PRK13889 conjugal transfer rel 71.7 2 4.2E-05 41.5 1.3 44 5-48 433-476 (988)
70 PF01443 Viral_helicase1: Vira 70.9 3.4 7.5E-05 32.1 2.3 46 5-52 62-107 (234)
71 KOG0389|consensus 70.4 3.3 7.1E-05 38.9 2.3 61 41-105 498-565 (941)
72 PRK13826 Dtr system oriT relax 69.9 2.1 4.5E-05 41.8 1.0 45 6-50 469-513 (1102)
73 cd00561 CobA_CobO_BtuR ATP:cor 69.7 4.4 9.6E-05 30.5 2.6 41 62-102 92-137 (159)
74 PLN03142 Probable chromatin-re 67.1 4.2 9E-05 39.5 2.4 64 42-107 269-334 (1033)
75 TIGR00708 cobA cob(I)alamin ad 67.0 4.7 0.0001 30.9 2.2 42 61-103 93-140 (173)
76 TIGR01448 recD_rel helicase, p 65.6 4.1 8.8E-05 38.0 2.0 70 5-78 416-485 (720)
77 smart00487 DEXDc DEAD-like hel 62.7 3.2 7E-05 30.4 0.7 36 44-79 107-143 (201)
78 KOG0385|consensus 62.1 3.9 8.5E-05 38.4 1.2 62 42-105 267-330 (971)
79 COG1702 PhoH Phosphate starvat 62.0 6.5 0.00014 33.4 2.3 44 67-111 245-290 (348)
80 COG4098 comFA Superfamily II D 61.1 2.9 6.2E-05 35.8 0.1 27 43-75 186-212 (441)
81 COG4096 HsdR Type I site-speci 60.3 3.9 8.5E-05 38.5 0.9 35 43-77 257-297 (875)
82 PRK05986 cob(I)alamin adenolsy 59.2 5.6 0.00012 30.9 1.4 40 61-101 111-156 (191)
83 PRK04914 ATP-dependent helicas 58.7 6.2 0.00013 38.1 1.9 63 43-107 248-320 (956)
84 PF02562 PhoH: PhoH-like prote 57.4 4 8.6E-05 32.1 0.3 38 7-45 121-158 (205)
85 PHA03333 putative ATPase subun 56.5 23 0.00049 33.2 5.0 16 64-79 293-308 (752)
86 PF02572 CobA_CobO_BtuR: ATP:c 54.6 13 0.00027 28.5 2.7 42 61-103 92-139 (172)
87 COG1444 Predicted P-loop ATPas 53.3 9.4 0.0002 35.8 2.1 30 66-99 324-353 (758)
88 COG1061 SSL2 DNA or RNA helica 51.5 7 0.00015 34.2 0.9 38 43-80 123-161 (442)
89 PF09949 DUF2183: Uncharacteri 51.3 6 0.00013 27.4 0.4 21 92-112 63-83 (100)
90 COG2109 BtuR ATP:corrinoid ade 50.2 16 0.00036 28.5 2.7 46 61-108 118-168 (198)
91 PRK11448 hsdR type I restricti 50.0 8.1 0.00018 38.0 1.2 36 42-77 511-552 (1123)
92 PHA02558 uvsW UvsW helicase; P 49.2 12 0.00026 33.3 2.1 37 43-81 202-238 (501)
93 PF04851 ResIII: Type III rest 47.4 8.8 0.00019 28.1 0.8 19 63-81 144-162 (184)
94 PF09848 DUF2075: Uncharacteri 46.9 12 0.00026 31.6 1.6 47 2-48 80-133 (352)
95 PF00265 TK: Thymidine kinase; 46.5 16 0.00035 27.8 2.2 35 65-100 76-110 (176)
96 PHA03368 DNA packaging termina 46.2 19 0.00042 33.5 2.9 18 62-79 349-366 (738)
97 PF00270 DEAD: DEAD/DEAH box h 46.1 6.7 0.00014 28.5 -0.0 38 42-79 95-133 (169)
98 COG0210 UvrD Superfamily I DNA 45.3 16 0.00034 33.5 2.3 76 3-80 211-288 (655)
99 PRK11054 helD DNA helicase IV; 44.7 14 0.00031 34.3 1.9 44 4-48 429-474 (684)
100 PF02399 Herpes_ori_bp: Origin 44.3 9.7 0.00021 36.0 0.7 40 37-78 116-155 (824)
101 PRK10919 ATP-dependent DNA hel 41.6 14 0.0003 34.2 1.3 45 3-48 205-249 (672)
102 PF13173 AAA_14: AAA domain 40.7 24 0.00053 24.8 2.3 37 65-101 61-97 (128)
103 COG1074 RecB ATP-dependent exo 39.8 15 0.00033 36.2 1.4 44 4-48 377-424 (1139)
104 PRK11192 ATP-dependent RNA hel 39.4 12 0.00025 32.4 0.5 38 42-79 123-161 (434)
105 PRK07414 cob(I)yrinic acid a,c 38.6 26 0.00057 26.9 2.2 41 61-102 111-157 (178)
106 TIGR02784 addA_alphas double-s 38.5 18 0.00039 35.6 1.6 42 4-46 390-442 (1141)
107 COG1435 Tdk Thymidine kinase [ 37.9 24 0.00051 27.7 1.9 34 66-100 83-117 (201)
108 KOG2108|consensus 37.9 14 0.00031 34.9 0.8 40 63-105 439-478 (853)
109 PTZ00424 helicase 45; Provisio 36.9 14 0.0003 31.3 0.5 36 43-78 147-183 (401)
110 cd00268 DEADc DEAD-box helicas 36.5 13 0.00027 28.2 0.2 40 42-81 119-159 (203)
111 TIGR00603 rad25 DNA repair hel 35.7 37 0.00079 32.0 3.1 38 43-80 344-390 (732)
112 PRK10590 ATP-dependent RNA hel 34.5 16 0.00034 32.0 0.5 39 43-81 126-165 (456)
113 PRK14958 DNA polymerase III su 33.9 17 0.00036 32.6 0.6 48 63-111 117-168 (509)
114 KOG1774|consensus 33.8 18 0.0004 24.0 0.6 35 8-48 51-85 (88)
115 KOG0388|consensus 32.9 14 0.00031 34.7 -0.0 62 42-105 673-736 (1185)
116 KOG0350|consensus 32.9 13 0.00027 33.5 -0.4 17 61-77 291-307 (620)
117 TIGR01075 uvrD DNA helicase II 32.7 20 0.00043 33.3 0.9 44 4-48 207-250 (715)
118 TIGR01073 pcrA ATP-dependent D 32.5 21 0.00046 33.2 1.0 44 4-48 208-251 (726)
119 PRK11664 ATP-dependent RNA hel 32.5 21 0.00045 33.9 1.0 45 41-85 92-137 (812)
120 COG1111 MPH1 ERCC4-like helica 32.4 18 0.00039 32.4 0.5 45 43-87 108-153 (542)
121 KOG0953|consensus 32.1 24 0.00052 32.2 1.2 60 40-106 257-318 (700)
122 PRK11773 uvrD DNA-dependent he 32.0 20 0.00044 33.4 0.8 43 4-47 212-254 (721)
123 PRK13909 putative recombinatio 31.7 26 0.00057 33.6 1.5 45 3-48 326-379 (910)
124 PRK04837 ATP-dependent RNA hel 31.6 19 0.00041 31.0 0.5 37 43-79 134-171 (423)
125 PF13401 AAA_22: AAA domain; P 31.0 25 0.00055 24.3 1.0 36 67-102 89-125 (131)
126 TIGR01074 rep ATP-dependent DN 30.8 26 0.00057 32.1 1.3 42 4-46 205-246 (664)
127 TIGR00348 hsdR type I site-spe 30.5 45 0.00098 30.9 2.8 39 42-80 338-380 (667)
128 PRK07413 hypothetical protein; 30.2 40 0.00087 29.2 2.2 41 61-102 121-167 (382)
129 KOG0386|consensus 29.9 18 0.00038 35.1 0.0 63 42-105 493-557 (1157)
130 PRK07413 hypothetical protein; 29.7 36 0.00077 29.5 1.8 41 61-102 301-347 (382)
131 COG3854 SpoIIIAA ncharacterize 29.3 35 0.00077 27.9 1.6 87 7-108 172-258 (308)
132 PF14268 YoaP: YoaP-like 29.2 15 0.00032 21.6 -0.4 11 171-181 25-35 (44)
133 PRK11131 ATP-dependent RNA hel 28.5 24 0.00052 35.3 0.7 44 42-85 163-207 (1294)
134 KOG0781|consensus 27.9 50 0.0011 29.7 2.4 41 62-102 463-506 (587)
135 TIGR00609 recB exodeoxyribonuc 27.9 37 0.0008 33.4 1.8 44 4-48 295-340 (1087)
136 TIGR01970 DEAH_box_HrpB ATP-de 27.7 28 0.0006 33.2 0.9 44 42-85 90-134 (819)
137 PRK04537 ATP-dependent RNA hel 27.6 19 0.00041 32.7 -0.2 39 42-80 134-174 (572)
138 smart00488 DEXDc2 DEAD-like he 27.5 27 0.00059 28.7 0.7 35 42-77 211-248 (289)
139 smart00489 DEXDc3 DEAD-like he 27.5 27 0.00059 28.7 0.7 35 42-77 211-248 (289)
140 PRK01297 ATP-dependent RNA hel 27.2 21 0.00045 31.3 0.0 39 42-80 213-252 (475)
141 PTZ00293 thymidine kinase; Pro 27.0 42 0.00091 26.5 1.7 35 64-100 76-110 (211)
142 KOG0949|consensus 26.7 31 0.00067 33.7 1.0 42 61-112 984-1025(1330)
143 PRK07994 DNA polymerase III su 26.0 36 0.00077 31.6 1.3 48 63-111 117-168 (647)
144 KOG1807|consensus 25.1 34 0.00074 32.5 1.0 40 5-47 720-759 (1025)
145 PRK09401 reverse gyrase; Revie 25.0 24 0.00051 35.1 -0.1 35 43-78 180-214 (1176)
146 TIGR00595 priA primosomal prot 24.4 34 0.00074 30.6 0.9 30 42-77 76-105 (505)
147 PRK11776 ATP-dependent RNA hel 23.8 26 0.00056 30.6 -0.1 38 42-79 123-161 (460)
148 PRK14969 DNA polymerase III su 23.7 55 0.0012 29.5 2.0 46 64-110 118-167 (527)
149 PRK07246 bifunctional ATP-depe 23.5 30 0.00064 33.0 0.3 15 64-78 435-449 (820)
150 PF07728 AAA_5: AAA domain (dy 22.6 47 0.001 23.4 1.2 27 7-34 67-93 (139)
151 PRK13766 Hef nuclease; Provisi 21.6 38 0.00082 31.7 0.6 39 43-81 108-147 (773)
152 PRK11634 ATP-dependent RNA hel 21.5 34 0.00073 31.5 0.2 37 43-79 126-163 (629)
153 KOG0989|consensus 21.4 62 0.0013 27.4 1.7 38 62-100 126-166 (346)
154 PF06733 DEAD_2: DEAD_2; Inte 21.3 47 0.001 24.8 1.0 37 42-79 119-159 (174)
155 PRK08769 DNA polymerase III su 21.2 52 0.0011 27.6 1.3 47 64-111 112-162 (319)
156 TIGR02785 addA_Gpos recombinat 20.5 58 0.0013 32.5 1.6 42 4-46 387-431 (1232)
157 TIGR00643 recG ATP-dependent D 20.4 42 0.00091 30.8 0.6 30 43-76 339-368 (630)
158 KOG4284|consensus 20.4 34 0.00073 32.0 0.0 40 42-81 143-183 (980)
159 PRK08691 DNA polymerase III su 20.2 68 0.0015 30.1 1.9 46 64-110 118-167 (709)
160 KOG0384|consensus 20.1 57 0.0012 32.5 1.4 60 43-104 476-537 (1373)
No 1
>KOG1802|consensus
Probab=99.97 E-value=1e-32 Score=240.24 Aligned_cols=145 Identities=32% Similarity=0.446 Sum_probs=126.3
Q ss_pred EEecCCCCCCccccccccccccCCCceEecCCCcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhcc
Q psy3902 10 VIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLL 89 (181)
Q Consensus 10 ~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~ 89 (181)
+.||.|+.+..+..+... +.+...+.++.. ++||+|||.+++... +...+|..|+||||.|++||++|+||.+
T Consensus 519 lkde~gelS~sD~~k~~~-lk~~~e~ell~~--AdVIccTcv~Agd~r---l~~~kfr~VLiDEaTQatEpe~LiPlvl- 591 (935)
T KOG1802|consen 519 LKDEGGELSSSDEKKYRK-LKRAAEKELLNQ--ADVICCTCVGAGDRR---LSKFKFRTVLIDEATQATEPECLIPLVL- 591 (935)
T ss_pred hhhhcccccchhhHHHHH-HHHHHHHHHHhh--cCEEEEecccccchh---hccccccEEEEecccccCCcchhhhhhh-
Confidence 569999999998866554 455666667764 899999999999754 3456799999999999999999999998
Q ss_pred ccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhh
Q psy3902 90 HRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISS 169 (181)
Q Consensus 90 ~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s 169 (181)
++|++||||||+||+|++....+...++.+|||+||+..+. .| ++|.+||||||.|++|+|
T Consensus 592 --G~kq~VlVGDh~QLgpvi~~kK~a~Agl~qsLferli~lg~--------------~P---~~L~vQYRmhP~lSefps 652 (935)
T KOG1802|consen 592 --GAKQLVLVGDHKQLGPVIMCKKAATAGLSQSLFERLISLGI--------------KP---IRLQVQYRMHPALSEFPS 652 (935)
T ss_pred --cceeEEEeccccccCceeeeHHHHHhHHHHHHHHHHHhccC--------------Cc---eEEEEeeeeChhhhhcch
Confidence 58999999999999999999888888999999999998853 34 679999999999999999
Q ss_pred hhhcCCCcccC
Q psy3902 170 DLFYDASLVPH 180 (181)
Q Consensus 170 ~~fY~g~L~~~ 180 (181)
..||+|.|.+.
T Consensus 653 n~fY~G~LqnG 663 (935)
T KOG1802|consen 653 NMFYEGELQNG 663 (935)
T ss_pred hhhccchhhcC
Confidence 99999999864
No 2
>KOG1803|consensus
Probab=99.97 E-value=3.3e-31 Score=229.38 Aligned_cols=118 Identities=31% Similarity=0.462 Sum_probs=105.5
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhh
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRI 121 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~ 121 (181)
+++||++|..++.... ++...||+||||||+|+.||++|+|+.. .+++||+|||+||||.+.++.+...|+..
T Consensus 338 n~~VVfaTl~ga~~~~---~~~~~fD~vIIDEaaQamE~~cWipvlk----~kk~ILaGDp~QLpP~v~S~~a~~~gl~~ 410 (649)
T KOG1803|consen 338 NSRVVFATLGGALDRL---LRKRTFDLVIIDEAAQAMEPQCWIPVLK----GKKFILAGDPKQLPPTVLSDKAKRGGLQV 410 (649)
T ss_pred ccceEEEeccchhhhh---hcccCCCEEEEehhhhhccchhhhHHhc----CCceEEeCCcccCCcccccchhhhccchh
Confidence 4899999999988621 3456799999999999999999999994 58999999999999999999998889999
Q ss_pred hHHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcccCC
Q psy3902 122 SLLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLVPHN 181 (181)
Q Consensus 122 slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~~~~ 181 (181)
|+|+|+.+. ++....++|++|||||..|+.|+|+.||+|+|++|.
T Consensus 411 Sl~erlae~---------------~~~~~~~~Ln~QYRMn~~Im~wsn~~fY~~qlka~~ 455 (649)
T KOG1803|consen 411 SLLERLAEK---------------FGNLSKILLNEQYRMNEKIMNWSNEVFYNGQLKAAS 455 (649)
T ss_pred hHHHHHHHH---------------cccchhhhhhhhhcchHHHhhCcHhhhcCCeeeecc
Confidence 999999987 334456889999999999999999999999999874
No 3
>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=99.95 E-value=2.1e-28 Score=219.56 Aligned_cols=99 Identities=37% Similarity=0.563 Sum_probs=85.7
Q ss_pred CCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccc
Q psy3902 61 TPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRF 140 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~ 140 (181)
+....||+||||||||++||++|+|+.. ++++||||||+||||++.+.. ..+++.|+|+|+....
T Consensus 357 l~~~~Fd~vIIDEAsQ~~ep~~lipl~~----~~~~vLvGD~~QLpP~v~s~~--~~~l~~SlferL~~~~--------- 421 (637)
T TIGR00376 357 LKGWEFDVAVIDEASQAMEPSCLIPLLK----ARKLILAGDHKQLPPTILSHD--AEELELTLFERLIKEY--------- 421 (637)
T ss_pred hccCCCCEEEEECccccchHHHHHHHhh----CCeEEEecChhhcCCcccccc--ccccchhHHHHHHHhC---------
Confidence 3457899999999999999999999984 589999999999999998754 3468899999999751
Q ss_pred cccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcccCC
Q psy3902 141 YATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLVPHN 181 (181)
Q Consensus 141 ~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~~~~ 181 (181)
+...++|++||||||+|++|+|..||+|+|++++
T Consensus 422 -------~~~~~~L~~QYRMh~~I~~f~s~~fY~g~L~~~~ 455 (637)
T TIGR00376 422 -------PERSRTLNVQYRMNQKIMEFPSREFYNGKLTAHE 455 (637)
T ss_pred -------CCceeecchhcCCCHHHHhhhHHhhcCCccccCc
Confidence 2225789999999999999999999999998763
No 4
>KOG1805|consensus
Probab=99.94 E-value=7.7e-28 Score=216.54 Aligned_cols=117 Identities=33% Similarity=0.457 Sum_probs=106.2
Q ss_pred CCcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchh
Q psy3902 41 DPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELR 120 (181)
Q Consensus 41 d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~ 120 (181)
++..||+|||.+..... |...+||++|||||||+..|-++.||.. ++|+||||||.||||.|.+..++..|++
T Consensus 775 ~~~~IVa~TClgi~~pl---f~~R~FD~cIiDEASQI~lP~~LgPL~~----s~kFVLVGDh~QLpPLV~s~ear~~Gl~ 847 (1100)
T KOG1805|consen 775 DQTSIVACTCLGINHPL---FVNRQFDYCIIDEASQILLPLCLGPLSF----SNKFVLVGDHYQLPPLVRSSEARQEGLS 847 (1100)
T ss_pred CCCcEEEEEccCCCchh---hhccccCEEEEccccccccchhhhhhhh----cceEEEecccccCCccccchhhhhcCcc
Confidence 45789999999999643 3456799999999999999999999996 4899999999999999999999999999
Q ss_pred hhHHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcccC
Q psy3902 121 ISLLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLVPH 180 (181)
Q Consensus 121 ~slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~~~ 180 (181)
.|+|+||... +|..++.|+.||||+.+|+.++|++||+|+|+..
T Consensus 848 ~SLFkrL~e~----------------hpeaV~~Lt~QYRMn~~I~~LSN~L~Yg~~L~Cg 891 (1100)
T KOG1805|consen 848 ESLFKRLSEK----------------HPEAVSSLTLQYRMNREIMRLSNKLIYGNRLKCG 891 (1100)
T ss_pred hHHHHHHhhh----------------CchHHHhHHHHHhhcchHHhhhhhheECCeeeec
Confidence 9999999875 4677889999999999999999999999999864
No 5
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=99.86 E-value=3.2e-22 Score=182.56 Aligned_cols=115 Identities=38% Similarity=0.504 Sum_probs=97.4
Q ss_pred ccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhH
Q psy3902 44 QLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISL 123 (181)
Q Consensus 44 ~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~sl 123 (181)
+++++|++.++.... ....||++|||||||++++.+++|+.. ++++|++|||+||||++........++..++
T Consensus 470 ~~~~~~~~~a~~~~~---~~~~fd~viiDEAsQ~~~~~~~~~l~~----~~~~il~GD~kQL~p~~~~~~~~~~~~~~sl 542 (767)
T COG1112 470 DVVLSTLSIAGFSIL---KKYEFDYVIIDEASQATEPSALIALSR----AKKVILVGDHKQLPPTVFFKESSPEGLSASL 542 (767)
T ss_pred CeEEEeccchhHHHh---cccccCEEEEcchhcccchhHHHhHhh----cCeEEEecCCccCCCeecchhhcccchhHhH
Confidence 488888888876433 233799999999999999999999984 6999999999999999987544455789999
Q ss_pred HHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcccCC
Q psy3902 124 LERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLVPHN 181 (181)
Q Consensus 124 f~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~~~~ 181 (181)
|+++.... ++...+|+.||||||+|+.|+|+.||+|+|..++
T Consensus 543 f~~~~~~~----------------~~~~~~L~~qyRm~~~i~~f~s~~~y~~~l~~~~ 584 (767)
T COG1112 543 FERLIDNG----------------PEVVYLLRVQYRMHPDIIAFSSKVFYNGRLEVHT 584 (767)
T ss_pred HHHHHHhC----------------CchheeeeeecccChhhhhCchhhccCCccccCc
Confidence 99999873 1345789999999999999999999999998763
No 6
>KOG1804|consensus
Probab=99.81 E-value=1.4e-20 Score=169.47 Aligned_cols=133 Identities=37% Similarity=0.500 Sum_probs=119.4
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhh
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRI 121 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~ 121 (181)
+.+++++||++++.....++.-++|..+++|||+|++||+.++|+..+. ...++||.|||+||+|++++..+.+.|++.
T Consensus 419 ~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~-~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~r 497 (775)
T KOG1804|consen 419 PYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFR-QPFQVVLSGDHTQLGPVSKSARAEELGLDR 497 (775)
T ss_pred ceEEEEeeccceeeeecccccccceeeeeecccccccCccccccccccc-ceeEEEEccCcccccccccchhhhhhcccH
Confidence 5789999999999998888999999999999999999999999999775 344999999999999999999999999999
Q ss_pred hHHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcccC
Q psy3902 122 SLLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLVPH 180 (181)
Q Consensus 122 slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~~~ 180 (181)
|+|+|++....+ .+...|+|.+...+.|..+||+||.|....|+.||+|.|+..
T Consensus 498 sLler~l~r~~~-----~~~~~g~~~~l~~t~l~rnyrshp~il~l~~~l~y~~eL~~~ 551 (775)
T KOG1804|consen 498 SLLERALTRAQS-----LVAVVGDYNALCSTGLCRNYRSHPIILCLENRLYYLGELTAE 551 (775)
T ss_pred HHHHHHHHHHhh-----ccccCCCcccccchhhHHHHhhhhHhhhcccccccccceeee
Confidence 999999987543 334457788888999999999999999999999999998753
No 7
>KOG1801|consensus
Probab=99.76 E-value=3.1e-19 Score=164.22 Aligned_cols=120 Identities=32% Similarity=0.309 Sum_probs=104.5
Q ss_pred CCcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchh
Q psy3902 41 DPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELR 120 (181)
Q Consensus 41 d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~ 120 (181)
+.+++|++|.++.+....+. ....||.++||||+|..|+..++||.+. +.++.+++||..|||++|.+.......+.
T Consensus 513 ~~a~~i~~t~~~~~~~~~~~-~~~p~~~vviDeaaq~~e~~s~~PL~l~--g~~~~~lvgd~~qlP~~V~s~~~~~~k~~ 589 (827)
T KOG1801|consen 513 EEAALIVPTTRGSRIVLTLY-GGPPLDTVVIDEAAQKYEPSSLEPLQLA--GYQHCILVGDLAQLPATVHSSPAGCFKYM 589 (827)
T ss_pred ccceeEeecccccceEeecc-cCCCceEEEEehhhhhcCccchhhhhhc--CCceEEEecccccCChhhccchhccccch
Confidence 36889999999888744332 4568999999999999999999999986 57999999999999999999888888999
Q ss_pred hhHHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcccC
Q psy3902 121 ISLLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLVPH 180 (181)
Q Consensus 121 ~slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~~~ 180 (181)
.|+|+|+...+. ...+|.+||||||+|+.|+|..||+|+|+..
T Consensus 590 ~slf~rl~l~~~-----------------~~~~L~vqyrmhp~Is~fP~~~fy~~~i~d~ 632 (827)
T KOG1801|consen 590 TSLFERLELAGH-----------------KTLLLTVQYRMHPEISRFPSKEFYGGRLKDV 632 (827)
T ss_pred hhHHHHHHHccC-----------------ccceecceeecCCccccCccccccccccccC
Confidence 999999998742 1237999999999999999999999988754
No 8
>KOG1807|consensus
Probab=99.74 E-value=4e-19 Score=157.59 Aligned_cols=115 Identities=26% Similarity=0.258 Sum_probs=100.5
Q ss_pred cccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEe-ccchhccchhh
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVF-SKLGQQLELRI 121 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~-~~~~~~~~~~~ 121 (181)
++||++|.+++++.... ++.-.+.+|||+||+.+.|+.++.++.. .+.++||+|||+||.|... .+..+.+++..
T Consensus 699 a~vigmTTTgaaryr~i-lekv~pkivivEEAAEVlEahiIaal~p---~~EhviLIGDHKQLrP~~~vy~L~q~fnL~i 774 (1025)
T KOG1807|consen 699 ADVIGMTTTGAARYRFI-LEKVQPKIVIVEEAAEVLEAHIIAALTP---HTEHVILIGDHKQLRPFSGVYKLPQIFNLSI 774 (1025)
T ss_pred cceeeeechhHHHHHHH-HHHhCCcEEEEhhHhHHhhcchhhhhcc---cceeEEEecchhhcCCCcchhhHhHhcchhH
Confidence 89999999999987665 4667899999999999999999988875 4799999999999999755 45677789999
Q ss_pred hHHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcc
Q psy3902 122 SLLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLV 178 (181)
Q Consensus 122 slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~ 178 (181)
|+||||+..++ +.++|+.||||+|.|.+.....||++.+.
T Consensus 775 SlFERLVe~gl-----------------pfsrLn~QhRM~p~IsrllvpsiYddl~d 814 (1025)
T KOG1807|consen 775 SLFERLVEAGL-----------------PFSRLNLQHRMRPCISRLLVPSIYDDLLD 814 (1025)
T ss_pred HHHHHHHHcCC-----------------ChhhhhHHhhhchHHHHHhhHHHhhhhhc
Confidence 99999999854 45789999999999999999999987653
No 9
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.68 E-value=1.7e-17 Score=130.24 Aligned_cols=66 Identities=36% Similarity=0.451 Sum_probs=43.3
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEec
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFS 111 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~ 111 (181)
.++||+||++++....... ....||+||||||||++|+++++|+... .+++||+|||+||||++.+
T Consensus 170 ~~~vi~~T~~~~~~~~~~~-~~~~~d~vIvDEAsq~~e~~~l~~l~~~---~~~~vlvGD~~QLpP~v~s 235 (236)
T PF13086_consen 170 EADVIFTTLSSAASPFLSN-FKEKFDVVIVDEASQITEPEALIPLSRA---PKRIVLVGDPKQLPPVVKS 235 (236)
T ss_dssp T-SEEEEETCGGG-CCGTT------SEEEETTGGGS-HHHHHHHHTTT---BSEEEEEE-TTS-----S-
T ss_pred cccccccccccchhhHhhh-hcccCCEEEEeCCCCcchHHHHHHHHHh---CCEEEEECChhhcCCeeCC
Confidence 4789999999995432221 1127999999999999999999999753 3999999999999999876
No 10
>KOG1806|consensus
Probab=99.24 E-value=1.9e-12 Score=118.33 Aligned_cols=149 Identities=19% Similarity=0.176 Sum_probs=114.2
Q ss_pred CCCCcEE--EEecCCCCCCccccccccccccCCCceEecCCCcccccceecccccccccCC-CCCccceeeeccccCCCc
Q psy3902 3 AGYFTHC--VIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELST-PSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 3 ~~~~~~~--~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~~~~~~~-~~~~fd~vIIDEAsq~~e 79 (181)
+|||+|+ +|. |+.|.++..++. ..+|+..+.+. +.++||.+||++++.....-+ ....||-++++|++|++|
T Consensus 931 ~~cf~hl~~ifq---qLee~rafellr-~~~dr~~Yll~-kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile 1005 (1320)
T KOG1806|consen 931 TGCFRHLEYIFQ---QLEEFRAFELLR-SGEDRELYLLV-KQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILE 1005 (1320)
T ss_pred hhhHHHHHHHHH---HHHhcccccccc-cchhHhhccCc-ccceeeecccCChhhChhhHhhhceeechhhhhhccCCcc
Confidence 4555555 333 455666666775 45678888888 579999999999886433212 234799999999999999
Q ss_pred chhhhhhhcccc-----CCCeEEEEcCCCCCCceEeccchh-ccchhhhHHHHHhcCcccccccccccccCCcCCccccc
Q psy3902 80 PEVLVPISLLHR-----DNGHVVLAGDPLQLGPTVFSKLGQ-QLELRISLLERLTGRFLYSRDMSRFYATGGYDPRLVTR 153 (181)
Q Consensus 80 ~~~l~~l~~~~~-----~~~~~vlvGD~~QL~P~v~~~~~~-~~~~~~slf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (181)
.++.+|+.+.++ +.+++|++|||.|+||++++..-+ ....++|+|.|+.+.++ +.+-
T Consensus 1006 ~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~afqkysnm~qslf~r~vRl~i-----------------p~i~ 1068 (1320)
T KOG1806|consen 1006 IETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQAFQKYSNMEQSLFTRLVRLGV-----------------PIID 1068 (1320)
T ss_pred cccccHHHhcCCcchhhHhhheeecccccccCCcccchHHHHHhcchhhhhhcceeccc-----------------ceec
Confidence 999999997764 368999999999999999764433 33467899999998753 4567
Q ss_pred hhhhhcChhHHHHhhhhhhc
Q psy3902 154 LVNNYRTMPEILKISSDLFY 173 (181)
Q Consensus 154 L~~qyR~~~~I~~~~s~~fY 173 (181)
|+.|+|..+.|+++.|..+-
T Consensus 1069 lnaqgrar~sI~~Ly~wry~ 1088 (1320)
T KOG1806|consen 1069 LNAQGRARASIASLYNWRYP 1088 (1320)
T ss_pred chhhhhHHHHHHHHHHhhhc
Confidence 99999999999999998543
No 11
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.80 E-value=2.9e-09 Score=83.08 Aligned_cols=85 Identities=20% Similarity=0.240 Sum_probs=51.4
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
...+++|||||||+.......-+........|+|++||++||+|+-.+ +.|.-+....
T Consensus 92 ~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~~g----------~~~~~l~~~~------------ 149 (196)
T PF13604_consen 92 PKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVGAG----------SPFADLQESG------------ 149 (196)
T ss_dssp TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCSTT----------CHHHHHCGCS------------
T ss_pred CcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCcCC----------cHHHHHHhcC------------
Confidence 457999999999998777665555544346799999999999998433 3455555432
Q ss_pred CCcCCccccchhhhhcCh-hHHHHhhhhhhcCCC
Q psy3902 144 GGYDPRLVTRLVNNYRTM-PEILKISSDLFYDAS 176 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~-~~I~~~~s~~fY~g~ 176 (181)
.. .+.|++.+|.. +.+.+.+. .+-+|.
T Consensus 150 ----~~-~~~L~~i~Rq~~~~~~~~~~-~~~~g~ 177 (196)
T PF13604_consen 150 ----GI-TVELTEIRRQKDPELREAAK-AIREGD 177 (196)
T ss_dssp ----TT-EEEE---SCCCCTHHHHHHH-HHCTT-
T ss_pred ----CC-eEEeChhhcCCChHHHHHHH-HHHcCC
Confidence 11 46799999997 55554443 455554
No 12
>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=98.32 E-value=2.9e-07 Score=82.66 Aligned_cols=47 Identities=26% Similarity=0.219 Sum_probs=36.5
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEec
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFS 111 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~ 111 (181)
..+|++|||||||+..+.+..-+... +...|+|++||+.||||+-..
T Consensus 258 l~~dvlIiDEaSMvd~~l~~~ll~al-~~~~rlIlvGD~~QLpsV~~G 304 (586)
T TIGR01447 258 LPLDVLVVDEASMVDLPLMAKLLKAL-PPNTKLILLGDKNQLPSVEAG 304 (586)
T ss_pred CcccEEEEcccccCCHHHHHHHHHhc-CCCCEEEEECChhhCCCCCCC
Confidence 46899999999999877554333333 246899999999999998554
No 13
>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=98.25 E-value=1.1e-06 Score=80.74 Aligned_cols=80 Identities=24% Similarity=0.243 Sum_probs=52.2
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
...|++|||||||+.......-+... +...|+|++||+.||||+-... .|..++...
T Consensus 415 ~~~~llIvDEaSMvd~~~~~~Ll~~~-~~~~rlilvGD~~QLpsV~~G~----------v~~dl~~~~------------ 471 (720)
T TIGR01448 415 IDCDLLIVDESSMMDTWLALSLLAAL-PDHARLLLVGDTDQLPSVGPGQ----------VLKDLILSQ------------ 471 (720)
T ss_pred ccCCEEEEeccccCCHHHHHHHHHhC-CCCCEEEEECccccccCCCCCc----------hHHHHHhcC------------
Confidence 35799999999999775443333322 3467999999999999984432 243344321
Q ss_pred CCcCCccccchhhhhcCh--hHHHHhhhh
Q psy3902 144 GGYDPRLVTRLVNNYRTM--PEILKISSD 170 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~--~~I~~~~s~ 170 (181)
..+.+.|++.||.. ..|....+.
T Consensus 472 ----~~~~~~L~~i~RQ~~~s~i~~~a~~ 496 (720)
T TIGR01448 472 ----AIPVTRLTKVYRQAAGSPIITLAHG 496 (720)
T ss_pred ----CCCEEEeCeeeccCCCcHHHHHHHH
Confidence 12345688888885 346655544
No 14
>KOG1803|consensus
Probab=98.22 E-value=6.6e-07 Score=79.11 Aligned_cols=49 Identities=43% Similarity=0.670 Sum_probs=43.8
Q ss_pred CCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceeccccc
Q psy3902 3 AGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQ 55 (181)
Q Consensus 3 ~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~ 55 (181)
...||+||||||+|+.|++||.|+- ...+.+|+||+.|+..++.+.-+.
T Consensus 356 ~~~fD~vIIDEaaQamE~~cWipvl----k~kk~ILaGDp~QLpP~v~S~~a~ 404 (649)
T KOG1803|consen 356 KRTFDLVIIDEAAQAMEPQCWIPVL----KGKKFILAGDPKQLPPTVLSDKAK 404 (649)
T ss_pred ccCCCEEEEehhhhhccchhhhHHh----cCCceEEeCCcccCCcccccchhh
Confidence 4569999999999999999999998 455999999999999999987664
No 15
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=98.21 E-value=6.4e-07 Score=80.80 Aligned_cols=48 Identities=25% Similarity=0.228 Sum_probs=37.0
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEecc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSK 112 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~ 112 (181)
..+|++|||||||+..+.+...+... +...|+||+||+.|||||=...
T Consensus 264 l~~dvlIvDEaSMvd~~lm~~ll~al-~~~~rlIlvGD~~QL~sV~~G~ 311 (615)
T PRK10875 264 LHLDVLVVDEASMVDLPMMARLIDAL-PPHARVIFLGDRDQLASVEAGA 311 (615)
T ss_pred CCCCeEEEChHhcccHHHHHHHHHhc-ccCCEEEEecchhhcCCCCCCc
Confidence 35799999999999876555444433 3568999999999999985543
No 16
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=98.08 E-value=4.8e-06 Score=76.14 Aligned_cols=86 Identities=26% Similarity=0.288 Sum_probs=57.1
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
..|++|+|||+ |-+.+..+-.+........++++|||+.| .+.+-. |-....|.++...
T Consensus 206 ~~~~~ilVDE~-QDtn~~Q~~ll~~l~~~~~~l~~VGD~~Q---sIY~fr----GA~~~~~~~f~~~------------- 264 (672)
T PRK10919 206 NKIRYLLVDEY-QDTNTSQYELVKLLVGSRARFTVVGDDDQ---SIYSWR----GARPQNLVLLSQD------------- 264 (672)
T ss_pred hcCCEEEEEch-hcCCHHHHHHHHHHHcCCCEEEEEcCCcc---cccccC----CCChHHHHHHHHh-------------
Confidence 47999999998 55555555444433323578999999999 444311 2233445444433
Q ss_pred CCcCCccccchhhhhcChhHHHHhhhhhh
Q psy3902 144 GGYDPRLVTRLVNNYRTMPEILKISSDLF 172 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~~~I~~~~s~~f 172 (181)
++....+.|.++||++++|.++.|.++
T Consensus 265 --~~~~~~~~L~~NyRs~~~I~~~an~li 291 (672)
T PRK10919 265 --FPALQVIKLEQNYRSSGRILKAANILI 291 (672)
T ss_pred --CCCCcEEECCCCCCCcHHHHHHHHHHH
Confidence 122234679999999999999999876
No 17
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=98.02 E-value=4.1e-06 Score=79.03 Aligned_cols=47 Identities=32% Similarity=0.287 Sum_probs=35.3
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEe
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVF 110 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~ 110 (181)
...|++|||||||+....+.-.+....+...++|||||+.|||||-.
T Consensus 432 ~~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV~a 478 (988)
T PRK13889 432 TSRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAIEA 478 (988)
T ss_pred ccCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCCCC
Confidence 35689999999999766555444333234679999999999999833
No 18
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=98.01 E-value=3.8e-06 Score=79.82 Aligned_cols=47 Identities=32% Similarity=0.437 Sum_probs=36.1
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEec
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFS 111 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~ 111 (181)
.-+++|||||||+....+.-.+........++|||||+.||+||-..
T Consensus 468 ~~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG 514 (1102)
T PRK13826 468 NKTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAG 514 (1102)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCC
Confidence 45799999999997766654444433245799999999999998554
No 19
>KOG1804|consensus
Probab=98.00 E-value=3e-06 Score=77.61 Aligned_cols=121 Identities=33% Similarity=0.392 Sum_probs=90.2
Q ss_pred cccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhh
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRIS 122 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~s 122 (181)
.+|++.|..........+...+.|.+.+.|||.|+.+.+.+.||++.. ..++++|+||+.|+.|.+.+....+..+. .
T Consensus 243 Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~-~~~~~~L~~~~~ql~~~l~s~~~~~~~~~-~ 320 (775)
T KOG1804|consen 243 HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPS-SGTRIVLAGPHLQLTPFLNSVAREEQALH-L 320 (775)
T ss_pred cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCC-CCceeeecccccccccchhhhhhhhhhhh-h
Confidence 678888877777666666778899999999999999999999998775 57999999999999998877655443333 2
Q ss_pred HHHHHhcCcccccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcCCCcc
Q psy3902 123 LLERLTGRFLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYDASLV 178 (181)
Q Consensus 123 lf~rl~~~~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~g~L~ 178 (181)
+..++... |. ....+.+-.+++||++-.+..|.+..||...+-
T Consensus 321 ~~~~~~~~--y~-----------~~~p~~~g~~~n~~~a~~~v~~~~~~~~il~~~ 363 (775)
T KOG1804|consen 321 LLCRLPEP--YI-----------VFGPPGTGKTENYREAIAIVSFTSPHFYILVCA 363 (775)
T ss_pred cccccccc--cc-----------cccCCCcCCccchHHHHHHHHhcchHHHhhccc
Confidence 22222211 00 011233557999999999999999999987543
No 20
>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=97.96 E-value=3.4e-06 Score=77.89 Aligned_cols=48 Identities=31% Similarity=0.334 Sum_probs=35.9
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEec
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFS 111 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~ 111 (181)
...|++|||||||+......--+....+...++||+||+.|||||-..
T Consensus 438 ~~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVgaG 485 (744)
T TIGR02768 438 SDKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIEAG 485 (744)
T ss_pred CCCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccccC
Confidence 467999999999997665443333222246799999999999998664
No 21
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=97.96 E-value=1.2e-05 Score=74.15 Aligned_cols=88 Identities=19% Similarity=0.253 Sum_probs=54.9
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
..|++|+|||+-- +.+..+--+.......+.+++|||+.| .+..-. |-....+.++...
T Consensus 208 ~~~~~IlVDEfQD-tn~~Q~~ll~~L~~~~~~l~vVGD~~Q---sIY~fR----gA~~~~~~~f~~~------------- 266 (726)
T TIGR01073 208 RKFQYIHVDEYQD-TNRAQYTLVRLLASRFRNLCVVGDADQ---SIYGWR----GADIQNILSFEKD------------- 266 (726)
T ss_pred HhCCEEEEEcccc-CCHHHHHHHHHHhCCCCEEEEEeCCCc---cccccC----CCChHHHHHHHHh-------------
Confidence 3799999999944 444444333322224578999999999 333211 2223333333332
Q ss_pred CCcCCccccchhhhhcChhHHHHhhhhhhcC
Q psy3902 144 GGYDPRLVTRLVNNYRTMPEILKISSDLFYD 174 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~ 174 (181)
+.....+.|.++||+++.|.++.|.++-.
T Consensus 267 --~~~~~~i~L~~NyRS~~~Il~~an~li~~ 295 (726)
T TIGR01073 267 --YPNATTILLEQNYRSTKNILQAANEVIEH 295 (726)
T ss_pred --CCCCeEEECccCCCCCHHHHHHHHHHHHh
Confidence 11223467999999999999999988744
No 22
>PRK13909 putative recombination protein RecB; Provisional
Probab=97.88 E-value=1e-05 Score=76.28 Aligned_cols=85 Identities=24% Similarity=0.332 Sum_probs=55.8
Q ss_pred CccceeeeccccCCCcchhhhhhhcc------cc---CCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLL------HR---DNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYS 134 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~------~~---~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~ 134 (181)
..|++++|||+ |-+-+..+--+... .. ..+.+++|||++| -+..- .|-...+|.++....
T Consensus 327 ~~~~~ilVDEf-QDTs~~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQ---SIY~F----RGA~~~~f~~~~~~~--- 395 (910)
T PRK13909 327 SKISHILIDEF-QDTSVLQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQ---SIYRF----RGGKKELFDKVSKDF--- 395 (910)
T ss_pred cCCCEEEEECc-cCCCHHHHHHHHHHHHHhhcccccCCCCeEEEEcCchh---hhhhh----cCCChHHHHHHHHHh---
Confidence 57999999998 66666554333211 10 1357999999999 33321 122335676665431
Q ss_pred cccccccccCCcCCccccchhhhhcChhHHHHhhhhhh
Q psy3902 135 RDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLF 172 (181)
Q Consensus 135 ~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~f 172 (181)
++ ....|.++||+.|.|.+|+|..|
T Consensus 396 ------------~~-~~~~L~~NyRS~~~Iv~~~N~~f 420 (910)
T PRK13909 396 ------------KQ-KVDNLDTNYRSAPLIVDFVNEVF 420 (910)
T ss_pred ------------hh-hhcccccCCCCChHHHHHHHHHH
Confidence 11 22469999999999999999987
No 23
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=97.86 E-value=2e-05 Score=72.56 Aligned_cols=88 Identities=24% Similarity=0.384 Sum_probs=55.0
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
..|++|+|||.--. -+..+--+.......+.+++|||+.| .+.+-. |-....+.++...
T Consensus 207 ~~~~~ilVDEfQDt-n~~Q~~ll~~L~~~~~~l~vVGD~~Q---sIY~fR----GA~~~~i~~f~~~------------- 265 (715)
T TIGR01075 207 ERFTHILVDEFQDT-NKIQYAWIRLLAGNTGNVMIVGDDDQ---SIYGWR----GAQVENIQKFLKD------------- 265 (715)
T ss_pred HhCCEEEEEccccC-CHHHHHHHHHHhCCCCeEEEEeCCcc---cccccC----CCCHHHHHHHHHh-------------
Confidence 47899999998444 43333333322224579999999999 333311 2223334343332
Q ss_pred CCcCCccccchhhhhcChhHHHHhhhhhhcC
Q psy3902 144 GGYDPRLVTRLVNNYRTMPEILKISSDLFYD 174 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~ 174 (181)
+.....+.|+++||+.+.|.++.|.++-.
T Consensus 266 --~~~~~~~~L~~NyRS~~~Il~~an~li~~ 294 (715)
T TIGR01075 266 --FPGAETIRLEQNYRSTANILAAANALIAN 294 (715)
T ss_pred --CCCCeEEECcccCCCCHHHHHHHHHHHHh
Confidence 11122467999999999999999988744
No 24
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=97.86 E-value=2e-05 Score=72.62 Aligned_cols=88 Identities=27% Similarity=0.421 Sum_probs=54.3
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
..|++|+|||+--. -+..+--+.......+.+++|||+.| .+.+-. |-....+.++...
T Consensus 212 ~~~~~IlVDEfQDt-n~~Q~~ll~~L~~~~~~l~vVGD~dQ---sIY~fR----GA~~~~~~~f~~~------------- 270 (721)
T PRK11773 212 ERFTHILVDEFQDT-NAIQYAWIRLLAGDTGKVMIVGDDDQ---SIYGWR----GAQVENIQRFLND------------- 270 (721)
T ss_pred HhCCEEEEEchhcC-CHHHHHHHHHHhCCCCeEEEEecCcc---cccccC----CCChHHHHHHHHh-------------
Confidence 46899999999444 33333233322224579999999999 333211 2223334443332
Q ss_pred CCcCCccccchhhhhcChhHHHHhhhhhhcC
Q psy3902 144 GGYDPRLVTRLVNNYRTMPEILKISSDLFYD 174 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~ 174 (181)
+.....+.|+++||+.+.|.++.|.++-.
T Consensus 271 --~~~~~~i~L~~NyRSt~~Il~~an~li~~ 299 (721)
T PRK11773 271 --FPGAETIRLEQNYRSTANILKAANALIAN 299 (721)
T ss_pred --CCCCeEEECCcCCCCCHHHHHHHHHHHHh
Confidence 11122467999999999999999988743
No 25
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.84 E-value=1.7e-05 Score=77.80 Aligned_cols=80 Identities=19% Similarity=0.177 Sum_probs=54.7
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccccccC
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYATG 144 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~~ 144 (181)
..+++|||||||+....+...+.+......|+||+||+.||+||-.. +.|+-+...+
T Consensus 930 ~~~llIVDEASMV~~~~m~~ll~~~~~~garvVLVGD~~QL~sV~aG----------~~F~~lq~~~------------- 986 (1623)
T PRK14712 930 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPG----------QPFRLQQTRS------------- 986 (1623)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhhCCCEEEEEcchhhcCCCCCC----------HHHHHHHHcC-------------
Confidence 46899999999998766544443332234799999999999998433 4566555431
Q ss_pred CcCCccccchhhhhcChhHHHHhhhh
Q psy3902 145 GYDPRLVTRLVNNYRTMPEILKISSD 170 (181)
Q Consensus 145 ~~~~~~~~~L~~qyR~~~~I~~~~s~ 170 (181)
...++.|++-+|-.+++-..+..
T Consensus 987 ---~~~ta~L~eI~RQ~~elr~AV~~ 1009 (1623)
T PRK14712 987 ---AADVVIMKEIVRQTPELREAVYS 1009 (1623)
T ss_pred ---CCCeEEeCeeecCCHHHHHHHHH
Confidence 12235688888888877665553
No 26
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=97.81 E-value=1.6e-05 Score=76.58 Aligned_cols=87 Identities=29% Similarity=0.386 Sum_probs=60.7
Q ss_pred CccceeeeccccCCCcchhhhhhhccccC----CCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRD----NGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSR 139 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~----~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~ 139 (181)
.+|++++|||+ |-|.+..+--+...... ...+++|||+|| -|..=. |-....|.......
T Consensus 377 ~~~~~iLIDEf-QDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQ---SIY~FR----gAD~~~f~~a~~~~-------- 440 (1139)
T COG1074 377 EQYPHILIDEF-QDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQ---SIYRFR----GADIFTFLEAASSE-------- 440 (1139)
T ss_pred hcCCeEEeecc-ccCCHHHHHHHHHHHhcCCCCCCceEEecCchH---Hhhhhc----CCChHHHHHHhhcc--------
Confidence 57999999998 88898888777655433 248999999999 222110 22345555544420
Q ss_pred ccccCCcCCccccchhhhhcChhHHHHhhhhhhc
Q psy3902 140 FYATGGYDPRLVTRLVNNYRTMPEILKISSDLFY 173 (181)
Q Consensus 140 ~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY 173 (181)
.......|++|||+.+++.+++|.+|=
T Consensus 441 -------~~~~~~~L~~N~RS~~~vl~avN~lF~ 467 (1139)
T COG1074 441 -------KAFARITLETNYRSTPELLNAVNALFK 467 (1139)
T ss_pred -------ccCceeecccccCCcHHHHHHHHHHHh
Confidence 012235699999999999999999874
No 27
>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=97.80 E-value=2.9e-05 Score=74.57 Aligned_cols=85 Identities=26% Similarity=0.328 Sum_probs=55.7
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCC--CeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDN--GHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFY 141 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~--~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~ 141 (181)
.+|++++|||. |-|.+..+--+....... ..+++|||++| .|..-. |-+...|.+....
T Consensus 295 ~ry~~vLVDEF-QDTd~~Q~~il~~L~~~~~~~~L~~VGDpKQ---SIY~FR----GAD~~~~~~~~~~----------- 355 (1087)
T TIGR00609 295 EQYPIALIDEF-QDTDPQQYRIFSKLFIAQKTTSLFLIGDPKQ---AIYSFR----GADIFTYLQAKSK----------- 355 (1087)
T ss_pred hCCCEEEEECC-cCCCHHHHHHHHHHHhCCCCCeEEEEECCcc---ccccCC----CCCHHHHHHHHHh-----------
Confidence 57999999998 777776665554332122 27999999999 333211 1222334333322
Q ss_pred ccCCcCCccccchhhhhcChhHHHHhhhhhhc
Q psy3902 142 ATGGYDPRLVTRLVNNYRTMPEILKISSDLFY 173 (181)
Q Consensus 142 ~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY 173 (181)
.. ....|.+|||+.|.|.+++|.+|-
T Consensus 356 ----~~--~~~~L~~NyRS~~~Iv~~~N~lf~ 381 (1087)
T TIGR00609 356 ----AD--ARYTLGTNWRSTPALVGSLNKLFS 381 (1087)
T ss_pred ----cC--cEEECCCCCCCcHHHHHHHHHHHh
Confidence 11 135699999999999999999884
No 28
>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=97.76 E-value=7.9e-06 Score=64.48 Aligned_cols=44 Identities=32% Similarity=0.373 Sum_probs=33.3
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEe
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVF 110 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~ 110 (181)
.++.++|||+.++........+... +.+.++++||+.|.+..-.
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~--~~~~~~l~GDp~Q~~~~~~ 105 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLS--PAKNVILFGDPLQIPYISR 105 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhc--cCcceEEEECchhccCCcc
Confidence 5999999999988755555433333 5689999999999877543
No 29
>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=97.76 E-value=3.3e-05 Score=74.99 Aligned_cols=92 Identities=25% Similarity=0.382 Sum_probs=56.6
Q ss_pred CccceeeeccccCCCcchhhhhhhccccC---CCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRD---NGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRF 140 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~---~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~ 140 (181)
.+|++|+|||. |-+.+...--+.+.... ...+++|||++| .|..-. |-..++|.+.... |...
T Consensus 387 ~rf~~ILVDEf-QDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ---SIY~FR----GAdp~lf~~~~~~--f~~~---- 452 (1232)
T TIGR02785 387 EKFKEVLVDEY-QDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ---SIYRFR----QADPSLFLEKYHR--FAQE---- 452 (1232)
T ss_pred hCCCEEEEECC-cCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc---hhhhhc----CCChHHHHHHHHH--hhhh----
Confidence 47999999998 65555444333322211 368999999999 333211 2234555544433 1100
Q ss_pred cccCCcCCccccchhhhhcChhHHHHhhhhhhc
Q psy3902 141 YATGGYDPRLVTRLVNNYRTMPEILKISSDLFY 173 (181)
Q Consensus 141 ~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY 173 (181)
.+ .+...+.|.+|||++++|.+++|.+|.
T Consensus 453 ---~~-~~~~~i~L~~NfRS~~~Il~~~N~lF~ 481 (1232)
T TIGR02785 453 ---GN-EHGKRIDLAENFRSRKEVLDTTNYLFK 481 (1232)
T ss_pred ---cc-CCceEEECCcCCCCcHHHHHHHHHHHH
Confidence 00 012245799999999999999999984
No 30
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=97.76 E-value=1.3e-05 Score=72.85 Aligned_cols=47 Identities=45% Similarity=0.626 Sum_probs=40.4
Q ss_pred CCCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecc
Q psy3902 2 PAGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSK 52 (181)
Q Consensus 2 ~~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~ 52 (181)
....||++|||||+|+.|+++|.|+.. ..+++|+||+.|+..+..+.
T Consensus 358 ~~~~Fd~vIIDEAsQ~~ep~~lipl~~----~~~~vLvGD~~QLpP~v~s~ 404 (637)
T TIGR00376 358 KGWEFDVAVIDEASQAMEPSCLIPLLK----ARKLILAGDHKQLPPTILSH 404 (637)
T ss_pred ccCCCCEEEEECccccchHHHHHHHhh----CCeEEEecChhhcCCccccc
Confidence 356899999999999999999999984 34899999999988776553
No 31
>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=97.75 E-value=3.1e-05 Score=74.70 Aligned_cols=96 Identities=24% Similarity=0.249 Sum_probs=57.3
Q ss_pred CccceeeeccccCCCcchhhhhhhcccc-----------CCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHR-----------DNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFL 132 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~-----------~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~ 132 (181)
..|++++|||. |-|-+..+--+..... ..+.+++|||++| .|..-. |-...+|.++....
T Consensus 390 ~r~~~iLVDEF-QDTs~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQ---SIY~FR----GAd~~~f~~~~~~~- 460 (1141)
T TIGR02784 390 RGIDHILVDEA-QDTSPEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQ---SIYSFQ----GADPDRFAEERREF- 460 (1141)
T ss_pred cCCCEEEEECC-cCCCHHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcc---cCcccc----CCCHHHHHHHHHHH-
Confidence 57999999998 6666655543332211 1368999999999 333211 22344555443321
Q ss_pred cccccccccccCCcCCccccchhhhhcChhHHHHhhhhhhcC
Q psy3902 133 YSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDLFYD 174 (181)
Q Consensus 133 ~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~ 174 (181)
... +.. +..+.....|++|||+.+.|.+++|.+|-.
T Consensus 461 -~~~---~~~--~~~~~~~~~L~~NyRS~~~Il~~~N~lf~~ 496 (1141)
T TIGR02784 461 -NRK---VRA--VGAKFEDLSLNYSFRSTPDVLAAVDLVFAD 496 (1141)
T ss_pred -HHh---hhh--ccCCceEeeCCcCCCChHHHHHHHHHHHhC
Confidence 000 000 000112356999999999999999999854
No 32
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=97.74 E-value=4.1e-05 Score=69.77 Aligned_cols=86 Identities=24% Similarity=0.279 Sum_probs=52.7
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
..|++|+|||.-..+. ..+--+.........+++|||+.| .+..- .|-....|.++...
T Consensus 205 ~~~~~ilVDEfQD~~~-~Q~~ll~~L~~~~~~l~~vGD~~Q---sIY~f----rga~~~~~~~~~~~------------- 263 (664)
T TIGR01074 205 NKIRYLLVDEYQDTNT-SQYELVKLLVGDRARFTVVGDDDQ---SIYSW----RGARPENLVLLKED------------- 263 (664)
T ss_pred HhCCEEEEeehccCCH-HHHHHHHHHhcCCCeEEEEcCCcc---cccCC----CCCCHHHHHHHHHh-------------
Confidence 4689999999955544 433333322223468999999999 22211 01122333333322
Q ss_pred CCcCCccccchhhhhcChhHHHHhhhhhh
Q psy3902 144 GGYDPRLVTRLVNNYRTMPEILKISSDLF 172 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~~~I~~~~s~~f 172 (181)
++....+.|.++||++++|.++.|.++
T Consensus 264 --~~~~~~~~L~~NyRs~~~Il~~~n~l~ 290 (664)
T TIGR01074 264 --FPQLKVIKLEQNYRSTGRILKAANILI 290 (664)
T ss_pred --CCCCeEEECCCCCCChHHHHHHHHHHH
Confidence 112223569999999999999999965
No 33
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=97.68 E-value=3.8e-05 Score=76.08 Aligned_cols=75 Identities=20% Similarity=0.216 Sum_probs=51.2
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccccccC
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYATG 144 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~~ 144 (181)
..+++|||||||+....+.-.+........|+||+||..|||||-.. ..|.-+...+
T Consensus 1062 ~~~llIVDEaSMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~sV~aG----------~~f~~l~~~~------------- 1118 (1747)
T PRK13709 1062 SNTLFLLDESSMVGNTDMARAYALIAAGGGRAVSSGDTDQLQAIAPG----------QPFRLMQTRS------------- 1118 (1747)
T ss_pred CCcEEEEEccccccHHHHHHHHHhhhcCCCEEEEecchHhcCCCCCC----------hHHHHHHHhC-------------
Confidence 46899999999998766655554433234799999999999998433 3455555431
Q ss_pred CcCCccccchhhhhcChhHHH
Q psy3902 145 GYDPRLVTRLVNNYRTMPEIL 165 (181)
Q Consensus 145 ~~~~~~~~~L~~qyR~~~~I~ 165 (181)
...++.|++-+|-.+.+-
T Consensus 1119 ---~i~~~~L~eI~RQ~~~lr 1136 (1747)
T PRK13709 1119 ---AADVAIMKEIVRQTPELR 1136 (1747)
T ss_pred ---CCCeEEeCeEEcCcHHHH
Confidence 122356888888876443
No 34
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=97.56 E-value=7.9e-05 Score=72.06 Aligned_cols=86 Identities=22% Similarity=0.322 Sum_probs=54.0
Q ss_pred CccceeeeccccCCCcchhhhhhhcccc--CCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHR--DNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFY 141 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~--~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~ 141 (181)
.+|++++|||. |-+.+..+--+..... ....+++|||++| .|..-. |-....+-.....
T Consensus 376 ~~y~~ilIDEf-QDT~~~Q~~il~~L~~~~~~~~l~~VGDpkQ---sIY~FR----GAd~~~~l~~~~~----------- 436 (1181)
T PRK10876 376 TRYPVAMIDEF-QDTDPQQYRIFRRIYRHQPETALLLIGDPKQ---AIYAFR----GADIFTYMKARSE----------- 436 (1181)
T ss_pred hCCCEEEEECC-ccCCHHHHHHHHHHHcCCCCCeEEEEeCCcc---ccccCC----CCCchHHHHHHhc-----------
Confidence 57999999998 6666666554443321 2357999999999 443211 1111111111111
Q ss_pred ccCCcCCccccchhhhhcChhHHHHhhhhhhcC
Q psy3902 142 ATGGYDPRLVTRLVNNYRTMPEILKISSDLFYD 174 (181)
Q Consensus 142 ~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY~ 174 (181)
. .....|.+|||+.+.|.+++|.+|-.
T Consensus 437 ----~--~~~~~L~~NyRS~~~Iv~~~N~lf~~ 463 (1181)
T PRK10876 437 ----V--SAHYTLDTNWRSAPGMVNSVNKLFSQ 463 (1181)
T ss_pred ----c--CCeeECCCCcCcCHHHHHHHHHHHhc
Confidence 0 11246999999999999999998854
No 35
>PRK11054 helD DNA helicase IV; Provisional
Probab=97.53 E-value=0.00013 Score=66.80 Aligned_cols=85 Identities=18% Similarity=0.279 Sum_probs=52.1
Q ss_pred ccceeeeccccCCCcchhhhhhhccc--cCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccccc
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLH--RDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYA 142 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~--~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~ 142 (181)
.|++|+|||+-..+ +..+--+.... ....++++|||+.|- +..- .|-...++..+...
T Consensus 430 ~~~~IlVDE~QD~s-~~q~~ll~~l~~~~~~~~l~~VGD~~Qs---IY~f----rGa~~~~~~~f~~~------------ 489 (684)
T PRK11054 430 PWKHILVDEFQDIS-PQRAALLAALRKQNSQTTLFAVGDDWQA---IYRF----SGADLSLTTAFHER------------ 489 (684)
T ss_pred cccEEEEEccccCC-HHHHHHHHHHhccCCCCeEEEEECCCcc---cccc----CCCChHHHHHHHhh------------
Confidence 59999999995554 44433333221 124689999999993 3321 12222334333322
Q ss_pred cCCcCCccccchhhhhcChhHHHHhhhhhh
Q psy3902 143 TGGYDPRLVTRLVNNYRTMPEILKISSDLF 172 (181)
Q Consensus 143 ~~~~~~~~~~~L~~qyR~~~~I~~~~s~~f 172 (181)
++....+.|+++||+++.|+++.|..+
T Consensus 490 ---f~~~~~~~L~~nYRs~~~I~~~An~~i 516 (684)
T PRK11054 490 ---FGEGDRCHLDTTYRFNSRIGEVANRFI 516 (684)
T ss_pred ---cCCCeEEEeCCCCCCCHHHHHHHHHHH
Confidence 111223569999999999999999854
No 36
>KOG1802|consensus
Probab=97.51 E-value=7.1e-05 Score=67.33 Aligned_cols=45 Identities=49% Similarity=0.741 Sum_probs=39.6
Q ss_pred CCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCccccccee
Q psy3902 3 AGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVF 50 (181)
Q Consensus 3 ~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~ 50 (181)
.-.|+.+++||+.|++||+|++||.+ +..+++|+||+.|+-....
T Consensus 566 ~~kfr~VLiDEaTQatEpe~LiPlvl---G~kq~VlVGDh~QLgpvi~ 610 (935)
T KOG1802|consen 566 KFKFRTVLIDEATQATEPECLIPLVL---GAKQLVLVGDHKQLGPVIM 610 (935)
T ss_pred cccccEEEEecccccCCcchhhhhhh---cceeEEEeccccccCceee
Confidence 45789999999999999999999996 8889999999998865543
No 37
>KOG1805|consensus
Probab=97.37 E-value=0.00011 Score=68.33 Aligned_cols=51 Identities=41% Similarity=0.544 Sum_probs=44.9
Q ss_pred CCCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecccccc
Q psy3902 2 PAGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQ 56 (181)
Q Consensus 2 ~~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~~ 56 (181)
...+||+||+|||+|-..|-++.|+.. ..++||+||+.|+..-..++.++.
T Consensus 793 ~~R~FD~cIiDEASQI~lP~~LgPL~~----s~kFVLVGDh~QLpPLV~s~ear~ 843 (1100)
T KOG1805|consen 793 VNRQFDYCIIDEASQILLPLCLGPLSF----SNKFVLVGDHYQLPPLVRSSEARQ 843 (1100)
T ss_pred hccccCEEEEccccccccchhhhhhhh----cceEEEecccccCCccccchhhhh
Confidence 457899999999999999999999994 459999999999988888877753
No 38
>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=97.36 E-value=0.00038 Score=58.87 Aligned_cols=95 Identities=19% Similarity=0.215 Sum_probs=59.5
Q ss_pred CCCccceeeeccccCCCc----------chhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCc
Q psy3902 62 PSGYFTHCVIDEAGQATE----------PEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRF 131 (181)
Q Consensus 62 ~~~~fd~vIIDEAsq~~e----------~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~ 131 (181)
....+|+||||||-.+.. .+.+.-+.. +.+.+|++-|+.| ++...... ....++.+....
T Consensus 80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~---~~kv~v~f~D~~Q---~i~~~e~~----~~~~l~~~~~~~ 149 (352)
T PF09848_consen 80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIK---RAKVVVFFYDENQ---SIRPSEIG----TLENLEEIAENL 149 (352)
T ss_pred cCCcCCEEEEehhHhhhhccccccccccHHHHHHHHh---cCCEEEEEEcccc---EeecccCC----CHHHHHHHHHhc
Confidence 346899999999987766 233433332 3578888888888 44443211 122244444331
Q ss_pred ccccccccccccCCcCCccccchhhhhcC--hhHHHHhhhhhhcCCCccc
Q psy3902 132 LYSRDMSRFYATGGYDPRLVTRLVNNYRT--MPEILKISSDLFYDASLVP 179 (181)
Q Consensus 132 ~~~~~~~~~~~~~~~~~~~~~~L~~qyR~--~~~I~~~~s~~fY~g~L~~ 179 (181)
. ........|++|||| .+++.+|++.+++.....+
T Consensus 150 ~-------------~~~~~~~~L~~q~R~~~~~~~~~wI~~ll~~~~~~~ 186 (352)
T PF09848_consen 150 G-------------IEVRHFFELKTQFRCHGSKEYIDWIDNLLDNKNISP 186 (352)
T ss_pred C-------------CccccCcCcCcceecCCCHHHHHHHHHHHhccccCc
Confidence 0 011111269999999 8999999999998776543
No 39
>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=97.32 E-value=0.00012 Score=73.78 Aligned_cols=47 Identities=19% Similarity=0.180 Sum_probs=35.7
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEe
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVF 110 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~ 110 (181)
..-+++||||||++....+.-.+........|+||+||+.||+||-.
T Consensus 1111 ~~~~v~ivDEasMv~~~~~~~l~~~~~~~~ak~vlvGD~~QL~sV~a 1157 (1960)
T TIGR02760 1111 FRNTLFILDESSMVSNFQLTHATELVQKSGSRAVSLGDIAQLQSLAA 1157 (1960)
T ss_pred CcccEEEEEccccccHHHHHHHHHhccCCCCEEEEeCChhhcCCCCC
Confidence 34589999999999776665555443334579999999999999733
No 40
>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=97.32 E-value=9.4e-05 Score=62.95 Aligned_cols=46 Identities=30% Similarity=0.325 Sum_probs=33.0
Q ss_pred ccceeeeccccCCCcchhhhhhhc-------------cccCCCeEEEEcCCCCCCceEecc
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISL-------------LHRDNGHVVLAGDPLQLGPTVFSK 112 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~-------------~~~~~~~~vlvGD~~QL~P~v~~~ 112 (181)
..+++||||+|++.. .++..+.. .. +...+|++||..||||++...
T Consensus 102 ~~~~lIiDEism~~~-~~l~~i~~~lr~i~~~~~~~~pF-GG~~vil~GDf~QlpPV~~~~ 160 (364)
T PF05970_consen 102 KADVLIIDEISMVSA-DMLDAIDRRLRDIRKSKDSDKPF-GGKQVILFGDFLQLPPVVPRG 160 (364)
T ss_pred hheeeecccccchhH-HHHHHHHHhhhhhhcccchhhhc-CcceEEeehhhhhcCCCcccc
Confidence 458999999999843 44433321 01 468899999999999998643
No 41
>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=97.30 E-value=0.00013 Score=73.60 Aligned_cols=47 Identities=23% Similarity=0.227 Sum_probs=37.7
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEec
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFS 111 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~ 111 (181)
.-|++||||||++...++..-+....+...|+||+||+.||+++-..
T Consensus 529 ~~~vlIVDEAsMl~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG 575 (1960)
T TIGR02760 529 NKDIFVVDEANKLSNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAG 575 (1960)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHhhcCCEEEEEcChhhcCccccc
Confidence 46899999999998887776665443346899999999999997443
No 42
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=97.12 E-value=0.00076 Score=61.45 Aligned_cols=87 Identities=23% Similarity=0.344 Sum_probs=58.6
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCccccccccccccc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYAT 143 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~ 143 (181)
.+|++|+|||. |-+.+...-.+.........+.+|||+.| .+.+ ..|.....+.++....
T Consensus 212 ~rf~~iLvDE~-QDtn~~Q~~ll~~la~~~~~l~~VGD~dQ---sIY~----frGA~~~ni~~f~~df------------ 271 (655)
T COG0210 212 ARFRYILVDEF-QDTNPLQYELLKLLAGNAANLFVVGDDDQ---SIYG----FRGADPENILDFEKDF------------ 271 (655)
T ss_pred hhCCEEEEeCc-CCCCHHHHHHHHHHhCCCCCEEEEcCCcc---ccce----eCCCChHHHHHHHhhC------------
Confidence 57999999998 66666544444433333568889999999 4444 1133444455554441
Q ss_pred CCcCCccccchhhhhcChhHHHHhhhhhhc
Q psy3902 144 GGYDPRLVTRLVNNYRTMPEILKISSDLFY 173 (181)
Q Consensus 144 ~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY 173 (181)
.....+.|.++||+.+.|....|...=
T Consensus 272 ---~~~~~i~Le~NyRSt~~Il~~An~~i~ 298 (655)
T COG0210 272 ---PAAKVIKLEQNYRSTPNILAAANKVIA 298 (655)
T ss_pred ---CCCcEEEecCCCCCcHHHHHHHHHHHh
Confidence 223457799999999999999988653
No 43
>PRK10536 hypothetical protein; Provisional
Probab=96.74 E-value=0.00097 Score=54.20 Aligned_cols=40 Identities=25% Similarity=0.318 Sum_probs=33.6
Q ss_pred cceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCC
Q psy3902 66 FTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLG 106 (181)
Q Consensus 66 fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~ 106 (181)
-++||||||.+++..+.-..+.... ...++|++||+.|.-
T Consensus 177 ~~~vIvDEaqn~~~~~~k~~ltR~g-~~sk~v~~GD~~QiD 216 (262)
T PRK10536 177 NAVVILDEAQNVTAAQMKMFLTRLG-ENVTVIVNGDITQCD 216 (262)
T ss_pred CCEEEEechhcCCHHHHHHHHhhcC-CCCEEEEeCChhhcc
Confidence 4899999999998887777777664 578999999999963
No 44
>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=96.50 E-value=0.00099 Score=54.29 Aligned_cols=40 Identities=33% Similarity=0.495 Sum_probs=27.4
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCC
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQ 104 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~Q 104 (181)
..|++|+|||+ |-+-+..+-.+....+...++++|||++|
T Consensus 255 ~~~~~i~IDE~-QD~s~~Q~~il~~l~~~~~~~~~vGD~~Q 294 (315)
T PF00580_consen 255 QRYDHILIDEF-QDTSPLQLRILKKLFKNPENLFIVGDPNQ 294 (315)
T ss_dssp HHSSEEEESSG-GG-BHHHHHHHHHHHTTTTTEEEEE-GGG
T ss_pred hhCCeEEeEcc-ccCCHHHHHHHHHHHHhhceeEEeCCCCc
Confidence 46999999999 55555555455433334557999999999
No 45
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=95.86 E-value=0.0051 Score=56.69 Aligned_cols=43 Identities=51% Similarity=0.700 Sum_probs=39.1
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceec
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFS 51 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~ 51 (181)
.||++++|||+|+.++.++.|+.+ ..+++++||+.|+-.+...
T Consensus 488 ~fd~viiDEAsQ~~~~~~~~~l~~----~~~~il~GD~kQL~p~~~~ 530 (767)
T COG1112 488 EFDYVIIDEASQATEPSALIALSR----AKKVILVGDHKQLPPTVFF 530 (767)
T ss_pred ccCEEEEcchhcccchhHHHhHhh----cCeEEEecCCccCCCeecc
Confidence 699999999999999999999985 6799999999999887754
No 46
>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=95.32 E-value=0.012 Score=46.34 Aligned_cols=40 Identities=23% Similarity=0.460 Sum_probs=24.2
Q ss_pred cceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCC
Q psy3902 66 FTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLG 106 (181)
Q Consensus 66 fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~ 106 (181)
-.+||||||=.++..+.-..+.... ...|+|+.||+.|.-
T Consensus 120 ~~~iIvDEaQN~t~~~~k~ilTR~g-~~skii~~GD~~Q~D 159 (205)
T PF02562_consen 120 NAFIIVDEAQNLTPEELKMILTRIG-EGSKIIITGDPSQID 159 (205)
T ss_dssp SEEEEE-SGGG--HHHHHHHHTTB--TT-EEEEEE------
T ss_pred ceEEEEecccCCCHHHHHHHHcccC-CCcEEEEecCceeec
Confidence 4889999998888777777777664 568999999999963
No 47
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=94.61 E-value=0.015 Score=53.53 Aligned_cols=47 Identities=23% Similarity=0.135 Sum_probs=35.4
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEecc
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSK 112 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~ 112 (181)
..|.+||||++++............ ....++|++||..||+++....
T Consensus 407 ~~d~~iiDe~~ml~~~~~~~l~~~i-~~~a~~i~vGD~~ql~~v~~g~ 453 (696)
T COG0507 407 DGDLLIIDEASMLDTSLAFGLLSAI-GKLAKVILVGDVDQLPSVGAGA 453 (696)
T ss_pred ccceeEEehhhhHHHHHhhhhhccc-ccCCeEEEeCCHHhcCCCCCCc
Confidence 4489999999999774443332222 3678999999999999987664
No 48
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=93.69 E-value=0.022 Score=44.23 Aligned_cols=46 Identities=24% Similarity=0.351 Sum_probs=32.4
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccce
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTV 49 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T 49 (181)
...+++||||+++........-+....+...+++++||+.|+-..-
T Consensus 92 ~~~~vliVDEasmv~~~~~~~ll~~~~~~~~klilvGD~~QL~pV~ 137 (196)
T PF13604_consen 92 PKKDVLIVDEASMVDSRQLARLLRLAKKSGAKLILVGDPNQLPPVG 137 (196)
T ss_dssp TSTSEEEESSGGG-BHHHHHHHHHHS-T-T-EEEEEE-TTSHHHCS
T ss_pred CcccEEEEecccccCHHHHHHHHHHHHhcCCEEEEECCcchhcCCc
Confidence 4568999999999998876655665555578999999999985554
No 49
>KOG1801|consensus
Probab=92.74 E-value=0.089 Score=49.58 Aligned_cols=50 Identities=40% Similarity=0.486 Sum_probs=43.6
Q ss_pred CCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecccc
Q psy3902 3 AGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLG 54 (181)
Q Consensus 3 ~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~ 54 (181)
...|+.+++|||.|+.|++.+.||++. +..+-+++||..|+.++.++...
T Consensus 534 ~~p~~~vviDeaaq~~e~~s~~PL~l~--g~~~~~lvgd~~qlP~~V~s~~~ 583 (827)
T KOG1801|consen 534 GPPLDTVVIDEAAQKYEPSSLEPLQLA--GYQHCILVGDLAQLPATVHSSPA 583 (827)
T ss_pred CCCceEEEEehhhhhcCccchhhhhhc--CCceEEEecccccCChhhccchh
Confidence 456888999999999999999999986 88899999999998887777543
No 50
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=92.02 E-value=0.083 Score=45.14 Aligned_cols=61 Identities=25% Similarity=0.390 Sum_probs=40.6
Q ss_pred ceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCc
Q psy3902 67 THCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRF 131 (181)
Q Consensus 67 d~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~ 131 (181)
..+|||||-..+.-+...-+.... ...|+|+.||+.|.---..+... .|+ ..+-+|+-...
T Consensus 353 ~FiIIDEaQNLTpheikTiltR~G-~GsKIVl~gd~aQiD~~yl~~~s--nGL-tyvverfk~~~ 413 (436)
T COG1875 353 SFIIIDEAQNLTPHELKTILTRAG-EGSKIVLTGDPAQIDTPYLDETS--NGL-TYVVEKFKGHP 413 (436)
T ss_pred ceEEEehhhccCHHHHHHHHHhcc-CCCEEEEcCCHHHcCCccccCCC--ccH-HHHHHHhcCCC
Confidence 469999998877777777777665 57899999999998433222211 122 24456666554
No 51
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=91.77 E-value=0.11 Score=52.33 Aligned_cols=41 Identities=20% Similarity=0.222 Sum_probs=33.0
Q ss_pred cceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCC
Q psy3902 66 FTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLG 106 (181)
Q Consensus 66 fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~ 106 (181)
=+++|||||+++.--++...+........|+||+||.+|+.
T Consensus 501 ~~ilIVDEAg~lsar~m~~Ll~~A~~~~arvVllgd~~Q~a 541 (1747)
T PRK13709 501 GSTLIVDQAEKLSLKETLTLLDGAARHNVQVLILDSGQRTG 541 (1747)
T ss_pred CcEEEEECCCcCCHHHHHHHHHHHHHhCCEEEEECCccccc
Confidence 46999999999988777766654444568999999999984
No 52
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=90.71 E-value=0.19 Score=38.66 Aligned_cols=82 Identities=13% Similarity=0.059 Sum_probs=39.1
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccccccC
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYATG 144 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~~~ 144 (181)
..|++|||||+.+..|-..--+. +..++|+.. ++.. -.|-++++--|+..... +.
T Consensus 90 ~~DlliVDEAAaIp~p~L~~ll~----~~~~vv~st-------Ti~G----YEGtGRgF~lkf~~~L~--~~-------- 144 (177)
T PF05127_consen 90 QADLLIVDEAAAIPLPLLKQLLR----RFPRVVFST-------TIHG----YEGTGRGFSLKFLKQLK--KH-------- 144 (177)
T ss_dssp --SCEEECTGGGS-HHHHHHHHC----CSSEEEEEE-------EBSS----TTBB-HHHHHHHHCT--------------
T ss_pred CCCEEEEechhcCCHHHHHHHHh----hCCEEEEEe-------eccc----cccCCceeeeehhhhcc--cc--------
Confidence 57999999999997654443332 357887731 1221 22445555445544310 00
Q ss_pred CcC-Cccccchhhhhc--ChhHHHHhhhhhh
Q psy3902 145 GYD-PRLVTRLVNNYR--TMPEILKISSDLF 172 (181)
Q Consensus 145 ~~~-~~~~~~L~~qyR--~~~~I~~~~s~~f 172 (181)
.. +...+.|++=-| .+..+-.|.++.|
T Consensus 145 -~~~~~~~~~L~~PIR~~~~DPlE~wl~~~l 174 (177)
T PF05127_consen 145 -RPRNWRELELSEPIRYAPGDPLEAWLNDLL 174 (177)
T ss_dssp -ST-TEEEEE--S-SSS-TT-HHHHHHHHHC
T ss_pred -CCCccEEEEcCCCccCCCcCcHHHHHHHhh
Confidence 01 223344555444 4557777777765
No 53
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=89.28 E-value=0.66 Score=42.22 Aligned_cols=88 Identities=19% Similarity=0.230 Sum_probs=53.5
Q ss_pred CCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEeccchhccchhhhHHHHHhcCcccccccccccc
Q psy3902 63 SGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELRISLLERLTGRFLYSRDMSRFYA 142 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~slf~rl~~~~~~~~~~~~~~~ 142 (181)
.-.+.++|||||--. -+-.++.+...+ .+...-.+||-.| .+.... .. ....+.+...++..
T Consensus 526 ~~~~kh~vIDeaqdy-s~~q~~~~r~l~-~~as~tivgd~gq---~i~~~~-~e-~~~~e~~~~~fed~----------- 587 (747)
T COG3973 526 ERRLKHTVIDEAQDY-SRFQFTDNRTLA-ERASMTIVGDYGQ---VIYDEA-QE-LSPMERMDVFFEDP----------- 587 (747)
T ss_pred cccccceeechhhhc-chhhhHHHhhhh-hhccceEeccCCc---eehhhh-cc-cCHHHHHHHHHhCC-----------
Confidence 346889999999544 444555554333 3567888999999 333321 11 01222333333321
Q ss_pred cCCcCCccccchhhhhcChhHHHHhhhhhhc
Q psy3902 143 TGGYDPRLVTRLVNNYRTMPEILKISSDLFY 173 (181)
Q Consensus 143 ~~~~~~~~~~~L~~qyR~~~~I~~~~s~~fY 173 (181)
+.-.+.|..+||+..+|.+|.|.+.=
T Consensus 588 -----~~e~v~l~~syrSt~eI~efan~~l~ 613 (747)
T COG3973 588 -----SFEYVGLIASYRSTAEIDEFANSLLP 613 (747)
T ss_pred -----CchhhhhhhhhcChHHHHHHHHHhcc
Confidence 12235699999999999999998654
No 54
>KOG0387|consensus
Probab=84.35 E-value=1.5 Score=41.06 Aligned_cols=118 Identities=15% Similarity=0.237 Sum_probs=67.6
Q ss_pred cccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhcc-ccCCCeEEEEcCCCCCCceEeccchhccchhh
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLL-HRDNGHVVLAGDPLQLGPTVFSKLGQQLELRI 121 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~-~~~~~~~vlvGD~~QL~P~v~~~~~~~~~~~~ 121 (181)
.-|++||......... .+....+++||+||+-.+..|.+-+.++.. -.-..|+||.|=|.|-.= ++. .
T Consensus 316 ~~ilitty~~~r~~~d-~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL---~EL-------w 384 (923)
T KOG0387|consen 316 GGILITTYDGFRIQGD-DLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNL---TEL-------W 384 (923)
T ss_pred CcEEEEehhhhcccCc-ccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchH---HHH-------H
Confidence 3477777777654322 245568999999999999999888776632 113589999999998421 111 1
Q ss_pred hHHHHHhcC-----cccccccccccccCCcCCccccchhhhhcChhHHHHhhhhh
Q psy3902 122 SLLERLTGR-----FLYSRDMSRFYATGGYDPRLVTRLVNNYRTMPEILKISSDL 171 (181)
Q Consensus 122 slf~rl~~~-----~~~~~~~~~~~~~~~~~~~~~~~L~~qyR~~~~I~~~~s~~ 171 (181)
|+|+...-. .+|.+.-.-.-..|+|..+.-.+-.+-|||--.+-..++-+
T Consensus 385 sLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~Py 439 (923)
T KOG0387|consen 385 SLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPY 439 (923)
T ss_pred HHhhhccCCcccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHH
Confidence 222222211 11111111111234455444455677788877766666543
No 55
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=83.73 E-value=0.64 Score=46.76 Aligned_cols=39 Identities=23% Similarity=0.228 Sum_probs=29.2
Q ss_pred ceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCC
Q psy3902 67 THCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLG 106 (181)
Q Consensus 67 d~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~ 106 (181)
+++|||||+++.--++.--+........| |++||.+|+.
T Consensus 370 ~ilIVDEA~~Ls~rdm~~Ll~~A~~~gar-VllgD~~Q~~ 408 (1623)
T PRK14712 370 STVIVDQGEKLSLKETLTLLDGAARHNVQ-VLITDSGQRT 408 (1623)
T ss_pred cEEEEECCCcCCHHHHHHHHHHHHhcCCE-EEEEechhhh
Confidence 89999999999877777655543333456 6688999984
No 56
>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=82.30 E-value=0.72 Score=41.94 Aligned_cols=43 Identities=26% Similarity=0.260 Sum_probs=32.7
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
.+|++||||++....+-- ..|....+...+++++||+.|+...
T Consensus 259 ~~dvlIiDEaSMvd~~l~-~~ll~al~~~~rlIlvGD~~QLpsV 301 (586)
T TIGR01447 259 PLDVLVVDEASMVDLPLM-AKLLKALPPNTKLILLGDKNQLPSV 301 (586)
T ss_pred cccEEEEcccccCCHHHH-HHHHHhcCCCCEEEEECChhhCCCC
Confidence 578999999999887643 3333344577899999999988554
No 57
>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=80.89 E-value=0.55 Score=38.00 Aligned_cols=44 Identities=23% Similarity=0.288 Sum_probs=31.2
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
.+|+|++|||+=..... .+.-+..+.+....+.++||..|-|-.
T Consensus 255 ~~~~~i~IDE~QD~s~~-Q~~il~~l~~~~~~~~~vGD~~QsIY~ 298 (315)
T PF00580_consen 255 QRYDHILIDEFQDTSPL-QLRILKKLFKNPENLFIVGDPNQSIYG 298 (315)
T ss_dssp HHSSEEEESSGGG-BHH-HHHHHHHHHTTTTTEEEEE-GGG--GG
T ss_pred hhCCeEEeEccccCCHH-HHHHHHHHHHhhceeEEeCCCCcceee
Confidence 46899999998655544 556777777777789999999988764
No 58
>PRK04296 thymidine kinase; Provisional
Probab=79.35 E-value=1.6 Score=33.54 Aligned_cols=41 Identities=22% Similarity=0.182 Sum_probs=24.5
Q ss_pred CCccceeeeccccCCCcchhhhhhh-ccccCCCeEEEEcCCCC
Q psy3902 63 SGYFTHCVIDEAGQATEPEVLVPIS-LLHRDNGHVVLAGDPLQ 104 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~~l~~l~-~~~~~~~~~vlvGD~~Q 104 (181)
.+.+|+||||||.-..+ +.+..+. ...+....+|+.|=..+
T Consensus 76 ~~~~dvviIDEaq~l~~-~~v~~l~~~l~~~g~~vi~tgl~~~ 117 (190)
T PRK04296 76 GEKIDCVLIDEAQFLDK-EQVVQLAEVLDDLGIPVICYGLDTD 117 (190)
T ss_pred CCCCCEEEEEccccCCH-HHHHHHHHHHHHcCCeEEEEecCcc
Confidence 35799999999954433 3233232 21334567888775544
No 59
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=78.97 E-value=1.3 Score=39.45 Aligned_cols=41 Identities=27% Similarity=0.419 Sum_probs=28.7
Q ss_pred CCccceeeeccccCCCcchhhhhhh-ccccCCCeEEEEcCCCCC
Q psy3902 63 SGYFTHCVIDEAGQATEPEVLVPIS-LLHRDNGHVVLAGDPLQL 105 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~~l~~l~-~~~~~~~~~vlvGD~~QL 105 (181)
..-+|+++|||+ |- -|+.++-|. ...+..|++|.++|..|-
T Consensus 293 ~~~yD~ilIDE~-QD-FP~~F~~Lcf~~tkd~KrlvyAyDelQn 334 (660)
T COG3972 293 KKAYDYILIDES-QD-FPQSFIDLCFMVTKDKKRLVYAYDELQN 334 (660)
T ss_pred cccccEEEeccc-cc-CCHHHHHHHHHHhcCcceEEEehHhhhc
Confidence 346999999997 44 344444443 223357999999999994
No 60
>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=78.86 E-value=1.3 Score=30.50 Aligned_cols=42 Identities=14% Similarity=0.041 Sum_probs=26.6
Q ss_pred Ccccccceeccccccccc-CCCCCccceeeeccccCCCcchhh
Q psy3902 42 PLQLGPTVFSKLGQQLEL-STPSGYFTHCVIDEAGQATEPEVL 83 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~-~~~~~~fd~vIIDEAsq~~e~~~l 83 (181)
+..++++|.......... ......++++|||||-........
T Consensus 79 ~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~ 121 (144)
T cd00046 79 KTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFG 121 (144)
T ss_pred CCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchH
Confidence 466777777655432221 123457999999999887665543
No 61
>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=77.89 E-value=1 Score=33.60 Aligned_cols=27 Identities=15% Similarity=0.281 Sum_probs=17.8
Q ss_pred CCCCCccceeeeccccCCCcchhhhhhh
Q psy3902 60 STPSGYFTHCVIDEAGQATEPEVLVPIS 87 (181)
Q Consensus 60 ~~~~~~fd~vIIDEAsq~~e~~~l~~l~ 87 (181)
......||++|+||| ..+.|.++....
T Consensus 90 p~~~~~yd~II~DEc-H~~Dp~sIA~rg 116 (148)
T PF07652_consen 90 PCRLKNYDVIIMDEC-HFTDPTSIAARG 116 (148)
T ss_dssp SSCTTS-SEEEECTT-T--SHHHHHHHH
T ss_pred cccccCccEEEEecc-ccCCHHHHhhhe
Confidence 345568999999998 556777776554
No 62
>KOG0987|consensus
Probab=76.05 E-value=1.7 Score=39.19 Aligned_cols=45 Identities=22% Similarity=0.153 Sum_probs=31.0
Q ss_pred ceeeeccccCCCcchhhhhhhcc---------ccCCCeEEEEcCCCCCCceEecc
Q psy3902 67 THCVIDEAGQATEPEVLVPISLL---------HRDNGHVVLAGDPLQLGPTVFSK 112 (181)
Q Consensus 67 d~vIIDEAsq~~e~~~l~~l~~~---------~~~~~~~vlvGD~~QL~P~v~~~ 112 (181)
+++|+|||+++... ++-.+-.. .-..+.+++.||..|++|++...
T Consensus 218 ~~~i~dE~~m~~~~-~fe~ld~~~r~i~~~~~pfggk~~~~~GDF~qllpv~~~~ 271 (540)
T KOG0987|consen 218 KLIIWDEAPMVDRY-CFEKLDRTLRDIRKNDKPFGGKVLVLGGDFRQLLPVIEGA 271 (540)
T ss_pred cceeeecccccchh-hhhhhhHHHHHHhhcCCCCCCeeeeccCcccccCcccCCC
Confidence 67999999998532 22111100 00468899999999999998864
No 63
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=75.43 E-value=1.1 Score=36.10 Aligned_cols=64 Identities=16% Similarity=0.191 Sum_probs=37.1
Q ss_pred cccccceeccccc----ccccCCCCCccceeeeccccCCCcchhhh--hhhccccCCCeEEEEcCCCCCCc
Q psy3902 43 LQLGPTVFSKLGQ----QLELSTPSGYFTHCVIDEAGQATEPEVLV--PISLLHRDNGHVVLAGDPLQLGP 107 (181)
Q Consensus 43 ~~vv~~T~~~~~~----~~~~~~~~~~fd~vIIDEAsq~~e~~~l~--~l~~~~~~~~~~vlvGD~~QL~P 107 (181)
..++++|...... .....+....|+.||||||..+....... .+.... ...+++|.|-|.+-.|
T Consensus 108 ~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~-~~~~~lLSgTP~~n~~ 177 (299)
T PF00176_consen 108 YDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSKRYKALRKLR-ARYRWLLSGTPIQNSL 177 (299)
T ss_dssp SSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSHHHHHHHCCC-ECEEEEE-SS-SSSGS
T ss_pred ceeeeccccccccccccccccccccccceeEEEecccccccccccccccccccc-cceEEeeccccccccc
Confidence 5677777776660 11111234569999999998874333322 222221 3578999999888655
No 64
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=74.73 E-value=1.5 Score=37.71 Aligned_cols=37 Identities=38% Similarity=0.551 Sum_probs=28.9
Q ss_pred EEEEecCCCCCCccccccccccccCCCceEecCCCccc
Q psy3902 8 HCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQL 45 (181)
Q Consensus 8 ~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~v 45 (181)
.+|+||| |...+..++.+-...-+..++++.||++||
T Consensus 354 FiIIDEa-QNLTpheikTiltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 354 FIIIDEA-QNLTPHELKTILTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred eEEEehh-hccCHHHHHHHHHhccCCCEEEEcCCHHHc
Confidence 4799998 566666677776666678899999998887
No 65
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=74.42 E-value=1.4 Score=40.26 Aligned_cols=43 Identities=26% Similarity=0.275 Sum_probs=32.1
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
.+|.+||||++...-+--..-+. ...+..+++|+||+.|+...
T Consensus 265 ~~dvlIvDEaSMvd~~lm~~ll~-al~~~~rlIlvGD~~QL~sV 307 (615)
T PRK10875 265 HLDVLVVDEASMVDLPMMARLID-ALPPHARVIFLGDRDQLASV 307 (615)
T ss_pred CCCeEEEChHhcccHHHHHHHHH-hcccCCEEEEecchhhcCCC
Confidence 35899999999987665443333 44577899999999988543
No 66
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=73.37 E-value=6.1 Score=36.21 Aligned_cols=37 Identities=11% Similarity=0.181 Sum_probs=24.1
Q ss_pred CCCCccceeeeccccCCCcch--hhhhhhccccCCCeEEEE
Q psy3902 61 TPSGYFTHCVIDEAGQATEPE--VLVPISLLHRDNGHVVLA 99 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~~e~~--~l~~l~~~~~~~~~~vlv 99 (181)
.+...|++++||||.-+.... +++|+... ...|+|.+
T Consensus 295 iRGQ~fnll~VDEA~FI~~~a~~tilgfm~q--~~~KiIfI 333 (668)
T PHA03372 295 IRGQNFHLLLVDEAHFIKKDAFNTILGFLAQ--NTTKIIFI 333 (668)
T ss_pred ccCCCCCEEEEehhhccCHHHHHHhhhhhcc--cCceEEEE
Confidence 455689999999999884432 23455443 34566665
No 67
>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=73.25 E-value=1.7 Score=40.62 Aligned_cols=45 Identities=33% Similarity=0.367 Sum_probs=32.4
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccce
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTV 49 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T 49 (181)
..+++||||++.........-+....+...+++|+||..|+...-
T Consensus 439 ~~~llIvDEasMv~~~~~~~Ll~~~~~~~~kliLVGD~~QLpsVg 483 (744)
T TIGR02768 439 DKDVLVIDEAGMVGSRQMARVLKEAEEAGAKVVLVGDPEQLQPIE 483 (744)
T ss_pred CCcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECChHHccccc
Confidence 568999999998876654433333445678899999998875543
No 68
>PRK10536 hypothetical protein; Provisional
Probab=71.93 E-value=2.4 Score=34.68 Aligned_cols=39 Identities=26% Similarity=0.356 Sum_probs=29.7
Q ss_pred cEEEEecCCCCCCccccccccccccCCCceEecCCCcccc
Q psy3902 7 THCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLG 46 (181)
Q Consensus 7 ~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv 46 (181)
+.+++|||......+...-+.++ .++.++++.||..|+=
T Consensus 178 ~~vIvDEaqn~~~~~~k~~ltR~-g~~sk~v~~GD~~QiD 216 (262)
T PRK10536 178 AVVILDEAQNVTAAQMKMFLTRL-GENVTVIVNGDITQCD 216 (262)
T ss_pred CEEEEechhcCCHHHHHHHHhhc-CCCCEEEEeCChhhcc
Confidence 57899999888885555555444 5889999999987763
No 69
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=71.74 E-value=2 Score=41.53 Aligned_cols=44 Identities=34% Similarity=0.347 Sum_probs=33.2
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
..+++||||+|-........-+..+.+...+++|+||..|+-..
T Consensus 433 ~~~vlIVDEASMv~~~~m~~LL~~a~~~garvVLVGD~~QLpsV 476 (988)
T PRK13889 433 SRDVLVIDEAGMVGTRQLERVLSHAADAGAKVVLVGDPQQLQAI 476 (988)
T ss_pred cCcEEEEECcccCCHHHHHHHHHhhhhCCCEEEEECCHHHcCCC
Confidence 45789999999887766555554455667899999998887554
No 70
>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=70.86 E-value=3.4 Score=32.09 Aligned_cols=46 Identities=28% Similarity=0.351 Sum_probs=31.3
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecc
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSK 52 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~ 52 (181)
.+++++|||+.....-...- +..+ .....+++.||+.|+.......
T Consensus 62 ~~~~liiDE~~~~~~g~l~~-l~~~-~~~~~~~l~GDp~Q~~~~~~~~ 107 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLL-LLSL-SPAKNVILFGDPLQIPYISRND 107 (234)
T ss_pred cCCEEEEeccccCChHHHHH-HHhh-ccCcceEEEECchhccCCcccc
Confidence 58999999999876533322 2222 2445899999999987765433
No 71
>KOG0389|consensus
Probab=70.43 E-value=3.3 Score=38.90 Aligned_cols=61 Identities=21% Similarity=0.227 Sum_probs=42.7
Q ss_pred CCcccccceecccccc--cccCCCCCccceeeeccccCCCcchh-----hhhhhccccCCCeEEEEcCCCCC
Q psy3902 41 DPLQLGPTVFSKLGQQ--LELSTPSGYFTHCVIDEAGQATEPEV-----LVPISLLHRDNGHVVLAGDPLQL 105 (181)
Q Consensus 41 d~~~vv~~T~~~~~~~--~~~~~~~~~fd~vIIDEAsq~~e~~~-----l~~l~~~~~~~~~~vlvGD~~QL 105 (181)
++..|++||..-++.. ....++..+|++||.||+-+.-.... |+-+. ...|+.|.|=|.|-
T Consensus 498 ~~ydVllTTY~la~~~kdDRsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~----An~RlLLTGTPLQN 565 (941)
T KOG0389|consen 498 DDYDVLLTTYNLAASSKDDRSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSIN----ANFRLLLTGTPLQN 565 (941)
T ss_pred CCccEEEEEeecccCChHHHHHHHhccccEEEecchhhhhccchHHHHHhcccc----ccceEEeeCCcccc
Confidence 4688999999877643 22335678999999999987643322 22222 34899999999994
No 72
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=69.89 E-value=2.1 Score=41.75 Aligned_cols=45 Identities=33% Similarity=0.463 Sum_probs=34.1
Q ss_pred CcEEEEecCCCCCCccccccccccccCCCceEecCCCccccccee
Q psy3902 6 FTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVF 50 (181)
Q Consensus 6 ~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~ 50 (181)
-+++||||+|-.....-..-+....+...+++|+||+.|+-..-.
T Consensus 469 ~~vlVIDEAsMv~~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~a 513 (1102)
T PRK13826 469 KTVFVLDEAGMVASRQMALFVEAVTRAGAKLVLVGDPEQLQPIEA 513 (1102)
T ss_pred CcEEEEECcccCCHHHHHHHHHHHHhcCCEEEEECCHHHcCCCCC
Confidence 468999999988777665555555556789999999988755443
No 73
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=69.66 E-value=4.4 Score=30.54 Aligned_cols=41 Identities=24% Similarity=0.323 Sum_probs=27.0
Q ss_pred CCCccceeeeccccCCCc-----chhhhhhhccccCCCeEEEEcCC
Q psy3902 62 PSGYFTHCVIDEAGQATE-----PEVLVPISLLHRDNGHVVLAGDP 102 (181)
Q Consensus 62 ~~~~fd~vIIDEAsq~~e-----~~~l~~l~~~~~~~~~~vlvGD~ 102 (181)
..+.+|++|+||.+-+.. .+-++-+...++....+|+.|-.
T Consensus 92 ~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~ 137 (159)
T cd00561 92 ASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRN 137 (159)
T ss_pred hcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCC
Confidence 467899999999886622 22333444444456688888865
No 74
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=67.10 E-value=4.2 Score=39.53 Aligned_cols=64 Identities=20% Similarity=0.263 Sum_probs=42.9
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcchhhhh--hhccccCCCeEEEEcCCCCCCc
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVP--ISLLHRDNGHVVLAGDPLQLGP 107 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~--l~~~~~~~~~~vlvGD~~QL~P 107 (181)
+..|++||...+..... .+....|++||||||-.+..+.+... +.... ...+++|.|=|.|-.+
T Consensus 269 ~~dVvITSYe~l~~e~~-~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~-a~~RLLLTGTPlqNnl 334 (1033)
T PLN03142 269 KFDVCVTSFEMAIKEKT-ALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFS-TNYRLLITGTPLQNNL 334 (1033)
T ss_pred CCCcceecHHHHHHHHH-HhccCCCCEEEEcCccccCCHHHHHHHHHHHhh-cCcEEEEecCCCCCCH
Confidence 35688888777654322 24566799999999988877654432 22221 3478999999988544
No 75
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=67.02 E-value=4.7 Score=30.89 Aligned_cols=42 Identities=17% Similarity=0.166 Sum_probs=28.6
Q ss_pred CCCCccceeeecccc------CCCcchhhhhhhccccCCCeEEEEcCCC
Q psy3902 61 TPSGYFTHCVIDEAG------QATEPEVLVPISLLHRDNGHVVLAGDPL 103 (181)
Q Consensus 61 ~~~~~fd~vIIDEAs------q~~e~~~l~~l~~~~~~~~~~vlvGD~~ 103 (181)
+..+.+|+||+||.. -+++-+.+ -+...++..-.+||.|-..
T Consensus 93 l~~~~~DlvVLDEi~~A~~~gli~~~~v~-~lL~~rp~~~evVlTGR~~ 140 (173)
T TIGR00708 93 LADPELDLVLLDELTYALKYGYLDVEEVV-EALQERPGHQHVIITGRGC 140 (173)
T ss_pred HhcCCCCEEEehhhHHHHHCCCcCHHHHH-HHHHhCCCCCEEEEECCCC
Confidence 346789999999998 55554444 3333444566899988643
No 76
>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=65.64 E-value=4.1 Score=38.04 Aligned_cols=70 Identities=16% Similarity=0.111 Sum_probs=42.3
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecccccccccCCCCCccceeeeccccCCC
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQAT 78 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~ 78 (181)
..+++++||++.........-+. ......+++++||+.|+...-....-. .+ +..+.+.++.++|.-.-.
T Consensus 416 ~~~llIvDEaSMvd~~~~~~Ll~-~~~~~~rlilvGD~~QLpsV~~G~v~~--dl-~~~~~~~~~~L~~i~RQ~ 485 (720)
T TIGR01448 416 DCDLLIVDESSMMDTWLALSLLA-ALPDHARLLLVGDTDQLPSVGPGQVLK--DL-ILSQAIPVTRLTKVYRQA 485 (720)
T ss_pred cCCEEEEeccccCCHHHHHHHHH-hCCCCCEEEEECccccccCCCCCchHH--HH-HhcCCCCEEEeCeeeccC
Confidence 57899999999987654433333 334678999999999986644322111 01 122334556666654433
No 77
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=62.75 E-value=3.2 Score=30.43 Aligned_cols=36 Identities=19% Similarity=0.103 Sum_probs=22.8
Q ss_pred ccccceeccccccccc-CCCCCccceeeeccccCCCc
Q psy3902 44 QLGPTVFSKLGQQLEL-STPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 44 ~vv~~T~~~~~~~~~~-~~~~~~fd~vIIDEAsq~~e 79 (181)
.++++|.......... ......++++|||||.....
T Consensus 107 ~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~ 143 (201)
T smart00487 107 DILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLD 143 (201)
T ss_pred CEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhc
Confidence 6777775544332221 12445789999999988764
No 78
>KOG0385|consensus
Probab=62.14 E-value=3.9 Score=38.36 Aligned_cols=62 Identities=18% Similarity=0.186 Sum_probs=44.2
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhh--hccccCCCeEEEEcCCCCC
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPI--SLLHRDNGHVVLAGDPLQL 105 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l--~~~~~~~~~~vlvGD~~QL 105 (181)
...|++||.-.+-.... .+....+.++|||||-.+-...+.+-- ..+ +-..|+.+.|=|.|-
T Consensus 267 ~fdV~iTsYEi~i~dk~-~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f-~~~nrLLlTGTPLQN 330 (971)
T KOG0385|consen 267 RFDVCITSYEIAIKDKS-FLKKFNWRYLVIDEAHRIKNEKSKLSKILREF-KTDNRLLLTGTPLQN 330 (971)
T ss_pred CCceEeehHHHHHhhHH-HHhcCCceEEEechhhhhcchhhHHHHHHHHh-cccceeEeeCCcccc
Confidence 35778888777665432 256778999999999998776666432 222 246899999999994
No 79
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=61.96 E-value=6.5 Score=33.40 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=27.6
Q ss_pred ceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCC--CceEec
Q psy3902 67 THCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQL--GPTVFS 111 (181)
Q Consensus 67 d~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL--~P~v~~ 111 (181)
-.||+|||-..+....=+=|.... -..+.|+.||+.|+ |..+++
T Consensus 245 AfVIlDEaQNtT~~QmKMfLTRiG-f~skmvItGD~tQiDLp~~vkS 290 (348)
T COG1702 245 AFVILDEAQNTTVGQMKMFLTRIG-FESKMVITGDITQIDLPRGVKS 290 (348)
T ss_pred eEEEEecccccchhhhceeeeeec-CCceEEEEcCcccccCCCcccc
Confidence 469999996544333333333221 35899999999996 555544
No 80
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=61.13 E-value=2.9 Score=35.77 Aligned_cols=27 Identities=22% Similarity=0.121 Sum_probs=20.6
Q ss_pred cccccceecccccccccCCCCCccceeeecccc
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAG 75 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAs 75 (181)
+++|++|....-++. ..||++||||.-
T Consensus 186 ~plvVaTtHQLlrFk------~aFD~liIDEVD 212 (441)
T COG4098 186 APLVVATTHQLLRFK------QAFDLLIIDEVD 212 (441)
T ss_pred ccEEEEehHHHHHHH------hhccEEEEeccc
Confidence 578888877766654 359999999974
No 81
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=60.27 E-value=3.9 Score=38.50 Aligned_cols=35 Identities=20% Similarity=0.271 Sum_probs=25.1
Q ss_pred cccccceecccccc------cccCCCCCccceeeeccccCC
Q psy3902 43 LQLGPTVFSKLGQQ------LELSTPSGYFTHCVIDEAGQA 77 (181)
Q Consensus 43 ~~vv~~T~~~~~~~------~~~~~~~~~fd~vIIDEAsq~ 77 (181)
.+|.++|+-+.... ....+..+.||+||||||-.-
T Consensus 257 ~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRg 297 (875)
T COG4096 257 SEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRG 297 (875)
T ss_pred eeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhh
Confidence 68888888765432 123467889999999999643
No 82
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=59.17 E-value=5.6 Score=30.95 Aligned_cols=40 Identities=28% Similarity=0.266 Sum_probs=26.7
Q ss_pred CCCCccceeeeccccCCC------cchhhhhhhccccCCCeEEEEcC
Q psy3902 61 TPSGYFTHCVIDEAGQAT------EPEVLVPISLLHRDNGHVVLAGD 101 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~~------e~~~l~~l~~~~~~~~~~vlvGD 101 (181)
+..+.+|+||+||..-+. +.+.+ -+...++..-.+||.|-
T Consensus 111 l~~~~ydlvVLDEi~~Al~~gli~~eevi-~~L~~rp~~~evVlTGR 156 (191)
T PRK05986 111 LADESYDLVVLDELTYALKYGYLDVEEVL-EALNARPGMQHVVITGR 156 (191)
T ss_pred HhCCCCCEEEEehhhHHHHCCCccHHHHH-HHHHcCCCCCEEEEECC
Confidence 356889999999987553 33333 33334445668999886
No 83
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=58.69 E-value=6.2 Score=38.09 Aligned_cols=63 Identities=24% Similarity=0.235 Sum_probs=38.2
Q ss_pred cccccceeccccccc--ccCCCCCccceeeeccccCCCc----c----hhhhhhhccccCCCeEEEEcCCCCCCc
Q psy3902 43 LQLGPTVFSKLGQQL--ELSTPSGYFTHCVIDEAGQATE----P----EVLVPISLLHRDNGHVVLAGDPLQLGP 107 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~--~~~~~~~~fd~vIIDEAsq~~e----~----~~l~~l~~~~~~~~~~vlvGD~~QL~P 107 (181)
.++++++........ ...+....||+||||||-.+.- + ..+-.+... ....+.|.|=|.|..+
T Consensus 248 ~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~--~~~~LLLTATP~q~~~ 320 (956)
T PRK04914 248 EQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEV--IPGVLLLTATPEQLGQ 320 (956)
T ss_pred CcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhc--cCCEEEEEcCcccCCc
Confidence 457777766544311 1113345799999999988751 1 122223221 2367889999999877
No 84
>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=57.43 E-value=4 Score=32.13 Aligned_cols=38 Identities=26% Similarity=0.400 Sum_probs=19.8
Q ss_pred cEEEEecCCCCCCccccccccccccCCCceEecCCCccc
Q psy3902 7 THCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQL 45 (181)
Q Consensus 7 ~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~v 45 (181)
.++|+|||=-.+.. .++-+....-+..++++.||..|+
T Consensus 121 ~~iIvDEaQN~t~~-~~k~ilTR~g~~skii~~GD~~Q~ 158 (205)
T PF02562_consen 121 AFIIVDEAQNLTPE-ELKMILTRIGEGSKIIITGDPSQI 158 (205)
T ss_dssp EEEEE-SGGG--HH-HHHHHHTTB-TT-EEEEEE-----
T ss_pred eEEEEecccCCCHH-HHHHHHcccCCCcEEEEecCceee
Confidence 67899998555544 445544445588999999998766
No 85
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=56.49 E-value=23 Score=33.19 Aligned_cols=16 Identities=19% Similarity=0.144 Sum_probs=13.6
Q ss_pred CccceeeeccccCCCc
Q psy3902 64 GYFTHCVIDEAGQATE 79 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e 79 (181)
..||++|||||+-++.
T Consensus 293 ~~~DLLIVDEAAfI~~ 308 (752)
T PHA03333 293 QNPDLVIVDEAAFVNP 308 (752)
T ss_pred CCCCEEEEECcccCCH
Confidence 4689999999998865
No 86
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=54.58 E-value=13 Score=28.48 Aligned_cols=42 Identities=31% Similarity=0.389 Sum_probs=22.7
Q ss_pred CCCCccceeeeccccCC------CcchhhhhhhccccCCCeEEEEcCCC
Q psy3902 61 TPSGYFTHCVIDEAGQA------TEPEVLVPISLLHRDNGHVVLAGDPL 103 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~------~e~~~l~~l~~~~~~~~~~vlvGD~~ 103 (181)
+..+.+|+||+||..-+ ++-+.+-.|. ..+..-.+||.|=..
T Consensus 92 i~~~~~dlvILDEi~~a~~~gll~~~~v~~~l~-~rp~~~evVlTGR~~ 139 (172)
T PF02572_consen 92 ISSGEYDLVILDEINYAVDYGLLSEEEVLDLLE-NRPESLEVVLTGRNA 139 (172)
T ss_dssp TT-TT-SEEEEETHHHHHHTTSS-HHHHHHHHH-TS-TT-EEEEE-SS-
T ss_pred HhCCCCCEEEEcchHHHhHCCCccHHHHHHHHH-cCCCCeEEEEECCCC
Confidence 35688999999998643 3333333333 344678899988554
No 87
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=53.33 E-value=9.4 Score=35.83 Aligned_cols=30 Identities=20% Similarity=0.153 Sum_probs=21.1
Q ss_pred cceeeeccccCCCcchhhhhhhccccCCCeEEEE
Q psy3902 66 FTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLA 99 (181)
Q Consensus 66 fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlv 99 (181)
-|+++||||+.+..|-.---+.. -++++++
T Consensus 324 ~DllvVDEAAaIplplL~~l~~~----~~rv~~s 353 (758)
T COG1444 324 ADLLVVDEAAAIPLPLLHKLLRR----FPRVLFS 353 (758)
T ss_pred CCEEEEehhhcCChHHHHHHHhh----cCceEEE
Confidence 79999999999977644433332 3677764
No 88
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=51.49 E-value=7 Score=34.23 Aligned_cols=38 Identities=16% Similarity=0.181 Sum_probs=27.3
Q ss_pred cccccceecccccc-cccCCCCCccceeeeccccCCCcc
Q psy3902 43 LQLGPTVFSKLGQQ-LELSTPSGYFTHCVIDEAGQATEP 80 (181)
Q Consensus 43 ~~vv~~T~~~~~~~-~~~~~~~~~fd~vIIDEAsq~~e~ 80 (181)
..|+++|..+..+. ....+....|+.+|+||+-++.-+
T Consensus 123 ~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~ 161 (442)
T COG1061 123 AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAP 161 (442)
T ss_pred CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcH
Confidence 34888888887764 122345568999999999998653
No 89
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=51.32 E-value=6 Score=27.44 Aligned_cols=21 Identities=24% Similarity=0.515 Sum_probs=16.1
Q ss_pred CCCeEEEEcCCCCCCceEecc
Q psy3902 92 DNGHVVLAGDPLQLGPTVFSK 112 (181)
Q Consensus 92 ~~~~~vlvGD~~QL~P~v~~~ 112 (181)
...++|||||.-|--|-+..+
T Consensus 63 P~~kfiLIGDsgq~DpeiY~~ 83 (100)
T PF09949_consen 63 PERKFILIGDSGQHDPEIYAE 83 (100)
T ss_pred CCCcEEEEeeCCCcCHHHHHH
Confidence 358999999999987754433
No 90
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=50.19 E-value=16 Score=28.48 Aligned_cols=46 Identities=22% Similarity=0.351 Sum_probs=31.2
Q ss_pred CCCCccceeeeccccCCC-----cchhhhhhhccccCCCeEEEEcCCCCCCce
Q psy3902 61 TPSGYFTHCVIDEAGQAT-----EPEVLVPISLLHRDNGHVVLAGDPLQLGPT 108 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~~-----e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~ 108 (181)
+..+.+|+||+||-.-+. ..+-+.++....|...++|+.| +.-||-
T Consensus 118 l~~~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTG--r~ap~~ 168 (198)
T COG2109 118 LADGKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITG--RGAPPE 168 (198)
T ss_pred HhCCCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEEC--CCCCHH
Confidence 456789999999987442 2222334444556789999999 776664
No 91
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=49.96 E-value=8.1 Score=38.00 Aligned_cols=36 Identities=11% Similarity=0.227 Sum_probs=24.5
Q ss_pred Ccccccceeccccccc-----c-cCCCCCccceeeeccccCC
Q psy3902 42 PLQLGPTVFSKLGQQL-----E-LSTPSGYFTHCVIDEAGQA 77 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~-----~-~~~~~~~fd~vIIDEAsq~ 77 (181)
..+|+++|.-+..... . ..+..+.||+||||||-..
T Consensus 511 ~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs 552 (1123)
T PRK11448 511 ETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRG 552 (1123)
T ss_pred CCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCC
Confidence 4788898887643211 0 1134578999999999875
No 92
>PHA02558 uvsW UvsW helicase; Provisional
Probab=49.19 E-value=12 Score=33.27 Aligned_cols=37 Identities=14% Similarity=0.051 Sum_probs=25.3
Q ss_pred cccccceecccccccccCCCCCccceeeeccccCCCcch
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPE 81 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~ 81 (181)
..|+++|..+........ ...|+++|||||-.+....
T Consensus 202 ~~I~VaT~qsl~~~~~~~--~~~~~~iIvDEaH~~~~~~ 238 (501)
T PHA02558 202 APIVVSTWQSAVKQPKEW--FDQFGMVIVDECHLFTGKS 238 (501)
T ss_pred CCEEEeeHHHHhhchhhh--ccccCEEEEEchhcccchh
Confidence 578888876654432211 2479999999999887544
No 93
>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=47.40 E-value=8.8 Score=28.10 Aligned_cols=19 Identities=26% Similarity=0.330 Sum_probs=14.9
Q ss_pred CCccceeeeccccCCCcch
Q psy3902 63 SGYFTHCVIDEAGQATEPE 81 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~ 81 (181)
...+|++|+|||-....-.
T Consensus 144 ~~~~~~vI~DEaH~~~~~~ 162 (184)
T PF04851_consen 144 KNKFDLVIIDEAHHYPSDS 162 (184)
T ss_dssp GGSESEEEEETGGCTHHHH
T ss_pred cccCCEEEEehhhhcCCHH
Confidence 3578999999998775544
No 94
>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=46.93 E-value=12 Score=31.57 Aligned_cols=47 Identities=15% Similarity=0.046 Sum_probs=28.1
Q ss_pred CCCCCcEEEEecCCCCCCcccc-------ccccccccCCCceEecCCCcccccc
Q psy3902 2 PAGYFTHCVIDEAGQATEPEVL-------VPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 2 ~~~~~~~~~~de~~q~~e~~~~-------~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
+...||++|||||=.+.+.... .-|..+.+.....++.-|+.|+|-.
T Consensus 80 ~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q~i~~ 133 (352)
T PF09848_consen 80 EKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQSIRP 133 (352)
T ss_pred cCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEccccEeec
Confidence 3578999999999988773111 1122222234466666666766654
No 95
>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=46.51 E-value=16 Score=27.81 Aligned_cols=35 Identities=23% Similarity=0.248 Sum_probs=19.5
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEc
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAG 100 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvG 100 (181)
.+|+|+||||--.+ .+..--........+.|++.|
T Consensus 76 ~~dvI~IDEaQFf~-~~i~~l~~~~~~~g~~Vi~~G 110 (176)
T PF00265_consen 76 DYDVIGIDEAQFFD-EQIVQLVEILANKGIPVICAG 110 (176)
T ss_dssp TCSEEEESSGGGST-TTHHHHHHHHHHTT-EEEEEE
T ss_pred CCCEEEEechHhhH-HHHHHHHHHHHhCCCeEEEEe
Confidence 39999999996554 333221112222456777765
No 96
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=46.18 E-value=19 Score=33.52 Aligned_cols=18 Identities=22% Similarity=0.187 Sum_probs=14.9
Q ss_pred CCCccceeeeccccCCCc
Q psy3902 62 PSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 62 ~~~~fd~vIIDEAsq~~e 79 (181)
+...||++|||||.-++.
T Consensus 349 RGqtfDLLIVDEAqFIk~ 366 (738)
T PHA03368 349 RGQDFNLLFVDEANFIRP 366 (738)
T ss_pred cCCcccEEEEechhhCCH
Confidence 445799999999998865
No 97
>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=46.11 E-value=6.7 Score=28.54 Aligned_cols=38 Identities=18% Similarity=0.112 Sum_probs=24.5
Q ss_pred CcccccceecccccccccC-CCCCccceeeeccccCCCc
Q psy3902 42 PLQLGPTVFSKLGQQLELS-TPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~-~~~~~fd~vIIDEAsq~~e 79 (181)
.++|+++|........... .....++++||||+-....
T Consensus 95 ~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~ 133 (169)
T PF00270_consen 95 QADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSD 133 (169)
T ss_dssp TSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHH
T ss_pred cccccccCcchhhccccccccccccceeeccCccccccc
Confidence 3778888887765433210 1223489999999976644
No 98
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=45.26 E-value=16 Score=33.46 Aligned_cols=76 Identities=14% Similarity=0.114 Sum_probs=49.4
Q ss_pred CCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecccccccccCCCCCcc--ceeeeccccCCCcc
Q psy3902 3 AGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELSTPSGYF--THCVIDEAGQATEP 80 (181)
Q Consensus 3 ~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~~~~~~~~~~~f--d~vIIDEAsq~~e~ 80 (181)
+.+|+|+++||.-.... ..-.-+..+......+..+||+.|-|-. ..++.......+..... .++.+++--..+..
T Consensus 211 ~~rf~~iLvDE~QDtn~-~Q~~ll~~la~~~~~l~~VGD~dQsIY~-frGA~~~ni~~f~~df~~~~~i~Le~NyRSt~~ 288 (655)
T COG0210 211 QARFRYILVDEFQDTNP-LQYELLKLLAGNAANLFVVGDDDQSIYG-FRGADPENILDFEKDFPAAKVIKLEQNYRSTPN 288 (655)
T ss_pred HhhCCEEEEeCcCCCCH-HHHHHHHHHhCCCCCEEEEcCCccccce-eCCCChHHHHHHHhhCCCCcEEEecCCCCCcHH
Confidence 36899999999855444 3344555555556788899999999988 44544333333443333 46777777766554
No 99
>PRK11054 helD DNA helicase IV; Provisional
Probab=44.75 E-value=14 Score=34.30 Aligned_cols=44 Identities=18% Similarity=0.271 Sum_probs=31.7
Q ss_pred CCCcEEEEecCCCCCCcccccccccccc--CCCceEecCCCcccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHR--DNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~--~~~~~~l~~d~~~vv~~ 48 (181)
..|+|++|||+-... +..+.-+..+.. +...+.++||+.|-|-.
T Consensus 429 ~~~~~IlVDE~QD~s-~~q~~ll~~l~~~~~~~~l~~VGD~~QsIY~ 474 (684)
T PRK11054 429 SPWKHILVDEFQDIS-PQRAALLAALRKQNSQTTLFAVGDDWQAIYR 474 (684)
T ss_pred hcccEEEEEccccCC-HHHHHHHHHHhccCCCCeEEEEECCCccccc
Confidence 359999999996554 555566665543 34678899999987765
No 100
>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=44.27 E-value=9.7 Score=35.99 Aligned_cols=40 Identities=15% Similarity=0.126 Sum_probs=21.9
Q ss_pred EecCCCcccccceecccccccccCCCCCccceeeeccccCCC
Q psy3902 37 VLAGDPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQAT 78 (181)
Q Consensus 37 ~l~~d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~ 78 (181)
.+.+.+++-+++...+..+.... .-..+|+|||||+.|+.
T Consensus 116 ~i~~~~~~rLivqIdSL~R~~~~--~l~~yDvVIIDEv~svL 155 (824)
T PF02399_consen 116 IIDGRPYDRLIVQIDSLHRLDGS--LLDRYDVVIIDEVMSVL 155 (824)
T ss_pred cccccccCeEEEEehhhhhcccc--cccccCEEEEehHHHHH
Confidence 33333334444444444433221 12359999999999873
No 101
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=41.55 E-value=14 Score=34.22 Aligned_cols=45 Identities=16% Similarity=0.112 Sum_probs=33.4
Q ss_pred CCCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 3 AGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 3 ~~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
.++|+|++|||.=.... ..+.-+..+..+..++.++||+.|-|-.
T Consensus 205 ~~~~~~ilVDE~QDtn~-~Q~~ll~~l~~~~~~l~~VGD~~QsIY~ 249 (672)
T PRK10919 205 QNKIRYLLVDEYQDTNT-SQYELVKLLVGSRARFTVVGDDDQSIYS 249 (672)
T ss_pred HhcCCEEEEEchhcCCH-HHHHHHHHHHcCCCEEEEEcCCcccccc
Confidence 36799999999866554 4456666666667788899998876654
No 102
>PF13173 AAA_14: AAA domain
Probab=40.70 E-value=24 Score=24.82 Aligned_cols=37 Identities=19% Similarity=0.090 Sum_probs=21.1
Q ss_pred ccceeeeccccCCCcchhhhhhhccccCCCeEEEEcC
Q psy3902 65 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGD 101 (181)
Q Consensus 65 ~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD 101 (181)
...++||||+-.+......+-...-....-++|+.|=
T Consensus 61 ~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS 97 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGS 97 (128)
T ss_pred CCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEcc
Confidence 5678999999888654444433322111236666553
No 103
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=39.82 E-value=15 Score=36.17 Aligned_cols=44 Identities=32% Similarity=0.357 Sum_probs=35.0
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCC----CceEecCCCcccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDN----GHVVLAGDPLQLGPT 48 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~----~~~~l~~d~~~vv~~ 48 (181)
.+|+|++|||. |=..+..|+-+..+.++. ..+.++||+.|-|=.
T Consensus 377 ~~~~~iLIDEf-QDT~~~Q~~Il~~l~~~~~~~~~~lF~VGD~KQSIY~ 424 (1139)
T COG1074 377 EQYPHILIDEF-QDTDPQQWRILSRLFAGFKAGNRTLFLVGDPKQSIYR 424 (1139)
T ss_pred hcCCeEEeecc-ccCCHHHHHHHHHHHhcCCCCCCceEEecCchHHhhh
Confidence 58999999998 555667788888888774 589999998876643
No 104
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=39.44 E-value=12 Score=32.38 Aligned_cols=38 Identities=16% Similarity=0.066 Sum_probs=23.6
Q ss_pred Ccccccceecccccc-cccCCCCCccceeeeccccCCCc
Q psy3902 42 PLQLGPTVFSKLGQQ-LELSTPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~-~~~~~~~~~fd~vIIDEAsq~~e 79 (181)
+.+|+++|....... ....+....++++|||||-.+.+
T Consensus 123 ~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~ 161 (434)
T PRK11192 123 NQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLD 161 (434)
T ss_pred CCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhC
Confidence 357888886443321 11223445689999999986654
No 105
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=38.56 E-value=26 Score=26.93 Aligned_cols=41 Identities=29% Similarity=0.382 Sum_probs=26.3
Q ss_pred CCCCccceeeeccccCC------CcchhhhhhhccccCCCeEEEEcCC
Q psy3902 61 TPSGYFTHCVIDEAGQA------TEPEVLVPISLLHRDNGHVVLAGDP 102 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~------~e~~~l~~l~~~~~~~~~~vlvGD~ 102 (181)
+..+.+|++|+||..-+ ++-+.+ -+...++..-.+||.|-.
T Consensus 111 l~~~~~dlvVLDEi~~Al~~gli~~eeVl-~~L~~rp~~~evILTGR~ 157 (178)
T PRK07414 111 VDEGRYSLVVLDELSLAIQFGLIPETEVL-EFLEKRPSHVDVILTGPE 157 (178)
T ss_pred HhCCCCCEEEEehhHHHHHCCCccHHHHH-HHHHhCCCCCEEEEECCC
Confidence 34678999999998644 333333 333333455689998863
No 106
>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=38.51 E-value=18 Score=35.63 Aligned_cols=42 Identities=26% Similarity=0.302 Sum_probs=28.8
Q ss_pred CCCcEEEEecCCCCCCccccccccccccC-----------CCceEecCCCcccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRD-----------NGHVVLAGDPLQLG 46 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~-----------~~~~~l~~d~~~vv 46 (181)
++|+|++|||.=... +..|.-+..+..+ ...+.++||+.|=|
T Consensus 390 ~r~~~iLVDEFQDTs-~~Q~~il~~L~~~~~~g~~~~~~~~~~lf~VGD~kQSI 442 (1141)
T TIGR02784 390 RGIDHILVDEAQDTS-PEQWDIIQALAEEFFSGEGARSGVERTIFAVGDEKQSI 442 (1141)
T ss_pred cCCCEEEEECCcCCC-HHHHHHHHHHHHhhcccccccCCCCCeEEEEeCCcccC
Confidence 689999999985544 4445555555432 35789999977644
No 107
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=37.90 E-value=24 Score=27.74 Aligned_cols=34 Identities=26% Similarity=0.273 Sum_probs=22.3
Q ss_pred cceeeeccccCCCcchhhhhhhccccC-CCeEEEEc
Q psy3902 66 FTHCVIDEAGQATEPEVLVPISLLHRD-NGHVVLAG 100 (181)
Q Consensus 66 fd~vIIDEAsq~~e~~~l~~l~~~~~~-~~~~vlvG 100 (181)
.++|+|||| |-...+..--+.....+ .-.|++.|
T Consensus 83 ~~~v~IDEa-QF~~~~~v~~l~~lad~lgi~Vi~~G 117 (201)
T COG1435 83 VDCVLIDEA-QFFDEELVYVLNELADRLGIPVICYG 117 (201)
T ss_pred cCEEEEehh-HhCCHHHHHHHHHHHhhcCCEEEEec
Confidence 689999999 55455665555533333 55777777
No 108
>KOG2108|consensus
Probab=37.90 E-value=14 Score=34.91 Aligned_cols=40 Identities=25% Similarity=0.321 Sum_probs=27.3
Q ss_pred CCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCC
Q psy3902 63 SGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQL 105 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL 105 (181)
.-+||+||+|||.-++. ++.-+.... ..++.+.+||..|=
T Consensus 439 ~a~~d~Ii~D~~~d~t~--c~~~li~i~-~~~~~~~~gd~~q~ 478 (853)
T KOG2108|consen 439 LAKFDYIILDEAQDCTP--CIQNLILIQ-KHNIKVFVGDFHQS 478 (853)
T ss_pred ccccceeeehhhhcCch--HHHHHHhhh-hcccccccCchHhh
Confidence 35799999999987765 333232221 34668999999884
No 109
>PTZ00424 helicase 45; Provisional
Probab=36.92 E-value=14 Score=31.34 Aligned_cols=36 Identities=8% Similarity=0.015 Sum_probs=22.0
Q ss_pred cccccceecccccc-cccCCCCCccceeeeccccCCC
Q psy3902 43 LQLGPTVFSKLGQQ-LELSTPSGYFTHCVIDEAGQAT 78 (181)
Q Consensus 43 ~~vv~~T~~~~~~~-~~~~~~~~~fd~vIIDEAsq~~ 78 (181)
.+|+++|....... ....+....++++|||||-.+.
T Consensus 147 ~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~ 183 (401)
T PTZ00424 147 VHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEML 183 (401)
T ss_pred CCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHH
Confidence 46788876553321 1111234578999999997553
No 110
>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=36.48 E-value=13 Score=28.20 Aligned_cols=40 Identities=15% Similarity=0.008 Sum_probs=23.6
Q ss_pred Ccccccceeccccccc-ccCCCCCccceeeeccccCCCcch
Q psy3902 42 PLQLGPTVFSKLGQQL-ELSTPSGYFTHCVIDEAGQATEPE 81 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~-~~~~~~~~fd~vIIDEAsq~~e~~ 81 (181)
+.+|+++|........ ...+....++++|||||-.+.+..
T Consensus 119 ~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~ 159 (203)
T cd00268 119 GPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMG 159 (203)
T ss_pred CCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccC
Confidence 3578888854432211 111233468999999998765443
No 111
>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=35.74 E-value=37 Score=31.98 Aligned_cols=38 Identities=8% Similarity=-0.006 Sum_probs=25.7
Q ss_pred cccccceeccccccc---------ccCCCCCccceeeeccccCCCcc
Q psy3902 43 LQLGPTVFSKLGQQL---------ELSTPSGYFTHCVIDEAGQATEP 80 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~---------~~~~~~~~fd~vIIDEAsq~~e~ 80 (181)
..|+++|..+..... ...+....|++||+|||-.+.-+
T Consensus 344 ~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~lpA~ 390 (732)
T TIGR00603 344 AGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHVVPAA 390 (732)
T ss_pred CcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccccccHH
Confidence 568899988765321 11234467999999999887543
No 112
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=34.53 E-value=16 Score=31.99 Aligned_cols=39 Identities=13% Similarity=0.020 Sum_probs=24.2
Q ss_pred cccccceeccccccc-ccCCCCCccceeeeccccCCCcch
Q psy3902 43 LQLGPTVFSKLGQQL-ELSTPSGYFTHCVIDEAGQATEPE 81 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~-~~~~~~~~fd~vIIDEAsq~~e~~ 81 (181)
.+|+++|........ ...+....++++|||||-.+.+..
T Consensus 126 ~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~ll~~~ 165 (456)
T PRK10590 126 VDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMG 165 (456)
T ss_pred CcEEEEChHHHHHHHHcCCcccccceEEEeecHHHHhccc
Confidence 578888865443211 111234578999999998765543
No 113
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.95 E-value=17 Score=32.60 Aligned_cols=48 Identities=23% Similarity=0.236 Sum_probs=29.5
Q ss_pred CCccceeeeccccCCCcchhhhhhhcc---ccCCCeEEE-EcCCCCCCceEec
Q psy3902 63 SGYFTHCVIDEAGQATEPEVLVPISLL---HRDNGHVVL-AGDPLQLGPTVFS 111 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~~l~~l~~~---~~~~~~~vl-vGD~~QL~P~v~~ 111 (181)
.++|.++|||||-+++.. ..-+|... .+...++|+ ..|+..++|.+.+
T Consensus 117 ~~~~kV~iIDE~~~ls~~-a~naLLk~LEepp~~~~fIlattd~~kl~~tI~S 168 (509)
T PRK14958 117 KGRFKVYLIDEVHMLSGH-SFNALLKTLEEPPSHVKFILATTDHHKLPVTVLS 168 (509)
T ss_pred cCCcEEEEEEChHhcCHH-HHHHHHHHHhccCCCeEEEEEECChHhchHHHHH
Confidence 467999999999988763 33333321 112334444 3688888876543
No 114
>KOG1774|consensus
Probab=33.76 E-value=18 Score=24.05 Aligned_cols=35 Identities=23% Similarity=0.428 Sum_probs=24.0
Q ss_pred EEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 8 HCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 8 ~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
.+++|||.|...... -.++.|++.|.||+.-+|..
T Consensus 51 NvVlD~aeev~~k~~------~rk~lGRilLKGDnItli~~ 85 (88)
T KOG1774|consen 51 NLVLDDAEEVHSKTK------SRKELGRILLKGDNITLIQS 85 (88)
T ss_pred hhhhcchhhcccccc------CCCccccEEEcCCcEEEEee
Confidence 468898887655432 12367899999998766544
No 115
>KOG0388|consensus
Probab=32.91 E-value=14 Score=34.74 Aligned_cols=62 Identities=15% Similarity=0.209 Sum_probs=36.0
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcch--hhhhhhccccCCCeEEEEcCCCCC
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPE--VLVPISLLHRDNGHVVLAGDPLQL 105 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~--~l~~l~~~~~~~~~~vlvGD~~QL 105 (181)
+..|++|+.-..-.... .+..-++.++|+|||--+.-+. -|=-|..+ +-..|++|.|-|-|-
T Consensus 673 ~fhVviTSYQlvVtDek-y~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF-~cRNRLLLTGTPIQN 736 (1185)
T KOG0388|consen 673 PFHVVITSYQLVVTDEK-YLQKVKWQYMILDEAQAIKSSSSSRWKTLLSF-KCRNRLLLTGTPIQN 736 (1185)
T ss_pred CceEEEEeeeeeechHH-HHHhhhhhheehhHHHHhhhhhhhHHHHHhhh-hccceeeecCCccch
Confidence 35566666555443322 3566789999999994432221 12222222 124799999998873
No 116
>KOG0350|consensus
Probab=32.89 E-value=13 Score=33.47 Aligned_cols=17 Identities=29% Similarity=0.206 Sum_probs=13.0
Q ss_pred CCCCccceeeeccccCC
Q psy3902 61 TPSGYFTHCVIDEAGQA 77 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~ 77 (181)
+...+..++|||||-.+
T Consensus 291 f~Lk~LrfLVIDEADRl 307 (620)
T KOG0350|consen 291 FDLKHLRFLVIDEADRL 307 (620)
T ss_pred cchhhceEEEechHHHH
Confidence 44456788999999765
No 117
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=32.72 E-value=20 Score=33.35 Aligned_cols=44 Identities=30% Similarity=0.326 Sum_probs=32.2
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
++|+|++|||.-..... .+.-+..+..+.+++.++||+.|-|-.
T Consensus 207 ~~~~~ilVDEfQDtn~~-Q~~ll~~L~~~~~~l~vVGD~~QsIY~ 250 (715)
T TIGR01075 207 ERFTHILVDEFQDTNKI-QYAWIRLLAGNTGNVMIVGDDDQSIYG 250 (715)
T ss_pred HhCCEEEEEccccCCHH-HHHHHHHHhCCCCeEEEEeCCcccccc
Confidence 57999999998766544 345555555567789999998875543
No 118
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=32.55 E-value=21 Score=33.23 Aligned_cols=44 Identities=18% Similarity=0.144 Sum_probs=31.7
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~ 48 (181)
.+|+|++|||.-...... +.-+..+.....++.++||+.|=|-.
T Consensus 208 ~~~~~IlVDEfQDtn~~Q-~~ll~~L~~~~~~l~vVGD~~QsIY~ 251 (726)
T TIGR01073 208 RKFQYIHVDEYQDTNRAQ-YTLVRLLASRFRNLCVVGDADQSIYG 251 (726)
T ss_pred HhCCEEEEEccccCCHHH-HHHHHHHhCCCCEEEEEeCCCccccc
Confidence 489999999987665543 44555555566788999998875543
No 119
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=32.47 E-value=21 Score=33.95 Aligned_cols=45 Identities=9% Similarity=0.084 Sum_probs=26.6
Q ss_pred CCcccccceecccccccccCCCCCccceeeeccccC-CCcchhhhh
Q psy3902 41 DPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQ-ATEPEVLVP 85 (181)
Q Consensus 41 d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq-~~e~~~l~~ 85 (181)
.+.+|+++|-...............+++||||||-. ....+.+..
T Consensus 92 ~~t~I~v~T~G~Llr~l~~d~~L~~v~~IIlDEaHER~l~~Dl~L~ 137 (812)
T PRK11664 92 PNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALA 137 (812)
T ss_pred CCCcEEEEChhHHHHHHhhCCCcCcCcEEEEcCCCccccccchHHH
Confidence 345787777654433222223446899999999986 334444433
No 120
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=32.38 E-value=18 Score=32.45 Aligned_cols=45 Identities=13% Similarity=0.005 Sum_probs=31.9
Q ss_pred cccccceeccccccc-ccCCCCCccceeeeccccCCCcchhhhhhh
Q psy3902 43 LQLGPTVFSKLGQQL-ELSTPSGYFTHCVIDEAGQATEPEVLVPIS 87 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~-~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~ 87 (181)
.+|+++|.-..-... .-.++...++++|+|||-.++.-.+..=++
T Consensus 108 ~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAYv~Va 153 (542)
T COG1111 108 KKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAYVFVA 153 (542)
T ss_pred CCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchHHHHH
Confidence 578888877654322 222456689999999999998877665544
No 121
>KOG0953|consensus
Probab=32.06 E-value=24 Score=32.21 Aligned_cols=60 Identities=22% Similarity=0.262 Sum_probs=38.2
Q ss_pred CCCcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhc--cccCCCeEEEEcCCCCCC
Q psy3902 40 GDPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISL--LHRDNGHVVLAGDPLQLG 106 (181)
Q Consensus 40 ~d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~--~~~~~~~~vlvGD~~QL~ 106 (181)
|.+++.+.||--++... ..||+.||||.-|+..|+-=.+... ..-.++-+=|.||+.-|+
T Consensus 257 ~~~a~hvScTVEM~sv~-------~~yeVAViDEIQmm~Dp~RGwAWTrALLGl~AdEiHLCGepsvld 318 (700)
T KOG0953|consen 257 GNPAQHVSCTVEMVSVN-------TPYEVAVIDEIQMMRDPSRGWAWTRALLGLAADEIHLCGEPSVLD 318 (700)
T ss_pred CCcccceEEEEEEeecC-------CceEEEEehhHHhhcCcccchHHHHHHHhhhhhhhhccCCchHHH
Confidence 45788999998777642 3599999999988876653222110 000246666777776553
No 122
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=31.96 E-value=20 Score=33.39 Aligned_cols=43 Identities=33% Similarity=0.347 Sum_probs=31.7
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCCCceEecCCCccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGP 47 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~ 47 (181)
++|+|++|||.-..... .+.-+..+..+.+++.++||+.|-|-
T Consensus 212 ~~~~~IlVDEfQDtn~~-Q~~ll~~L~~~~~~l~vVGD~dQsIY 254 (721)
T PRK11773 212 ERFTHILVDEFQDTNAI-QYAWIRLLAGDTGKVMIVGDDDQSIY 254 (721)
T ss_pred HhCCEEEEEchhcCCHH-HHHHHHHHhCCCCeEEEEecCccccc
Confidence 57999999998766543 34555555566788999999887554
No 123
>PRK13909 putative recombination protein RecB; Provisional
Probab=31.65 E-value=26 Score=33.65 Aligned_cols=45 Identities=18% Similarity=0.042 Sum_probs=29.6
Q ss_pred CCCCcEEEEecCCCCCCcccccccccccc---------CCCceEecCCCcccccc
Q psy3902 3 AGYFTHCVIDEAGQATEPEVLVPISLLHR---------DNGHVVLAGDPLQLGPT 48 (181)
Q Consensus 3 ~~~~~~~~~de~~q~~e~~~~~~l~~~~~---------~~~~~~l~~d~~~vv~~ 48 (181)
.++|+|++|||.=.... ..|.-+..+.. +.+.+.++||+.|=|-.
T Consensus 326 ~~~~~~ilVDEfQDTs~-~Q~~il~~L~~~~~~~~~~~~~~~lf~VGD~kQSIY~ 379 (910)
T PRK13909 326 DSKISHILIDEFQDTSV-LQYKILLPLIDEIKSGEGQKKFRSFFYVGDVKQSIYR 379 (910)
T ss_pred hcCCCEEEEECccCCCH-HHHHHHHHHHHHhhcccccCCCCeEEEEcCchhhhhh
Confidence 36899999999865554 34444443321 14578999998876654
No 124
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=31.61 E-value=19 Score=31.05 Aligned_cols=37 Identities=16% Similarity=0.114 Sum_probs=23.6
Q ss_pred cccccceeccccccc-ccCCCCCccceeeeccccCCCc
Q psy3902 43 LQLGPTVFSKLGQQL-ELSTPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~-~~~~~~~~fd~vIIDEAsq~~e 79 (181)
.+|+++|........ ...+....+.++|||||-.+.+
T Consensus 134 ~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~~ 171 (423)
T PRK04837 134 VDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFD 171 (423)
T ss_pred CCEEEECHHHHHHHHHcCCcccccccEEEEecHHHHhh
Confidence 468888865543221 1123445789999999977654
No 125
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=30.97 E-value=25 Score=24.29 Aligned_cols=36 Identities=42% Similarity=0.481 Sum_probs=21.6
Q ss_pred ceeeeccccCCCcchhhhhhh-ccccCCCeEEEEcCC
Q psy3902 67 THCVIDEAGQATEPEVLVPIS-LLHRDNGHVVLAGDP 102 (181)
Q Consensus 67 d~vIIDEAsq~~e~~~l~~l~-~~~~~~~~~vlvGD~ 102 (181)
.++|||||-.+...+.+--+. +.....=++|++|-+
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 689999998761133333332 222244688888877
No 126
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=30.76 E-value=26 Score=32.12 Aligned_cols=42 Identities=19% Similarity=0.169 Sum_probs=31.5
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCCCceEecCCCcccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLG 46 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv 46 (181)
++|+|++|||.-..... .+.-+..+......+.++||+.|-|
T Consensus 205 ~~~~~ilVDEfQD~~~~-Q~~ll~~L~~~~~~l~~vGD~~QsI 246 (664)
T TIGR01074 205 NKIRYLLVDEYQDTNTS-QYELVKLLVGDRARFTVVGDDDQSI 246 (664)
T ss_pred HhCCEEEEeehccCCHH-HHHHHHHHhcCCCeEEEEcCCcccc
Confidence 57899999998766654 4555666656677899999988743
No 127
>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=30.52 E-value=45 Score=30.89 Aligned_cols=39 Identities=18% Similarity=0.115 Sum_probs=22.9
Q ss_pred Ccccccceecccccccc---cCCCCCcc-ceeeeccccCCCcc
Q psy3902 42 PLQLGPTVFSKLGQQLE---LSTPSGYF-THCVIDEAGQATEP 80 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~---~~~~~~~f-d~vIIDEAsq~~e~ 80 (181)
..+|++||..+...... ..+....+ .+||||||-.....
T Consensus 338 ~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~ 380 (667)
T TIGR00348 338 DGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYG 380 (667)
T ss_pred CCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccch
Confidence 36789998887764211 11122223 38999999665443
No 128
>PRK07413 hypothetical protein; Validated
Probab=30.19 E-value=40 Score=29.16 Aligned_cols=41 Identities=22% Similarity=0.341 Sum_probs=28.1
Q ss_pred CCCCccceeeeccccCC------CcchhhhhhhccccCCCeEEEEcCC
Q psy3902 61 TPSGYFTHCVIDEAGQA------TEPEVLVPISLLHRDNGHVVLAGDP 102 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~------~e~~~l~~l~~~~~~~~~~vlvGD~ 102 (181)
+..+.+|+||+||..-+ ++-+. +-+...++....+||.|-.
T Consensus 121 i~sg~ydlvILDEi~~Al~~gll~~eev-l~~L~~rP~~~evVLTGR~ 167 (382)
T PRK07413 121 IASGLYSVVVLDELNPVLDLGLLPVDEV-VNTLKSRPEGLEIIITGRA 167 (382)
T ss_pred HhCCCCCEEEEehhHHHHHCCCccHHHH-HHHHHhCCCCCEEEEeCCC
Confidence 35688999999998754 33333 3344444566799999975
No 129
>KOG0386|consensus
Probab=29.92 E-value=18 Score=35.13 Aligned_cols=63 Identities=19% Similarity=0.223 Sum_probs=46.4
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhhhccc--cCCCeEEEEcCCCCC
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPISLLH--RDNGHVVLAGDPLQL 105 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~--~~~~~~vlvGD~~QL 105 (181)
+++|+.||.--......+ +.+-.+-++||||.-++....+-+...+.+ ..-.|+++.|=|.|-
T Consensus 493 KFnVLlTtyEyiikdk~l-LsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN 557 (1157)
T KOG0386|consen 493 KFNVLLTTYEYIIKDKAL-LSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQN 557 (1157)
T ss_pred cceeeeeeHHHhcCCHHH-HhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhh
Confidence 478888887766654332 456678999999999998888877665431 124789999999884
No 130
>PRK07413 hypothetical protein; Validated
Probab=29.73 E-value=36 Score=29.47 Aligned_cols=41 Identities=17% Similarity=0.336 Sum_probs=27.2
Q ss_pred CCCCccceeeeccccCC------CcchhhhhhhccccCCCeEEEEcCC
Q psy3902 61 TPSGYFTHCVIDEAGQA------TEPEVLVPISLLHRDNGHVVLAGDP 102 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~------~e~~~l~~l~~~~~~~~~~vlvGD~ 102 (181)
+..+.+|+||+||..-+ ++-+.+ .+...+++...+||.|-.
T Consensus 301 i~~g~ydlvVLDEi~~Al~~gli~~eevi-~~L~~rp~~~evVLTGR~ 347 (382)
T PRK07413 301 IASGLYKTIILDELNPTVDLELLPVEPIV-QTLLRKPRDTEVIITGRC 347 (382)
T ss_pred HhCCCCCEEEEechHHHHHCCCccHHHHH-HHHHhCCCCCEEEEeCCC
Confidence 35678999999998754 333333 333344566789999854
No 131
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=29.34 E-value=35 Score=27.89 Aligned_cols=87 Identities=14% Similarity=0.086 Sum_probs=42.4
Q ss_pred cEEEEecCCCCCCccccccccccccCCCceEecCCCcccccceecccccccccCCCCCccceeeeccccCCCcchhhhhh
Q psy3902 7 THCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVLVPI 86 (181)
Q Consensus 7 ~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l~~l 86 (181)
..+++||-++-.- |..+.-...+....-++-+ + -.+-.. ...++...++++||||.+...+..++.-.
T Consensus 172 kv~IiDersEIag--~~~gvpq~~~g~R~dVld~--c-------pk~~gm-mmaIrsm~PEViIvDEIGt~~d~~A~~ta 239 (308)
T COG3854 172 KVGIIDERSEIAG--CLNGVPQHGRGRRMDVLDP--C-------PKAEGM-MMAIRSMSPEVIIVDEIGTEEDALAILTA 239 (308)
T ss_pred eEEEEeccchhhc--cccCCchhhhhhhhhhccc--c-------hHHHHH-HHHHHhcCCcEEEEeccccHHHHHHHHHH
Confidence 4568888877655 5555544322222222222 1 111110 11134556999999999976554443333
Q ss_pred hccccCCCeEEEEcCCCCCCce
Q psy3902 87 SLLHRDNGHVVLAGDPLQLGPT 108 (181)
Q Consensus 87 ~~~~~~~~~~vlvGD~~QL~P~ 108 (181)
.. ..-++|-.---.++.-.
T Consensus 240 ~~---~GVkli~TaHG~~iedl 258 (308)
T COG3854 240 LH---AGVKLITTAHGNGIEDL 258 (308)
T ss_pred Hh---cCcEEEEeeccccHHHh
Confidence 22 23454444333444433
No 132
>PF14268 YoaP: YoaP-like
Probab=29.20 E-value=15 Score=21.58 Aligned_cols=11 Identities=27% Similarity=0.875 Sum_probs=8.1
Q ss_pred hhcCCCcccCC
Q psy3902 171 LFYDASLVPHN 181 (181)
Q Consensus 171 ~fY~g~L~~~~ 181 (181)
+||+|+..+++
T Consensus 25 lFYnGkfiT~e 35 (44)
T PF14268_consen 25 LFYNGKFITNE 35 (44)
T ss_pred EEECCEEEEee
Confidence 68888877653
No 133
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=28.49 E-value=24 Score=35.29 Aligned_cols=44 Identities=11% Similarity=0.069 Sum_probs=26.7
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccC-CCcchhhhh
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQ-ATEPEVLVP 85 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq-~~e~~~l~~ 85 (181)
..+|+++|-...-...........++++|||||-. ....+.+..
T Consensus 163 ~t~I~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfLLg 207 (1294)
T PRK11131 163 NTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILG 207 (1294)
T ss_pred CCCEEEEChHHHHHHHhcCCccccCcEEEecCccccccccchHHH
Confidence 46777777554433222212245799999999983 556555543
No 134
>KOG0781|consensus
Probab=27.91 E-value=50 Score=29.71 Aligned_cols=41 Identities=20% Similarity=0.333 Sum_probs=27.1
Q ss_pred CCCccceeeeccccCCCcchhh-hhhhccc--cCCCeEEEEcCC
Q psy3902 62 PSGYFTHCVIDEAGQATEPEVL-VPISLLH--RDNGHVVLAGDP 102 (181)
Q Consensus 62 ~~~~fd~vIIDEAsq~~e~~~l-~~l~~~~--~~~~~~vlvGD~ 102 (181)
....||+|+||-||.+..-..| .+|..+. ++..++++||.-
T Consensus 463 ~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~vgea 506 (587)
T KOG0781|consen 463 RNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGEA 506 (587)
T ss_pred HhcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEehhh
Confidence 3567999999999988544433 3444221 245788888853
No 135
>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=27.87 E-value=37 Score=33.37 Aligned_cols=44 Identities=25% Similarity=0.271 Sum_probs=30.4
Q ss_pred CCCcEEEEecCCCCCCccccccccccccCC--CceEecCCCcccccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRDN--GHVVLAGDPLQLGPT 48 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~~--~~~~l~~d~~~vv~~ 48 (181)
.+|++++|||.=... +..+.-+..+..+. +.++++||+.|-|-.
T Consensus 295 ~ry~~vLVDEFQDTd-~~Q~~il~~L~~~~~~~~L~~VGDpKQSIY~ 340 (1087)
T TIGR00609 295 EQYPIALIDEFQDTD-PQQYRIFSKLFIAQKTTSLFLIGDPKQAIYS 340 (1087)
T ss_pred hCCCEEEEECCcCCC-HHHHHHHHHHHhCCCCCeEEEEECCcccccc
Confidence 589999999985544 44455555554333 379999998877653
No 136
>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=27.72 E-value=28 Score=33.19 Aligned_cols=44 Identities=9% Similarity=0.042 Sum_probs=25.9
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccC-CCcchhhhh
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQ-ATEPEVLVP 85 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq-~~e~~~l~~ 85 (181)
+.+|+++|-............-..+++||||||-. ..+.+.+..
T Consensus 90 ~t~I~v~T~G~Llr~l~~d~~L~~v~~VIiDEaHER~L~~Dl~L~ 134 (819)
T TIGR01970 90 RTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLA 134 (819)
T ss_pred CCcEEEECCcHHHHHHhhCcccccCCEEEEeccchhhhccchHHH
Confidence 45777777544333222122345799999999984 455554433
No 137
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=27.60 E-value=19 Score=32.69 Aligned_cols=39 Identities=15% Similarity=0.117 Sum_probs=23.6
Q ss_pred Ccccccceecccccccc--cCCCCCccceeeeccccCCCcc
Q psy3902 42 PLQLGPTVFSKLGQQLE--LSTPSGYFTHCVIDEAGQATEP 80 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~--~~~~~~~fd~vIIDEAsq~~e~ 80 (181)
..+||++|......... ..+....++++|||||-.+.+.
T Consensus 134 ~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~ 174 (572)
T PRK04537 134 GVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDL 174 (572)
T ss_pred CCCEEEECHHHHHHHHHhccccchhheeeeEecCHHHHhhc
Confidence 35788888654432211 1123346788999999876543
No 138
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=27.51 E-value=27 Score=28.71 Aligned_cols=35 Identities=17% Similarity=-0.026 Sum_probs=20.4
Q ss_pred Ccccccceeccccccc---ccCCCCCccceeeeccccCC
Q psy3902 42 PLQLGPTVFSKLGQQL---ELSTPSGYFTHCVIDEAGQA 77 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~---~~~~~~~~fd~vIIDEAsq~ 77 (181)
.++||++..+-..... ..+.. ...+++|||||-.+
T Consensus 211 ~Adivi~ny~yll~~~~r~~~~~~-l~~~~lIiDEAHnL 248 (289)
T smart00488 211 FANVVVLPYQYLLDPKIRQALSIE-LKDSIVIFDEAHNL 248 (289)
T ss_pred cCCEEEECHHHHhcHHHHHHhccc-ccccEEEEeCccCh
Confidence 4677777766543221 11111 24688999999876
No 139
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=27.51 E-value=27 Score=28.71 Aligned_cols=35 Identities=17% Similarity=-0.026 Sum_probs=20.4
Q ss_pred Ccccccceeccccccc---ccCCCCCccceeeeccccCC
Q psy3902 42 PLQLGPTVFSKLGQQL---ELSTPSGYFTHCVIDEAGQA 77 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~---~~~~~~~~fd~vIIDEAsq~ 77 (181)
.++||++..+-..... ..+.. ...+++|||||-.+
T Consensus 211 ~Adivi~ny~yll~~~~r~~~~~~-l~~~~lIiDEAHnL 248 (289)
T smart00489 211 FANVVVLPYQYLLDPKIRQALSIE-LKDSIVIFDEAHNL 248 (289)
T ss_pred cCCEEEECHHHHhcHHHHHHhccc-ccccEEEEeCccCh
Confidence 4677777766543221 11111 24688999999876
No 140
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=27.20 E-value=21 Score=31.35 Aligned_cols=39 Identities=13% Similarity=-0.039 Sum_probs=23.9
Q ss_pred Ccccccceecccccccc-cCCCCCccceeeeccccCCCcc
Q psy3902 42 PLQLGPTVFSKLGQQLE-LSTPSGYFTHCVIDEAGQATEP 80 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~-~~~~~~~fd~vIIDEAsq~~e~ 80 (181)
..+|+++|......... .......++++|||||-.+.+.
T Consensus 213 ~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~~ 252 (475)
T PRK01297 213 FCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDM 252 (475)
T ss_pred CCCEEEECHHHHHHHHHcCCcccccCceEEechHHHHHhc
Confidence 35788888665432211 1122346889999999876543
No 141
>PTZ00293 thymidine kinase; Provisional
Probab=27.04 E-value=42 Score=26.52 Aligned_cols=35 Identities=14% Similarity=0.073 Sum_probs=20.1
Q ss_pred CccceeeeccccCCCcchhhhhhhccccCCCeEEEEc
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAG 100 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvG 100 (181)
..+|+|+||||--.+...-++-... ...+.|++.|
T Consensus 76 ~~~dvI~IDEaQFf~~i~~~~~~l~--~~g~~VivaG 110 (211)
T PTZ00293 76 KNYDVIAIDEGQFFPDLVEFSEAAA--NLGKIVIVAA 110 (211)
T ss_pred cCCCEEEEEchHhhHhHHHHHHHHH--HCCCeEEEEe
Confidence 3589999999955432111211111 2457777776
No 142
>KOG0949|consensus
Probab=26.67 E-value=31 Score=33.69 Aligned_cols=42 Identities=31% Similarity=0.402 Sum_probs=27.3
Q ss_pred CCCCccceeeeccccCCCcchhhhhhhccccCCCeEEEEcCCCCCCceEecc
Q psy3902 61 TPSGYFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGPTVFSK 112 (181)
Q Consensus 61 ~~~~~fd~vIIDEAsq~~e~~~l~~l~~~~~~~~~~vlvGD~~QL~P~v~~~ 112 (181)
|+.++..++|--|- -++ .+.. .|+.||+.||..||.|.....
T Consensus 984 FR~g~L~VlfaT~T------LsL-GiNM---PCrTVvF~gDsLQL~plny~Q 1025 (1330)
T KOG0949|consen 984 FRQGHLQVLFATET------LSL-GINM---PCRTVVFAGDSLQLDPLNYKQ 1025 (1330)
T ss_pred hhcCceEEEEEeee------hhc-ccCC---CceeEEEeccccccCchhHHh
Confidence 45667777765431 111 2222 589999999999999976543
No 143
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=26.03 E-value=36 Score=31.58 Aligned_cols=48 Identities=25% Similarity=0.278 Sum_probs=28.7
Q ss_pred CCccceeeeccccCCCcchhhhhhhccc-cCCCeEEEEc---CCCCCCceEec
Q psy3902 63 SGYFTHCVIDEAGQATEPEVLVPISLLH-RDNGHVVLAG---DPLQLGPTVFS 111 (181)
Q Consensus 63 ~~~fd~vIIDEAsq~~e~~~l~~l~~~~-~~~~~~vlvG---D~~QL~P~v~~ 111 (181)
.+.+.++|||||-+++.. +.-+|...- ..-++++++. |+..|+|.+.+
T Consensus 117 ~g~~KV~IIDEah~Ls~~-a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~S 168 (647)
T PRK07994 117 RGRFKVYLIDEVHMLSRH-SFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS 168 (647)
T ss_pred cCCCEEEEEechHhCCHH-HHHHHHHHHHcCCCCeEEEEecCCccccchHHHh
Confidence 367899999999988763 344443221 1123444444 77778776554
No 144
>KOG1807|consensus
Probab=25.06 E-value=34 Score=32.48 Aligned_cols=40 Identities=28% Similarity=0.497 Sum_probs=32.0
Q ss_pred CCcEEEEecCCCCCCccccccccccccCCCceEecCCCccccc
Q psy3902 5 YFTHCVIDEAGQATEPEVLVPISLLHRDNGHVVLAGDPLQLGP 47 (181)
Q Consensus 5 ~~~~~~~de~~q~~e~~~~~~l~~~~~~~~~~~l~~d~~~vv~ 47 (181)
..++|||.||++..|.-.+-.+. ...++++|.||+.|+=.
T Consensus 720 ~pkivivEEAAEVlEahiIaal~---p~~EhviLIGDHKQLrP 759 (1025)
T KOG1807|consen 720 QPKIVIVEEAAEVLEAHIIAALT---PHTEHVILIGDHKQLRP 759 (1025)
T ss_pred CCcEEEEhhHhHHhhcchhhhhc---ccceeEEEecchhhcCC
Confidence 35689999999999987766555 46779999999988744
No 145
>PRK09401 reverse gyrase; Reviewed
Probab=25.02 E-value=24 Score=35.06 Aligned_cols=35 Identities=14% Similarity=0.260 Sum_probs=23.4
Q ss_pred cccccceecccccccccCCCCCccceeeeccccCCC
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQAT 78 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~ 78 (181)
.+|+++|......... .+....|+++|||||=.+.
T Consensus 180 ~~IlV~Tp~rL~~~~~-~l~~~~~~~lVvDEaD~~L 214 (1176)
T PRK09401 180 FDILVTTSQFLSKNFD-ELPKKKFDFVFVDDVDAVL 214 (1176)
T ss_pred CCEEEECHHHHHHHHH-hccccccCEEEEEChHHhh
Confidence 5788888655443222 2445569999999997665
No 146
>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=24.43 E-value=34 Score=30.56 Aligned_cols=30 Identities=17% Similarity=0.076 Sum_probs=20.5
Q ss_pred CcccccceecccccccccCCCCCccceeeeccccCC
Q psy3902 42 PLQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQA 77 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~ 77 (181)
+++||++|.+.... ....+++|||||+...
T Consensus 76 ~~~IVVGTrsalf~------p~~~l~lIIVDEeh~~ 105 (505)
T TIGR00595 76 EILVVIGTRSALFL------PFKNLGLIIVDEEHDS 105 (505)
T ss_pred CCCEEECChHHHcC------cccCCCEEEEECCCcc
Confidence 46788888765432 2346899999998543
No 147
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=23.78 E-value=26 Score=30.56 Aligned_cols=38 Identities=13% Similarity=0.086 Sum_probs=23.4
Q ss_pred Ccccccceeccccccc-ccCCCCCccceeeeccccCCCc
Q psy3902 42 PLQLGPTVFSKLGQQL-ELSTPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~-~~~~~~~~fd~vIIDEAsq~~e 79 (181)
..+|+++|........ ...+....++++|+|||-.+.+
T Consensus 123 ~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~ 161 (460)
T PRK11776 123 GAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLD 161 (460)
T ss_pred CCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhC
Confidence 3578888865443221 1122345689999999986654
No 148
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.75 E-value=55 Score=29.46 Aligned_cols=46 Identities=24% Similarity=0.355 Sum_probs=27.0
Q ss_pred CccceeeeccccCCCcchhhhhhhcc---ccCCCeEEEEc-CCCCCCceEe
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLL---HRDNGHVVLAG-DPLQLGPTVF 110 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~---~~~~~~~vlvG-D~~QL~P~v~ 110 (181)
+.+.++|||||-+++.. +.-+|... .+..-.+|++. |+..++|.+.
T Consensus 118 ~~~kVvIIDEad~ls~~-a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~ 167 (527)
T PRK14969 118 GRFKVYIIDEVHMLSKS-AFNAMLKTLEEPPEHVKFILATTDPQKIPVTVL 167 (527)
T ss_pred CCceEEEEcCcccCCHH-HHHHHHHHHhCCCCCEEEEEEeCChhhCchhHH
Confidence 56889999999888753 22222211 11234566655 6666766543
No 149
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=23.46 E-value=30 Score=32.97 Aligned_cols=15 Identities=27% Similarity=0.135 Sum_probs=12.8
Q ss_pred CccceeeeccccCCC
Q psy3902 64 GYFTHCVIDEAGQAT 78 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~ 78 (181)
..++++|||||-+..
T Consensus 435 p~~~~lIiDEAH~l~ 449 (820)
T PRK07246 435 ARNKVLVFDEAQKLM 449 (820)
T ss_pred CCCCEEEEECcchhH
Confidence 358999999999875
No 150
>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=22.59 E-value=47 Score=23.40 Aligned_cols=27 Identities=33% Similarity=0.415 Sum_probs=17.0
Q ss_pred cEEEEecCCCCCCccccccccccccCCC
Q psy3902 7 THCVIDEAGQATEPEVLVPISLLHRDNG 34 (181)
Q Consensus 7 ~~~~~de~~q~~e~~~~~~l~~~~~~~~ 34 (181)
.++++||+..+. ++.+..+..+-.++.
T Consensus 67 ~il~lDEin~a~-~~v~~~L~~ll~~~~ 93 (139)
T PF07728_consen 67 GILVLDEINRAP-PEVLESLLSLLEERR 93 (139)
T ss_dssp EEEEESSCGG---HHHHHTTHHHHSSSE
T ss_pred eEEEECCcccCC-HHHHHHHHHHHhhCc
Confidence 367999999888 776666655544433
No 151
>PRK13766 Hef nuclease; Provisional
Probab=21.65 E-value=38 Score=31.66 Aligned_cols=39 Identities=10% Similarity=-0.014 Sum_probs=24.6
Q ss_pred cccccceecccccc-cccCCCCCccceeeeccccCCCcch
Q psy3902 43 LQLGPTVFSKLGQQ-LELSTPSGYFTHCVIDEAGQATEPE 81 (181)
Q Consensus 43 ~~vv~~T~~~~~~~-~~~~~~~~~fd~vIIDEAsq~~e~~ 81 (181)
.+|+++|....... ....+....|+++|||||-.+....
T Consensus 108 ~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~ 147 (773)
T PRK13766 108 AKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNY 147 (773)
T ss_pred CCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccc
Confidence 56888876544321 1112345679999999998876543
No 152
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=21.51 E-value=34 Score=31.51 Aligned_cols=37 Identities=16% Similarity=0.050 Sum_probs=23.2
Q ss_pred cccccceecccccc-cccCCCCCccceeeeccccCCCc
Q psy3902 43 LQLGPTVFSKLGQQ-LELSTPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 43 ~~vv~~T~~~~~~~-~~~~~~~~~fd~vIIDEAsq~~e 79 (181)
.+||++|....... ....+....+.++|||||-.+..
T Consensus 126 ~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~ 163 (629)
T PRK11634 126 PQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLR 163 (629)
T ss_pred CCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhh
Confidence 57888886554321 11123345688899999986643
No 153
>KOG0989|consensus
Probab=21.37 E-value=62 Score=27.42 Aligned_cols=38 Identities=13% Similarity=0.218 Sum_probs=25.5
Q ss_pred CCCccceeeeccccCCCcchhhhhhhccc---cCCCeEEEEc
Q psy3902 62 PSGYFTHCVIDEAGQATEPEVLVPISLLH---RDNGHVVLAG 100 (181)
Q Consensus 62 ~~~~fd~vIIDEAsq~~e~~~l~~l~~~~---~~~~~~vlvG 100 (181)
....|.++|+|||--+ -.+++.+|...- ++..+++||=
T Consensus 126 ~~~~fKiiIlDEcdsm-tsdaq~aLrr~mE~~s~~trFiLIc 166 (346)
T KOG0989|consen 126 PCPPFKIIILDECDSM-TSDAQAALRRTMEDFSRTTRFILIC 166 (346)
T ss_pred CCCcceEEEEechhhh-hHHHHHHHHHHHhccccceEEEEEc
Confidence 4457899999999665 457888887431 2455666653
No 154
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=21.34 E-value=47 Score=24.76 Aligned_cols=37 Identities=14% Similarity=0.017 Sum_probs=19.8
Q ss_pred Ccccccceeccccccc---cc-CCCCCccceeeeccccCCCc
Q psy3902 42 PLQLGPTVFSKLGQQL---EL-STPSGYFTHCVIDEAGQATE 79 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~---~~-~~~~~~fd~vIIDEAsq~~e 79 (181)
.++||+++.+-.-... .. ++ ...-.+||||||-.+..
T Consensus 119 ~adivi~~y~yl~~~~~~~~~~~~-~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 119 NADIVICNYNYLFDPSIRKSLFGI-DLKDNIVIFDEAHNLED 159 (174)
T ss_dssp G-SEEEEETHHHHSHHHHHHHCT---CCCEEEEETTGGGCGG
T ss_pred cCCEEEeCHHHHhhHHHHhhhccc-cccCcEEEEecccchHH
Confidence 3667777665432211 11 11 13457999999987643
No 155
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=21.24 E-value=52 Score=27.62 Aligned_cols=47 Identities=17% Similarity=0.159 Sum_probs=31.7
Q ss_pred CccceeeeccccCCCcchhhhhhhcc---ccCCCeEEEEcC-CCCCCceEec
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLL---HRDNGHVVLAGD-PLQLGPTVFS 111 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~---~~~~~~~vlvGD-~~QL~P~v~~ 111 (181)
+.+.++|||||-.+++..+= +|.+. .+....+||+.+ +.+|.|++.+
T Consensus 112 g~~kV~iI~~ae~m~~~AaN-aLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS 162 (319)
T PRK08769 112 GIAQVVIVDPADAINRAACN-ALLKTLEEPSPGRYLWLISAQPARLPATIRS 162 (319)
T ss_pred CCcEEEEeccHhhhCHHHHH-HHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence 56899999999999775433 33322 123456777777 6888887664
No 156
>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=20.48 E-value=58 Score=32.52 Aligned_cols=42 Identities=24% Similarity=0.321 Sum_probs=29.0
Q ss_pred CCCcEEEEecCCCCCCccccccccccccC---CCceEecCCCcccc
Q psy3902 4 GYFTHCVIDEAGQATEPEVLVPISLLHRD---NGHVVLAGDPLQLG 46 (181)
Q Consensus 4 ~~~~~~~~de~~q~~e~~~~~~l~~~~~~---~~~~~l~~d~~~vv 46 (181)
++|+|++|||.=...... +.-+..+.++ .+++.++||+.|=|
T Consensus 387 ~rf~~ILVDEfQDTn~lQ-~~Il~~L~~~~~~~~nLf~VGD~KQSI 431 (1232)
T TIGR02785 387 EKFKEVLVDEYQDTNLLQ-ESILQLLKRGEEDEGNLFMVGDVKQSI 431 (1232)
T ss_pred hCCCEEEEECCcCCCHHH-HHHHHHHhccCCCCCeEEEEcCCcchh
Confidence 589999999987665543 4445555443 46899999976543
No 157
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=20.43 E-value=42 Score=30.79 Aligned_cols=30 Identities=13% Similarity=0.171 Sum_probs=19.7
Q ss_pred cccccceecccccccccCCCCCccceeeeccccC
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQ 76 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq 76 (181)
.+||++|...... . +.-..++++|||||-.
T Consensus 339 ~~IiVgT~~ll~~--~--~~~~~l~lvVIDEaH~ 368 (630)
T TIGR00643 339 IHLVVGTHALIQE--K--VEFKRLALVIIDEQHR 368 (630)
T ss_pred CCEEEecHHHHhc--c--ccccccceEEEechhh
Confidence 5778877654332 1 2335689999999865
No 158
>KOG4284|consensus
Probab=20.38 E-value=34 Score=32.01 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=29.7
Q ss_pred CcccccceecccccccccC-CCCCccceeeeccccCCCcch
Q psy3902 42 PLQLGPTVFSKLGQQLELS-TPSGYFTHCVIDEAGQATEPE 81 (181)
Q Consensus 42 ~~~vv~~T~~~~~~~~~~~-~~~~~fd~vIIDEAsq~~e~~ 81 (181)
+.+||+.|......+..++ +..++.++.|+|||-+..+-.
T Consensus 143 ~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~ 183 (980)
T KOG4284|consen 143 QTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTE 183 (980)
T ss_pred hceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchh
Confidence 3578888877776655433 567789999999999987743
No 159
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=20.22 E-value=68 Score=30.12 Aligned_cols=46 Identities=22% Similarity=0.330 Sum_probs=27.1
Q ss_pred CccceeeeccccCCCcchhhhhhhcc---ccCCCeEEEEc-CCCCCCceEe
Q psy3902 64 GYFTHCVIDEAGQATEPEVLVPISLL---HRDNGHVVLAG-DPLQLGPTVF 110 (181)
Q Consensus 64 ~~fd~vIIDEAsq~~e~~~l~~l~~~---~~~~~~~vlvG-D~~QL~P~v~ 110 (181)
+.+.++||||+.+++.. ..-.|... .+...++|++. |...+++.+.
T Consensus 118 gk~KVIIIDEad~Ls~~-A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIr 167 (709)
T PRK08691 118 GKYKVYIIDEVHMLSKS-AFNAMLKTLEEPPEHVKFILATTDPHKVPVTVL 167 (709)
T ss_pred CCcEEEEEECccccCHH-HHHHHHHHHHhCCCCcEEEEEeCCccccchHHH
Confidence 46789999999887653 22222211 11234556554 7777777544
No 160
>KOG0384|consensus
Probab=20.07 E-value=57 Score=32.54 Aligned_cols=60 Identities=17% Similarity=0.196 Sum_probs=39.3
Q ss_pred cccccceecccccccccCCCCCccceeeeccccCCCcchhh--hhhhccccCCCeEEEEcCCCC
Q psy3902 43 LQLGPTVFSKLGQQLELSTPSGYFTHCVIDEAGQATEPEVL--VPISLLHRDNGHVVLAGDPLQ 104 (181)
Q Consensus 43 ~~vv~~T~~~~~~~~~~~~~~~~fd~vIIDEAsq~~e~~~l--~~l~~~~~~~~~~vlvGD~~Q 104 (181)
..++.||+-..-... ..+..-++.+++||||-.....++. -.|..+. -.-|+.+.|=|.|
T Consensus 476 f~~lltTye~~LkDk-~~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~-~~~rllitgTPlQ 537 (1373)
T KOG0384|consen 476 FNALLTTYEIVLKDK-AELSKIPWRYLLVDEAHRLKNDESKLYESLNQFK-MNHRLLITGTPLQ 537 (1373)
T ss_pred cceeehhhHHHhccH-hhhccCCcceeeecHHhhcCchHHHHHHHHHHhc-ccceeeecCCCcc
Confidence 456777766553322 2245667999999999988644443 3333332 3478999999999
Done!