Query psy2050
Match_columns 131
No_of_seqs 113 out of 1110
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 22:58:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2050.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2050hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0389|consensus 100.0 7.7E-31 1.7E-35 218.1 8.5 116 5-129 393-509 (941)
2 KOG0385|consensus 100.0 4.1E-30 9E-35 213.5 7.9 112 9-129 165-277 (971)
3 KOG0391|consensus 99.9 8.7E-28 1.9E-32 205.7 6.7 113 8-129 612-725 (1958)
4 KOG0387|consensus 99.9 1.2E-27 2.7E-32 199.2 6.5 94 3-98 196-291 (923)
5 PLN03142 Probable chromatin-re 99.9 7.2E-27 1.6E-31 202.4 8.3 114 8-130 166-280 (1033)
6 KOG0388|consensus 99.9 1.2E-26 2.7E-31 192.1 8.0 120 8-130 564-684 (1185)
7 KOG0384|consensus 99.9 3.2E-26 7E-31 196.9 4.8 117 9-130 368-486 (1373)
8 KOG0392|consensus 99.9 2.5E-25 5.4E-30 191.4 6.4 112 8-129 972-1088(1549)
9 KOG0386|consensus 99.9 3.9E-25 8.5E-30 187.6 6.6 112 8-129 391-503 (1157)
10 KOG4439|consensus 99.9 2.3E-24 5E-29 178.2 5.5 112 6-129 320-441 (901)
11 PF00176 SNF2_N: SNF2 family N 99.9 3.9E-23 8.5E-28 156.8 9.7 105 15-129 1-117 (299)
12 KOG1002|consensus 99.9 4.6E-23 1E-27 166.0 6.3 104 8-129 181-287 (791)
13 KOG1000|consensus 99.8 1E-19 2.2E-24 146.6 6.2 74 8-90 195-269 (689)
14 KOG0390|consensus 99.8 2.1E-19 4.6E-24 151.6 5.9 122 5-129 232-364 (776)
15 COG0553 HepA Superfamily II DN 99.8 5.9E-19 1.3E-23 150.4 6.7 116 8-130 335-458 (866)
16 PRK04914 ATP-dependent helicas 99.7 1.3E-17 2.8E-22 144.6 8.4 113 4-130 145-258 (956)
17 KOG1015|consensus 99.7 3.3E-18 7.1E-23 145.6 3.1 112 8-129 665-794 (1567)
18 TIGR00603 rad25 DNA repair hel 99.6 4.9E-15 1.1E-19 125.5 8.6 99 8-130 252-354 (732)
19 KOG0383|consensus 99.6 2.6E-16 5.7E-21 131.9 -0.3 120 8-129 292-424 (696)
20 KOG1001|consensus 99.5 8E-15 1.7E-19 123.5 6.0 103 14-130 135-245 (674)
21 KOG1016|consensus 99.5 1.1E-15 2.5E-20 128.4 -0.8 79 6-87 249-337 (1387)
22 KOG1123|consensus 99.2 8.5E-12 1.9E-16 101.6 3.1 98 7-130 298-401 (776)
23 KOG0298|consensus 99.2 8.9E-12 1.9E-16 109.1 3.3 89 32-130 376-479 (1394)
24 PF04851 ResIII: Type III rest 99.1 4.9E-11 1.1E-15 84.1 4.7 73 9-89 1-78 (184)
25 COG1061 SSL2 DNA or RNA helica 99.1 5.5E-10 1.2E-14 90.7 8.2 84 7-98 32-118 (442)
26 PRK13766 Hef nuclease; Provisi 99.0 1.8E-09 3.8E-14 92.7 9.6 104 6-129 10-117 (773)
27 PHA02558 uvsW UvsW helicase; P 99.0 2.7E-09 5.9E-14 87.8 8.9 69 9-85 112-182 (501)
28 smart00487 DEXDc DEAD-like hel 98.9 8.2E-09 1.8E-13 72.5 9.0 73 8-87 5-80 (201)
29 cd00268 DEADc DEAD-box helicas 98.7 2.3E-07 4.9E-12 67.1 9.3 104 11-128 21-128 (203)
30 cd00046 DEXDc DEAD-like helica 98.6 2.4E-07 5.2E-12 61.4 7.6 85 32-129 2-89 (144)
31 PRK11448 hsdR type I restricti 98.6 2E-07 4.3E-12 83.1 8.5 75 9-86 411-488 (1123)
32 COG1205 Distinct helicase fami 98.5 3.7E-07 8E-12 79.5 8.6 104 11-131 70-179 (851)
33 TIGR00348 hsdR type I site-spe 98.4 5.2E-07 1.1E-11 76.8 6.9 76 9-87 236-319 (667)
34 PF00270 DEAD: DEAD/DEAH box h 98.4 2.9E-06 6.3E-11 59.1 8.4 100 14-129 2-105 (169)
35 TIGR00643 recG ATP-dependent D 98.4 1.5E-06 3.3E-11 73.5 8.0 111 7-129 231-348 (630)
36 PRK01172 ski2-like helicase; P 98.4 2.1E-06 4.5E-11 73.0 8.7 80 7-95 18-100 (674)
37 PRK11776 ATP-dependent RNA hel 98.2 7.7E-06 1.7E-10 66.5 9.2 101 11-128 26-132 (460)
38 PTZ00424 helicase 45; Provisio 98.2 6.7E-06 1.4E-10 65.3 8.7 74 11-90 50-125 (401)
39 PRK02362 ski2-like helicase; P 98.2 4.5E-06 9.8E-11 71.7 8.1 98 10-128 22-122 (737)
40 PRK10917 ATP-dependent DNA hel 98.2 6.4E-06 1.4E-10 70.3 8.2 87 7-98 257-349 (681)
41 PRK01297 ATP-dependent RNA hel 98.2 8.6E-06 1.9E-10 66.6 8.6 106 11-130 109-224 (475)
42 PRK10590 ATP-dependent RNA hel 98.2 1.1E-05 2.4E-10 65.8 9.1 76 10-89 22-103 (456)
43 COG4096 HsdR Type I site-speci 98.2 6.2E-06 1.4E-10 70.9 7.3 82 8-92 162-246 (875)
44 COG1204 Superfamily II helicas 98.1 7.5E-06 1.6E-10 70.8 6.9 98 11-128 31-131 (766)
45 PRK00254 ski2-like helicase; P 98.1 1.4E-05 3E-10 68.6 8.4 97 10-128 22-123 (720)
46 PRK11634 ATP-dependent RNA hel 98.1 2.1E-05 4.6E-10 66.7 9.3 80 11-96 28-112 (629)
47 PRK11192 ATP-dependent RNA hel 98.1 2.8E-05 6E-10 62.7 9.2 105 10-128 22-132 (434)
48 PRK05580 primosome assembly pr 98.0 3.7E-05 8.1E-10 65.7 9.5 82 8-96 141-224 (679)
49 PRK04837 ATP-dependent RNA hel 98.0 4.1E-05 8.9E-10 61.7 9.2 103 11-128 30-142 (423)
50 PLN00206 DEAD-box ATP-dependen 98.0 4.8E-05 1E-09 63.1 9.0 103 11-128 143-255 (518)
51 PTZ00110 helicase; Provisional 98.0 4.4E-05 9.6E-10 63.7 8.9 102 11-127 152-261 (545)
52 TIGR00580 mfd transcription-re 98.0 3.2E-05 6.9E-10 68.2 7.9 78 8-90 448-529 (926)
53 TIGR03817 DECH_helic helicase/ 97.9 4.1E-05 8.8E-10 66.1 8.2 103 11-131 36-141 (742)
54 PRK10689 transcription-repair 97.9 6E-05 1.3E-09 67.7 8.3 75 8-87 597-675 (1147)
55 TIGR00614 recQ_fam ATP-depende 97.8 6.6E-05 1.4E-09 61.5 7.5 64 10-85 10-75 (470)
56 KOG0354|consensus 97.8 8.4E-05 1.8E-09 63.6 8.2 82 6-95 57-140 (746)
57 PRK09401 reverse gyrase; Revie 97.8 0.00011 2.3E-09 66.3 8.8 74 8-90 77-152 (1176)
58 PRK04537 ATP-dependent RNA hel 97.8 0.00016 3.5E-09 60.7 9.4 82 11-96 31-121 (572)
59 PRK13767 ATP-dependent helicas 97.8 0.00017 3.7E-09 63.4 9.2 67 10-80 31-102 (876)
60 COG1111 MPH1 ERCC4-like helica 97.7 0.00021 4.5E-09 58.8 8.8 84 6-98 10-97 (542)
61 TIGR03158 cas3_cyano CRISPR-as 97.7 0.00012 2.6E-09 58.0 6.7 59 15-85 1-63 (357)
62 TIGR01054 rgy reverse gyrase. 97.6 0.00026 5.7E-09 63.9 7.9 72 8-88 75-148 (1171)
63 PRK11057 ATP-dependent DNA hel 97.5 0.00043 9.3E-09 58.5 7.8 62 11-84 25-88 (607)
64 TIGR01389 recQ ATP-dependent D 97.5 0.00054 1.2E-08 57.6 7.6 62 11-84 13-76 (591)
65 TIGR03714 secA2 accessory Sec 97.5 0.00047 1E-08 59.6 7.3 69 10-87 67-137 (762)
66 COG1200 RecG RecG-like helicas 97.4 0.00065 1.4E-08 57.7 6.9 112 6-130 257-376 (677)
67 PF13086 AAA_11: AAA domain; P 97.0 0.0026 5.7E-08 46.0 6.3 69 11-83 1-75 (236)
68 COG0556 UvrB Helicase subunit 96.9 0.0024 5.1E-08 53.3 6.1 72 12-91 13-87 (663)
69 PRK14701 reverse gyrase; Provi 96.8 0.0057 1.2E-07 57.1 8.4 81 8-97 76-162 (1638)
70 TIGR02621 cas3_GSU0051 CRISPR- 96.8 0.0035 7.7E-08 54.9 6.6 71 9-86 13-87 (844)
71 KOG1802|consensus 96.8 0.0045 9.8E-08 53.0 6.7 74 11-94 410-485 (935)
72 COG1110 Reverse gyrase [DNA re 96.7 0.0077 1.7E-07 53.5 8.0 104 9-129 80-191 (1187)
73 TIGR00595 priA primosomal prot 96.7 0.0037 7.9E-08 52.0 5.4 56 35-96 2-59 (505)
74 COG1201 Lhr Lhr-like helicases 96.7 0.014 3.1E-07 51.0 9.1 80 9-92 20-106 (814)
75 PLN03137 ATP-dependent DNA hel 96.6 0.0098 2.1E-07 53.7 7.9 59 10-80 459-519 (1195)
76 COG4889 Predicted helicase [Ge 96.6 0.0029 6.4E-08 55.7 4.5 64 7-77 157-221 (1518)
77 KOG0350|consensus 96.6 0.0082 1.8E-07 49.8 6.6 111 10-126 158-277 (620)
78 PF12340 DUF3638: Protein of u 96.5 0.0044 9.5E-08 46.6 4.3 85 8-97 20-108 (229)
79 PF13872 AAA_34: P-loop contai 96.4 0.014 3E-07 45.6 6.6 66 8-77 34-106 (303)
80 TIGR01407 dinG_rel DnaQ family 96.3 0.012 2.7E-07 51.6 6.8 69 6-79 240-309 (850)
81 KOG0331|consensus 96.3 0.011 2.3E-07 49.3 6.1 100 12-126 114-222 (519)
82 PRK12899 secA preprotein trans 96.3 0.023 5E-07 50.4 8.2 73 11-93 92-169 (970)
83 PRK15483 type III restriction- 96.2 0.02 4.4E-07 50.9 7.5 63 9-74 4-100 (986)
84 COG4098 comFA Superfamily II D 96.0 0.022 4.8E-07 45.5 6.1 87 8-99 94-182 (441)
85 PHA02653 RNA helicase NPH-II; 95.8 0.051 1.1E-06 46.8 7.9 76 8-83 157-244 (675)
86 COG1197 Mfd Transcription-repa 95.7 0.049 1.1E-06 49.1 7.8 110 9-131 592-709 (1139)
87 PRK09200 preprotein translocas 95.7 0.054 1.2E-06 47.4 7.9 77 11-96 76-156 (790)
88 TIGR00631 uvrb excinuclease AB 95.7 0.049 1.1E-06 46.8 7.5 77 9-93 7-86 (655)
89 KOG0330|consensus 95.6 0.048 1E-06 44.2 6.7 79 12-97 84-167 (476)
90 smart00488 DEXDc2 DEAD-like he 95.5 0.084 1.8E-06 40.8 7.7 75 10-84 7-84 (289)
91 smart00489 DEXDc3 DEAD-like he 95.5 0.084 1.8E-06 40.8 7.7 75 10-84 7-84 (289)
92 TIGR00963 secA preprotein tran 95.4 0.059 1.3E-06 46.8 6.9 75 11-94 54-132 (745)
93 TIGR01587 cas3_core CRISPR-ass 95.3 0.033 7.2E-07 43.6 4.8 51 34-87 3-55 (358)
94 PRK05298 excinuclease ABC subu 95.3 0.094 2E-06 45.0 7.8 80 6-93 7-89 (652)
95 COG0513 SrmB Superfamily II DN 95.1 0.14 3E-06 42.7 8.2 99 12-126 52-157 (513)
96 KOG0952|consensus 94.8 0.12 2.6E-06 46.4 7.2 73 28-100 124-205 (1230)
97 PRK12898 secA preprotein trans 94.5 0.16 3.5E-06 43.6 7.2 75 9-95 101-180 (656)
98 TIGR03117 cas_csf4 CRISPR-asso 94.5 0.17 3.8E-06 43.3 7.3 79 16-97 2-87 (636)
99 COG1199 DinG Rad3-related DNA 94.5 0.2 4.3E-06 42.6 7.7 62 8-73 12-73 (654)
100 PRK09694 helicase Cas3; Provis 94.4 0.15 3.2E-06 45.3 6.9 83 9-98 284-372 (878)
101 COG1198 PriA Primosomal protei 93.9 0.53 1.2E-05 41.1 9.1 93 9-107 196-292 (730)
102 PF13245 AAA_19: Part of AAA d 93.7 0.27 6E-06 30.4 5.3 44 32-76 12-55 (76)
103 TIGR00604 rad3 DNA repair heli 93.7 0.35 7.5E-06 41.8 7.7 70 11-83 10-82 (705)
104 TIGR00376 DNA helicase, putati 93.6 0.27 5.9E-06 42.1 6.8 66 10-83 156-223 (637)
105 PF02562 PhoH: PhoH-like prote 92.2 0.48 1E-05 35.0 5.6 54 13-73 6-59 (205)
106 PF13604 AAA_30: AAA domain; P 92.1 0.64 1.4E-05 33.7 6.2 56 11-74 1-57 (196)
107 KOG0334|consensus 91.7 0.41 8.9E-06 42.8 5.5 94 11-108 387-488 (997)
108 PRK14873 primosome assembly pr 91.7 0.64 1.4E-05 40.2 6.6 54 39-97 169-224 (665)
109 KOG0951|consensus 91.7 0.49 1.1E-05 43.6 6.0 61 32-92 327-395 (1674)
110 PRK09751 putative ATP-dependen 91.6 0.31 6.8E-06 45.5 4.9 84 36-129 2-109 (1490)
111 PRK05707 DNA polymerase III su 91.6 0.68 1.5E-05 36.5 6.2 47 11-57 3-49 (328)
112 PRK13104 secA preprotein trans 91.6 0.65 1.4E-05 41.3 6.6 60 30-95 95-159 (896)
113 TIGR01447 recD exodeoxyribonuc 91.4 0.87 1.9E-05 38.8 7.1 57 14-74 148-204 (586)
114 PF00580 UvrD-helicase: UvrD/R 91.1 0.62 1.3E-05 35.1 5.5 55 13-74 2-56 (315)
115 COG0610 Type I site-specific r 90.6 1.4 3.1E-05 39.6 7.9 57 31-91 274-333 (962)
116 PRK10536 hypothetical protein; 90.6 1.1 2.4E-05 34.4 6.3 40 12-55 60-99 (262)
117 KOG0298|consensus 90.2 0.036 7.8E-07 50.3 -2.3 45 11-55 286-330 (1394)
118 KOG1803|consensus 90.2 0.66 1.4E-05 39.5 5.1 64 8-80 182-247 (649)
119 PRK04296 thymidine kinase; Pro 90.0 0.66 1.4E-05 33.5 4.5 33 34-71 6-38 (190)
120 KOG0335|consensus 89.9 0.68 1.5E-05 38.4 5.0 83 9-95 94-189 (482)
121 PRK07993 DNA polymerase III su 89.8 1.3 2.8E-05 35.0 6.4 48 11-58 2-52 (334)
122 COG4581 Superfamily II RNA hel 89.7 0.93 2E-05 41.0 6.0 69 8-85 116-187 (1041)
123 COG1203 CRISPR-associated heli 89.7 1.2 2.5E-05 38.9 6.5 84 9-93 193-278 (733)
124 KOG0345|consensus 89.3 1.9 4.1E-05 36.0 7.0 81 12-96 29-117 (567)
125 cd01124 KaiC KaiC is a circadi 89.1 1.5 3.2E-05 30.7 5.8 42 34-80 3-44 (187)
126 PRK10875 recD exonuclease V su 89.1 1.9 4.1E-05 37.0 7.3 58 12-74 153-210 (615)
127 TIGR01448 recD_rel helicase, p 88.9 2.1 4.6E-05 37.3 7.5 62 8-76 320-381 (720)
128 KOG0348|consensus 87.8 2.2 4.8E-05 36.3 6.6 76 13-92 161-242 (708)
129 TIGR02640 gas_vesic_GvpN gas v 87.8 3.1 6.7E-05 31.5 7.0 37 16-52 7-43 (262)
130 PRK07246 bifunctional ATP-depe 87.6 2.5 5.5E-05 37.4 7.3 65 8-78 242-307 (820)
131 PRK08074 bifunctional ATP-depe 87.1 2.5 5.4E-05 37.9 7.0 69 8-80 254-324 (928)
132 PRK12904 preprotein translocas 86.4 1.9 4.2E-05 38.2 5.8 58 30-92 94-155 (830)
133 COG1202 Superfamily II helicas 86.3 2.1 4.5E-05 36.9 5.7 69 10-86 215-287 (830)
134 PF01695 IstB_IS21: IstB-like 85.6 1 2.2E-05 32.3 3.2 39 29-72 46-84 (178)
135 PRK13103 secA preprotein trans 85.6 3.4 7.3E-05 37.1 6.9 59 30-93 95-157 (913)
136 KOG0947|consensus 85.5 3.4 7.3E-05 37.5 6.7 76 8-92 294-371 (1248)
137 PRK06090 DNA polymerase III su 85.2 5.8 0.00013 31.3 7.5 48 11-58 3-53 (319)
138 PF09848 DUF2075: Uncharacteri 85.1 2.9 6.3E-05 33.0 5.9 44 34-80 5-48 (352)
139 PRK12326 preprotein translocas 84.3 5.2 0.00011 35.2 7.3 68 9-87 76-145 (764)
140 PF13177 DNA_pol3_delta2: DNA 84.1 10 0.00022 26.6 7.7 45 16-60 2-49 (162)
141 PRK11054 helD DNA helicase IV; 82.9 4.5 9.8E-05 35.1 6.5 70 9-85 194-265 (684)
142 PRK07952 DNA replication prote 82.9 6.9 0.00015 29.6 6.8 43 15-57 80-126 (244)
143 TIGR00150 HI0065_YjeE ATPase, 82.7 4.1 8.9E-05 28.0 5.1 25 30-54 22-46 (133)
144 KOG1131|consensus 81.1 8.7 0.00019 32.8 7.2 59 11-74 16-77 (755)
145 PRK10919 ATP-dependent DNA hel 81.0 3.7 8.1E-05 35.4 5.3 55 11-72 2-56 (672)
146 PF06745 KaiC: KaiC; InterPro 81.0 5.4 0.00012 29.1 5.6 48 33-85 22-71 (226)
147 PRK06835 DNA replication prote 80.9 7.3 0.00016 30.8 6.6 47 11-57 160-210 (329)
148 PRK12906 secA preprotein trans 80.3 6.4 0.00014 34.9 6.5 67 10-87 79-147 (796)
149 PRK05973 replicative DNA helic 80.3 3.9 8.4E-05 30.9 4.6 34 33-71 67-100 (237)
150 PRK10646 ADP-binding protein; 80.2 4.8 0.0001 28.4 4.8 35 33-69 31-65 (153)
151 COG1484 DnaC DNA replication p 79.7 9.7 0.00021 28.9 6.7 49 29-82 104-153 (254)
152 COG0464 SpoVK ATPases of the A 79.6 4.3 9.4E-05 33.4 5.1 60 13-80 251-318 (494)
153 PRK08181 transposase; Validate 78.5 8.9 0.00019 29.4 6.2 46 12-57 88-133 (269)
154 COG3587 Restriction endonuclea 78.4 1.5 3.3E-05 38.9 2.2 35 36-73 80-114 (985)
155 TIGR01281 DPOR_bchL light-inde 78.4 3.1 6.7E-05 31.2 3.6 25 40-69 10-34 (268)
156 PRK08769 DNA polymerase III su 78.3 6.4 0.00014 31.0 5.5 49 10-58 3-54 (319)
157 PRK13107 preprotein translocas 78.3 10 0.00022 34.2 7.1 56 31-92 96-156 (908)
158 TIGR02782 TrbB_P P-type conjug 78.1 10 0.00022 29.5 6.5 36 20-55 122-157 (299)
159 COG0514 RecQ Superfamily II DN 77.8 4.2 9E-05 34.8 4.5 56 10-77 16-72 (590)
160 PF07015 VirC1: VirC1 protein; 77.6 11 0.00023 28.6 6.2 36 40-80 12-49 (231)
161 PRK13235 nifH nitrogenase redu 76.7 3.7 8.1E-05 31.0 3.7 25 40-69 11-35 (274)
162 TIGR01074 rep ATP-dependent DN 76.7 7.2 0.00016 33.4 5.7 66 12-84 2-69 (664)
163 KOG0340|consensus 76.5 8.1 0.00018 31.4 5.5 67 29-97 43-113 (442)
164 PRK10037 cell division protein 76.2 4 8.6E-05 30.4 3.7 28 37-69 9-36 (250)
165 COG3973 Superfamily I DNA and 76.1 6.4 0.00014 34.1 5.1 46 34-79 230-276 (747)
166 cd00009 AAA The AAA+ (ATPases 75.7 9.9 0.00021 24.4 5.2 25 30-54 19-43 (151)
167 PRK13230 nitrogenase reductase 75.4 4 8.7E-05 30.9 3.6 25 40-69 11-35 (279)
168 KOG0333|consensus 75.2 4.7 0.0001 34.3 4.0 71 13-87 269-348 (673)
169 PRK06526 transposase; Provisio 75.0 4.9 0.00011 30.5 3.9 29 29-57 97-125 (254)
170 KOG0353|consensus 74.8 7.3 0.00016 32.0 5.0 63 11-85 94-158 (695)
171 PRK08939 primosomal protein Dn 74.7 13 0.00028 29.1 6.3 28 31-58 157-184 (306)
172 cd02037 MRP-like MRP (Multiple 74.2 7.5 0.00016 27.0 4.5 31 34-69 4-34 (169)
173 TIGR02768 TraA_Ti Ti-type conj 74.1 13 0.00029 32.6 6.8 58 9-74 350-407 (744)
174 PF02367 UPF0079: Uncharacteri 74.1 4.5 9.7E-05 27.5 3.1 23 32-54 17-39 (123)
175 TIGR01970 DEAH_box_HrpB ATP-de 73.8 8.8 0.00019 34.1 5.6 53 25-82 12-66 (819)
176 COG3267 ExeA Type II secretory 73.7 13 0.00029 28.6 5.9 37 33-75 54-90 (269)
177 TIGR01287 nifH nitrogenase iro 73.5 4.9 0.00011 30.3 3.6 25 40-69 10-34 (275)
178 CHL00072 chlL photochlorophyll 73.5 5 0.00011 30.9 3.7 25 40-69 10-34 (290)
179 PF07652 Flavi_DEAD: Flaviviru 73.5 3.6 7.8E-05 29.0 2.6 46 33-82 7-54 (148)
180 PRK13185 chlL protochlorophyll 73.4 5.2 0.00011 30.0 3.7 27 38-69 10-36 (270)
181 PF05970 PIF1: PIF1-like helic 73.4 14 0.0003 29.4 6.3 61 11-76 1-63 (364)
182 PRK08116 hypothetical protein; 73.3 18 0.00039 27.5 6.7 41 32-77 116-156 (268)
183 PRK11773 uvrD DNA-dependent he 73.2 8.7 0.00019 33.4 5.4 55 11-72 9-63 (721)
184 PF12846 AAA_10: AAA-like doma 73.2 12 0.00025 27.9 5.6 37 31-72 2-38 (304)
185 cd02032 Bchl_like This family 73.0 5.5 0.00012 29.9 3.7 25 40-69 10-34 (267)
186 smart00382 AAA ATPases associa 72.7 4.9 0.00011 25.6 3.1 38 32-74 4-41 (148)
187 TIGR03877 thermo_KaiC_1 KaiC d 72.3 9.3 0.0002 28.3 4.8 34 33-71 24-57 (237)
188 TIGR01075 uvrD DNA helicase II 72.0 8 0.00017 33.5 5.0 55 11-72 4-58 (715)
189 TIGR03878 thermo_KaiC_2 KaiC d 71.8 9.3 0.0002 28.9 4.8 25 33-57 39-63 (259)
190 PTZ00293 thymidine kinase; Pro 71.6 9.5 0.00021 28.4 4.6 33 34-71 8-40 (211)
191 cd02117 NifH_like This family 71.3 6.5 0.00014 28.5 3.7 27 38-69 8-34 (212)
192 TIGR00764 lon_rel lon-related 71.2 16 0.00035 31.3 6.5 40 15-54 22-61 (608)
193 PHA02518 ParA-like protein; Pr 71.2 6.4 0.00014 28.0 3.6 36 40-80 11-48 (211)
194 cd02036 MinD Bacterial cell di 70.9 6.8 0.00015 27.0 3.6 29 36-69 6-34 (179)
195 TIGR03015 pepcterm_ATPase puta 70.5 13 0.00029 27.5 5.3 39 15-53 27-66 (269)
196 KOG0780|consensus 70.3 3.5 7.5E-05 33.8 2.2 80 36-125 107-189 (483)
197 PRK13234 nifH nitrogenase redu 70.2 6.5 0.00014 30.3 3.7 27 38-69 12-38 (295)
198 PF13500 AAA_26: AAA domain; P 70.2 7.5 0.00016 27.8 3.8 25 34-58 5-29 (199)
199 PRK13232 nifH nitrogenase redu 69.8 7 0.00015 29.5 3.7 26 39-69 10-35 (273)
200 TIGR03371 cellulose_yhjQ cellu 69.7 7.2 0.00016 28.6 3.7 29 36-69 8-36 (246)
201 PRK13833 conjugal transfer pro 69.6 21 0.00046 28.2 6.5 34 22-55 136-169 (323)
202 PRK04328 hypothetical protein; 69.6 12 0.00025 28.2 4.8 33 34-71 27-59 (249)
203 PRK11747 dinG ATP-dependent DN 69.5 31 0.00067 30.1 7.9 43 8-50 22-69 (697)
204 PF06068 TIP49: TIP49 C-termin 69.5 14 0.0003 30.1 5.4 50 16-71 32-85 (398)
205 cd02040 NifH NifH gene encodes 69.5 6.9 0.00015 29.1 3.6 25 40-69 11-35 (270)
206 PRK13236 nitrogenase reductase 69.5 7.1 0.00015 30.1 3.7 19 40-58 16-34 (296)
207 TIGR01969 minD_arch cell divis 69.4 7.3 0.00016 28.5 3.7 28 37-69 8-35 (251)
208 PF02374 ArsA_ATPase: Anion-tr 69.3 7.7 0.00017 30.2 3.9 27 39-70 10-36 (305)
209 TIGR00347 bioD dethiobiotin sy 69.3 12 0.00025 25.9 4.5 25 34-58 2-26 (166)
210 PRK12402 replication factor C 69.1 12 0.00026 28.7 5.0 41 16-56 20-62 (337)
211 PRK07471 DNA polymerase III su 69.1 21 0.00045 28.6 6.4 44 15-58 23-69 (365)
212 PRK14961 DNA polymerase III su 68.8 13 0.00028 29.5 5.2 42 15-56 20-64 (363)
213 TIGR03880 KaiC_arch_3 KaiC dom 68.8 19 0.00042 26.1 5.8 36 34-74 20-55 (224)
214 PRK12377 putative replication 68.6 29 0.00062 26.3 6.8 26 32-57 103-128 (248)
215 COG0802 Predicted ATPase or ki 68.2 8 0.00017 27.3 3.4 36 33-70 28-63 (149)
216 PF05729 NACHT: NACHT domain 68.1 15 0.00033 24.6 4.8 26 34-59 4-29 (166)
217 cd05568 PTS_IIB_bgl_like PTS_I 68.0 5.9 0.00013 24.1 2.5 27 65-91 2-31 (85)
218 PRK06921 hypothetical protein; 67.7 17 0.00037 27.7 5.5 28 30-57 117-144 (266)
219 KOG0342|consensus 67.5 7.6 0.00016 32.6 3.6 69 29-97 118-193 (543)
220 PRK10818 cell division inhibit 67.5 8.2 0.00018 28.9 3.7 21 38-58 11-31 (270)
221 KOG1807|consensus 67.0 10 0.00023 33.7 4.5 68 12-83 379-449 (1025)
222 PRK13531 regulatory ATPase Rav 66.7 13 0.00028 31.2 4.9 38 17-54 26-63 (498)
223 cd03115 SRP The signal recogni 66.5 32 0.00069 23.8 6.3 24 34-57 4-27 (173)
224 COG0467 RAD55 RecA-superfamily 66.3 14 0.00031 27.6 4.8 36 33-73 26-61 (260)
225 COG1192 Soj ATPases involved i 65.9 9.6 0.00021 28.3 3.7 28 39-70 12-39 (259)
226 PF00448 SRP54: SRP54-type pro 65.8 34 0.00075 24.8 6.6 56 34-93 5-60 (196)
227 PRK09112 DNA polymerase III su 65.6 17 0.00036 29.0 5.2 42 15-56 27-71 (351)
228 PRK10867 signal recognition pa 65.4 21 0.00046 29.4 5.9 24 34-57 104-127 (433)
229 PF07726 AAA_3: ATPase family 65.3 4.5 9.7E-05 27.9 1.7 22 33-54 2-23 (131)
230 cd01129 PulE-GspE PulE/GspE Th 65.0 20 0.00043 27.3 5.3 40 13-55 65-105 (264)
231 PLN03025 replication factor C 64.8 18 0.00039 28.0 5.2 42 15-56 17-60 (319)
232 COG0714 MoxR-like ATPases [Gen 64.5 28 0.00061 27.1 6.3 39 16-54 29-67 (329)
233 PRK00090 bioD dithiobiotin syn 64.4 10 0.00023 27.5 3.6 26 34-59 4-29 (222)
234 KOG0338|consensus 64.4 16 0.00034 31.2 4.9 49 36-84 224-275 (691)
235 TIGR03881 KaiC_arch_4 KaiC dom 64.4 24 0.00051 25.7 5.5 37 33-74 23-59 (229)
236 PRK11889 flhF flagellar biosyn 64.3 26 0.00057 29.0 6.1 46 34-84 245-291 (436)
237 PRK13894 conjugal transfer ATP 64.3 33 0.00072 26.9 6.6 34 21-54 139-172 (319)
238 PF01656 CbiA: CobQ/CobB/MinD/ 64.3 20 0.00043 24.9 5.0 32 35-71 4-35 (195)
239 cd01983 Fer4_NifH The Fer4_Nif 64.0 21 0.00046 21.3 4.6 22 36-57 5-26 (99)
240 PRK08533 flagellar accessory p 63.9 18 0.00039 26.8 4.9 35 32-71 26-60 (230)
241 TIGR01007 eps_fam capsular exo 63.6 16 0.00036 26.0 4.5 32 33-69 21-52 (204)
242 KOG0329|consensus 63.4 3.6 7.7E-05 32.1 1.0 58 38-97 87-149 (387)
243 PRK13233 nifH nitrogenase redu 63.2 10 0.00023 28.5 3.5 25 40-69 12-37 (275)
244 PF13401 AAA_22: AAA domain; P 63.0 12 0.00025 24.4 3.4 27 30-56 4-30 (131)
245 TIGR02928 orc1/cdc6 family rep 62.8 55 0.0012 25.4 7.7 48 9-56 16-66 (365)
246 PRK11664 ATP-dependent RNA hel 62.8 21 0.00045 31.8 5.7 51 28-83 18-70 (812)
247 PRK13849 putative crown gall t 62.8 12 0.00026 27.9 3.7 36 40-80 12-49 (231)
248 PRK06645 DNA polymerase III su 62.7 18 0.0004 30.4 5.1 42 15-56 25-69 (507)
249 PF00265 TK: Thymidine kinase; 62.7 18 0.00039 25.9 4.5 33 34-71 5-37 (176)
250 PF06564 YhjQ: YhjQ protein; 62.7 12 0.00026 28.4 3.7 26 39-69 11-36 (243)
251 PRK12374 putative dithiobiotin 62.6 12 0.00026 27.6 3.7 26 34-59 7-32 (231)
252 PRK13889 conjugal transfer rel 62.5 30 0.00066 31.6 6.7 57 9-73 344-400 (988)
253 PRK14950 DNA polymerase III su 62.2 17 0.00038 30.9 5.0 42 15-56 20-64 (585)
254 PRK14956 DNA polymerase III su 62.2 19 0.0004 30.2 5.0 42 15-56 22-66 (484)
255 cd00984 DnaB_C DnaB helicase C 62.1 19 0.00042 26.3 4.7 35 33-71 16-50 (242)
256 TIGR03420 DnaA_homol_Hda DnaA 61.7 45 0.00098 23.9 6.6 40 16-55 22-63 (226)
257 KOG1513|consensus 61.3 13 0.00028 33.5 4.0 109 8-129 261-378 (1300)
258 KOG1133|consensus 61.2 23 0.00049 31.3 5.4 46 8-53 12-57 (821)
259 PRK08699 DNA polymerase III su 60.6 26 0.00056 27.6 5.4 46 12-57 2-48 (325)
260 TIGR02880 cbbX_cfxQ probable R 60.6 22 0.00048 27.3 4.9 46 32-78 60-105 (284)
261 PRK06871 DNA polymerase III su 60.3 26 0.00056 27.7 5.3 48 11-58 2-52 (325)
262 TIGR01073 pcrA ATP-dependent D 60.2 20 0.00043 31.2 5.1 55 11-72 4-58 (726)
263 TIGR03453 partition_RepA plasm 60.2 13 0.00028 29.7 3.7 29 36-69 111-139 (387)
264 PHA02519 plasmid partition pro 60.1 13 0.00028 30.0 3.7 31 34-69 111-141 (387)
265 PF00437 T2SE: Type II/IV secr 60.0 14 0.00031 27.6 3.8 35 21-55 118-152 (270)
266 PRK14969 DNA polymerase III su 60.0 13 0.00028 31.3 3.8 56 1-56 1-64 (527)
267 PRK14955 DNA polymerase III su 59.9 24 0.00052 28.4 5.2 43 15-57 20-65 (397)
268 KOG1805|consensus 59.9 27 0.00059 31.9 5.8 56 10-73 668-723 (1100)
269 TIGR02881 spore_V_K stage V sp 59.8 19 0.00041 27.0 4.4 44 33-78 45-89 (261)
270 PRK13869 plasmid-partitioning 59.8 13 0.00028 30.1 3.7 29 36-69 128-156 (405)
271 PRK14948 DNA polymerase III su 59.7 23 0.00049 30.6 5.2 43 15-57 20-65 (620)
272 PHA02542 41 41 helicase; Provi 59.6 18 0.00039 30.1 4.5 33 33-70 193-225 (473)
273 PRK13705 plasmid-partitioning 59.5 13 0.00028 30.0 3.6 31 34-69 111-141 (388)
274 PF13191 AAA_16: AAA ATPase do 59.4 14 0.0003 25.4 3.4 26 32-57 26-51 (185)
275 TIGR02785 addA_Gpos recombinat 59.4 27 0.00058 32.5 6.0 59 12-78 2-60 (1232)
276 PLN00020 ribulose bisphosphate 59.2 12 0.00026 30.6 3.3 39 32-78 150-188 (413)
277 TIGR02016 BchX chlorophyllide 59.0 14 0.00031 28.5 3.7 20 39-58 9-28 (296)
278 KOG0651|consensus 58.9 14 0.0003 29.6 3.6 24 31-54 167-190 (388)
279 PRK03992 proteasome-activating 58.8 17 0.00037 29.2 4.2 38 31-76 166-203 (389)
280 PRK13900 type IV secretion sys 58.8 24 0.00052 27.9 5.0 35 20-54 150-184 (332)
281 PF07517 SecA_DEAD: SecA DEAD- 58.7 30 0.00064 26.6 5.3 57 9-76 75-131 (266)
282 TIGR03499 FlhF flagellar biosy 58.6 45 0.00097 25.6 6.3 35 34-71 198-232 (282)
283 COG0132 BioD Dethiobiotin synt 58.5 15 0.00033 27.5 3.6 26 34-59 7-32 (223)
284 PRK14963 DNA polymerase III su 58.5 28 0.00061 29.2 5.5 43 15-57 18-63 (504)
285 cd01120 RecA-like_NTPases RecA 58.5 24 0.00052 23.3 4.4 33 34-71 3-35 (165)
286 cd01125 repA Hexameric Replica 58.3 25 0.00055 25.9 4.8 40 32-71 3-49 (239)
287 cd01394 radB RadB. The archaea 58.2 23 0.0005 25.5 4.5 24 33-56 22-45 (218)
288 PRK08760 replicative DNA helic 58.1 28 0.00061 28.9 5.4 44 33-80 232-275 (476)
289 KOG1132|consensus 57.9 17 0.00037 32.7 4.2 43 9-51 19-61 (945)
290 PRK08058 DNA polymerase III su 57.9 87 0.0019 24.5 8.0 44 14-57 9-55 (329)
291 KOG0989|consensus 57.6 28 0.00061 27.8 5.0 44 13-56 38-83 (346)
292 PRK14949 DNA polymerase III su 57.6 14 0.0003 33.5 3.7 57 1-57 1-65 (944)
293 cd03111 CpaE_like This protein 57.5 20 0.00044 23.0 3.7 22 36-57 6-27 (106)
294 cd02035 ArsA ArsA ATPase funct 57.4 24 0.00052 25.7 4.5 32 34-70 3-34 (217)
295 PRK08903 DnaA regulatory inact 57.1 58 0.0012 23.6 6.5 24 32-55 44-67 (227)
296 PRK06964 DNA polymerase III su 56.7 32 0.0007 27.4 5.4 47 12-58 2-49 (342)
297 PRK11331 5-methylcytosine-spec 56.6 31 0.00068 28.7 5.4 35 20-54 184-218 (459)
298 TIGR00416 sms DNA repair prote 56.2 35 0.00075 28.2 5.6 40 34-78 98-137 (454)
299 PF01580 FtsK_SpoIIIE: FtsK/Sp 56.1 37 0.0008 24.2 5.3 26 31-56 39-64 (205)
300 KOG0343|consensus 56.1 18 0.0004 31.2 4.0 66 11-80 91-159 (758)
301 PF00004 AAA: ATPase family as 55.9 21 0.00045 23.0 3.6 34 34-75 2-35 (132)
302 PRK07003 DNA polymerase III su 55.9 17 0.00038 32.3 4.0 56 1-56 1-64 (830)
303 PRK09183 transposase/IS protei 55.8 16 0.00035 27.7 3.4 28 29-56 101-128 (259)
304 TIGR03600 phage_DnaB phage rep 55.8 26 0.00056 28.3 4.8 35 34-72 198-232 (421)
305 KOG0920|consensus 55.7 34 0.00074 31.0 5.8 41 14-58 176-216 (924)
306 COG1797 CobB Cobyrinic acid a, 55.5 18 0.00039 30.0 3.8 25 36-60 7-31 (451)
307 PRK00771 signal recognition pa 55.4 28 0.00061 28.7 4.9 34 33-71 98-131 (437)
308 PRK12723 flagellar biosynthesi 55.3 62 0.0014 26.3 6.8 37 34-71 178-214 (388)
309 PF13614 AAA_31: AAA domain; P 55.3 38 0.00083 22.7 5.0 34 33-71 4-37 (157)
310 PRK12323 DNA polymerase III su 53.7 27 0.00058 30.6 4.7 56 1-56 1-64 (700)
311 PRK09361 radB DNA repair and r 53.7 34 0.00074 24.8 4.8 25 33-57 26-50 (225)
312 TIGR02533 type_II_gspE general 53.6 24 0.00052 29.4 4.4 40 12-54 226-266 (486)
313 cd02042 ParA ParA and ParB of 53.6 40 0.00087 21.0 4.6 23 35-57 5-27 (104)
314 PRK06067 flagellar accessory p 53.4 53 0.0011 24.0 5.8 34 33-71 28-61 (234)
315 TIGR01968 minD_bact septum sit 53.3 30 0.00064 25.4 4.5 25 34-58 6-30 (261)
316 TIGR00379 cobB cobyrinic acid 53.3 19 0.00041 29.6 3.7 27 34-60 4-30 (449)
317 KOG0950|consensus 53.0 38 0.00083 30.8 5.6 64 29-96 239-306 (1008)
318 PF13481 AAA_25: AAA domain; P 53.0 43 0.00093 23.4 5.1 53 33-85 35-93 (193)
319 PRK14974 cell division protein 52.8 46 0.00099 26.5 5.6 43 33-80 143-189 (336)
320 COG0305 DnaB Replicative DNA h 52.7 43 0.00093 27.7 5.6 44 33-80 199-242 (435)
321 cd00550 ArsA_ATPase Oxyanion-t 52.5 28 0.0006 26.2 4.2 24 35-58 5-28 (254)
322 PRK14957 DNA polymerase III su 52.4 37 0.0008 28.9 5.3 42 15-56 20-64 (546)
323 PRK06305 DNA polymerase III su 52.4 41 0.00089 27.7 5.5 43 15-57 21-66 (451)
324 COG0003 ArsA Predicted ATPase 52.3 21 0.00045 28.3 3.6 19 40-58 12-30 (322)
325 PRK10436 hypothetical protein; 52.3 38 0.00083 28.1 5.3 40 12-54 202-242 (462)
326 TIGR03029 EpsG chain length de 52.3 31 0.00067 25.9 4.5 49 16-69 83-138 (274)
327 TIGR01425 SRP54_euk signal rec 52.1 82 0.0018 26.0 7.1 52 34-90 104-156 (429)
328 cd01122 GP4d_helicase GP4d_hel 52.1 34 0.00073 25.5 4.7 36 32-71 32-67 (271)
329 TIGR02655 circ_KaiC circadian 52.0 42 0.00092 27.8 5.6 42 33-78 24-65 (484)
330 PRK00784 cobyric acid synthase 52.0 20 0.00044 29.7 3.7 26 34-59 7-32 (488)
331 cd01130 VirB11-like_ATPase Typ 51.7 39 0.00084 23.9 4.7 36 14-52 12-47 (186)
332 KOG0952|consensus 51.6 37 0.0008 31.4 5.3 61 32-97 945-1011(1230)
333 COG1224 TIP49 DNA helicase TIP 51.6 35 0.00077 27.9 4.8 23 32-54 67-89 (450)
334 cd05563 PTS_IIB_ascorbate PTS_ 51.5 10 0.00022 23.3 1.5 26 66-91 2-30 (86)
335 COG0541 Ffh Signal recognition 51.4 42 0.00091 27.9 5.3 56 35-95 105-161 (451)
336 PF03796 DnaB_C: DnaB-like hel 51.2 35 0.00077 25.4 4.6 37 33-73 22-58 (259)
337 TIGR03345 VI_ClpV1 type VI sec 51.2 64 0.0014 28.9 6.8 70 16-86 192-273 (852)
338 TIGR02397 dnaX_nterm DNA polym 51.1 40 0.00087 26.1 5.1 43 15-57 18-63 (355)
339 PF01078 Mg_chelatase: Magnesi 51.0 34 0.00074 25.4 4.4 37 16-52 8-44 (206)
340 CHL00175 minD septum-site dete 50.8 33 0.00072 25.8 4.5 32 33-69 19-50 (281)
341 PTZ00454 26S protease regulato 50.8 23 0.00051 28.7 3.8 40 31-78 180-219 (398)
342 PRK14962 DNA polymerase III su 50.6 40 0.00087 28.0 5.2 42 15-56 18-62 (472)
343 TIGR01650 PD_CobS cobaltochela 50.6 57 0.0012 25.9 5.8 26 29-54 63-88 (327)
344 TIGR02237 recomb_radB DNA repa 50.4 41 0.0009 23.9 4.8 25 33-57 15-39 (209)
345 PRK08506 replicative DNA helic 50.4 48 0.001 27.5 5.6 36 33-73 195-230 (472)
346 KOG1942|consensus 49.7 33 0.00072 27.5 4.3 26 29-54 63-88 (456)
347 PRK07133 DNA polymerase III su 49.6 44 0.00094 29.5 5.4 43 15-57 22-67 (725)
348 PRK12902 secA preprotein trans 49.5 1E+02 0.0022 28.1 7.7 56 30-91 98-158 (939)
349 PRK07994 DNA polymerase III su 49.4 38 0.00081 29.5 5.0 57 1-57 1-65 (647)
350 PHA02533 17 large terminase pr 49.1 80 0.0017 26.7 6.8 58 8-72 56-113 (534)
351 TIGR01243 CDC48 AAA family ATP 49.1 25 0.00053 30.7 3.9 39 32-78 489-527 (733)
352 PRK08691 DNA polymerase III su 49.0 28 0.0006 30.6 4.1 56 1-56 1-64 (709)
353 PF12775 AAA_7: P-loop contain 48.9 30 0.00064 26.5 3.9 25 28-52 31-55 (272)
354 PRK06904 replicative DNA helic 48.7 81 0.0018 26.2 6.7 44 33-80 224-267 (472)
355 PRK01077 cobyrinic acid a,c-di 48.6 29 0.00064 28.5 4.1 26 34-59 8-33 (451)
356 KOG0347|consensus 48.6 10 0.00022 32.6 1.4 84 33-126 221-320 (731)
357 KOG0948|consensus 48.6 34 0.00073 30.7 4.5 68 8-84 126-196 (1041)
358 PF05876 Terminase_GpA: Phage 48.5 9.6 0.00021 32.3 1.3 71 9-85 14-87 (557)
359 TIGR01242 26Sp45 26S proteasom 48.4 23 0.00049 28.0 3.3 23 31-53 157-179 (364)
360 cd01121 Sms Sms (bacterial rad 48.2 57 0.0012 26.3 5.6 34 33-71 85-118 (372)
361 PRK14958 DNA polymerase III su 48.1 41 0.00089 28.2 4.9 57 1-57 1-65 (509)
362 PF02702 KdpD: Osmosensitive K 48.0 32 0.0007 25.6 3.8 28 33-60 8-35 (211)
363 PRK13851 type IV secretion sys 47.6 32 0.0007 27.4 4.0 34 21-54 153-186 (344)
364 PF07728 AAA_5: AAA domain (dy 47.6 40 0.00087 22.3 4.1 21 34-54 3-23 (139)
365 PRK09302 circadian clock prote 47.6 57 0.0012 27.1 5.7 36 34-74 277-312 (509)
366 cd02034 CooC The accessory pro 47.4 57 0.0012 21.5 4.7 32 34-70 3-34 (116)
367 KOG0336|consensus 47.2 19 0.00042 30.0 2.7 79 29-107 256-342 (629)
368 PRK11823 DNA repair protein Ra 47.0 60 0.0013 26.7 5.6 40 33-77 83-122 (446)
369 cd03109 DTBS Dethiobiotin synt 46.9 35 0.00076 22.9 3.7 25 35-59 4-28 (134)
370 PRK05595 replicative DNA helic 46.9 59 0.0013 26.6 5.6 35 34-72 205-239 (444)
371 PRK14951 DNA polymerase III su 46.8 28 0.0006 30.1 3.8 57 1-57 1-65 (618)
372 KOG0991|consensus 46.7 59 0.0013 25.3 5.1 26 31-56 49-74 (333)
373 PRK05703 flhF flagellar biosyn 46.6 98 0.0021 25.4 6.8 22 34-55 225-246 (424)
374 PRK09302 circadian clock prote 46.6 42 0.00091 27.8 4.8 25 33-57 34-58 (509)
375 PHA02244 ATPase-like protein 46.4 82 0.0018 25.7 6.2 25 29-53 118-142 (383)
376 cd05566 PTS_IIB_galactitol PTS 46.3 24 0.00052 21.7 2.6 26 65-90 2-30 (89)
377 TIGR02655 circ_KaiC circadian 46.3 44 0.00095 27.7 4.8 25 33-57 266-290 (484)
378 PF05673 DUF815: Protein of un 46.3 1.3E+02 0.0029 23.0 9.0 27 32-58 54-80 (249)
379 PRK13768 GTPase; Provisional 46.0 46 0.00099 25.0 4.5 25 34-58 6-30 (253)
380 PRK09111 DNA polymerase III su 45.8 49 0.0011 28.5 5.1 43 15-57 28-73 (598)
381 PRK05896 DNA polymerase III su 45.7 47 0.001 28.7 5.0 42 15-56 20-64 (605)
382 PTZ00361 26 proteosome regulat 45.6 47 0.001 27.4 4.8 39 31-77 218-256 (438)
383 PRK11670 antiporter inner memb 45.4 32 0.0007 27.5 3.8 25 34-58 112-136 (369)
384 TIGR02538 type_IV_pilB type IV 45.3 55 0.0012 27.8 5.3 40 12-54 300-340 (564)
385 CHL00195 ycf46 Ycf46; Provisio 45.0 35 0.00076 28.6 4.0 34 31-72 260-293 (489)
386 PRK14964 DNA polymerase III su 44.9 52 0.0011 27.6 5.0 42 15-56 17-61 (491)
387 KOG0339|consensus 44.8 47 0.001 28.5 4.7 44 62-105 294-343 (731)
388 PRK13231 nitrogenase reductase 44.7 15 0.00033 27.4 1.8 26 38-69 10-35 (264)
389 cd02038 FleN-like FleN is a me 44.7 59 0.0013 21.8 4.6 25 34-58 4-28 (139)
390 PRK12608 transcription termina 44.4 60 0.0013 26.4 5.2 29 29-57 132-160 (380)
391 PRK13765 ATP-dependent proteas 44.2 50 0.0011 28.7 4.9 40 15-54 35-74 (637)
392 PRK00440 rfc replication facto 44.1 63 0.0014 24.4 5.1 42 15-56 21-64 (319)
393 PRK05748 replicative DNA helic 44.0 65 0.0014 26.3 5.4 41 33-77 206-246 (448)
394 CHL00181 cbbX CbbX; Provisiona 43.8 60 0.0013 25.0 5.0 45 33-78 62-106 (287)
395 TIGR00635 ruvB Holliday juncti 43.8 67 0.0015 24.3 5.2 23 32-54 32-54 (305)
396 TIGR00665 DnaB replicative DNA 43.7 50 0.0011 26.7 4.7 35 34-72 199-233 (434)
397 PRK14960 DNA polymerase III su 43.7 51 0.0011 29.0 4.9 41 16-56 20-63 (702)
398 PRK07004 replicative DNA helic 43.6 60 0.0013 26.8 5.2 35 34-72 217-251 (460)
399 PRK06647 DNA polymerase III su 43.4 53 0.0011 28.0 4.9 43 15-57 20-65 (563)
400 PRK13407 bchI magnesium chelat 43.1 60 0.0013 25.7 4.9 39 16-54 13-53 (334)
401 TIGR03018 pepcterm_TyrKin exop 42.8 59 0.0013 23.4 4.6 24 33-56 39-62 (207)
402 PRK08006 replicative DNA helic 42.7 71 0.0015 26.6 5.5 36 33-72 227-262 (471)
403 PRK07399 DNA polymerase III su 42.7 74 0.0016 24.9 5.4 43 16-58 9-54 (314)
404 KOG2825|consensus 42.3 21 0.00046 27.8 2.1 35 32-71 20-55 (323)
405 TIGR00390 hslU ATP-dependent p 42.3 1E+02 0.0022 25.7 6.2 24 31-54 48-71 (441)
406 PF08303 tRNA_lig_kinase: tRNA 42.1 18 0.0004 26.0 1.7 14 38-51 7-20 (168)
407 TIGR00313 cobQ cobyric acid sy 42.1 29 0.00062 28.8 3.1 27 34-60 3-29 (475)
408 PRK14952 DNA polymerase III su 42.0 56 0.0012 28.0 4.9 43 15-57 17-62 (584)
409 COG2804 PulE Type II secretory 41.8 71 0.0015 27.0 5.3 42 13-57 243-285 (500)
410 KOG1806|consensus 41.8 48 0.001 30.7 4.5 44 34-80 757-801 (1320)
411 PRK14954 DNA polymerase III su 41.5 61 0.0013 28.0 5.1 43 15-57 20-65 (620)
412 COG0552 FtsY Signal recognitio 41.4 50 0.0011 26.4 4.2 53 35-92 144-197 (340)
413 PRK06278 cobyrinic acid a,c-di 41.4 33 0.00071 28.7 3.3 24 34-57 243-266 (476)
414 PRK14953 DNA polymerase III su 40.9 74 0.0016 26.6 5.3 42 15-56 20-64 (486)
415 PRK09863 putative frv operon r 40.6 1.2E+02 0.0026 25.7 6.6 45 45-92 334-381 (584)
416 PRK13896 cobyrinic acid a,c-di 40.4 36 0.00079 28.0 3.4 26 34-59 6-31 (433)
417 PRK08840 replicative DNA helic 40.3 81 0.0018 26.2 5.5 41 33-77 220-260 (464)
418 cd01131 PilT Pilus retraction 40.0 62 0.0014 23.2 4.3 22 34-55 5-26 (198)
419 cd00133 PTS_IIB PTS_IIB: subun 39.7 29 0.00063 20.3 2.2 11 119-129 46-56 (84)
420 KOG0731|consensus 39.1 29 0.00063 30.8 2.8 21 31-51 345-365 (774)
421 KOG0733|consensus 39.0 28 0.00061 30.5 2.6 20 32-51 547-566 (802)
422 COG4098 comFA Superfamily II D 38.9 78 0.0017 25.9 4.9 54 63-126 305-362 (441)
423 PRK14722 flhF flagellar biosyn 38.9 1.3E+02 0.0029 24.3 6.4 23 33-55 140-162 (374)
424 PRK13826 Dtr system oriT relax 38.4 1.2E+02 0.0027 28.2 6.7 56 9-72 379-434 (1102)
425 PF01745 IPT: Isopentenyl tran 38.1 61 0.0013 24.6 4.0 21 34-54 5-25 (233)
426 COG0630 VirB11 Type IV secreto 37.9 77 0.0017 24.8 4.8 35 21-55 134-168 (312)
427 TIGR00064 ftsY signal recognit 37.6 75 0.0016 24.3 4.6 32 35-71 77-108 (272)
428 PRK06321 replicative DNA helic 37.4 95 0.0021 25.9 5.4 41 34-78 230-270 (472)
429 COG0210 UvrD Superfamily I DNA 37.3 67 0.0014 27.4 4.7 44 11-60 2-45 (655)
430 TIGR02012 tigrfam_recA protein 37.3 88 0.0019 24.7 5.0 24 34-57 59-82 (321)
431 TIGR02525 plasmid_TraJ plasmid 37.2 1.3E+02 0.0028 24.3 6.0 25 32-56 151-175 (372)
432 PF01935 DUF87: Domain of unkn 37.2 86 0.0019 22.7 4.8 36 32-71 25-60 (229)
433 COG1875 NYN ribonuclease and A 37.2 99 0.0021 25.5 5.3 36 14-53 231-268 (436)
434 CHL00122 secA preprotein trans 36.8 74 0.0016 28.8 4.9 51 31-86 90-145 (870)
435 PF00931 NB-ARC: NB-ARC domain 36.7 57 0.0012 24.2 3.8 21 33-53 22-42 (287)
436 PRK10865 protein disaggregatio 36.7 74 0.0016 28.5 5.0 40 16-55 183-224 (857)
437 KOG0346|consensus 36.7 59 0.0013 27.4 4.0 66 16-85 46-117 (569)
438 PRK07940 DNA polymerase III su 36.6 81 0.0018 25.6 4.9 42 16-57 10-63 (394)
439 PRK00411 cdc6 cell division co 36.3 1.4E+02 0.0029 23.6 6.0 26 32-57 57-82 (394)
440 COG2453 CDC14 Predicted protei 36.1 1.1E+02 0.0023 21.8 4.9 32 18-49 93-124 (180)
441 COG3421 Uncharacterized protei 35.7 47 0.001 29.1 3.4 35 38-76 5-40 (812)
442 PRK04195 replication factor C 35.7 97 0.0021 25.6 5.3 24 31-54 40-63 (482)
443 PRK05636 replicative DNA helic 35.6 1E+02 0.0022 25.9 5.4 35 34-72 269-303 (505)
444 cd00561 CobA_CobO_BtuR ATP:cor 34.9 68 0.0015 22.7 3.7 22 37-58 9-30 (159)
445 KOG1707|consensus 34.8 91 0.002 27.0 4.9 25 32-56 11-35 (625)
446 PF01202 SKI: Shikimate kinase 34.7 51 0.0011 22.6 3.1 16 39-54 1-16 (158)
447 PF05707 Zot: Zonular occluden 34.7 42 0.00091 24.0 2.7 20 34-53 4-24 (193)
448 COG1435 Tdk Thymidine kinase [ 34.6 92 0.002 23.1 4.4 33 34-71 8-40 (201)
449 PF10412 TrwB_AAD_bind: Type I 34.5 98 0.0021 24.8 5.0 38 30-72 15-52 (386)
450 TIGR03160 cobT_DBIPRT nicotina 34.4 1E+02 0.0022 24.6 5.0 28 29-56 152-179 (333)
451 PHA02544 44 clamp loader, smal 34.3 1E+02 0.0022 23.5 4.9 22 32-53 44-66 (316)
452 KOG0344|consensus 34.3 40 0.00086 29.0 2.7 68 14-85 161-233 (593)
453 PRK00105 cobT nicotinate-nucle 34.2 1.1E+02 0.0023 24.5 5.0 28 29-56 152-179 (335)
454 PRK08727 hypothetical protein; 34.1 66 0.0014 23.7 3.7 25 33-57 44-68 (233)
455 cd02439 DMB-PRT_CobT Nicotinat 34.0 1E+02 0.0022 24.2 4.9 29 28-56 135-163 (315)
456 PRK14087 dnaA chromosomal repl 34.0 79 0.0017 26.1 4.5 24 33-56 144-167 (450)
457 TIGR00959 ffh signal recogniti 34.0 93 0.002 25.6 4.8 23 33-55 102-124 (428)
458 cd02033 BchX Chlorophyllide re 33.9 63 0.0014 25.6 3.7 29 36-69 37-65 (329)
459 PF00158 Sigma54_activat: Sigm 33.7 1.7E+02 0.0037 20.5 7.6 44 29-77 21-64 (168)
460 PRK00080 ruvB Holliday junctio 33.6 1.2E+02 0.0027 23.4 5.4 23 32-54 53-75 (328)
461 PRK06749 replicative DNA helic 33.2 1.4E+02 0.0031 24.4 5.8 34 33-71 189-222 (428)
462 PRK08451 DNA polymerase III su 33.2 1E+02 0.0022 26.3 5.0 42 15-56 18-62 (535)
463 PHA00547 hypothetical protein 32.8 1.3E+02 0.0028 23.7 5.1 40 15-55 61-100 (337)
464 PF12774 AAA_6: Hydrolytic ATP 32.8 1.6E+02 0.0035 21.9 5.7 41 24-73 26-66 (231)
465 KOG0726|consensus 32.7 44 0.00096 26.8 2.6 22 30-51 219-240 (440)
466 TIGR01241 FtsH_fam ATP-depende 32.7 56 0.0012 27.1 3.4 21 32-52 90-110 (495)
467 PRK07773 replicative DNA helic 32.6 79 0.0017 28.4 4.5 36 33-72 220-255 (886)
468 PF13654 AAA_32: AAA domain; P 32.5 15 0.00032 30.9 0.0 72 18-89 18-101 (509)
469 TIGR02773 addB_Gpos ATP-depend 32.4 73 0.0016 29.5 4.4 44 38-83 9-53 (1158)
470 PRK14970 DNA polymerase III su 31.9 1.2E+02 0.0025 23.9 5.0 42 15-56 21-65 (367)
471 cd00983 recA RecA is a bacter 31.9 1.2E+02 0.0027 24.0 5.1 24 34-57 59-82 (325)
472 PRK12901 secA preprotein trans 31.8 2.3E+02 0.0051 26.4 7.2 67 11-85 167-237 (1112)
473 COG3640 CooC CO dehydrogenase 31.7 76 0.0016 24.4 3.7 20 39-58 9-28 (255)
474 TIGR03346 chaperone_ClpB ATP-d 31.7 1.1E+02 0.0023 27.5 5.1 40 16-55 178-219 (852)
475 PRK13886 conjugal transfer pro 31.5 1E+02 0.0023 23.3 4.4 31 34-69 7-37 (241)
476 KOG0652|consensus 31.2 59 0.0013 25.7 3.1 23 31-53 206-228 (424)
477 PRK12726 flagellar biosynthesi 31.1 1.5E+02 0.0032 24.4 5.5 45 34-83 210-259 (407)
478 PF14532 Sigma54_activ_2: Sigm 30.7 1.2E+02 0.0026 20.1 4.3 21 29-49 20-40 (138)
479 PRK05632 phosphate acetyltrans 30.6 68 0.0015 27.9 3.7 26 34-59 7-32 (684)
480 cd07029 RNAP_I_III_AC19 AC19 s 30.4 31 0.00067 21.8 1.2 13 119-131 33-45 (85)
481 PF05559 DUF763: Protein of un 30.2 59 0.0013 25.8 3.0 22 39-60 275-297 (319)
482 TIGR02788 VirB11 P-type DNA tr 30.2 1.1E+02 0.0025 23.6 4.6 31 22-52 136-166 (308)
483 PF02399 Herpes_ori_bp: Origin 30.2 81 0.0018 28.3 4.0 47 34-84 53-101 (824)
484 PRK12900 secA preprotein trans 30.1 2.2E+02 0.0048 26.4 6.7 52 30-85 151-206 (1025)
485 cd06927 RNAP_L L subunit of Ar 30.1 35 0.00077 21.4 1.4 13 119-131 33-45 (83)
486 PRK06893 DNA replication initi 29.6 92 0.002 22.9 3.8 25 33-57 42-66 (229)
487 TIGR01420 pilT_fam pilus retra 29.4 1.5E+02 0.0033 23.3 5.2 22 33-54 125-146 (343)
488 COG1474 CDC6 Cdc6-related prot 29.3 2.7E+02 0.0058 22.4 6.7 50 8-57 17-69 (366)
489 PRK09841 cryptic autophosphory 29.0 99 0.0021 27.1 4.4 31 34-69 536-566 (726)
490 TIGR03815 CpaE_hom_Actino heli 29.0 1.2E+02 0.0026 23.4 4.6 25 33-57 97-121 (322)
491 TIGR00362 DnaA chromosomal rep 29.0 1.3E+02 0.0028 24.1 4.9 25 33-57 139-163 (405)
492 PRK08084 DNA replication initi 28.9 2E+02 0.0043 21.2 5.6 39 17-55 30-70 (235)
493 TIGR03575 selen_PSTK_euk L-ser 28.7 1.3E+02 0.0028 24.0 4.7 23 33-55 2-24 (340)
494 PTZ00112 origin recognition co 28.7 1.8E+02 0.004 27.0 5.9 48 9-56 756-807 (1164)
495 PRK14959 DNA polymerase III su 28.7 1.2E+02 0.0025 26.5 4.7 41 16-56 21-64 (624)
496 PRK05342 clpX ATP-dependent pr 28.7 1.6E+02 0.0036 24.0 5.4 22 32-53 110-131 (412)
497 cd02019 NK Nucleoside/nucleoti 28.5 96 0.0021 18.1 3.2 20 35-54 4-23 (69)
498 TIGR01005 eps_transp_fam exopo 28.4 90 0.002 27.3 4.1 32 33-69 550-581 (754)
499 TIGR03689 pup_AAA proteasome A 28.3 69 0.0015 27.1 3.2 25 31-55 217-241 (512)
500 TIGR02639 ClpA ATP-dependent C 28.2 1.4E+02 0.003 26.2 5.2 55 32-86 205-268 (731)
No 1
>KOG0389|consensus
Probab=99.97 E-value=7.7e-31 Score=218.08 Aligned_cols=116 Identities=41% Similarity=0.639 Sum_probs=103.9
Q ss_pred cCCCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhc
Q psy2050 5 LKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSR 83 (131)
Q Consensus 5 ~~~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~ 83 (131)
+.+.+.+|++||.-|++||.-..+.+-.||||||||||||+|+||+++.+...+. .+|.|||||.|++.||.+ |++
T Consensus 393 ~l~s~i~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~---~gpHLVVvPsSTleNWlrEf~k 469 (941)
T KOG0389|consen 393 LLSSGIQLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGN---PGPHLVVVPSSTLENWLREFAK 469 (941)
T ss_pred ccCCCCcccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCC---CCCcEEEecchhHHHHHHHHHH
Confidence 3567899999999999999999988889999999999999999999999999887 599999999999999999 999
Q ss_pred ccCCCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 84 WRTSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 84 ~~p~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
|||.++|..|+|...++.....++.+. ..+|||++|||++
T Consensus 470 wCPsl~Ve~YyGSq~ER~~lR~~i~~~------~~~ydVllTTY~l 509 (941)
T KOG0389|consen 470 WCPSLKVEPYYGSQDERRELRERIKKN------KDDYDVLLTTYNL 509 (941)
T ss_pred hCCceEEEeccCcHHHHHHHHHHHhcc------CCCccEEEEEeec
Confidence 999999999999987776666554442 2379999999997
No 2
>KOG0385|consensus
Probab=99.96 E-value=4.1e-30 Score=213.45 Aligned_cols=112 Identities=34% Similarity=0.425 Sum_probs=98.1
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccCC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRTS 87 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p~ 87 (131)
+..||+||.+|++||+..+..+-+||||||||||||+|+||++..++..... ++|+||+||.|++.||.+ |++|+|+
T Consensus 165 ~g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~--~GPfLVi~P~StL~NW~~Ef~rf~P~ 242 (971)
T KOG0385|consen 165 GGELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGI--PGPFLVIAPKSTLDNWMNEFKRFTPS 242 (971)
T ss_pred CCccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCC--CCCeEEEeeHhhHHHHHHHHHHhCCC
Confidence 4789999999999999999999999999999999999999999999986666 799999999999999999 9999999
Q ss_pred CceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 88 NCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 88 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+++++|+|....+....-.+... .+|+|+||||+|
T Consensus 243 l~~~~~~Gdk~eR~~~~r~~~~~-------~~fdV~iTsYEi 277 (971)
T KOG0385|consen 243 LNVVVYHGDKEERAALRRDIMLP-------GRFDVCITSYEI 277 (971)
T ss_pred cceEEEeCCHHHHHHHHHHhhcc-------CCCceEeehHHH
Confidence 99999998886554333332221 169999999997
No 3
>KOG0391|consensus
Probab=99.94 E-value=8.7e-28 Score=205.68 Aligned_cols=113 Identities=35% Similarity=0.466 Sum_probs=103.6
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRT 86 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p 86 (131)
.+.+||+||..|++||.....++-+||||||||||||+|+|++++.+.++... ++|.|||||.|++.||+- |++|+|
T Consensus 612 LrGqLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtISllAhLACeegn--WGPHLIVVpTsviLnWEMElKRwcP 689 (1958)
T KOG0391|consen 612 LRGQLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTISLLAHLACEEGN--WGPHLIVVPTSVILNWEMELKRWCP 689 (1958)
T ss_pred HHHHHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHHHHHHHHhcccC--CCCceEEeechhhhhhhHHHhhhCC
Confidence 57899999999999999999999999999999999999999999999998888 999999999999999999 999999
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
++++++|+|..++++.....+.. .+.|.|.||||-+
T Consensus 690 glKILTYyGs~kErkeKRqgW~k-------PnaFHVCItSYkl 725 (1958)
T KOG0391|consen 690 GLKILTYYGSHKERKEKRQGWAK-------PNAFHVCITSYKL 725 (1958)
T ss_pred cceEeeecCCHHHHHHHhhcccC-------CCeeEEeehhhHH
Confidence 99999999999888777666544 2368999999964
No 4
>KOG0387|consensus
Probab=99.94 E-value=1.2e-27 Score=199.19 Aligned_cols=94 Identities=36% Similarity=0.511 Sum_probs=85.6
Q ss_pred cccCC-CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-
Q psy2050 3 YELKA-RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV- 80 (131)
Q Consensus 3 ~~~~~-~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~- 80 (131)
|.+|+ ....|++||++||+||.....++.|||||||||||||+|+|++++.+...+.. -+|+|||||.+++.||..
T Consensus 196 ~~vPg~I~~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~--~~paLIVCP~Tii~qW~~E 273 (923)
T KOG0387|consen 196 FKVPGFIWSKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKL--TKPALIVCPATIIHQWMKE 273 (923)
T ss_pred ccccHHHHHHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccc--cCceEEEccHHHHHHHHHH
Confidence 44544 56789999999999999999999999999999999999999999999988544 599999999999999999
Q ss_pred hhcccCCCceeeccCCCc
Q psy2050 81 PSRWRTSNCDKTSPVKPQ 98 (131)
Q Consensus 81 ~~~~~p~~~v~~~~~~~~ 98 (131)
|++|+|..+|.++++...
T Consensus 274 ~~~w~p~~rv~ilh~t~s 291 (923)
T KOG0387|consen 274 FQTWWPPFRVFILHGTGS 291 (923)
T ss_pred HHHhCcceEEEEEecCCc
Confidence 999999999999887665
No 5
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.94 E-value=7.2e-27 Score=202.44 Aligned_cols=114 Identities=32% Similarity=0.480 Sum_probs=94.9
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRT 86 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p 86 (131)
.+.+||+||.+|++||+.+...+.|||||||||||||+|+|+++..+...+.. .+|+|||||+|++.||.+ |++|+|
T Consensus 166 i~~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~--~gp~LIVvP~SlL~nW~~Ei~kw~p 243 (1033)
T PLN03142 166 IKGKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGI--TGPHMVVAPKSTLGNWMNEIRRFCP 243 (1033)
T ss_pred hccchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCC--CCCEEEEeChHHHHHHHHHHHHHCC
Confidence 44689999999999999999889999999999999999999999888765544 689999999999999999 999999
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
.+++..+++....+......... ..+++||||||++.
T Consensus 244 ~l~v~~~~G~~~eR~~~~~~~~~-------~~~~dVvITSYe~l 280 (1033)
T PLN03142 244 VLRAVKFHGNPEERAHQREELLV-------AGKFDVCVTSFEMA 280 (1033)
T ss_pred CCceEEEeCCHHHHHHHHHHHhc-------ccCCCcceecHHHH
Confidence 99999988876554332222111 12589999999873
No 6
>KOG0388|consensus
Probab=99.93 E-value=1.2e-26 Score=192.09 Aligned_cols=120 Identities=33% Similarity=0.403 Sum_probs=104.5
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRT 86 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p 86 (131)
.+++|++||..|++||.....++-+||||||||||||+|+|++++.+...... ++|+|||+|.|++.||.+ |.+|+|
T Consensus 564 l~ctLKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nI--wGPFLVVtpaStL~NWaqEisrFlP 641 (1185)
T KOG0388|consen 564 LKCTLKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNI--WGPFLVVTPASTLHNWAQEISRFLP 641 (1185)
T ss_pred hhhhhHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccC--CCceEEeehHHHHhHHHHHHHHhCc
Confidence 57899999999999999999999999999999999999999999999999888 999999999999999999 999999
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
++++..|.|....++.-..-+-..+. =.-...|+||||||.|.
T Consensus 642 ~~k~lpywGs~~eRkiLrKfw~rKnm-Y~rna~fhVviTSYQlv 684 (1185)
T KOG0388|consen 642 SFKVLPYWGSPSERKILRKFWNRKNM-YRRNAPFHVVITSYQLV 684 (1185)
T ss_pred cceeecCcCChhhhHHHHHhcchhhh-hccCCCceEEEEeeeee
Confidence 99999999999887666553322222 11223689999999874
No 7
>KOG0384|consensus
Probab=99.92 E-value=3.2e-26 Score=196.85 Aligned_cols=117 Identities=31% Similarity=0.453 Sum_probs=101.7
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccCC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRTS 87 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p~ 87 (131)
+..||+||.+|++||++.|..+..||||||||||||+|++++|..+...... .+|+|||+|+|.+.+|.+ |.+|. +
T Consensus 368 g~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~--~gpflvvvplst~~~W~~ef~~w~-~ 444 (1373)
T KOG0384|consen 368 GNELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQI--HGPFLVVVPLSTITAWEREFETWT-D 444 (1373)
T ss_pred cchhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhc--cCCeEEEeehhhhHHHHHHHHHHh-h
Confidence 4789999999999999999999999999999999999999999999988866 799999999999999999 99999 9
Q ss_pred CceeeccCCCcchhhhhhcCccCCCCC-CCCCCCcEEEEccccC
Q psy2050 88 NCDKTSPVKPQTITVAQLRVPECDQSP-SQEVGYNDIIMYLNIP 130 (131)
Q Consensus 88 ~~v~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~VvIttY~~~ 130 (131)
+++++|+|....+.+.+..-.- ... ....+|+++||||++.
T Consensus 445 mn~i~y~g~~~sr~~i~~ye~~--~~~~~~~lkf~~lltTye~~ 486 (1373)
T KOG0384|consen 445 MNVIVYHGNLESRQLIRQYEFY--HSSNTKKLKFNALLTTYEIV 486 (1373)
T ss_pred hceeeeecchhHHHHHHHHHhe--ecCCccccccceeehhhHHH
Confidence 9999999998777666544211 111 2345799999999863
No 8
>KOG0392|consensus
Probab=99.91 E-value=2.5e-25 Score=191.39 Aligned_cols=112 Identities=31% Similarity=0.391 Sum_probs=96.5
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCC----CCCCEEEEecCCchhhhhh-hh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSR----PKSPHLIIVPSSTLCKYKV-PS 82 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~----~~~~~LIv~P~sl~~~W~~-~~ 82 (131)
.+..||.||.+||+|+.+..+.+-.|||||+||||||+|+++.++.....+..+ ...|.|||||+++..+|.. ++
T Consensus 972 I~a~LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsTLtGHW~~E~~ 1051 (1549)
T KOG0392|consen 972 ISAKLRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPSTLTGHWKSEVK 1051 (1549)
T ss_pred hhHHHHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCchhhhHHHHHHH
Confidence 678899999999999999999999999999999999999999998877665221 3688999999999999999 99
Q ss_pred cccCCCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 83 RWRTSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 83 ~~~p~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+|+|.++|..|.|.+..+....... .+.+|||||||+
T Consensus 1052 kf~pfL~v~~yvg~p~~r~~lR~q~----------~~~~iiVtSYDv 1088 (1549)
T KOG0392|consen 1052 KFFPFLKVLQYVGPPAERRELRDQY----------KNANIIVTSYDV 1088 (1549)
T ss_pred HhcchhhhhhhcCChHHHHHHHhhc----------cccceEEeeHHH
Confidence 9999999999999987664443331 146899999986
No 9
>KOG0386|consensus
Probab=99.91 E-value=3.9e-25 Score=187.56 Aligned_cols=112 Identities=38% Similarity=0.545 Sum_probs=101.0
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRT 86 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p 86 (131)
-+..|++||..|+.||....+++..||||||||||||+|+|+++.++...... .+|+|||||+|++.+|.. |.+|+|
T Consensus 391 ~GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~--~GP~LvivPlstL~NW~~Ef~kWaP 468 (1157)
T KOG0386|consen 391 QGGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQM--QGPFLIIVPLSTLVNWSSEFPKWAP 468 (1157)
T ss_pred cCCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHccc--CCCeEEeccccccCCchhhcccccc
Confidence 46799999999999999999999999999999999999999999999888777 899999999999999999 999999
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
.+....|.|.+..++.....+.. .+|+|++|||+-
T Consensus 469 Sv~~i~YkGtp~~R~~l~~qir~--------gKFnVLlTtyEy 503 (1157)
T KOG0386|consen 469 SVQKIQYKGTPQQRSGLTKQQRH--------GKFNVLLTTYEY 503 (1157)
T ss_pred ceeeeeeeCCHHHHhhHHHHHhc--------ccceeeeeeHHH
Confidence 99999999999877666555433 258999999973
No 10
>KOG4439|consensus
Probab=99.90 E-value=2.3e-24 Score=178.21 Aligned_cols=112 Identities=29% Similarity=0.399 Sum_probs=90.9
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCC-----CCCCCEEEEecCCchhhhh
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLS-----RPKSPHLIIVPSSTLCKYK 79 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~-----~~~~~~LIv~P~sl~~~W~ 79 (131)
.+..+.|++||+.|+.||..++.+.. ||||||+||||||+..|+++..-...... +...+||||||.|+++||.
T Consensus 320 ~g~~v~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~PaSli~qW~ 399 (901)
T KOG4439|consen 320 DGLKVELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPASLIHQWE 399 (901)
T ss_pred CcceeecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcHHHHHHHH
Confidence 45788999999999999999997665 99999999999999999998765543221 2244799999999999999
Q ss_pred h-hhccc--CCCceeeccCCC-cchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 80 V-PSRWR--TSNCDKTSPVKP-QTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 80 ~-~~~~~--p~~~v~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
. +++=. -.++|+.|||.. +.++...++ +||||||||++
T Consensus 400 ~Ev~~rl~~n~LsV~~~HG~n~r~i~~~~L~------------~YDvViTTY~l 441 (901)
T KOG4439|consen 400 AEVARRLEQNALSVYLYHGPNKREISAKELR------------KYDVVITTYNL 441 (901)
T ss_pred HHHHHHHhhcceEEEEecCCccccCCHHHHh------------hcceEEEeeec
Confidence 9 77654 347889999988 555544444 79999999996
No 11
>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=99.89 E-value=3.9e-23 Score=156.81 Aligned_cols=105 Identities=30% Similarity=0.426 Sum_probs=77.3
Q ss_pred HHHHHHHHHHHHh---------hcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcc
Q psy2050 15 YQLVGLNWLAVMH---------NQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRW 84 (131)
Q Consensus 15 ~Q~~~v~~l~~~~---------~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~ 84 (131)
||.+|+.||+.++ ....||+||||||+|||+++++++..+..........++|||||.+++.||.+ +.+|
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhccc
Confidence 8999999999998 66779999999999999999999988777665433457999999999999999 9999
Q ss_pred cC--CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 85 RT--SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 85 ~p--~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
++ ..++..+.+.+...... .....+++|+||||+.
T Consensus 81 ~~~~~~~v~~~~~~~~~~~~~----------~~~~~~~~vvi~ty~~ 117 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSERRRLS----------KNQLPKYDVVITTYET 117 (299)
T ss_dssp SGT-TS-EEEESSSCHHHHTT----------SSSCCCSSEEEEEHHH
T ss_pred ccccccccccccccccccccc----------ccccccceeeeccccc
Confidence 94 57888877776211111 1122368999999985
No 12
>KOG1002|consensus
Probab=99.88 E-value=4.6e-23 Score=166.03 Aligned_cols=104 Identities=29% Similarity=0.443 Sum_probs=90.1
Q ss_pred CCCCcchHHHHHHHHHHHHhhcc-cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQ-LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~-~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~ 85 (131)
.-..|.|||++++.|+..++.+. .|||||||||+|||+|+||+++.-.. ..|+|||||.--+.||.+ |+++.
T Consensus 181 lii~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLllae~~------ra~tLVvaP~VAlmQW~nEI~~~T 254 (791)
T KOG1002|consen 181 LIIPLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLAEVD------RAPTLVVAPTVALMQWKNEIERHT 254 (791)
T ss_pred ceecchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHhccc------cCCeeEEccHHHHHHHHHHHHHhc
Confidence 45689999999999999998854 58999999999999999999876221 588999999999999999 99997
Q ss_pred C-CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 86 T-SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 86 p-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
. .+++++|+|..+..+...+- +||||+|||++
T Consensus 255 ~gslkv~~YhG~~R~~nikel~------------~YDvVLTty~v 287 (791)
T KOG1002|consen 255 SGSLKVYIYHGAKRDKNIKELM------------NYDVVLTTYAV 287 (791)
T ss_pred cCceEEEEEecccccCCHHHhh------------cCcEEEEecHH
Confidence 4 58999999988877666655 69999999986
No 13
>KOG1000|consensus
Probab=99.79 E-value=1e-19 Score=146.60 Aligned_cols=74 Identities=31% Similarity=0.385 Sum_probs=64.0
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRT 86 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p 86 (131)
.-..|.|||++||+|.+. .+++++||||||||||+|||+....... .+|.|||||.|+...|.+ +++|.|
T Consensus 195 Lvs~LlPFQreGv~faL~---RgGR~llADeMGLGKTiQAlaIA~yyra------EwplliVcPAsvrftWa~al~r~lp 265 (689)
T KOG1000|consen 195 LVSRLLPFQREGVIFALE---RGGRILLADEMGLGKTIQALAIARYYRA------EWPLLIVCPASVRFTWAKALNRFLP 265 (689)
T ss_pred HHHhhCchhhhhHHHHHh---cCCeEEEecccccchHHHHHHHHHHHhh------cCcEEEEecHHHhHHHHHHHHHhcc
Confidence 345799999999988774 6667899999999999999998776655 499999999999999999 999999
Q ss_pred CCce
Q psy2050 87 SNCD 90 (131)
Q Consensus 87 ~~~v 90 (131)
....
T Consensus 266 s~~p 269 (689)
T KOG1000|consen 266 SIHP 269 (689)
T ss_pred cccc
Confidence 7544
No 14
>KOG0390|consensus
Probab=99.78 E-value=2.1e-19 Score=151.58 Aligned_cols=122 Identities=20% Similarity=0.132 Sum_probs=90.6
Q ss_pred cCCCCCCcchHHHHHHHHHHHHhhcc------cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCC--CCCEEEEecCCchh
Q psy2050 5 LKARNLKLAGYQLVGLNWLAVMHNQQ------LCGILADEMGLGKTIQVISFLAYLHEAGLSRP--KSPHLIIVPSSTLC 76 (131)
Q Consensus 5 ~~~~~~~L~~~Q~~~v~~l~~~~~~~------~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~--~~~~LIv~P~sl~~ 76 (131)
.|..+..|||||++|+.||++..... .|||+||+||+|||+++|++|..+.++.+... -.+.|||||.+++.
T Consensus 232 dP~l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sLv~ 311 (776)
T KOG0390|consen 232 DPLLKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSLVN 311 (776)
T ss_pred cccHhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHHHH
Confidence 35677889999999999999887533 48999999999999999999999988766411 16689999999999
Q ss_pred hhhh-hhcccC--CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 77 KYKV-PSRWRT--SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 77 ~W~~-~~~~~p--~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+|.+ |.||.- .+......+.....- ....+.-+.....+.+-|.|.||+.
T Consensus 312 nWkkEF~KWl~~~~i~~l~~~~~~~~~w---~~~~sil~~~~~~~~~~vli~sye~ 364 (776)
T KOG0390|consen 312 NWKKEFGKWLGNHRINPLDFYSTKKSSW---IKLKSILFLGYKQFTTPVLIISYET 364 (776)
T ss_pred HHHHHHHHhccccccceeeeecccchhh---hhhHHHHHhhhhheeEEEEeccHHH
Confidence 9999 999985 466666555555411 1111111223334457888999874
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=99.76 E-value=5.9e-19 Score=150.42 Aligned_cols=116 Identities=30% Similarity=0.421 Sum_probs=89.4
Q ss_pred CCCCcchHHHHHHHHHH-HHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLA-VMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~-~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~ 85 (131)
....|++||.+|++|+. .......+|+|||+||||||+++++++......... ..+|+|||||.+++.+|.+ +++|.
T Consensus 335 ~~~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~-~~~~~liv~p~s~~~nw~~e~~k~~ 413 (866)
T COG0553 335 LSAELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKV-YLGPALIVVPASLLSNWKREFEKFA 413 (866)
T ss_pred hhhhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccC-CCCCeEEEecHHHHHHHHHHHhhhC
Confidence 34678999999999999 677788899999999999999999999874443332 1479999999999999999 99999
Q ss_pred CCCc-eeeccCCCcc-----hhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 86 TSNC-DKTSPVKPQT-----ITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 86 p~~~-v~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
|.++ +..++|.... ....... ... . ...++|++|||+.+
T Consensus 414 ~~~~~~~~~~g~~~~~~~~~~~~~~~~--~~~--~--~~~~~v~itty~~l 458 (866)
T COG0553 414 PDLRLVLVYHGEKSELDKKREALRDLL--KLH--L--VIIFDVVITTYELL 458 (866)
T ss_pred ccccceeeeeCCcccccHHHHHHHHHh--hhc--c--cceeeEEechHHHH
Confidence 9999 8888887752 1111111 000 0 12389999999864
No 16
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.72 E-value=1.3e-17 Score=144.56 Aligned_cols=113 Identities=21% Similarity=0.102 Sum_probs=79.1
Q ss_pred ccCCCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hh
Q psy2050 4 ELKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PS 82 (131)
Q Consensus 4 ~~~~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~ 82 (131)
.+.+.+..|.|||...+..+..+ ...+.+||||||||||++|++++..+...+. .+|+|||||.+++.||.. +.
T Consensus 145 ~l~~~~~~l~pHQl~~~~~vl~~--~~~R~LLADEvGLGKTIeAglil~~l~~~g~---~~rvLIVvP~sL~~QW~~El~ 219 (956)
T PRK04914 145 GLRGARASLIPHQLYIAHEVGRR--HAPRVLLADEVGLGKTIEAGMIIHQQLLTGR---AERVLILVPETLQHQWLVEML 219 (956)
T ss_pred hhccCCCCCCHHHHHHHHHHhhc--cCCCEEEEeCCcCcHHHHHHHHHHHHHHcCC---CCcEEEEcCHHHHHHHHHHHH
Confidence 35668899999999998776532 3457899999999999999999888776654 489999999999999999 76
Q ss_pred cccCCCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 83 RWRTSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 83 ~~~p~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
+++. +...++....... .. .+. ..+...++++|+||+++
T Consensus 220 ~kF~-l~~~i~~~~~~~~----~~---~~~-~~pf~~~~~vI~S~~~l 258 (956)
T PRK04914 220 RRFN-LRFSLFDEERYAE----AQ---HDA-DNPFETEQLVICSLDFL 258 (956)
T ss_pred HHhC-CCeEEEcCcchhh----hc---ccc-cCccccCcEEEEEHHHh
Confidence 6553 2333333222110 00 000 01112578999999864
No 17
>KOG1015|consensus
Probab=99.71 E-value=3.3e-18 Score=145.58 Aligned_cols=112 Identities=22% Similarity=0.232 Sum_probs=80.4
Q ss_pred CCCCcchHHHHHHHHHHHHh---------hcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMH---------NQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~---------~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
.-..|+|||..||.||++.- ..+.|||||+.||||||+|+++++........ .+...+|||||.+++.||
T Consensus 665 lv~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~k-lg~ktaLvV~PlNt~~NW 743 (1567)
T KOG1015|consen 665 LVIKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDK-LGFKTALVVCPLNTALNW 743 (1567)
T ss_pred HHhhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHhhc-cCCceEEEEcchHHHHHH
Confidence 34579999999999998743 24569999999999999999999976443322 236889999999999999
Q ss_pred hh-hhcccCCCcee----e--ccCCC--cchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 79 KV-PSRWRTSNCDK----T--SPVKP--QTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 79 ~~-~~~~~p~~~v~----~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
.. |++|.+++... + ..... .++....-++++ +-.|.|..|+|
T Consensus 744 ~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~---------~ggVmIiGYdm 794 (1567)
T KOG1015|consen 744 MNEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQRWQE---------DGGVMIIGYDM 794 (1567)
T ss_pred HHHHHHhcccccccccceeehhhhccChHHHHHHHHHHHh---------cCCEEEEehHH
Confidence 99 99999863332 2 21111 222222222222 45899999987
No 18
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.58 E-value=4.9e-15 Score=125.49 Aligned_cols=99 Identities=13% Similarity=0.144 Sum_probs=74.0
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~~~ 85 (131)
....||+||+++++++... ...++|++...||.|||++++++++.+ ..++|||||.++ +.||.+ |++|+
T Consensus 252 ~~~~LRpYQ~eAl~~~~~~-gr~r~GIIvLPtGaGKTlvai~aa~~l--------~k~tLILvps~~Lv~QW~~ef~~~~ 322 (732)
T TIGR00603 252 PTTQIRPYQEKSLSKMFGN-GRARSGIIVLPCGAGKSLVGVTAACTV--------KKSCLVLCTSAVSVEQWKQQFKMWS 322 (732)
T ss_pred cCCCcCHHHHHHHHHHHhc-CCCCCcEEEeCCCCChHHHHHHHHHHh--------CCCEEEEeCcHHHHHHHHHHHHHhc
Confidence 4688999999999987531 122479999999999999999987755 478999999775 889999 99996
Q ss_pred --CCCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 86 --TSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 86 --p~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
+...+..+.+..+.. . ....+|+||||+|.
T Consensus 323 ~l~~~~I~~~tg~~k~~------~---------~~~~~VvVtTYq~l 354 (732)
T TIGR00603 323 TIDDSQICRFTSDAKER------F---------HGEAGVVVSTYSMV 354 (732)
T ss_pred CCCCceEEEEecCcccc------c---------ccCCcEEEEEHHHh
Confidence 344555555433221 0 01257999999875
No 19
>KOG0383|consensus
Probab=99.57 E-value=2.6e-16 Score=131.93 Aligned_cols=120 Identities=29% Similarity=0.406 Sum_probs=100.4
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRT 86 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p 86 (131)
....|.+||.+|++|+...+..+-.+|+|||||+|||+++++++..+...... ++|.|+++|.+.+.+|++ +..|.|
T Consensus 292 ~~g~L~~~qleGln~L~~~ws~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~--~~P~Lv~ap~sT~~nwe~e~~~wap 369 (696)
T KOG0383|consen 292 PGGTLHPYQLEGLNWLRISWSPGVDAILADEMGLGKTVQSIVFLYSLPKEIHS--PGPPLVVAPLSTIVNWEREFELWAP 369 (696)
T ss_pred CCccccccchhhhhhhhcccccCCCcccchhhcCCceeeEEEEEeecccccCC--CCCceeeccCccccCCCCchhccCC
Confidence 45889999999999999999999999999999999999999999988887776 899999999999999999 999999
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCC------------CCCCCCCcEEEEcccc
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQS------------PSQEVGYNDIIMYLNI 129 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~VvIttY~~ 129 (131)
+..+..+.|..+.+.......++.+-. ..-..++.|..++|.+
T Consensus 370 ~~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~ 424 (696)
T KOG0383|consen 370 SFYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYET 424 (696)
T ss_pred CcccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhh
Confidence 999999999887665555443332221 1123567888888865
No 20
>KOG1001|consensus
Probab=99.54 E-value=8e-15 Score=123.54 Aligned_cols=103 Identities=24% Similarity=0.254 Sum_probs=72.8
Q ss_pred hHHHHHHHHHHHHhhcc-cCeeeeCCCCCCHHHHHHHHHHHHHHhCC----CCCCCCEEEEecCCchhhhhh-hhcccC-
Q psy2050 14 GYQLVGLNWLAVMHNQQ-LCGILADEMGLGKTIQVISFLAYLHEAGL----SRPKSPHLIIVPSSTLCKYKV-PSRWRT- 86 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~-~g~ilad~mGlGKT~~~ia~l~~~~~~~~----~~~~~~~LIv~P~sl~~~W~~-~~~~~p- 86 (131)
.+|..+-.|+...+.+. .|||+||+||+|||+++++++........ ......+|||||.+++.||.. +++..+
T Consensus 135 ~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~s~~~qW~~elek~~~~ 214 (674)
T KOG1001|consen 135 LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPTSLLTQWKTELEKVTEE 214 (674)
T ss_pred HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecchHHHHHHHHHHhccCCc
Confidence 44555544444443333 38999999999999999999876655444 123678999999999999999 976664
Q ss_pred -CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 87 -SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 87 -~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
.+.+.+++| +.... ....+||||||||+|.
T Consensus 215 ~~l~v~v~~g--r~kd~------------~el~~~dVVltTy~il 245 (674)
T KOG1001|consen 215 DKLSIYVYHG--RTKDK------------SELNSYDVVLTTYDIL 245 (674)
T ss_pred cceEEEEecc--ccccc------------chhcCCceEEeeHHHh
Confidence 466777887 22111 1223689999999985
No 21
>KOG1016|consensus
Probab=99.52 E-value=1.1e-15 Score=128.44 Aligned_cols=79 Identities=32% Similarity=0.376 Sum_probs=67.4
Q ss_pred CCCCCCcchHHHHHHHHHHHHh---------hcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMH---------NQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC 76 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~---------~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~ 76 (131)
+...-.++|||.-|++||.+.. ..+.|||||+.||||||+|+|+++-...+... .+.+|+|+|...+.
T Consensus 249 pqla~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflRhT~---AKtVL~ivPiNTlQ 325 (1387)
T KOG1016|consen 249 PQLAHVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLRHTK---AKTVLVIVPINTLQ 325 (1387)
T ss_pred hhhHhhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhhcCc---cceEEEEEehHHHH
Confidence 4456678999999999997654 24569999999999999999999877666554 48899999999999
Q ss_pred hhhh-hhcccCC
Q psy2050 77 KYKV-PSRWRTS 87 (131)
Q Consensus 77 ~W~~-~~~~~p~ 87 (131)
||-. |.+|.|.
T Consensus 326 NWlsEfnmWiP~ 337 (1387)
T KOG1016|consen 326 NWLSEFNMWIPK 337 (1387)
T ss_pred HHHHHhhhhcCC
Confidence 9999 9999987
No 22
>KOG1123|consensus
Probab=99.20 E-value=8.5e-12 Score=101.58 Aligned_cols=98 Identities=16% Similarity=0.206 Sum_probs=74.4
Q ss_pred CCCCCcchHHHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hh
Q psy2050 7 ARNLKLAGYQLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PS 82 (131)
Q Consensus 7 ~~~~~L~~~Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~ 82 (131)
.+...+||||...++-|.- ++ +.||+.-.+|.|||+.-++.++.+ ++.+||+|.+++ +.||.+ |.
T Consensus 298 KPst~iRpYQEksL~KMFG---NgRARSGiIVLPCGAGKtLVGvTAa~ti--------kK~clvLcts~VSVeQWkqQfk 366 (776)
T KOG1123|consen 298 KPSTQIRPYQEKSLSKMFG---NGRARSGIIVLPCGAGKTLVGVTAACTI--------KKSCLVLCTSAVSVEQWKQQFK 366 (776)
T ss_pred CcccccCchHHHHHHHHhC---CCcccCceEEEecCCCCceeeeeeeeee--------cccEEEEecCccCHHHHHHHHH
Confidence 4678899999999987762 33 368999999999999999887766 688999999888 999999 99
Q ss_pred cccC--CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 83 RWRT--SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 83 ~~~p--~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
.|.. +-.+..+....+ ..+..+.+||||||+|.
T Consensus 367 ~wsti~d~~i~rFTsd~K---------------e~~~~~~gvvvsTYsMv 401 (776)
T KOG1123|consen 367 QWSTIQDDQICRFTSDAK---------------ERFPSGAGVVVTTYSMV 401 (776)
T ss_pred hhcccCccceEEeecccc---------------ccCCCCCcEEEEeeehh
Confidence 9973 223333322222 22333578999999995
No 23
>KOG0298|consensus
Probab=99.19 E-value=8.9e-12 Score=109.05 Aligned_cols=89 Identities=19% Similarity=0.078 Sum_probs=64.7
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHh------------CC-CCCCCCEEEEecCCchhhhhh-hhcccCCC-ceeeccCC
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEA------------GL-SRPKSPHLIIVPSSTLCKYKV-PSRWRTSN-CDKTSPVK 96 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~------------~~-~~~~~~~LIv~P~sl~~~W~~-~~~~~p~~-~v~~~~~~ 96 (131)
.+++|||||+|||...++........ +. ....+.||||||.+++.||-. |++|++.+ +|..|-|-
T Consensus 376 ~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~~lKv~~Y~Gi 455 (1394)
T KOG0298|consen 376 RVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISSLLKVLLYFGI 455 (1394)
T ss_pred ceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccccceEEEEech
Confidence 45999999999999999875433211 10 012588999999999999999 99999887 88887775
Q ss_pred CcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 97 PQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
.+.-.... .-...||||+||||++
T Consensus 456 rk~~~~~~----------~el~~yDIVlTtYdiL 479 (1394)
T KOG0298|consen 456 RKTFWLSP----------FELLQYDIVLTTYDIL 479 (1394)
T ss_pred hhhcccCc----------hhhhccCEEEeehHHH
Confidence 54321111 1112599999999975
No 24
>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=99.15 E-value=4.9e-11 Score=84.10 Aligned_cols=73 Identities=22% Similarity=0.272 Sum_probs=58.1
Q ss_pred CCCcchHHHHHHHHHHHHhhcc---cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQ---LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~---~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
+.+||+||.+++.-+.+..... ..+++...+|.|||..++.++..+.. +++++||. +++.||.+ +..
T Consensus 1 ~~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~--------~~l~~~p~~~l~~Q~~~~~~~ 72 (184)
T PF04851_consen 1 KYKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR--------KVLIVAPNISLLEQWYDEFDD 72 (184)
T ss_dssp --EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC--------EEEEEESSHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc--------ceeEecCHHHHHHHHHHHHHH
Confidence 3679999999998887766554 67899999999999999988877743 89999996 78999999 977
Q ss_pred ccCCCc
Q psy2050 84 WRTSNC 89 (131)
Q Consensus 84 ~~p~~~ 89 (131)
+.+...
T Consensus 73 ~~~~~~ 78 (184)
T PF04851_consen 73 FGSEKY 78 (184)
T ss_dssp HSTTSE
T ss_pred hhhhhh
Confidence 665533
No 25
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.07 E-value=5.5e-10 Score=90.69 Aligned_cols=84 Identities=23% Similarity=0.233 Sum_probs=64.7
Q ss_pred CCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcc
Q psy2050 7 ARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRW 84 (131)
Q Consensus 7 ~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~ 84 (131)
.....||+||+++++-+.......+.|++.-..|.|||+.++..+... ..++|||||. .++.||.+ +.++
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~--------~~~~Lvlv~~~~L~~Qw~~~~~~~ 103 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAEL--------KRSTLVLVPTKELLDQWAEALKKF 103 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHh--------cCCEEEEECcHHHHHHHHHHHHHh
Confidence 456789999999998666544447889999999999999999988766 4569999995 57889988 7777
Q ss_pred cCCC-ceeeccCCCc
Q psy2050 85 RTSN-CDKTSPVKPQ 98 (131)
Q Consensus 85 ~p~~-~v~~~~~~~~ 98 (131)
.... .+-.+++...
T Consensus 104 ~~~~~~~g~~~~~~~ 118 (442)
T COG1061 104 LLLNDEIGIYGGGEK 118 (442)
T ss_pred cCCccccceecCcee
Confidence 6554 3444444333
No 26
>PRK13766 Hef nuclease; Provisional
Probab=99.02 E-value=1.8e-09 Score=92.67 Aligned_cols=104 Identities=15% Similarity=0.069 Sum_probs=72.7
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
.....++|+||++.+.... .+ ++++++++|+|||++++..+...... . .+++||+||. .++.||.+ +++
T Consensus 10 ~~~~~~~r~yQ~~~~~~~l----~~-n~lv~~ptG~GKT~~a~~~i~~~l~~-~---~~~vLvl~Pt~~L~~Q~~~~~~~ 80 (773)
T PRK13766 10 KPNTIEARLYQQLLAATAL----KK-NTLVVLPTGLGKTAIALLVIAERLHK-K---GGKVLILAPTKPLVEQHAEFFRK 80 (773)
T ss_pred CcCcCCccHHHHHHHHHHh----cC-CeEEEcCCCccHHHHHHHHHHHHHHh-C---CCeEEEEeCcHHHHHHHHHHHHH
Confidence 3456788999999887655 23 78999999999999988877665432 1 5889999997 78899999 888
Q ss_pred ccCC--CceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 84 WRTS--NCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 84 ~~p~--~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+... .++..+.+........... . +.+|+++|+.+
T Consensus 81 ~~~~~~~~v~~~~g~~~~~~r~~~~--~---------~~~iiv~T~~~ 117 (773)
T PRK13766 81 FLNIPEEKIVVFTGEVSPEKRAELW--E---------KAKVIVATPQV 117 (773)
T ss_pred HhCCCCceEEEEeCCCCHHHHHHHH--h---------CCCEEEECHHH
Confidence 7643 3565555543322111111 1 36799999864
No 27
>PHA02558 uvsW UvsW helicase; Provisional
Probab=98.97 E-value=2.7e-09 Score=87.79 Aligned_cols=69 Identities=20% Similarity=0.152 Sum_probs=54.4
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
+..|++||.+++.-++ .+..+++....|.|||+.+..++......+ ..++||+||. .++.||.+ +++|.
T Consensus 112 ~~~~r~~Q~~av~~~l----~~~~~il~apTGsGKT~i~~~l~~~~~~~~----~~~vLilvpt~eL~~Q~~~~l~~~~ 182 (501)
T PHA02558 112 KIEPHWYQYDAVYEGL----KNNRRLLNLPTSAGKSLIQYLLSRYYLENY----EGKVLIIVPTTSLVTQMIDDFVDYR 182 (501)
T ss_pred cCCCCHHHHHHHHHHH----hcCceEEEeCCCCCHHHHHHHHHHHHHhcC----CCeEEEEECcHHHHHHHHHHHHHhc
Confidence 5789999999997666 456789999999999998766543332222 3589999995 78999999 99876
No 28
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.94 E-value=8.2e-09 Score=72.52 Aligned_cols=73 Identities=22% Similarity=0.152 Sum_probs=59.3
Q ss_pred CCCCcchHHHHHHHHHHHHhhcc-cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQ-LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRW 84 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~-~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~ 84 (131)
...+++++|.+++..+. .. ..+++..++|.|||..++..+........ ..++|+++| ..+..||.. +.++
T Consensus 5 ~~~~~~~~Q~~~~~~~~----~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~---~~~~l~~~p~~~~~~~~~~~~~~~ 77 (201)
T smart00487 5 GFEPLRPYQKEAIEALL----SGLRDVILAAPTGSGKTLAALLPALEALKRGK---GKRVLVLVPTRELAEQWAEELKKL 77 (201)
T ss_pred CCCCCCHHHHHHHHHHH----cCCCcEEEECCCCCchhHHHHHHHHHHhcccC---CCcEEEEeCCHHHHHHHHHHHHHH
Confidence 35678999999998887 55 78899999999999988877766555433 378999999 567889999 8888
Q ss_pred cCC
Q psy2050 85 RTS 87 (131)
Q Consensus 85 ~p~ 87 (131)
.+.
T Consensus 78 ~~~ 80 (201)
T smart00487 78 GPS 80 (201)
T ss_pred hcc
Confidence 765
No 29
>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=98.67 E-value=2.3e-07 Score=67.07 Aligned_cols=104 Identities=12% Similarity=-0.017 Sum_probs=67.0
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccC--
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRT-- 86 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p-- 86 (131)
+++++|.+++.-+. .++..++..+.|.|||...+..+.............+++|++|. .++.|+.+ ++++..
T Consensus 21 ~~~~~Q~~~~~~~~----~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~ 96 (203)
T cd00268 21 KPTPIQARAIPPLL----SGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHT 96 (203)
T ss_pred CCCHHHHHHHHHHh----cCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccC
Confidence 48999999998877 57788999999999998855444333332211114679999995 67889998 888865
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
+.++..+.++....... ... + .+.+|+|+|.+
T Consensus 97 ~~~~~~~~~~~~~~~~~-~~~-~--------~~~~iiv~T~~ 128 (203)
T cd00268 97 NLKVVVIYGGTSIDKQI-RKL-K--------RGPHIVVATPG 128 (203)
T ss_pred CceEEEEECCCCHHHHH-HHh-c--------CCCCEEEEChH
Confidence 34444444433321111 111 1 14689998854
No 30
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=98.61 E-value=2.4e-07 Score=61.40 Aligned_cols=85 Identities=12% Similarity=-0.036 Sum_probs=57.1
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh-hhhh-hhcccC-CCceeeccCCCcchhhhhhcCc
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC-KYKV-PSRWRT-SNCDKTSPVKPQTITVAQLRVP 108 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~-~W~~-~~~~~p-~~~v~~~~~~~~~~~~~~~~~~ 108 (131)
+.++..++|.|||.+++.++........ ..+++|+||...+. +|.+ +.++.. ..++....+......... .
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~---~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-- 75 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLK---GGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQEK-L-- 75 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhccc---CCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHHH-H--
Confidence 5788999999999999999887766522 58999999987655 5555 888876 444444443332221110 0
Q ss_pred cCCCCCCCCCCCcEEEEcccc
Q psy2050 109 ECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 109 ~~~~~~~~~~~~~VvIttY~~ 129 (131)
.....+++++||+.
T Consensus 76 -------~~~~~~i~i~t~~~ 89 (144)
T cd00046 76 -------LSGKTDIVVGTPGR 89 (144)
T ss_pred -------hcCCCCEEEECcHH
Confidence 11247899999873
No 31
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=98.59 E-value=2e-07 Score=83.09 Aligned_cols=75 Identities=23% Similarity=0.080 Sum_probs=60.8
Q ss_pred CCCcchHHHHHHHHHHHHhhc-ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhccc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQ-QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRWR 85 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~-~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~~ 85 (131)
...||+||.+|+.-+...... .+++++....|.|||.++++++..+..... ..++|+++| ..|+.||.+ |..+.
T Consensus 411 ~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~---~~rVLfLvDR~~L~~Qa~~~F~~~~ 487 (1123)
T PRK11448 411 GLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKR---FRRILFLVDRSALGEQAEDAFKDTK 487 (1123)
T ss_pred CCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCc---cCeEEEEecHHHHHHHHHHHHHhcc
Confidence 367999999999877665543 457899999999999999998877765543 378999999 578999999 99874
Q ss_pred C
Q psy2050 86 T 86 (131)
Q Consensus 86 p 86 (131)
+
T Consensus 488 ~ 488 (1123)
T PRK11448 488 I 488 (1123)
T ss_pred c
Confidence 3
No 32
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.54 E-value=3.7e-07 Score=79.51 Aligned_cols=104 Identities=10% Similarity=-0.007 Sum_probs=74.6
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchh-hhhhhhccc---
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLC-KYKVPSRWR--- 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~-~W~~~~~~~--- 85 (131)
+|++||.+|.+.+. .++.-++...+|.|||..-+--|........ ....|+|-|. .|.. |=+++.+|.
T Consensus 70 ~lY~HQ~~A~~~~~----~G~~vvVtTgTgSGKTe~FllPIld~~l~~~---~a~AL~lYPtnALa~DQ~~rl~~~~~~~ 142 (851)
T COG1205 70 RLYSHQVDALRLIR----EGRNVVVTTGTGSGKTESFLLPILDHLLRDP---SARALLLYPTNALANDQAERLRELISDL 142 (851)
T ss_pred cccHHHHHHHHHHH----CCCCEEEECCCCCchhHHHHHHHHHHHhhCc---CccEEEEechhhhHhhHHHHHHHHHHhC
Confidence 39999999998888 8889999999999999987766655444433 3688999995 5554 333377776
Q ss_pred C-CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccCC
Q psy2050 86 T-SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIPH 131 (131)
Q Consensus 86 p-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~~ 131 (131)
| .+++..|.|.........+.. ...+||+|+|+|+|
T Consensus 143 ~~~v~~~~y~Gdt~~~~r~~~~~----------~pp~IllTNpdMLh 179 (851)
T COG1205 143 PGKVTFGRYTGDTPPEERRAIIR----------NPPDILLTNPDMLH 179 (851)
T ss_pred CCcceeeeecCCCChHHHHHHHh----------CCCCEEEeCHHHHH
Confidence 3 345556777765544432221 13799999999998
No 33
>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family. Members of this family are assumed to differ from each other in DNA site specificity.
Probab=98.44 E-value=5.2e-07 Score=76.79 Aligned_cols=76 Identities=11% Similarity=0.005 Sum_probs=60.8
Q ss_pred CCCcchHHHHHHHHHHHHhhc------ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQ------QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV- 80 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~------~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~- 80 (131)
+.-.|.||.+|++-+...... .++|++....|.|||++++.++..+..... ..++|||+| ..|..||.+
T Consensus 236 k~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~---~~~vl~lvdR~~L~~Q~~~~ 312 (667)
T TIGR00348 236 KPYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLK---NPKVFFVVDRRELDYQLMKE 312 (667)
T ss_pred eeehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcC---CCeEEEEECcHHHHHHHHHH
Confidence 344688999999988877654 358999999999999999998877664332 467899999 568999999
Q ss_pred hhcccCC
Q psy2050 81 PSRWRTS 87 (131)
Q Consensus 81 ~~~~~p~ 87 (131)
|+++.++
T Consensus 313 f~~~~~~ 319 (667)
T TIGR00348 313 FQSLQKD 319 (667)
T ss_pred HHhhCCC
Confidence 9998753
No 34
>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=98.38 E-value=2.9e-06 Score=59.13 Aligned_cols=100 Identities=12% Similarity=-0.021 Sum_probs=67.7
Q ss_pred hHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccCC--Cc
Q psy2050 14 GYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRTS--NC 89 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p~--~~ 89 (131)
|+|.+++.-+. +++..++....|.|||...+..+.....+.. ...+++++|. +++.|=.+ +.++... .+
T Consensus 2 ~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~~---~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~ 74 (169)
T PF00270_consen 2 PLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEGK---DARVLIIVPTRALAEQQFERLRKFFSNTNVR 74 (169)
T ss_dssp HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTTS---SSEEEEEESSHHHHHHHHHHHHHHTTTTTSS
T ss_pred HHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccCC---CceEEEEeecccccccccccccccccccccc
Confidence 78999998777 5666899999999999999876665554432 4689999995 57777777 7777754 55
Q ss_pred eeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 90 DKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 90 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+....++.......... .. .+.+|+|+|++.
T Consensus 75 ~~~~~~~~~~~~~~~~~-~~--------~~~~ilv~T~~~ 105 (169)
T PF00270_consen 75 VVLLHGGQSISEDQREV-LS--------NQADILVTTPEQ 105 (169)
T ss_dssp EEEESTTSCHHHHHHHH-HH--------TTSSEEEEEHHH
T ss_pred ccccccccccccccccc-cc--------ccccccccCcch
Confidence 65554444321111111 11 147899999864
No 35
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.37 E-value=1.5e-06 Score=73.49 Aligned_cols=111 Identities=11% Similarity=-0.041 Sum_probs=74.0
Q ss_pred CCCCCcchHHHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hh
Q psy2050 7 ARNLKLAGYQLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PS 82 (131)
Q Consensus 7 ~~~~~L~~~Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~ 82 (131)
..+++|.++|++++.-+....... ...++..+.|.|||+.++..+...... ...++|++|. .+..|+.+ ++
T Consensus 231 ~lpf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~-----g~qvlilaPT~~LA~Q~~~~~~ 305 (630)
T TIGR00643 231 SLPFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA-----GYQVALMAPTEILAEQHYNSLR 305 (630)
T ss_pred hCCCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc-----CCcEEEECCHHHHHHHHHHHHH
Confidence 467899999999998877654332 257889999999999887555444333 3679999995 56789999 99
Q ss_pred cccCC--CceeeccCCCcchh-hhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 83 RWRTS--NCDKTSPVKPQTIT-VAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 83 ~~~p~--~~v~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
++++. .++....++..... ........ ..+.+|||.|..+
T Consensus 306 ~l~~~~gi~v~lltg~~~~~~r~~~~~~i~-------~g~~~IiVgT~~l 348 (630)
T TIGR00643 306 NLLAPLGIEVALLTGSLKGKRRKELLETIA-------SGQIHLVVGTHAL 348 (630)
T ss_pred HHhcccCcEEEEEecCCCHHHHHHHHHHHh-------CCCCCEEEecHHH
Confidence 99874 56555555433211 11111111 1136899988754
No 36
>PRK01172 ski2-like helicase; Provisional
Probab=98.36 E-value=2.1e-06 Score=73.02 Aligned_cols=80 Identities=23% Similarity=0.107 Sum_probs=59.1
Q ss_pred CCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcc
Q psy2050 7 ARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRW 84 (131)
Q Consensus 7 ~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~ 84 (131)
+.++.|+++|.+++.-+. .+...+++.+.|.|||+.+...+...... ..++++++| .+++.|+.+ +.++
T Consensus 18 ~~~~~l~~~Q~~ai~~l~----~~~nvlv~apTGSGKTl~a~lail~~l~~-----~~k~v~i~P~raLa~q~~~~~~~l 88 (674)
T PRK01172 18 GNDFELYDHQRMAIEQLR----KGENVIVSVPTAAGKTLIAYSAIYETFLA-----GLKSIYIVPLRSLAMEKYEELSRL 88 (674)
T ss_pred hCCCCCCHHHHHHHHHHh----cCCcEEEECCCCchHHHHHHHHHHHHHHh-----CCcEEEEechHHHHHHHHHHHHHH
Confidence 456789999999998764 67789999999999999887665544333 367899999 467888888 8776
Q ss_pred cC-CCceeeccC
Q psy2050 85 RT-SNCDKTSPV 95 (131)
Q Consensus 85 ~p-~~~v~~~~~ 95 (131)
.. +.++....|
T Consensus 89 ~~~g~~v~~~~G 100 (674)
T PRK01172 89 RSLGMRVKISIG 100 (674)
T ss_pred hhcCCeEEEEeC
Confidence 43 344444333
No 37
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.24 E-value=7.7e-06 Score=66.51 Aligned_cols=101 Identities=15% Similarity=-0.022 Sum_probs=67.1
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc---
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR--- 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~--- 85 (131)
.+.|+|.+++..+. .+...++....|.|||...+..+......... ...+||+||. .+..|+.+ ++++.
T Consensus 26 ~~t~iQ~~ai~~~l----~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~--~~~~lil~PtreLa~Q~~~~~~~~~~~~ 99 (460)
T PRK11776 26 EMTPIQAQSLPAIL----AGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRF--RVQALVLCPTRELADQVAKEIRRLARFI 99 (460)
T ss_pred CCCHHHHHHHHHHh----cCCCEEEECCCCCcHHHHHHHHHHHHhhhccC--CceEEEEeCCHHHHHHHHHHHHHHHhhC
Confidence 47899999998887 77788999999999997655444333222211 2358999995 67889998 87764
Q ss_pred CCCceeeccCCCc-chhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 86 TSNCDKTSPVKPQ-TITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 86 p~~~v~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
+..++....++.. ......+. .+.+|||+|..
T Consensus 100 ~~~~v~~~~Gg~~~~~~~~~l~-----------~~~~IvV~Tp~ 132 (460)
T PRK11776 100 PNIKVLTLCGGVPMGPQIDSLE-----------HGAHIIVGTPG 132 (460)
T ss_pred CCcEEEEEECCCChHHHHHHhc-----------CCCCEEEEChH
Confidence 4566666544432 22222222 14689998854
No 38
>PTZ00424 helicase 45; Provisional
Probab=98.24 E-value=6.7e-06 Score=65.29 Aligned_cols=74 Identities=18% Similarity=0.091 Sum_probs=53.9
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccCCC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRTSN 88 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p~~ 88 (131)
.+.++|.+++..+. .+...++..+.|.|||+..+-.+......... ...+||++|. .++.|+.+ +..+....
T Consensus 50 ~~~~~Q~~ai~~i~----~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~--~~~~lil~Pt~~L~~Q~~~~~~~~~~~~ 123 (401)
T PTZ00424 50 KPSAIQQRGIKPIL----DGYDTIGQAQSGTGKTATFVIAALQLIDYDLN--ACQALILAPTRELAQQIQKVVLALGDYL 123 (401)
T ss_pred CCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHhcCCCC--CceEEEECCCHHHHHHHHHHHHHHhhhc
Confidence 58899999998877 77788999999999998765444333322211 4679999995 57788888 77776544
Q ss_pred ce
Q psy2050 89 CD 90 (131)
Q Consensus 89 ~v 90 (131)
.+
T Consensus 124 ~~ 125 (401)
T PTZ00424 124 KV 125 (401)
T ss_pred Cc
Confidence 33
No 39
>PRK02362 ski2-like helicase; Provisional
Probab=98.24 E-value=4.5e-06 Score=71.73 Aligned_cols=98 Identities=13% Similarity=-0.098 Sum_probs=67.1
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcccC-
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRWRT- 86 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~~p- 86 (131)
.+|+|+|.+++.-.. ..+...+++-..|.|||+.+.-.+...... .+++++|+| .+++.|+.+ ++++.+
T Consensus 22 ~~l~p~Q~~ai~~~~---~~g~nvlv~APTGSGKTlia~lail~~l~~-----~~kal~i~P~raLa~q~~~~~~~~~~~ 93 (737)
T PRK02362 22 EELYPPQAEAVEAGL---LDGKNLLAAIPTASGKTLIAELAMLKAIAR-----GGKALYIVPLRALASEKFEEFERFEEL 93 (737)
T ss_pred CcCCHHHHHHHHHHH---hCCCcEEEECCCcchHHHHHHHHHHHHHhc-----CCcEEEEeChHHHHHHHHHHHHHhhcC
Confidence 469999999986532 267788999999999999886544433322 478999999 578888888 887754
Q ss_pred CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 87 SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 87 ~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
+.++....|+..... .. ..+.+|||+|++
T Consensus 94 g~~v~~~tGd~~~~~----~~---------l~~~~IiV~Tpe 122 (737)
T PRK02362 94 GVRVGISTGDYDSRD----EW---------LGDNDIIVATSE 122 (737)
T ss_pred CCEEEEEeCCcCccc----cc---------cCCCCEEEECHH
Confidence 456655554332211 01 124689999964
No 40
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.20 E-value=6.4e-06 Score=70.33 Aligned_cols=87 Identities=13% Similarity=0.007 Sum_probs=64.1
Q ss_pred CCCCCcchHHHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hh
Q psy2050 7 ARNLKLAGYQLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PS 82 (131)
Q Consensus 7 ~~~~~L~~~Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~ 82 (131)
...++|.++|++++.-+..-.... ...++..++|.|||+.++..+...... ...++|++|. .+..|..+ ++
T Consensus 257 ~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~-----g~q~lilaPT~~LA~Q~~~~l~ 331 (681)
T PRK10917 257 SLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA-----GYQAALMAPTEILAEQHYENLK 331 (681)
T ss_pred hCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc-----CCeEEEEeccHHHHHHHHHHHH
Confidence 357889999999998777544332 256889999999999888666544433 3679999996 56778888 99
Q ss_pred cccCC--CceeeccCCCc
Q psy2050 83 RWRTS--NCDKTSPVKPQ 98 (131)
Q Consensus 83 ~~~p~--~~v~~~~~~~~ 98 (131)
++++. +++....++..
T Consensus 332 ~l~~~~~i~v~ll~G~~~ 349 (681)
T PRK10917 332 KLLEPLGIRVALLTGSLK 349 (681)
T ss_pred HHHhhcCcEEEEEcCCCC
Confidence 99876 55555555543
No 41
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.20 E-value=8.6e-06 Score=66.56 Aligned_cols=106 Identities=13% Similarity=-0.031 Sum_probs=67.6
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCC-----CCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLS-----RPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~-----~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
.+.+||.+++..+. .++..|+....|.|||+..+--+......... .+...+||++|. .+..|+.+ ++.
T Consensus 109 ~~~~iQ~~ai~~~~----~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~~ 184 (475)
T PRK01297 109 YCTPIQAQVLGYTL----AGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAAA 184 (475)
T ss_pred CCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 47899999998877 77888999999999998655433322222111 113568999995 67889988 887
Q ss_pred ccCC--CceeeccCCCc-chhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 84 WRTS--NCDKTSPVKPQ-TITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 84 ~~p~--~~v~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
+... .++..+.++.. ........ . ...+|||+|.+++
T Consensus 185 l~~~~~~~v~~~~gg~~~~~~~~~~~--~--------~~~~Iiv~TP~~L 224 (475)
T PRK01297 185 LTKYTGLNVMTFVGGMDFDKQLKQLE--A--------RFCDILVATPGRL 224 (475)
T ss_pred hhccCCCEEEEEEccCChHHHHHHHh--C--------CCCCEEEECHHHH
Confidence 7654 44544444432 21111111 0 1368999997653
No 42
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.20 E-value=1.1e-05 Score=65.75 Aligned_cols=76 Identities=13% Similarity=0.011 Sum_probs=54.8
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCC----CCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLS----RPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~----~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
..+.++|.+++.-+. .++..++....|.|||+..+.-+......... .....+||+||. .|+.||.+ +.+
T Consensus 22 ~~pt~iQ~~ai~~il----~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 22 REPTPIQQQAIPAVL----EGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred CCCCHHHHHHHHHHh----CCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 367899999998877 67788999999999999866544433222111 012358999995 67889999 888
Q ss_pred ccCCCc
Q psy2050 84 WRTSNC 89 (131)
Q Consensus 84 ~~p~~~ 89 (131)
+.....
T Consensus 98 ~~~~~~ 103 (456)
T PRK10590 98 YSKYLN 103 (456)
T ss_pred HhccCC
Confidence 875543
No 43
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.17 E-value=6.2e-06 Score=70.86 Aligned_cols=82 Identities=13% Similarity=0.146 Sum_probs=71.6
Q ss_pred CCCCcchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRW 84 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~ 84 (131)
....+|.||..|++.......+++ ..+|....|.|||.+|++++..+.+.+.. +++|.++- .+++.|=.. |+.|
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~---KRVLFLaDR~~Lv~QA~~af~~~ 238 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWV---KRVLFLADRNALVDQAYGAFEDF 238 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchh---heeeEEechHHHHHHHHHHHHHh
Confidence 566789999999999998887766 68889999999999999999998887764 89999999 688999888 9999
Q ss_pred cCCCceee
Q psy2050 85 RTSNCDKT 92 (131)
Q Consensus 85 ~p~~~v~~ 92 (131)
.|...+..
T Consensus 239 ~P~~~~~n 246 (875)
T COG4096 239 LPFGTKMN 246 (875)
T ss_pred CCCcccee
Confidence 99876655
No 44
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.12 E-value=7.5e-06 Score=70.76 Aligned_cols=98 Identities=15% Similarity=0.025 Sum_probs=72.7
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhccc-CC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRWR-TS 87 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~~-p~ 87 (131)
.|++.|+.++.-... .+.+.+++-..|.|||+.+..++.....++ .++.+-||| .+|+.+=.+ |++|. -+
T Consensus 31 el~~~qq~av~~~~~---~~~N~li~aPTgsGKTlIA~lai~~~l~~~----~~k~vYivPlkALa~Ek~~~~~~~~~~G 103 (766)
T COG1204 31 ELFNPQQEAVEKGLL---SDENVLISAPTGSGKTLIALLAILSTLLEG----GGKVVYIVPLKALAEEKYEEFSRLEELG 103 (766)
T ss_pred HhhHHHHHHhhcccc---CCCcEEEEcCCCCchHHHHHHHHHHHHHhc----CCcEEEEeChHHHHHHHHHHhhhHHhcC
Confidence 789999999865443 367889999999999999998887666554 489999999 577777666 77665 35
Q ss_pred CceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 88 NCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 88 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
++|..+.|+-.... . ...+++||||||+
T Consensus 104 irV~~~TgD~~~~~-~------------~l~~~~ViVtT~E 131 (766)
T COG1204 104 IRVGISTGDYDLDD-E------------RLARYDVIVTTPE 131 (766)
T ss_pred CEEEEecCCcccch-h------------hhccCCEEEEchH
Confidence 67777666554321 1 1226899999985
No 45
>PRK00254 ski2-like helicase; Provisional
Probab=98.11 E-value=1.4e-05 Score=68.61 Aligned_cols=97 Identities=15% Similarity=0.019 Sum_probs=65.0
Q ss_pred CCcchHHHHHHH-HHHHHhhcccCeeeeCCCCCCHHHHHHHHHH-HHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 10 LKLAGYQLVGLN-WLAVMHNQQLCGILADEMGLGKTIQVISFLA-YLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 10 ~~L~~~Q~~~v~-~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~-~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
..|+|+|.+++. ++. .+...+++...|.|||..+...+. .+... ..++++++|. .++.|+.+ +++|.
T Consensus 22 ~~l~~~Q~~ai~~~~~----~g~nvlv~apTGsGKT~~~~l~il~~l~~~-----~~~~l~l~P~~aLa~q~~~~~~~~~ 92 (720)
T PRK00254 22 EELYPPQAEALKSGVL----EGKNLVLAIPTASGKTLVAEIVMVNKLLRE-----GGKAVYLVPLKALAEEKYREFKDWE 92 (720)
T ss_pred CCCCHHHHHHHHHHHh----CCCcEEEECCCCcHHHHHHHHHHHHHHHhc-----CCeEEEEeChHHHHHHHHHHHHHHh
Confidence 368999999986 344 677889999999999998854433 33222 4689999994 67888888 88774
Q ss_pred C-CCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 86 T-SNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 86 p-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
. +.++....|+-... . .. ..+++|||+|.+
T Consensus 93 ~~g~~v~~~~Gd~~~~-~---~~---------~~~~~IiV~Tpe 123 (720)
T PRK00254 93 KLGLRVAMTTGDYDST-D---EW---------LGKYDIIIATAE 123 (720)
T ss_pred hcCCEEEEEeCCCCCc-h---hh---------hccCCEEEEcHH
Confidence 3 34555444432211 0 11 124789999964
No 46
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.10 E-value=2.1e-05 Score=66.69 Aligned_cols=80 Identities=14% Similarity=-0.005 Sum_probs=56.3
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc---
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR--- 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~--- 85 (131)
.+.|+|.+++..+. .+...|+.-..|.|||+..+..+......... ...+||+||. .++.|+.+ ++++.
T Consensus 28 ~ptpiQ~~ai~~ll----~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~--~~~~LIL~PTreLa~Qv~~~l~~~~~~~ 101 (629)
T PRK11634 28 KPSPIQAECIPHLL----NGRDVLGMAQTGSGKTAAFSLPLLHNLDPELK--APQILVLAPTRELAVQVAEAMTDFSKHM 101 (629)
T ss_pred CCCHHHHHHHHHHH----cCCCEEEEcCCCCcHHHHHHHHHHHHhhhccC--CCeEEEEeCcHHHHHHHHHHHHHHHhhc
Confidence 57899999998877 66778888999999999764333322222211 3468999995 67889988 77664
Q ss_pred CCCceeeccCC
Q psy2050 86 TSNCDKTSPVK 96 (131)
Q Consensus 86 p~~~v~~~~~~ 96 (131)
+++++...+++
T Consensus 102 ~~i~v~~~~gG 112 (629)
T PRK11634 102 RGVNVVALYGG 112 (629)
T ss_pred CCceEEEEECC
Confidence 56677664444
No 47
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.08 E-value=2.8e-05 Score=62.74 Aligned_cols=105 Identities=10% Similarity=-0.096 Sum_probs=66.7
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCC--CCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGL--SRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~--~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
.++.++|.+++..++ .+...++....|.|||+..+..+........ ..+...+||++|. .++.|+.+ +..+.
T Consensus 22 ~~p~~iQ~~ai~~~~----~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~ 97 (434)
T PRK11192 22 TRPTAIQAEAIPPAL----DGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELA 97 (434)
T ss_pred CCCCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHH
Confidence 357899999998877 6778899999999999886554433221111 1113568999995 57888888 88776
Q ss_pred CC--CceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 86 TS--NCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 86 p~--~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
.. +++....++....... .... .+.+|||+|..
T Consensus 98 ~~~~~~v~~~~gg~~~~~~~--~~l~--------~~~~IlV~Tp~ 132 (434)
T PRK11192 98 KHTHLDIATITGGVAYMNHA--EVFS--------ENQDIVVATPG 132 (434)
T ss_pred ccCCcEEEEEECCCCHHHHH--HHhc--------CCCCEEEEChH
Confidence 44 4555555443322111 1111 14689998853
No 48
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.03 E-value=3.7e-05 Score=65.73 Aligned_cols=82 Identities=13% Similarity=-0.020 Sum_probs=60.9
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
....|.++|.++++.+.... .....++....|.|||...+..+...... .+.+||++|. .+..|+.+ +++.+
T Consensus 141 ~~~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~-----g~~vLvLvPt~~L~~Q~~~~l~~~f 214 (679)
T PRK05580 141 EPPTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQ-----GKQALVLVPEIALTPQMLARFRARF 214 (679)
T ss_pred CCCCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHc-----CCeEEEEeCcHHHHHHHHHHHHHHh
Confidence 45679999999998876432 23457888899999999888766554443 2679999995 68899999 98877
Q ss_pred CCCceeeccCC
Q psy2050 86 TSNCDKTSPVK 96 (131)
Q Consensus 86 p~~~v~~~~~~ 96 (131)
+ .++..++++
T Consensus 215 g-~~v~~~~s~ 224 (679)
T PRK05580 215 G-APVAVLHSG 224 (679)
T ss_pred C-CCEEEEECC
Confidence 4 456665544
No 49
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.03 E-value=4.1e-05 Score=61.65 Aligned_cols=103 Identities=13% Similarity=0.004 Sum_probs=65.5
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHH-HHHhCCC----CCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAY-LHEAGLS----RPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~-~~~~~~~----~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
.+.+.|.+++.-++ .++..++..+.|.|||+..+..+.. +...... .....+||++|. .++.|+.+ +.+
T Consensus 30 ~pt~iQ~~aip~il----~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 30 NCTPIQALALPLTL----AGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCHHHHHHHHHHh----CCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 45789999998777 7788888999999999977654433 2221110 112468999995 57889988 777
Q ss_pred ccC--CCceeeccCCCcc-hhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 84 WRT--SNCDKTSPVKPQT-ITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 84 ~~p--~~~v~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
+.. ++++....++... ....... .+.+|||+|..
T Consensus 106 l~~~~~~~v~~~~gg~~~~~~~~~l~-----------~~~~IlV~TP~ 142 (423)
T PRK04837 106 LAQATGLKLGLAYGGDGYDKQLKVLE-----------SGVDILIGTTG 142 (423)
T ss_pred HhccCCceEEEEECCCCHHHHHHHhc-----------CCCCEEEECHH
Confidence 764 3555554444322 1111111 14689998864
No 50
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=97.98 E-value=4.8e-05 Score=63.08 Aligned_cols=103 Identities=9% Similarity=-0.002 Sum_probs=66.0
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHH-HHHHhC---CC-CCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLA-YLHEAG---LS-RPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~-~~~~~~---~~-~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
.+.|+|.+++..++ .++..++..+.|.|||+..+--+. .+.... .. .....+||++|. .|+.|+.+ ++.
T Consensus 143 ~ptpiQ~~aip~il----~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~ 218 (518)
T PLN00206 143 FPTPIQMQAIPAAL----SGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAKV 218 (518)
T ss_pred CCCHHHHHHHHHHh----cCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHHH
Confidence 67899999998877 778899999999999987665433 222111 11 113568999995 57788888 877
Q ss_pred ccCCCce--ee-ccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccc
Q psy2050 84 WRTSNCD--KT-SPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLN 128 (131)
Q Consensus 84 ~~p~~~v--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~ 128 (131)
+.....+ .. +++........... .+.+|||+|..
T Consensus 219 l~~~~~~~~~~~~gG~~~~~q~~~l~-----------~~~~IiV~TPg 255 (518)
T PLN00206 219 LGKGLPFKTALVVGGDAMPQQLYRIQ-----------QGVELIVGTPG 255 (518)
T ss_pred HhCCCCceEEEEECCcchHHHHHHhc-----------CCCCEEEECHH
Confidence 7654432 22 44433322222211 14689998854
No 51
>PTZ00110 helicase; Provisional
Probab=97.98 E-value=4.4e-05 Score=63.69 Aligned_cols=102 Identities=17% Similarity=0.132 Sum_probs=65.3
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHH-HHHHHHHhCCC-CCC-CCEEEEecC-Cchhhhhh-hhccc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVIS-FLAYLHEAGLS-RPK-SPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia-~l~~~~~~~~~-~~~-~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
.+.++|.+++..++ .++..|+..+.|.|||+..+. ++..+...... ... ..+||+||. .|+.|+.+ +.++.
T Consensus 152 ~pt~iQ~~aip~~l----~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~ 227 (545)
T PTZ00110 152 EPTPIQVQGWPIAL----SGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKFG 227 (545)
T ss_pred CCCHHHHHHHHHHh----cCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHHh
Confidence 47899999988777 778889999999999997643 33333222111 012 237899995 57889999 99887
Q ss_pred CCC--ceee-ccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcc
Q psy2050 86 TSN--CDKT-SPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYL 127 (131)
Q Consensus 86 p~~--~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY 127 (131)
... ++.. +.+.+.......+. .+.+|||+|-
T Consensus 228 ~~~~i~~~~~~gg~~~~~q~~~l~-----------~~~~IlVaTP 261 (545)
T PTZ00110 228 ASSKIRNTVAYGGVPKRGQIYALR-----------RGVEILIACP 261 (545)
T ss_pred cccCccEEEEeCCCCHHHHHHHHH-----------cCCCEEEECH
Confidence 653 3333 44444333222222 1467888885
No 52
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=97.96 E-value=3.2e-05 Score=68.16 Aligned_cols=78 Identities=10% Similarity=-0.004 Sum_probs=57.3
Q ss_pred CCCCcchHHHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSR 83 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~ 83 (131)
.++++.+.|.+++.-+..-.... ...+++.++|.|||..++..+...... ...++|++|.. ++.|..+ |++
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~-----g~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD-----GKQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHh-----CCeEEEEeCcHHHHHHHHHHHHH
Confidence 46778999999998877544333 357899999999999877655433333 36799999964 6778888 888
Q ss_pred ccCCCce
Q psy2050 84 WRTSNCD 90 (131)
Q Consensus 84 ~~p~~~v 90 (131)
++....+
T Consensus 523 ~~~~~~i 529 (926)
T TIGR00580 523 RFANFPV 529 (926)
T ss_pred HhccCCc
Confidence 8765443
No 53
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=97.94 E-value=4.1e-05 Score=66.11 Aligned_cols=103 Identities=11% Similarity=0.004 Sum_probs=68.0
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhh-hhhhhccc-CC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCK-YKVPSRWR-TS 87 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~-W~~~~~~~-p~ 87 (131)
++++||.+++..+. .++..++....|.|||+....-+........ ....|+++|. .|..| ...++++. .+
T Consensus 36 ~p~~~Q~~ai~~il----~G~nvvv~apTGSGKTla~~LPiL~~l~~~~---~~~aL~l~PtraLa~q~~~~l~~l~~~~ 108 (742)
T TIGR03817 36 RPWQHQARAAELAH----AGRHVVVATGTASGKSLAYQLPVLSALADDP---RATALYLAPTKALAADQLRAVRELTLRG 108 (742)
T ss_pred cCCHHHHHHHHHHH----CCCCEEEECCCCCcHHHHHHHHHHHHHhhCC---CcEEEEEcChHHHHHHHHHHHHHhccCC
Confidence 69999999998877 7888999999999999876544333222221 3578999995 55554 44476665 34
Q ss_pred CceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccCC
Q psy2050 88 NCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIPH 131 (131)
Q Consensus 88 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~~ 131 (131)
+++.+++|..........+ . +.+|||||-+++|
T Consensus 109 i~v~~~~Gdt~~~~r~~i~--~---------~~~IivtTPd~L~ 141 (742)
T TIGR03817 109 VRPATYDGDTPTEERRWAR--E---------HARYVLTNPDMLH 141 (742)
T ss_pred eEEEEEeCCCCHHHHHHHh--c---------CCCEEEEChHHHH
Confidence 6666666654432211111 1 3579999977654
No 54
>PRK10689 transcription-repair coupling factor; Provisional
Probab=97.88 E-value=6e-05 Score=67.75 Aligned_cols=75 Identities=13% Similarity=0.065 Sum_probs=53.3
Q ss_pred CCCCcchHHHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSR 83 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~ 83 (131)
..+.+.+.|.+++.-+..-..+. ...+++.++|.|||..++-.+...... ...++|+||.. +..|..+ |.+
T Consensus 597 ~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~-----g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 597 FPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN-----HKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred CCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc-----CCeEEEEeCcHHHHHHHHHHHHH
Confidence 56688999999998766543333 357889999999999876433222222 36799999965 5678877 877
Q ss_pred ccCC
Q psy2050 84 WRTS 87 (131)
Q Consensus 84 ~~p~ 87 (131)
.+..
T Consensus 672 ~~~~ 675 (1147)
T PRK10689 672 RFAN 675 (1147)
T ss_pred hhcc
Confidence 6654
No 55
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.85 E-value=6.6e-05 Score=61.46 Aligned_cols=64 Identities=17% Similarity=0.025 Sum_probs=48.8
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
..++|+|.+++.-++ .++..++....|.|||+....-+ +. . .+.+|||+|. +++.++.+ +....
T Consensus 10 ~~~r~~Q~~ai~~~l----~g~dvlv~apTGsGKTl~y~lp~--l~-~-----~~~~lVi~P~~~L~~dq~~~l~~~g 75 (470)
T TIGR00614 10 SSFRPVQLEVINAVL----LGRDCFVVMPTGGGKSLCYQLPA--LC-S-----DGITLVISPLISLMEDQVLQLKASG 75 (470)
T ss_pred CCCCHHHHHHHHHHH----cCCCEEEEcCCCCcHhHHHHHHH--HH-c-----CCcEEEEecHHHHHHHHHHHHHHcC
Confidence 368999999998887 67788999999999998653222 21 1 4679999995 67888888 77653
No 56
>KOG0354|consensus
Probab=97.84 E-value=8.4e-05 Score=63.65 Aligned_cols=82 Identities=18% Similarity=0.066 Sum_probs=59.6
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhc
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSR 83 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~ 83 (131)
......||+||.+-+.- . -+++.|+|-.+|+|||..|..++....+-.. .+++++.+|.. ++.|=.+ +..
T Consensus 57 ~p~~~~lR~YQ~eivq~---A--LgkNtii~lPTG~GKTfIAa~Vm~nh~rw~p---~~KiVF~aP~~pLv~QQ~a~~~~ 128 (746)
T KOG0354|consen 57 YPTNLELRNYQEELVQP---A--LGKNTIIALPTGSGKTFIAAVIMKNHFEWRP---KGKVVFLAPTRPLVNQQIACFSI 128 (746)
T ss_pred ccCcccccHHHHHHhHH---h--hcCCeEEEeecCCCccchHHHHHHHHHhcCC---cceEEEeeCCchHHHHHHHHHhh
Confidence 34678999999997632 2 2678999999999999999877665555444 48999999964 5666557 888
Q ss_pred ccCCCceeeccC
Q psy2050 84 WRTSNCDKTSPV 95 (131)
Q Consensus 84 ~~p~~~v~~~~~ 95 (131)
+.-.-.+....+
T Consensus 129 ~~~~~~~T~~l~ 140 (746)
T KOG0354|consen 129 YLIPYSVTGQLG 140 (746)
T ss_pred ccCcccceeecc
Confidence 874444444333
No 57
>PRK09401 reverse gyrase; Reviewed
Probab=97.81 E-value=0.00011 Score=66.34 Aligned_cols=74 Identities=16% Similarity=0.056 Sum_probs=54.5
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
.+..+.++|+.++..++ .+...++....|.|||.-.+.++..+... ...+||++|. .++.|+.+ ++++.
T Consensus 77 ~G~~pt~iQ~~~i~~il----~g~dv~i~ApTGsGKT~f~l~~~~~l~~~-----g~~alIL~PTreLa~Qi~~~l~~l~ 147 (1176)
T PRK09401 77 TGSKPWSLQRTWAKRLL----LGESFAIIAPTGVGKTTFGLVMSLYLAKK-----GKKSYIIFPTRLLVEQVVEKLEKFG 147 (1176)
T ss_pred cCCCCcHHHHHHHHHHH----CCCcEEEEcCCCCCHHHHHHHHHHHHHhc-----CCeEEEEeccHHHHHHHHHHHHHHh
Confidence 35689999999887777 77788888899999996433322222211 4679999995 67889999 99998
Q ss_pred CCCce
Q psy2050 86 TSNCD 90 (131)
Q Consensus 86 p~~~v 90 (131)
....+
T Consensus 148 ~~~~~ 152 (1176)
T PRK09401 148 EKVGC 152 (1176)
T ss_pred hhcCc
Confidence 65433
No 58
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=97.80 E-value=0.00016 Score=60.70 Aligned_cols=82 Identities=11% Similarity=-0.023 Sum_probs=57.8
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCC-----CCCCCCEEEEecC-Cchhhhhh-hhc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGL-----SRPKSPHLIIVPS-STLCKYKV-PSR 83 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~-----~~~~~~~LIv~P~-sl~~~W~~-~~~ 83 (131)
.+.+.|.+++..++ .++..++.-..|.|||+..+..+........ ......+||++|. .++.|+.+ +.+
T Consensus 31 ~ptpiQ~~~ip~~l----~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~~ 106 (572)
T PRK04537 31 RCTPIQALTLPVAL----PGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAVK 106 (572)
T ss_pred CCCHHHHHHHHHHh----CCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHHH
Confidence 57899999998888 7888899999999999987665443221111 0012568999995 57889998 988
Q ss_pred ccCCCc--eeeccCC
Q psy2050 84 WRTSNC--DKTSPVK 96 (131)
Q Consensus 84 ~~p~~~--v~~~~~~ 96 (131)
+..... +...+++
T Consensus 107 l~~~~~i~v~~l~Gg 121 (572)
T PRK04537 107 FGADLGLRFALVYGG 121 (572)
T ss_pred HhccCCceEEEEECC
Confidence 876543 4444443
No 59
>PRK13767 ATP-dependent helicase; Provisional
Probab=97.77 E-value=0.00017 Score=63.35 Aligned_cols=67 Identities=15% Similarity=0.107 Sum_probs=47.1
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHH-HHHhCCC---CCCCCEEEEecC-Cchhhhhh
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAY-LHEAGLS---RPKSPHLIIVPS-STLCKYKV 80 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~-~~~~~~~---~~~~~~LIv~P~-sl~~~W~~ 80 (131)
..++++|.+++.-+. .+...+++-..|.|||..+...+.. +...... .....+|+|+|. .+..|..+
T Consensus 31 ~~~tpiQ~~Ai~~il----~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~ 102 (876)
T PRK13767 31 GTFTPPQRYAIPLIH----EGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHR 102 (876)
T ss_pred CCCCHHHHHHHHHHH----cCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHH
Confidence 459999999998776 7788999999999999987654433 3221111 113458999995 66666654
No 60
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=97.75 E-value=0.00021 Score=58.83 Aligned_cols=84 Identities=14% Similarity=0.008 Sum_probs=60.9
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhc
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSR 83 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~ 83 (131)
.....+-|.||..-..-.+ .++++++-..|||||..|+.+++...... +++.|+++| .-|+.|=.+ +.+
T Consensus 10 ~p~~ie~R~YQ~~i~a~al-----~~NtLvvlPTGLGKT~IA~~V~~~~l~~~----~~kvlfLAPTKPLV~Qh~~~~~~ 80 (542)
T COG1111 10 KPNTIEPRLYQLNIAAKAL-----FKNTLVVLPTGLGKTFIAAMVIANRLRWF----GGKVLFLAPTKPLVLQHAEFCRK 80 (542)
T ss_pred ccccccHHHHHHHHHHHHh-----hcCeEEEecCCccHHHHHHHHHHHHHHhc----CCeEEEecCCchHHHHHHHHHHH
Confidence 4456677899997654333 23789999999999999998877554443 468999999 467778777 888
Q ss_pred cc--CCCceeeccCCCc
Q psy2050 84 WR--TSNCDKTSPVKPQ 98 (131)
Q Consensus 84 ~~--p~~~v~~~~~~~~ 98 (131)
.. |...+..+.|.-+
T Consensus 81 v~~ip~~~i~~ltGev~ 97 (542)
T COG1111 81 VTGIPEDEIAALTGEVR 97 (542)
T ss_pred HhCCChhheeeecCCCC
Confidence 76 6666666555443
No 61
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=97.70 E-value=0.00012 Score=58.00 Aligned_cols=59 Identities=14% Similarity=0.132 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 15 YQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
||.++..-+. .+. ..+++-..|.|||..++..+.. . ..++++++|. +++.+|.+ +++++
T Consensus 1 hQ~~~~~~~~----~~~~~~~~i~apTGsGKT~~~~~~~l~---~-----~~~~~~~~P~~aL~~~~~~~~~~~~ 63 (357)
T TIGR03158 1 HQVATFEALQ----SKDADIIFNTAPTGAGKTLAWLTPLLH---G-----ENDTIALYPTNALIEDQTEAIKEFV 63 (357)
T ss_pred CHHHHHHHHH----cCCCCEEEEECCCCCCHHHHHHHHHHH---c-----CCCEEEEeChHHHHHHHHHHHHHHH
Confidence 7899887776 333 2577999999999977654432 1 3678999994 67777776 66665
No 62
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=97.59 E-value=0.00026 Score=63.88 Aligned_cols=72 Identities=14% Similarity=0.066 Sum_probs=54.3
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
.+..+.+.|+.++..+. .++..++....|.|||.-++.++..+... ...+||++|. .++.|+.+ +.+++
T Consensus 75 ~g~~p~~iQ~~~i~~il----~G~d~vi~ApTGsGKT~f~l~~~~~l~~~-----g~~vLIL~PTreLa~Qi~~~l~~l~ 145 (1171)
T TIGR01054 75 VGSEPWSIQKMWAKRVL----RGDSFAIIAPTGVGKTTFGLAMSLFLAKK-----GKRCYIILPTTLLVIQVAEKISSLA 145 (1171)
T ss_pred cCCCCcHHHHHHHHHHh----CCCeEEEECCCCCCHHHHHHHHHHHHHhc-----CCeEEEEeCHHHHHHHHHHHHHHHH
Confidence 55678999999988777 77777888999999997554433333221 3679999995 67889999 99988
Q ss_pred CCC
Q psy2050 86 TSN 88 (131)
Q Consensus 86 p~~ 88 (131)
...
T Consensus 146 ~~~ 148 (1171)
T TIGR01054 146 EKA 148 (1171)
T ss_pred Hhc
Confidence 653
No 63
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=97.51 E-value=0.00043 Score=58.54 Aligned_cols=62 Identities=13% Similarity=-0.055 Sum_probs=48.2
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRW 84 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~ 84 (131)
+++|+|.+++.-+. .++..++.-..|.|||+....-+ +.. .+.+|||+|. +++.++.+ +...
T Consensus 25 ~~r~~Q~~ai~~il----~g~dvlv~apTGsGKTl~y~lpa--l~~------~g~tlVisPl~sL~~dqv~~l~~~ 88 (607)
T PRK11057 25 QFRPGQQEIIDAVL----SGRDCLVVMPTGGGKSLCYQIPA--LVL------DGLTLVVSPLISLMKDQVDQLLAN 88 (607)
T ss_pred CCCHHHHHHHHHHH----cCCCEEEEcCCCchHHHHHHHHH--HHc------CCCEEEEecHHHHHHHHHHHHHHc
Confidence 68899999998877 77888999999999998654322 221 3679999994 77888888 7764
No 64
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=97.45 E-value=0.00054 Score=57.61 Aligned_cols=62 Identities=15% Similarity=-0.040 Sum_probs=49.0
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRW 84 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~ 84 (131)
++++.|.+++.-+. .+...+++...|.|||+....-+ +.. .+.++||+|. +++.++.+ ++..
T Consensus 13 ~fr~~Q~~~i~~il----~g~dvlv~~PTG~GKTl~y~lpa--l~~------~g~~lVisPl~sL~~dq~~~l~~~ 76 (591)
T TIGR01389 13 DFRPGQEEIISHVL----DGRDVLVVMPTGGGKSLCYQVPA--LLL------KGLTVVISPLISLMKDQVDQLRAA 76 (591)
T ss_pred CCCHHHHHHHHHHH----cCCCEEEEcCCCccHhHHHHHHH--HHc------CCcEEEEcCCHHHHHHHHHHHHHc
Confidence 58999999998887 77788999999999999765332 221 4678999994 67888888 7765
No 65
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=97.45 E-value=0.00047 Score=59.64 Aligned_cols=69 Identities=13% Similarity=0.017 Sum_probs=50.0
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccCC
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRTS 87 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p~ 87 (131)
..++|||.+.+..+. .+.|+|..-..|-|||+.+...+...... ...++||+|. .|..||.+ +..++..
T Consensus 67 lglrpydVQlig~l~----l~~G~Iaem~TGeGKTLta~Lpa~l~aL~-----g~~V~VVTpn~yLA~Rdae~m~~l~~~ 137 (762)
T TIGR03714 67 LGMFPYDVQVLGAIV----LHQGNIAEMKTGEGKTLTATMPLYLNALT-----GKGAMLVTTNDYLAKRDAEEMGPVYEW 137 (762)
T ss_pred cCCCccHHHHHHHHH----hcCCceeEecCCcchHHHHHHHHHHHhhc-----CCceEEeCCCHHHHHHHHHHHHHHHhh
Confidence 346888888887665 45678888999999999987654322222 3568999995 57888888 7766543
No 66
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=97.35 E-value=0.00065 Score=57.70 Aligned_cols=112 Identities=13% Similarity=0.100 Sum_probs=77.3
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-h
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-P 81 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~ 81 (131)
....++|-..|+++++=+..-..+.. .-+|-.|+|.|||+.|+..+......+ .-+...+|..+ ..|=-+ +
T Consensus 257 ~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G-----~Q~ALMAPTEILA~QH~~~~ 331 (677)
T COG1200 257 AALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAG-----YQAALMAPTEILAEQHYESL 331 (677)
T ss_pred HhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcC-----CeeEEeccHHHHHHHHHHHH
Confidence 34788999999999876665554444 568888999999999988877776665 45888999876 557666 9
Q ss_pred hcccCCCceee--c--cCCCcchhhhhhcCccCCCCCCCCCCCcEEEEccccC
Q psy2050 82 SRWRTSNCDKT--S--PVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNIP 130 (131)
Q Consensus 82 ~~~~p~~~v~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~ 130 (131)
.+|++.+.+.+ . ..+.+.++.....+.++ .-++||=|+.+-
T Consensus 332 ~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G--------~~~ivVGTHALi 376 (677)
T COG1200 332 RKWLEPLGIRVALLTGSLKGKARKEILEQLASG--------EIDIVVGTHALI 376 (677)
T ss_pred HHHhhhcCCeEEEeecccchhHHHHHHHHHhCC--------CCCEEEEcchhh
Confidence 99998654443 2 22333444444444443 268888887653
No 67
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.00 E-value=0.0026 Score=45.97 Aligned_cols=69 Identities=19% Similarity=0.169 Sum_probs=43.0
Q ss_pred CcchHHHHHHHHHHHHhhcccC-eeeeCCCCCCHHHHHHHHHHHHHHh---CCCCCCCCEEEEecCCc-hhhhhh-hhc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLC-GILADEMGLGKTIQVISFLAYLHEA---GLSRPKSPHLIIVPSST-LCKYKV-PSR 83 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g-~ilad~mGlGKT~~~ia~l~~~~~~---~~~~~~~~~LIv~P~sl-~~~W~~-~~~ 83 (131)
+|-+.|++|+..+. .... .++....|.|||-...+++..+... .......+.||++|... +.+=.+ +.+
T Consensus 1 ~ln~~Q~~Ai~~~~----~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSAL----SSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHHC----TSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHH----cCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 47789999997666 5555 8889999999997777776666211 11122689999999643 555444 444
No 68
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=96.94 E-value=0.0024 Score=53.34 Aligned_cols=72 Identities=19% Similarity=0.189 Sum_probs=56.5
Q ss_pred cchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccCCC
Q psy2050 12 LAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRTSN 88 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p~~ 88 (131)
.-.-|.+|+.-|......+. .-.|-.-.|.|||.++..+|... .+|+||++|. .+..|--. |+.|+|+.
T Consensus 13 PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~--------~rPtLV~AhNKTLAaQLy~Efk~fFP~N 84 (663)
T COG0556 13 PAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKV--------QRPTLVLAHNKTLAAQLYSEFKEFFPEN 84 (663)
T ss_pred CCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHh--------CCCeEEEecchhHHHHHHHHHHHhCcCc
Confidence 33468899888776665554 34666679999999998888766 7999999995 67778777 99999997
Q ss_pred cee
Q psy2050 89 CDK 91 (131)
Q Consensus 89 ~v~ 91 (131)
.|-
T Consensus 85 aVE 87 (663)
T COG0556 85 AVE 87 (663)
T ss_pred ceE
Confidence 664
No 69
>PRK14701 reverse gyrase; Provisional
Probab=96.84 E-value=0.0057 Score=57.05 Aligned_cols=81 Identities=12% Similarity=0.002 Sum_probs=55.2
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
.++++.+.|++++..++ .++..++....|.|||...+ .+ .+.... . ...+|||+|. .++.|-.+ +.++.
T Consensus 76 ~G~~pt~iQ~~~i~~il----~G~d~li~APTGsGKTl~~~-~~-al~~~~-~--g~~aLVl~PTreLa~Qi~~~l~~l~ 146 (1638)
T PRK14701 76 TGFEFWSIQKTWAKRIL----RGKSFSIVAPTGMGKSTFGA-FI-ALFLAL-K--GKKCYIILPTTLLVKQTVEKIESFC 146 (1638)
T ss_pred hCCCCCHHHHHHHHHHH----cCCCEEEEEcCCCCHHHHHH-HH-HHHHHh-c--CCeEEEEECHHHHHHHHHHHHHHHH
Confidence 34578999999998888 67778889999999998322 22 221111 1 3579999995 67888888 88876
Q ss_pred CC----CceeeccCCC
Q psy2050 86 TS----NCDKTSPVKP 97 (131)
Q Consensus 86 p~----~~v~~~~~~~ 97 (131)
.. .++..++++-
T Consensus 147 ~~~~~~v~v~~~~g~~ 162 (1638)
T PRK14701 147 EKANLDVRLVYYHSNL 162 (1638)
T ss_pred hhcCCceeEEEEeCCC
Confidence 53 3344454443
No 70
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=96.82 E-value=0.0035 Score=54.89 Aligned_cols=71 Identities=14% Similarity=0.120 Sum_probs=45.6
Q ss_pred CCCcchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEE-EecC-Cchhhhhh-hhcc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLI-IVPS-STLCKYKV-PSRW 84 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LI-v~P~-sl~~~W~~-~~~~ 84 (131)
++..+|||.+++.-++ .++ --++.-..|.|||....+++..+..... .-..|| +||. .++.|=.+ +++|
T Consensus 13 G~~PtpiQ~~~i~~il----~G~~~v~~~apTGSGKTaa~aafll~~~~~~~---~~~rLv~~vPtReLa~Qi~~~~~~~ 85 (844)
T TIGR02621 13 GYSPFPWQLSLAERFV----AGQPPESCSTPTGLGKTSIIAAWLLAVEIGAK---VPRRLVYVVNRRTVVDQVTEEAEKI 85 (844)
T ss_pred CCCCCHHHHHHHHHHH----cCCCcceEecCCCCcccHHHHHhhcccccccc---ccceEEEeCchHHHHHHHHHHHHHH
Confidence 5569999999998766 555 3455689999999765444443321111 223455 6685 56777777 7777
Q ss_pred cC
Q psy2050 85 RT 86 (131)
Q Consensus 85 ~p 86 (131)
..
T Consensus 86 ~k 87 (844)
T TIGR02621 86 GE 87 (844)
T ss_pred HH
Confidence 64
No 71
>KOG1802|consensus
Probab=96.78 E-value=0.0045 Score=52.95 Aligned_cols=74 Identities=18% Similarity=0.144 Sum_probs=60.5
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhcccCCC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSRWRTSN 88 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~~~p~~ 88 (131)
+|-.-|..||...+ ++.-.++-...|.|||++.-+.+..+.+.. .+|+||++|+.+ +.|=.+ |.+- ++
T Consensus 410 kLN~SQ~~AV~~VL----~rplsLIQGPPGTGKTvtsa~IVyhl~~~~----~~~VLvcApSNiAVDqLaeKIh~t--gL 479 (935)
T KOG1802|consen 410 KLNASQSNAVKHVL----QRPLSLIQGPPGTGKTVTSATIVYHLARQH----AGPVLVCAPSNIAVDQLAEKIHKT--GL 479 (935)
T ss_pred hhchHHHHHHHHHH----cCCceeeecCCCCCceehhHHHHHHHHHhc----CCceEEEcccchhHHHHHHHHHhc--Cc
Confidence 56778999999988 777889999999999999999888887764 699999999876 678777 7764 36
Q ss_pred ceeecc
Q psy2050 89 CDKTSP 94 (131)
Q Consensus 89 ~v~~~~ 94 (131)
+|+..-
T Consensus 480 KVvRl~ 485 (935)
T KOG1802|consen 480 KVVRLC 485 (935)
T ss_pred eEeeee
Confidence 666533
No 72
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=96.74 E-value=0.0077 Score=53.54 Aligned_cols=104 Identities=15% Similarity=0.144 Sum_probs=63.1
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhcccC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSRWRT 86 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~~~p 86 (131)
++.+...|+- |..... .+..--+-...|+|||---+.+...+... .+++++|+|.. ++.|=.+ ++++.+
T Consensus 80 G~~~ws~QR~---WakR~~-rg~SFaiiAPTGvGKTTfg~~~sl~~a~k-----gkr~yii~PT~~Lv~Q~~~kl~~~~e 150 (1187)
T COG1110 80 GFRPWSAQRV---WAKRLV-RGKSFAIIAPTGVGKTTFGLLMSLYLAKK-----GKRVYIIVPTTTLVRQVYERLKKFAE 150 (1187)
T ss_pred CCCchHHHHH---HHHHHH-cCCceEEEcCCCCchhHHHHHHHHHHHhc-----CCeEEEEecCHHHHHHHHHHHHHHHh
Confidence 4456666664 333222 44444444579999998766655555544 37899999964 6788888 999985
Q ss_pred CCc---eee-ccCC--CcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 87 SNC---DKT-SPVK--PQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 87 ~~~---v~~-~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+.. +.. ||+. .+.......++-+. +|||+|||=..
T Consensus 151 ~~~~~~~~~~yh~~l~~~ekee~le~i~~g--------dfdIlitTs~F 191 (1187)
T COG1110 151 DAGSLDVLVVYHSALPTKEKEEALERIESG--------DFDILITTSQF 191 (1187)
T ss_pred hcCCcceeeeeccccchHHHHHHHHHHhcC--------CccEEEEeHHH
Confidence 533 332 6655 22222333333332 47999998554
No 73
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.67 E-value=0.0037 Score=51.97 Aligned_cols=56 Identities=14% Similarity=0.008 Sum_probs=40.5
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccCCCceeeccCC
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRTSNCDKTSPVK 96 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p~~~v~~~~~~ 96 (131)
|....|.|||...+.++...... .+.+||++|. ++..|+.+ +++.++ .++.++++.
T Consensus 2 L~g~TGsGKT~v~l~~i~~~l~~-----g~~vLvlvP~i~L~~Q~~~~l~~~f~-~~v~vlhs~ 59 (505)
T TIGR00595 2 LFGVTGSGKTEVYLQAIEKVLAL-----GKSVLVLVPEIALTPQMIQRFKYRFG-SQVAVLHSG 59 (505)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHc-----CCeEEEEeCcHHHHHHHHHHHHHHhC-CcEEEEECC
Confidence 45578999999988776655443 3679999995 68899999 887764 345554443
No 74
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=96.65 E-value=0.014 Score=51.00 Aligned_cols=80 Identities=15% Similarity=-0.034 Sum_probs=55.2
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHH-HHHHhCC--CCCCCCEEEEecCCchhh-hhh-hhc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLA-YLHEAGL--SRPKSPHLIIVPSSTLCK-YKV-PSR 83 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~-~~~~~~~--~~~~~~~LIv~P~sl~~~-W~~-~~~ 83 (131)
-.++.++|++|+.-+. .+.+.++....|.|||..|+--+. .+...+. .+..-.+|=|.|+--+.+ =.+ ++.
T Consensus 20 ~~~~t~~Q~~a~~~i~----~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~ 95 (814)
T COG1201 20 FTSLTPPQRYAIPEIH----SGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEE 95 (814)
T ss_pred cCCCCHHHHHHHHHHh----CCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHH
Confidence 4578999999998777 899999999999999999876544 3444421 111345788999655444 444 766
Q ss_pred ccC--CCceee
Q psy2050 84 WRT--SNCDKT 92 (131)
Q Consensus 84 ~~p--~~~v~~ 92 (131)
|.- ++.|-+
T Consensus 96 ~~~~~G~~v~v 106 (814)
T COG1201 96 PLRELGIEVAV 106 (814)
T ss_pred HHHHcCCccce
Confidence 653 344444
No 75
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=96.60 E-value=0.0098 Score=53.67 Aligned_cols=59 Identities=15% Similarity=-0.039 Sum_probs=44.7
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchh-hhhh
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLC-KYKV 80 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~-~W~~ 80 (131)
..+||+|++++..++ .++..++....|-|||+...--+. .. .+.+|||+|. +|+. |..+
T Consensus 459 ~sFRp~Q~eaI~aiL----~GrDVLVimPTGSGKSLcYQLPAL--~~------~GiTLVISPLiSLmqDQV~~ 519 (1195)
T PLN03137 459 HSFRPNQREIINATM----SGYDVFVLMPTGGGKSLTYQLPAL--IC------PGITLVISPLVSLIQDQIMN 519 (1195)
T ss_pred CCCCHHHHHHHHHHH----cCCCEEEEcCCCccHHHHHHHHHH--Hc------CCcEEEEeCHHHHHHHHHHH
Confidence 478999999998877 788899999999999986543222 11 3679999995 6766 4444
No 76
>COG4889 Predicted helicase [General function prediction only]
Probab=96.60 E-value=0.0029 Score=55.70 Aligned_cols=64 Identities=23% Similarity=0.196 Sum_probs=49.6
Q ss_pred CCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhh
Q psy2050 7 ARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCK 77 (131)
Q Consensus 7 ~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~ 77 (131)
..+.++||||..|++-...-...+.+|=|-..+|.|||.+++-+.-.+. ..++|.++|+ +++.|
T Consensus 157 ~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala-------~~~iL~LvPSIsLLsQ 221 (1518)
T COG4889 157 KKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALA-------AARILFLVPSISLLSQ 221 (1518)
T ss_pred CCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHh-------hhheEeecchHHHHHH
Confidence 3677899999999987776666666776667789999999997655443 3779999995 66665
No 77
>KOG0350|consensus
Probab=96.55 E-value=0.0082 Score=49.80 Aligned_cols=111 Identities=13% Similarity=0.022 Sum_probs=68.1
Q ss_pred CCcchHHHHHHHHHHHHhhcc----cC-eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hh
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQ----LC-GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PS 82 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~----~g-~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~ 82 (131)
.+++|-|..-+.|++.-.+.. .| -.++...|-|||+.-.-=|..+...+.+. .-+++||+|. -++.|=.. |+
T Consensus 158 s~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~-~LRavVivPtr~L~~QV~~~f~ 236 (620)
T KOG0350|consen 158 SRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVK-RLRAVVIVPTRELALQVYDTFK 236 (620)
T ss_pred ccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCcc-ceEEEEEeeHHHHHHHHHHHHH
Confidence 578999999999997655421 12 24588999999985433344444444332 3678999996 46778888 99
Q ss_pred cccCCCceee--ccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEc
Q psy2050 83 RWRTSNCDKT--SPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMY 126 (131)
Q Consensus 83 ~~~p~~~v~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvItt 126 (131)
+|+++.-+.+ ..+...-. -......+ +.+..+.||+|||
T Consensus 237 ~~~~~tgL~V~~~sgq~sl~-~E~~qL~~----~~~~~~~DIlVaT 277 (620)
T KOG0350|consen 237 RLNSGTGLAVCSLSGQNSLE-DEARQLAS----DPPECRIDILVAT 277 (620)
T ss_pred HhccCCceEEEecccccchH-HHHHHHhc----CCCccccceEEcC
Confidence 9998754444 33322211 11111111 2233467899987
No 78
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=96.49 E-value=0.0044 Score=46.58 Aligned_cols=85 Identities=20% Similarity=0.172 Sum_probs=61.2
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh--hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV--PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~--~~~~~ 85 (131)
.+.-+|+-|.+-+..|.+. ..+.+.++---||-|||...+=+++....++ ..=+-+|||++++.|=.+ -.++.
T Consensus 20 ~~iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg----~~LvrviVpk~Ll~q~~~~L~~~lg 94 (229)
T PF12340_consen 20 SNILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSVIVPMLALALADG----SRLVRVIVPKALLEQMRQMLRSRLG 94 (229)
T ss_pred cCceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccchHHHHHHHHHcCC----CcEEEEEcCHHHHHHHHHHHHHHHH
Confidence 4667899999998888853 3456788899999999999888887776654 344568999999998777 44443
Q ss_pred C--CCceeeccCCC
Q psy2050 86 T--SNCDKTSPVKP 97 (131)
Q Consensus 86 p--~~~v~~~~~~~ 97 (131)
. +-+|+.+.+++
T Consensus 95 ~l~~r~i~~lpFsR 108 (229)
T PF12340_consen 95 GLLNRRIYHLPFSR 108 (229)
T ss_pred HHhCCeeEEecccC
Confidence 2 23444444444
No 79
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=96.37 E-value=0.014 Score=45.56 Aligned_cols=66 Identities=18% Similarity=0.152 Sum_probs=50.1
Q ss_pred CCCCcchHHHHHHHHHHHHhhc------ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQ------QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCK 77 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~------~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~ 77 (131)
....|-+-|.++|-+.+.+... +.|-+++|.+|.||--++-++|...+..+. ++.+.|.. ..|..-
T Consensus 34 ~~g~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr----~r~vwvS~s~dL~~D 106 (303)
T PF13872_consen 34 DSGLLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGR----KRAVWVSVSNDLKYD 106 (303)
T ss_pred hcccccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCC----CceEEEECChhhhhH
Confidence 4557788999999998877763 457788999999999999999998888763 45555544 455443
No 80
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=96.32 E-value=0.012 Score=51.63 Aligned_cols=69 Identities=14% Similarity=0.096 Sum_probs=51.4
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhh
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYK 79 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~ 79 (131)
...++..|+.|.+....+......+...++-...|.|||+..+.-+..... . ..+++|.+|. ++..|+.
T Consensus 240 ~~~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~---~--~~~vvi~t~t~~Lq~Ql~ 309 (850)
T TIGR01407 240 DRLGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI---T--EKPVVISTNTKVLQSQLL 309 (850)
T ss_pred hhcCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc---C--CCeEEEEeCcHHHHHHHH
Confidence 346788999999988877777766666777779999999987765443332 1 4689999995 5688874
No 81
>KOG0331|consensus
Probab=96.32 E-value=0.011 Score=49.31 Aligned_cols=100 Identities=18% Similarity=0.169 Sum_probs=66.4
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHH-HHHHHHH--hCCCCCCCC-EEEEecCC-chhhhhh-hhccc
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVIS-FLAYLHE--AGLSRPKSP-HLIIVPSS-TLCKYKV-PSRWR 85 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia-~l~~~~~--~~~~~~~~~-~LIv~P~s-l~~~W~~-~~~~~ 85 (131)
+.|-|.++...+. .++..+...+.|.|||+.-+- +|..+.. .....+.+| +||++|.. +..|=.+ +..+.
T Consensus 114 PtpIQaq~wp~~l----~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~~ 189 (519)
T KOG0331|consen 114 PTPIQAQGWPIAL----SGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREFG 189 (519)
T ss_pred Cchhhhcccceec----cCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHHc
Confidence 3455666655555 677888899999999985332 2334433 112233466 78999965 6778888 88888
Q ss_pred CCCc---eeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEc
Q psy2050 86 TSNC---DKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMY 126 (131)
Q Consensus 86 p~~~---v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvItt 126 (131)
..+. +.+|+|.+......+++. +.+|+|+|
T Consensus 190 ~~~~~~~~cvyGG~~~~~Q~~~l~~-----------gvdiviaT 222 (519)
T KOG0331|consen 190 KSLRLRSTCVYGGAPKGPQLRDLER-----------GVDVVIAT 222 (519)
T ss_pred CCCCccEEEEeCCCCccHHHHHHhc-----------CCcEEEeC
Confidence 6654 455888777766666552 57899987
No 82
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=96.29 E-value=0.023 Score=50.36 Aligned_cols=73 Identities=16% Similarity=0.131 Sum_probs=49.8
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhh---hhh-hhccc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCK---YKV-PSRWR 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~---W~~-~~~~~ 85 (131)
.++|||.+.+.-+. .+.|-|.-...|-|||+..+.-+...... ..+++||+|.. |..| |.. +.++.
T Consensus 92 ~~tp~qvQ~I~~i~----l~~gvIAeaqTGeGKTLAf~LP~l~~aL~-----g~~v~IVTpTrELA~Qdae~m~~L~k~l 162 (970)
T PRK12899 92 DMVPYDVQILGAIA----MHKGFITEMQTGEGKTLTAVMPLYLNALT-----GKPVHLVTVNDYLAQRDCEWVGSVLRWL 162 (970)
T ss_pred CCChHHHHHhhhhh----cCCCeEEEeCCCCChHHHHHHHHHHHHhh-----cCCeEEEeCCHHHHHHHHHHHHHHHhhc
Confidence 38999999988777 66676777899999999887654433322 24588999964 4443 666 66654
Q ss_pred CCCceeec
Q psy2050 86 TSNCDKTS 93 (131)
Q Consensus 86 p~~~v~~~ 93 (131)
++++...
T Consensus 163 -GLsV~~i 169 (970)
T PRK12899 163 -GLTTGVL 169 (970)
T ss_pred -CCeEEEE
Confidence 3566553
No 83
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.21 E-value=0.02 Score=50.95 Aligned_cols=63 Identities=21% Similarity=0.093 Sum_probs=46.9
Q ss_pred CCCcchHHHHHHHHHHHHhhcc----------------------------------cCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQ----------------------------------LCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~----------------------------------~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+.-.|||.+|+.-+......- ...-+..+.|.|||.+++..|..+
T Consensus 4 ~~e~l~hQ~~av~ai~~~F~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~n~~~~M~TGtGKT~~~~~~i~~l 83 (986)
T PRK15483 4 LLEELPHQEQALAAILAAFTGIDIASADPNHYANPLIKLRYENGIPGRSRTRIDDKANIDIKMETGTGKTYVYTRLMYEL 83 (986)
T ss_pred ccccChhHHHHHHHHHHHhcCCCccCCccccccCcccccchhhccccccccccCccceEEEEeCCCCCHHHHHHHHHHHH
Confidence 3334899999998877655311 133457799999999999999888
Q ss_pred HHhCCCCCCCCEEEEecCCc
Q psy2050 55 HEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 55 ~~~~~~~~~~~~LIv~P~sl 74 (131)
..... ..++||+||..-
T Consensus 84 ~~~~~---~~~fii~vp~~a 100 (986)
T PRK15483 84 HQKYG---LFKFIIVVPTPA 100 (986)
T ss_pred HHHcC---CcEEEEEeCCHH
Confidence 77643 488999999743
No 84
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.01 E-value=0.022 Score=45.50 Aligned_cols=87 Identities=16% Similarity=-0.006 Sum_probs=68.1
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cc-hhhhhhhhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-ST-LCKYKVPSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl-~~~W~~~~~~~ 85 (131)
=+.+|-++|+.+.+-++...++..--++..-.|.|||=+....+.....++ +.+.|..|. -+ ++--.+++.-+
T Consensus 94 W~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G-----~~vciASPRvDVclEl~~Rlk~aF 168 (441)
T COG4098 94 WKGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQG-----GRVCIASPRVDVCLELYPRLKQAF 168 (441)
T ss_pred eccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcC-----CeEEEecCcccchHHHHHHHHHhh
Confidence 467899999999999998888888889999999999999888887777765 678888883 34 44455587778
Q ss_pred CCCceeeccCCCcc
Q psy2050 86 TSNCDKTSPVKPQT 99 (131)
Q Consensus 86 p~~~v~~~~~~~~~ 99 (131)
++..+...++++..
T Consensus 169 ~~~~I~~Lyg~S~~ 182 (441)
T COG4098 169 SNCDIDLLYGDSDS 182 (441)
T ss_pred ccCCeeeEecCCch
Confidence 87777776655543
No 85
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.79 E-value=0.051 Score=46.83 Aligned_cols=76 Identities=18% Similarity=0.130 Sum_probs=50.1
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHH----------HHHHHhCCCCCCCCEEEEecC-Cchh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFL----------AYLHEAGLSRPKSPHLIIVPS-STLC 76 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l----------~~~~~~~~~~~~~~~LIv~P~-sl~~ 76 (131)
.+.+|++-|.+.-.-+......++..|+..+.|.|||.+.=-++ ..+..........+.+|++|. .++.
T Consensus 157 ~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~ 236 (675)
T PHA02653 157 SKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVR 236 (675)
T ss_pred ccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHH
Confidence 56788888887777777777788899999999999998742211 111100011114679999995 4566
Q ss_pred hhhh-hhc
Q psy2050 77 KYKV-PSR 83 (131)
Q Consensus 77 ~W~~-~~~ 83 (131)
|... +.+
T Consensus 237 qi~~~i~~ 244 (675)
T PHA02653 237 LHSITLLK 244 (675)
T ss_pred HHHHHHHH
Confidence 7666 654
No 86
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=95.75 E-value=0.049 Score=49.14 Aligned_cols=110 Identities=12% Similarity=0.064 Sum_probs=67.0
Q ss_pred CCCcchHHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh-h-hhhhhcc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC-K-YKVPSRW 84 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~-~-W~~~~~~ 84 (131)
.+..-+=|..|++-...-..+++ --++|.++|.|||=.|+=.+..-...+ +-+.|+||..++. | .+.|+.=
T Consensus 592 PyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~G-----KQVAvLVPTTlLA~QHy~tFkeR 666 (1139)
T COG1197 592 PYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDG-----KQVAVLVPTTLLAQQHYETFKER 666 (1139)
T ss_pred CCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCC-----CeEEEEcccHHhHHHHHHHHHHH
Confidence 45556778899887776665555 468899999999998886554443333 5688999988765 3 3334444
Q ss_pred cCCCceeec---cCCC-cchhhhhhcCccCCCCCCCCCCCcEEEEccccCC
Q psy2050 85 RTSNCDKTS---PVKP-QTITVAQLRVPECDQSPSQEVGYNDIIMYLNIPH 131 (131)
Q Consensus 85 ~p~~~v~~~---~~~~-~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~~~ 131 (131)
+.+..|.+- -..+ ++.+.....+-+ .+.|+||=|+-+++
T Consensus 667 F~~fPV~I~~LSRF~s~kE~~~il~~la~--------G~vDIvIGTHrLL~ 709 (1139)
T COG1197 667 FAGFPVRIEVLSRFRSAKEQKEILKGLAE--------GKVDIVIGTHRLLS 709 (1139)
T ss_pred hcCCCeeEEEecccCCHHHHHHHHHHHhc--------CCccEEEechHhhC
Confidence 444444432 2222 222222222222 24799998887653
No 87
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=95.72 E-value=0.054 Score=47.42 Aligned_cols=77 Identities=12% Similarity=-0.053 Sum_probs=46.6
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhcccC--
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSRWRT-- 86 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~~~p-- 86 (131)
.++||+.+.+..+. -+.|.|..-..|-|||+.+...+...... ...++|++|... ..|=.+ +..++.
T Consensus 76 g~~p~~vQl~~~~~----l~~G~Iaem~TGeGKTL~a~lp~~l~al~-----G~~v~VvTpt~~LA~qd~e~~~~l~~~l 146 (790)
T PRK09200 76 GMRPYDVQLIGALV----LHEGNIAEMQTGEGKTLTATMPLYLNALE-----GKGVHLITVNDYLAKRDAEEMGQVYEFL 146 (790)
T ss_pred CCCCchHHHHhHHH----HcCCceeeecCCCcchHHHHHHHHHHHHc-----CCCeEEEeCCHHHHHHHHHHHHHHHhhc
Confidence 35666666665555 34566888899999999876554433333 367899999754 444222 444433
Q ss_pred CCceeeccCC
Q psy2050 87 SNCDKTSPVK 96 (131)
Q Consensus 87 ~~~v~~~~~~ 96 (131)
++++-...++
T Consensus 147 Gl~v~~i~g~ 156 (790)
T PRK09200 147 GLTVGLNFSD 156 (790)
T ss_pred CCeEEEEeCC
Confidence 3555544433
No 88
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=95.71 E-value=0.049 Score=46.79 Aligned_cols=77 Identities=18% Similarity=0.142 Sum_probs=57.9
Q ss_pred CCCcchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
.++....|..++.-+......+. .-+|..-.|.|||..+..++... .+|+|||+|. ....||.+ ++.|+
T Consensus 7 ~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~--------~~p~Lvi~~n~~~A~ql~~el~~f~ 78 (655)
T TIGR00631 7 PFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV--------NRPTLVIAHNKTLAAQLYNEFKEFF 78 (655)
T ss_pred CCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh--------CCCEEEEECCHHHHHHHHHHHHHhC
Confidence 34556689999888777665553 34567779999999988766543 5899999996 56779999 99999
Q ss_pred CCCceeec
Q psy2050 86 TSNCDKTS 93 (131)
Q Consensus 86 p~~~v~~~ 93 (131)
|+..|..+
T Consensus 79 p~~~V~~f 86 (655)
T TIGR00631 79 PENAVEYF 86 (655)
T ss_pred CCCeEEEE
Confidence 98656543
No 89
>KOG0330|consensus
Probab=95.64 E-value=0.048 Score=44.18 Aligned_cols=79 Identities=14% Similarity=-0.093 Sum_probs=52.9
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHH-HHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhcccCC-
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVIS-FLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSRWRTS- 87 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia-~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~~~p~- 87 (131)
+-+-|++++-..+ .++.+|.+.|.|.|||..-.- ++..+..+. . ....||++|.. +..|=.+ |+....+
T Consensus 84 PT~IQ~~aiP~~L----~g~dvIglAeTGSGKT~afaLPIl~~LL~~p-~--~~~~lVLtPtRELA~QI~e~fe~Lg~~i 156 (476)
T KOG0330|consen 84 PTKIQSEAIPVAL----GGRDVIGLAETGSGKTGAFALPILQRLLQEP-K--LFFALVLTPTRELAQQIAEQFEALGSGI 156 (476)
T ss_pred Cchhhhhhcchhh----CCCcEEEEeccCCCchhhhHHHHHHHHHcCC-C--CceEEEecCcHHHHHHHHHHHHHhcccc
Confidence 3456777777766 777889999999999985332 234444432 2 46689999965 5566777 9998655
Q ss_pred -CceeeccCCC
Q psy2050 88 -NCDKTSPVKP 97 (131)
Q Consensus 88 -~~v~~~~~~~ 97 (131)
+++.+..|+-
T Consensus 157 glr~~~lvGG~ 167 (476)
T KOG0330|consen 157 GLRVAVLVGGM 167 (476)
T ss_pred CeEEEEEecCc
Confidence 4555544443
No 90
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=95.54 E-value=0.084 Score=40.78 Aligned_cols=75 Identities=16% Similarity=0.101 Sum_probs=49.7
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCC-CCCCEEEEecCC-chhhhhh-hhcc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSR-PKSPHLIIVPSS-TLCKYKV-PSRW 84 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~-~~~~~LIv~P~s-l~~~W~~-~~~~ 84 (131)
+..||.|.+-..-+......+..+++--..|.|||+..++.+.......... ...++++.++.. .+.|=.. +++.
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 4459999998888888777888888999999999999998765433322210 123666666643 3444333 4443
No 91
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=95.54 E-value=0.084 Score=40.78 Aligned_cols=75 Identities=16% Similarity=0.101 Sum_probs=49.7
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCC-CCCCEEEEecCC-chhhhhh-hhcc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSR-PKSPHLIIVPSS-TLCKYKV-PSRW 84 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~-~~~~~LIv~P~s-l~~~W~~-~~~~ 84 (131)
+..||.|.+-..-+......+..+++--..|.|||+..++.+.......... ...++++.++.. .+.|=.. +++.
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 4459999998888888777888888999999999999998765433322210 123666666643 3444333 4443
No 92
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=95.40 E-value=0.059 Score=46.82 Aligned_cols=75 Identities=8% Similarity=-0.109 Sum_probs=44.6
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhcccCC-
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSRWRTS- 87 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~~~p~- 87 (131)
-++||+.+.+..+. -+.|.|.--..|-|||+.+...+...... ...++||+|... ..|=.+ +.+++..
T Consensus 54 g~~p~~vQlig~~~----l~~G~Iaem~TGeGKTLva~lpa~l~aL~-----G~~V~VvTpt~~LA~qdae~~~~l~~~L 124 (745)
T TIGR00963 54 GMRPFDVQLIGGIA----LHKGKIAEMKTGEGKTLTATLPAYLNALT-----GKGVHVVTVNDYLAQRDAEWMGQVYRFL 124 (745)
T ss_pred CCCccchHHhhhhh----hcCCceeeecCCCccHHHHHHHHHHHHHh-----CCCEEEEcCCHHHHHHHHHHHHHHhccC
Confidence 35666666655555 34566767899999999765443222222 256999999754 444333 5555543
Q ss_pred -Cceeecc
Q psy2050 88 -NCDKTSP 94 (131)
Q Consensus 88 -~~v~~~~ 94 (131)
+++....
T Consensus 125 GLsv~~i~ 132 (745)
T TIGR00963 125 GLSVGLIL 132 (745)
T ss_pred CCeEEEEe
Confidence 5554433
No 93
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=95.31 E-value=0.033 Score=43.62 Aligned_cols=51 Identities=16% Similarity=0.169 Sum_probs=38.8
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcccCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRWRTS 87 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~~p~ 87 (131)
++....|.|||..++..+........ ..+.++++| .+++.|..+ ++.++..
T Consensus 3 vi~apTGsGKT~~~~~~~l~~~~~~~---~~~ii~v~P~~~L~~q~~~~l~~~f~~ 55 (358)
T TIGR01587 3 VIEAPTGYGKTEAALLWALHSIKSQK---ADRVIIALPTRATINAMYRRAKELFGS 55 (358)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHhhCC---CCeEEEEeehHHHHHHHHHHHHHHhCc
Confidence 56788999999998887765543322 478999999 578888888 8887654
No 94
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=95.28 E-value=0.094 Score=44.98 Aligned_cols=80 Identities=19% Similarity=0.137 Sum_probs=60.6
Q ss_pred CCCCCCcchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hh
Q psy2050 6 KARNLKLAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PS 82 (131)
Q Consensus 6 ~~~~~~L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~ 82 (131)
...++++.+.|..++.-+......+. ..++..-.|-||+..+.+++... ..|+|||+|. ....+|.+ ++
T Consensus 7 ~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~--------~r~vLIVt~~~~~A~~l~~dL~ 78 (652)
T PRK05298 7 LVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARL--------QRPTLVLAHNKTLAAQLYSEFK 78 (652)
T ss_pred cccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHh--------CCCEEEEECCHHHHHHHHHHHH
Confidence 34678899999999887776665443 45667778899999876654332 4799999997 45779999 99
Q ss_pred cccCCCceeec
Q psy2050 83 RWRTSNCDKTS 93 (131)
Q Consensus 83 ~~~p~~~v~~~ 93 (131)
.|+|+..|..+
T Consensus 79 ~~~~~~~v~~f 89 (652)
T PRK05298 79 EFFPENAVEYF 89 (652)
T ss_pred HhcCCCeEEEe
Confidence 99998666654
No 95
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=95.13 E-value=0.14 Score=42.71 Aligned_cols=99 Identities=13% Similarity=0.033 Sum_probs=60.0
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCC-EEEEecCC-chhhhhh-hhcccC--
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSP-HLIIVPSS-TLCKYKV-PSRWRT-- 86 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~-~LIv~P~s-l~~~W~~-~~~~~p-- 86 (131)
.-|.|.+++--++ .++--+.....|.|||..-+.=+....... .....+ .||++|.- +..|=.+ +.++..
T Consensus 52 pt~IQ~~~IP~~l----~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~-~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~~ 126 (513)
T COG0513 52 PTPIQLAAIPLIL----AGRDVLGQAQTGTGKTAAFLLPLLQKILKS-VERKYVSALILAPTRELAVQIAEELRKLGKNL 126 (513)
T ss_pred CCHHHHHHHHHHh----CCCCEEEECCCCChHHHHHHHHHHHHHhcc-cccCCCceEEECCCHHHHHHHHHHHHHHHhhc
Confidence 4567888887766 667777788999999765443333222211 111222 99999964 6678777 777764
Q ss_pred -CCceee-ccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEc
Q psy2050 87 -SNCDKT-SPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMY 126 (131)
Q Consensus 87 -~~~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvItt 126 (131)
.+++.. ++|.+.......++. +.+|||.|
T Consensus 127 ~~~~~~~i~GG~~~~~q~~~l~~-----------~~~ivVaT 157 (513)
T COG0513 127 GGLRVAVVYGGVSIRKQIEALKR-----------GVDIVVAT 157 (513)
T ss_pred CCccEEEEECCCCHHHHHHHHhc-----------CCCEEEEC
Confidence 455554 555444444444331 36788875
No 96
>KOG0952|consensus
Probab=94.84 E-value=0.12 Score=46.44 Aligned_cols=73 Identities=10% Similarity=0.027 Sum_probs=46.3
Q ss_pred hcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCC-----CCCCCEEEEec-CCchhhhhh--hhcccC-CCceeeccCCCc
Q psy2050 28 NQQLCGILADEMGLGKTIQVISFLAYLHEAGLS-----RPKSPHLIIVP-SSTLCKYKV--PSRWRT-SNCDKTSPVKPQ 98 (131)
Q Consensus 28 ~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~-----~~~~~~LIv~P-~sl~~~W~~--~~~~~p-~~~v~~~~~~~~ 98 (131)
+++.+.|++...|.|||..+.-.|....++... ....+++-|+| .+++..=.+ .+++.| +++|..+.|+.+
T Consensus 124 ~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD~q 203 (1230)
T KOG0952|consen 124 KSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQ 203 (1230)
T ss_pred cCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccccceEEEecCcch
Confidence 355689999999999999988777766654221 12578889999 455432222 233332 456666666554
Q ss_pred ch
Q psy2050 99 TI 100 (131)
Q Consensus 99 ~~ 100 (131)
-.
T Consensus 204 l~ 205 (1230)
T KOG0952|consen 204 LT 205 (1230)
T ss_pred hh
Confidence 43
No 97
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=94.50 E-value=0.16 Score=43.64 Aligned_cols=75 Identities=15% Similarity=-0.060 Sum_probs=45.3
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhh---hhh-hhc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCK---YKV-PSR 83 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~---W~~-~~~ 83 (131)
+...++-|..|.--+. . |.|---..|-|||+.+...+...... ...++||+|..- ..| |.. +-+
T Consensus 101 g~~p~~VQ~~~~~~ll----~--G~Iae~~TGeGKTla~~lp~~~~al~-----G~~v~VvTptreLA~qdae~~~~l~~ 169 (656)
T PRK12898 101 GQRHFDVQLMGGLALL----S--GRLAEMQTGEGKTLTATLPAGTAALA-----GLPVHVITVNDYLAERDAELMRPLYE 169 (656)
T ss_pred CCCCChHHHHHHHHHh----C--CCeeeeeCCCCcHHHHHHHHHHHhhc-----CCeEEEEcCcHHHHHHHHHHHHHHHh
Confidence 4455566776664444 2 34777789999999887655544332 367999999754 443 444 333
Q ss_pred ccCCCceeeccC
Q psy2050 84 WRTSNCDKTSPV 95 (131)
Q Consensus 84 ~~p~~~v~~~~~ 95 (131)
+. ++++....+
T Consensus 170 ~l-Glsv~~i~g 180 (656)
T PRK12898 170 AL-GLTVGCVVE 180 (656)
T ss_pred hc-CCEEEEEeC
Confidence 32 355554333
No 98
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=94.48 E-value=0.17 Score=43.34 Aligned_cols=79 Identities=18% Similarity=0.099 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc-----CCC
Q psy2050 16 QLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR-----TSN 88 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~-----p~~ 88 (131)
|.+-...+......+...++--..|.|||+..+.-+........ ..+++|.+|. .++.|..+ +.... ..+
T Consensus 2 Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~---~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i 78 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERP---DQKIAIAVPTLALMGQLWSELERLTAEGLAGPV 78 (636)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhcc---CceEEEECCcHHHHHHHHHHHHHHHHhhcCCCe
Confidence 77777777777666666667779999999887766544333211 4789999995 57778777 66554 234
Q ss_pred ceeeccCCC
Q psy2050 89 CDKTSPVKP 97 (131)
Q Consensus 89 ~v~~~~~~~ 97 (131)
++....|+.
T Consensus 79 ~~~~lkGr~ 87 (636)
T TIGR03117 79 QAGFFPGSQ 87 (636)
T ss_pred eEEEEECCc
Confidence 444444444
No 99
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=94.47 E-value=0.2 Score=42.64 Aligned_cols=62 Identities=11% Similarity=-0.038 Sum_probs=46.4
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
.+...|+.|++...-+......+...++=-..|.|||+..++......... ..+++|.++..
T Consensus 12 ~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~----~~~viist~t~ 73 (654)
T COG1199 12 PGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREE----GKKVIISTRTK 73 (654)
T ss_pred CCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHc----CCcEEEECCCH
Confidence 678899999999888886666666788889999999999998776655443 24444444443
No 100
>PRK09694 helicase Cas3; Provisional
Probab=94.39 E-value=0.15 Score=45.28 Aligned_cols=83 Identities=16% Similarity=0.060 Sum_probs=53.4
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhh-hhhhhc---
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCK-YKVPSR--- 83 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~-W~~~~~--- 83 (131)
..+.+|+|..+..-. ....-.||-..||.|||-.++.++..+...+. ....++..|.- +.++ ..++++
T Consensus 284 ~~~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~---~~gi~~aLPT~Atan~m~~Rl~~~~~ 356 (878)
T PRK09694 284 GYQPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGL---ADSIIFALPTQATANAMLSRLEALAS 356 (878)
T ss_pred CCCChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCC---CCeEEEECcHHHHHHHHHHHHHHHHH
Confidence 557899999763221 12334588999999999999988776655443 36788889954 4443 443443
Q ss_pred -ccCCCceeeccCCCc
Q psy2050 84 -WRTSNCDKTSPVKPQ 98 (131)
Q Consensus 84 -~~p~~~v~~~~~~~~ 98 (131)
.+++.++...|+...
T Consensus 357 ~~f~~~~v~L~Hg~a~ 372 (878)
T PRK09694 357 KLFPSPNLILAHGNSR 372 (878)
T ss_pred HhcCCCceEeecCcch
Confidence 345556666665543
No 101
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=93.88 E-value=0.53 Score=41.06 Aligned_cols=93 Identities=17% Similarity=0.034 Sum_probs=64.0
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhh-hhhhhcccC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCK-YKVPSRWRT 86 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~-W~~~~~~~p 86 (131)
...|-+-|..+++-+..........+|..-.|-|||=.=+.++......+ +-+||++| -++..| |.+|+.-+.
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~G-----kqvLvLVPEI~Ltpq~~~rf~~rFg 270 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQG-----KQVLVLVPEIALTPQLLARFKARFG 270 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcC-----CEEEEEeccccchHHHHHHHHHHhC
Confidence 45778889999988876552234678899999999988888887777765 66999999 578887 555555554
Q ss_pred CCceee--ccCCCcchhhhhhcC
Q psy2050 87 SNCDKT--SPVKPQTITVAQLRV 107 (131)
Q Consensus 87 ~~~v~~--~~~~~~~~~~~~~~~ 107 (131)
.++.+ ...++.++.....++
T Consensus 271 -~~v~vlHS~Ls~~er~~~W~~~ 292 (730)
T COG1198 271 -AKVAVLHSGLSPGERYRVWRRA 292 (730)
T ss_pred -CChhhhcccCChHHHHHHHHHH
Confidence 45555 444444443333333
No 102
>PF13245 AAA_19: Part of AAA domain
Probab=93.68 E-value=0.27 Score=30.41 Aligned_cols=44 Identities=20% Similarity=0.232 Sum_probs=32.4
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC 76 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~ 76 (131)
-.++--..|.|||..++..+..+....... ..++|+++|....-
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~-~~~vlv~a~t~~aa 55 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELLAARADP-GKRVLVLAPTRAAA 55 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHHhcCC-CCeEEEECCCHHHH
Confidence 355588999999999999888877542222 47899999975433
No 103
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.67 E-value=0.35 Score=41.83 Aligned_cols=70 Identities=19% Similarity=0.128 Sum_probs=52.0
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CC-chhhhhh-hhc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SS-TLCKYKV-PSR 83 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~s-l~~~W~~-~~~ 83 (131)
..||.|++-..-+......+..+++-...|.|||+.+++...+...... ..+-+|.|. .+ -+.|-.+ +++
T Consensus 10 ~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~---~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKP---EVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhcc---ccccEEEEcccchHHHHHHHHHHh
Confidence 4589999999999988888889999999999999999987665443222 123455554 43 3667777 777
No 104
>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=93.56 E-value=0.27 Score=42.14 Aligned_cols=66 Identities=17% Similarity=0.155 Sum_probs=48.7
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSR 83 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~ 83 (131)
..|-+.|++++..... .....++-...|.|||.++.+++......+ .++|+++|... +.+-.+ +.+
T Consensus 156 ~~ln~~Q~~Av~~~l~---~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g-----~~VLv~a~sn~Avd~l~e~l~~ 223 (637)
T TIGR00376 156 PNLNESQKEAVSFALS---SKDLFLIHGPPGTGKTRTLVELIRQLVKRG-----LRVLVTAPSNIAVDNLLERLAL 223 (637)
T ss_pred CCCCHHHHHHHHHHhc---CCCeEEEEcCCCCCHHHHHHHHHHHHHHcC-----CCEEEEcCcHHHHHHHHHHHHh
Confidence 4678899999987652 224567888999999999888887766543 57999999765 555555 554
No 105
>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=92.19 E-value=0.48 Score=35.04 Aligned_cols=54 Identities=22% Similarity=0.171 Sum_probs=36.4
Q ss_pred chHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 13 AGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
-+.|...++-+. ...--++....|.|||..|++.......++.. .+.+++-|..
T Consensus 6 ~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~---~kiii~Rp~v 59 (205)
T PF02562_consen 6 NEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEY---DKIIITRPPV 59 (205)
T ss_dssp SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS----SEEEEEE-S-
T ss_pred CHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCC---cEEEEEecCC
Confidence 458999887777 44556777889999999999998877766543 5666666644
No 106
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=92.06 E-value=0.64 Score=33.71 Aligned_cols=56 Identities=18% Similarity=0.180 Sum_probs=36.0
Q ss_pred CcchHHHHHHHHHHHHhhccc-CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQL-CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~-g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
+|-+-|++++..++. ++. -.++...-|.|||...-.+...+... ..++++++|..-
T Consensus 1 ~L~~~Q~~a~~~~l~---~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~-----g~~v~~~apT~~ 57 (196)
T PF13604_consen 1 TLNEEQREAVRAILT---SGDRVSVLQGPAGTGKTTLLKALAEALEAA-----GKRVIGLAPTNK 57 (196)
T ss_dssp -S-HHHHHHHHHHHH---CTCSEEEEEESTTSTHHHHHHHHHHHHHHT-----T--EEEEESSHH
T ss_pred CCCHHHHHHHHHHHh---cCCeEEEEEECCCCCHHHHHHHHHHHHHhC-----CCeEEEECCcHH
Confidence 467889999988763 333 46677889999998655544434332 377889999653
No 107
>KOG0334|consensus
Probab=91.73 E-value=0.41 Score=42.82 Aligned_cols=94 Identities=14% Similarity=0.063 Sum_probs=57.9
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHH-HHHHHHHhCC-CCCCCCE-EEEecCC-chhh---hhh-hh
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVIS-FLAYLHEAGL-SRPKSPH-LIIVPSS-TLCK---YKV-PS 82 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia-~l~~~~~~~~-~~~~~~~-LIv~P~s-l~~~---W~~-~~ 82 (131)
+.++-|.+|+-.+. .++-.|--...|.|||+.-+- ++..+..+.. ..+.+|. ||+||.- +..| |.+ |.
T Consensus 387 k~~~IQ~qAiP~Im----sGrdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtrela~QI~r~~~kf~ 462 (997)
T KOG0334|consen 387 KPTPIQAQAIPAIM----SGRDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTRELAMQIHREVRKFL 462 (997)
T ss_pred CCcchhhhhcchhc----cCcceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCHHHHHHHHHHHHHHH
Confidence 56677777776666 777778788999999986532 2323332222 2345775 7889954 4445 555 55
Q ss_pred cccCCCceeeccCCCcchhhhhhcCc
Q psy2050 83 RWRTSNCDKTSPVKPQTITVAQLRVP 108 (131)
Q Consensus 83 ~~~p~~~v~~~~~~~~~~~~~~~~~~ 108 (131)
+...-.-+.+|++.+....+..++..
T Consensus 463 k~l~ir~v~vygg~~~~~qiaelkRg 488 (997)
T KOG0334|consen 463 KLLGIRVVCVYGGSGISQQIAELKRG 488 (997)
T ss_pred hhcCceEEEecCCccHHHHHHHHhcC
Confidence 55333344457777766666666643
No 108
>PRK14873 primosome assembly protein PriA; Provisional
Probab=91.73 E-value=0.64 Score=40.16 Aligned_cols=54 Identities=13% Similarity=0.044 Sum_probs=43.5
Q ss_pred CCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcccCCCceeeccCCC
Q psy2050 39 MGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRWRTSNCDKTSPVKP 97 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~~p~~~v~~~~~~~ 97 (131)
.|-|||-.-+.++......+ +.+||++| -++..|+.+ |+..+++..+.++|.+-
T Consensus 169 ~GSGKTevyl~~i~~~l~~G-----k~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l 224 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAG-----RGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGL 224 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcC-----CeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCC
Confidence 48999999999888777664 56999999 578899999 99999866677765544
No 109
>KOG0951|consensus
Probab=91.67 E-value=0.49 Score=43.61 Aligned_cols=61 Identities=15% Similarity=-0.003 Sum_probs=42.8
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCC------CCCCCEEEEec-CCchhhhhh-hhcccCCCceee
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLS------RPKSPHLIIVP-SSTLCKYKV-PSRWRTSNCDKT 92 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~------~~~~~~LIv~P-~sl~~~W~~-~~~~~p~~~v~~ 92 (131)
.-++|...|.|||..|+--+..-...+.. ....+..=|+| .+++..|.. |.++...+.|.+
T Consensus 327 nmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V 395 (1674)
T KOG0951|consen 327 NMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAPLGITV 395 (1674)
T ss_pred cEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccccCcEE
Confidence 44668889999999887655433322221 12445677889 577888999 999998887777
No 110
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=91.61 E-value=0.31 Score=45.53 Aligned_cols=84 Identities=17% Similarity=0.037 Sum_probs=44.9
Q ss_pred eCCCCCCHHHHHHH-HHHHHHHhCC-------CCCCCCEEEEecCC-chhhhhh-hhc----c----------cCCCcee
Q psy2050 36 ADEMGLGKTIQVIS-FLAYLHEAGL-------SRPKSPHLIIVPSS-TLCKYKV-PSR----W----------RTSNCDK 91 (131)
Q Consensus 36 ad~mGlGKT~~~ia-~l~~~~~~~~-------~~~~~~~LIv~P~s-l~~~W~~-~~~----~----------~p~~~v~ 91 (131)
+-..|.|||+.+.- +|..+..+.. ......+|+|+|.- +..|=.+ ++. + .++++|.
T Consensus 2 ~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V~ 81 (1490)
T PRK09751 2 IAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVG 81 (1490)
T ss_pred cCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEEE
Confidence 45689999998875 4444443321 01135689999964 4433222 321 1 2456666
Q ss_pred eccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 92 TSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+.+|+.......... . ...+|||||.+.
T Consensus 82 vrtGDt~~~eR~rll--~--------~ppdILVTTPEs 109 (1490)
T PRK09751 82 IRTGDTPAQERSKLT--R--------NPPDILITTPES 109 (1490)
T ss_pred EEECCCCHHHHHHHh--c--------CCCCEEEecHHH
Confidence 655544332211111 0 036899999764
No 111
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=91.60 E-value=0.68 Score=36.51 Aligned_cols=47 Identities=19% Similarity=0.087 Sum_probs=34.9
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.++|+|.....-+....+-...-++...-|.|||..|.++...+..+
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 35899998887777642222244679999999999999998877764
No 112
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=91.55 E-value=0.65 Score=41.34 Aligned_cols=60 Identities=10% Similarity=-0.106 Sum_probs=36.5
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhh---hhh-hhcccCCCceeeccC
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCK---YKV-PSRWRTSNCDKTSPV 95 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~---W~~-~~~~~p~~~v~~~~~ 95 (131)
+.|-|--...|-|||+.+..-+...... ...++||+|.. |..| |.. +-++. ++++....+
T Consensus 95 h~G~Iaem~TGeGKTL~a~Lpa~~~al~-----G~~V~VvTpn~yLA~qd~e~m~~l~~~l-GLtv~~i~g 159 (896)
T PRK13104 95 HEGNIAEMRTGEGKTLVATLPAYLNAIS-----GRGVHIVTVNDYLAKRDSQWMKPIYEFL-GLTVGVIYP 159 (896)
T ss_pred ccCccccccCCCCchHHHHHHHHHHHhc-----CCCEEEEcCCHHHHHHHHHHHHHHhccc-CceEEEEeC
Confidence 3566667789999999776544433322 25689999964 4444 555 54443 355555433
No 113
>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=91.44 E-value=0.87 Score=38.78 Aligned_cols=57 Identities=19% Similarity=0.238 Sum_probs=41.8
Q ss_pred hHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 14 GYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
+.|++|+.... .+.-.++....|.|||-++..++..+..........++++.+|..-
T Consensus 148 ~~Qk~A~~~al----~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGk 204 (586)
T TIGR01447 148 NWQKVAVALAL----KSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGK 204 (586)
T ss_pred HHHHHHHHHHh----hCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHH
Confidence 68998887666 5667888999999999998888877655433211246888899653
No 114
>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=91.13 E-value=0.62 Score=35.11 Aligned_cols=55 Identities=20% Similarity=0.200 Sum_probs=35.6
Q ss_pred chHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 13 AGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
-+-|.+++++ . .+ ..++-..-|.|||.+.+.-+..+...+.. .+...|++++...
T Consensus 2 ~~eQ~~~i~~-~----~~-~~lV~a~AGSGKT~~l~~ri~~ll~~~~~-~~~~Il~lTft~~ 56 (315)
T PF00580_consen 2 TDEQRRIIRS-T----EG-PLLVNAGAGSGKTTTLLERIAYLLYEGGV-PPERILVLTFTNA 56 (315)
T ss_dssp -HHHHHHHHS------SS-EEEEEE-TTSSHHHHHHHHHHHHHHTSSS-TGGGEEEEESSHH
T ss_pred CHHHHHHHhC-C----CC-CEEEEeCCCCCchHHHHHHHHHhhccccC-ChHHheecccCHH
Confidence 3557777755 2 22 23334459999999999888777665532 1577899988654
No 115
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=90.60 E-value=1.4 Score=39.64 Aligned_cols=57 Identities=18% Similarity=0.202 Sum_probs=41.0
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEE-EEec-CCchhhhhh-hhcccCCCcee
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHL-IIVP-SSTLCKYKV-PSRWRTSNCDK 91 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~L-Iv~P-~sl~~~W~~-~~~~~p~~~v~ 91 (131)
.+|++.+--|.|||+++.-+...+... . ..|++ +|+- .-|-.|=.+ |+.+.......
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~-~---~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~ 333 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLEL-P---KNPKVLFVVDRKDLDDQTSDEFQSFGKVAFND 333 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhc-c---CCCeEEEEechHHHHHHHHHHHHHHHHhhhhc
Confidence 479999999999999998776655555 2 45555 4444 446778888 99887665443
No 116
>PRK10536 hypothetical protein; Provisional
Probab=90.56 E-value=1.1 Score=34.38 Aligned_cols=40 Identities=20% Similarity=-0.026 Sum_probs=29.9
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.-..|...+.++. .+.-.++-.+.|.|||..++++.....
T Consensus 60 ~n~~Q~~~l~al~----~~~lV~i~G~aGTGKT~La~a~a~~~l 99 (262)
T PRK10536 60 RNEAQAHYLKAIE----SKQLIFATGEAGCGKTWISAAKAAEAL 99 (262)
T ss_pred CCHHHHHHHHHHh----cCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 3457777777665 445667788999999999999877543
No 117
>KOG0298|consensus
Probab=90.24 E-value=0.036 Score=50.32 Aligned_cols=45 Identities=29% Similarity=0.352 Sum_probs=36.4
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
...+.|.....|+...+.-..+|.++||||+|||++-.+++....
T Consensus 286 ~~l~~~~~~~~~~l~~e~l~~~~t~~de~gl~k~~E~~a~~~~n~ 330 (1394)
T KOG0298|consen 286 LKLCFQFYSFEEELPKESLSPGGTLADEMGLGKTVEFLAMLTSNR 330 (1394)
T ss_pred hccceecccccccchhccCCCcchHHHHhhhHHHHHHHHHHhccC
Confidence 345677777888887777777899999999999999999886553
No 118
>KOG1803|consensus
Probab=90.17 E-value=0.66 Score=39.55 Aligned_cols=64 Identities=19% Similarity=0.190 Sum_probs=47.7
Q ss_pred CCCCcchHHHHHHHHHHHHhhcc-cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQ-LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV 80 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~-~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~ 80 (131)
....|-+-|++|+.+.. .. .--++-...|.|||.+..-+|..+..++ +++||.+|..+ +.|=.+
T Consensus 182 ~~~~ln~SQk~Av~~~~----~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~-----k~VLVcaPSn~AVdNive 247 (649)
T KOG1803|consen 182 FNKNLNSSQKAAVSFAI----NNKDLLIIHGPPGTGKTRTLVEIISQLVKQK-----KRVLVCAPSNVAVDNIVE 247 (649)
T ss_pred CCccccHHHHHHHHHHh----ccCCceEeeCCCCCCceeeHHHHHHHHHHcC-----CeEEEEcCchHHHHHHHH
Confidence 45678889999998877 33 3446677899999999998888877763 77888888765 444333
No 119
>PRK04296 thymidine kinase; Provisional
Probab=89.96 E-value=0.66 Score=33.45 Aligned_cols=33 Identities=18% Similarity=0.262 Sum_probs=24.9
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
++..+||.|||..++.++...... ..+++++-|
T Consensus 6 litG~~GsGKTT~~l~~~~~~~~~-----g~~v~i~k~ 38 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYNYEER-----GMKVLVFKP 38 (190)
T ss_pred EEECCCCCHHHHHHHHHHHHHHHc-----CCeEEEEec
Confidence 567899999999999887766543 256777765
No 120
>KOG0335|consensus
Probab=89.92 E-value=0.68 Score=38.44 Aligned_cols=83 Identities=14% Similarity=0.094 Sum_probs=52.9
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHH-HHHHHHhCCCC-----C--CCCEEEEecC-Cchhhhh
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISF-LAYLHEAGLSR-----P--KSPHLIIVPS-STLCKYK 79 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~-l~~~~~~~~~~-----~--~~~~LIv~P~-sl~~~W~ 79 (131)
....-|+|+.++.-+. .+++...+...|.|||.--+-= +..+.+++... . ....||++|. .++.|=-
T Consensus 94 ~~~ptpvQk~sip~i~----~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~ 169 (482)
T KOG0335|consen 94 YTKPTPVQKYSIPIIS----GGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIY 169 (482)
T ss_pred ccCCCcceeeccceee----cCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHH
Confidence 3455678888876555 6667777889999999865443 23344443321 1 2347899995 5788866
Q ss_pred h-hhcccCC--Cceee-ccC
Q psy2050 80 V-PSRWRTS--NCDKT-SPV 95 (131)
Q Consensus 80 ~-~~~~~p~--~~v~~-~~~ 95 (131)
+ .+|+... ++..+ |.+
T Consensus 170 nea~k~~~~s~~~~~~~ygg 189 (482)
T KOG0335|consen 170 NEARKFSYLSGMKSVVVYGG 189 (482)
T ss_pred HHHHhhcccccceeeeeeCC
Confidence 6 8888755 34443 555
No 121
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=89.82 E-value=1.3 Score=35.02 Aligned_cols=48 Identities=10% Similarity=0.062 Sum_probs=37.7
Q ss_pred CcchHHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
.++|+|...-+.+.....+++ .+ ++..+-|.||+..|.++...+....
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~ 52 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQ 52 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCC
Confidence 468888888887777766654 34 5699999999999999988877643
No 122
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=89.72 E-value=0.93 Score=41.00 Aligned_cols=69 Identities=14% Similarity=0.191 Sum_probs=53.5
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhh-hhh-hhcc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCK-YKV-PSRW 84 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~-W~~-~~~~ 84 (131)
.++.|-++|++++.-+. .+.+-+++.-.|.|||+.+-.++..-...+ .++.-..| +.+-+| ..+ .++|
T Consensus 116 ~~F~LD~fQ~~a~~~Le----r~esVlV~ApTssGKTvVaeyAi~~al~~~-----qrviYTsPIKALsNQKyrdl~~~f 186 (1041)
T COG4581 116 YPFELDPFQQEAIAILE----RGESVLVCAPTSSGKTVVAEYAIALALRDG-----QRVIYTSPIKALSNQKYRDLLAKF 186 (1041)
T ss_pred CCCCcCHHHHHHHHHHh----CCCcEEEEccCCCCcchHHHHHHHHHHHcC-----CceEeccchhhhhhhHHHHHHHHh
Confidence 67899999999997766 788899999999999999988776554443 44888888 566666 444 5555
Q ss_pred c
Q psy2050 85 R 85 (131)
Q Consensus 85 ~ 85 (131)
.
T Consensus 187 g 187 (1041)
T COG4581 187 G 187 (1041)
T ss_pred h
Confidence 4
No 123
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=89.67 E-value=1.2 Score=38.93 Aligned_cols=84 Identities=14% Similarity=0.061 Sum_probs=58.9
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhcccC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSRWRT 86 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~~~p 86 (131)
....+++|..+++........+.-.+|-.+.|.|||..++.......... .....+.+-+.|.. ++.+=.+ +..++.
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~-~~~~~r~i~vlP~~t~ie~~~~r~~~~~~ 271 (733)
T COG1203 193 EHEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEK-IKLKSRVIYVLPFRTIIEDMYRRAKEIFG 271 (733)
T ss_pred CchhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhcc-ccccceEEEEccHHHHHHHHHHHHHhhhc
Confidence 34458899999988776554444678899999999999998877766653 11256777788854 4555555 888777
Q ss_pred CCceeec
Q psy2050 87 SNCDKTS 93 (131)
Q Consensus 87 ~~~v~~~ 93 (131)
...+...
T Consensus 272 ~~~~~~~ 278 (733)
T COG1203 272 LFSVIGK 278 (733)
T ss_pred ccccccc
Confidence 6666554
No 124
>KOG0345|consensus
Probab=89.30 E-value=1.9 Score=36.00 Aligned_cols=81 Identities=14% Similarity=0.053 Sum_probs=51.3
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH-HhCCCCCCC--CEEEEecCC-chhhhhh----hhc
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH-EAGLSRPKS--PHLIIVPSS-TLCKYKV----PSR 83 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~-~~~~~~~~~--~~LIv~P~s-l~~~W~~----~~~ 83 (131)
.-|-|..++-.++ .++--..-...|.|||+.-+.=+.... +.....+++ -.|||.|.. +..|=.+ |-.
T Consensus 29 mTpVQa~tIPlll----~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~ 104 (567)
T KOG0345|consen 29 MTPVQAATIPLLL----KNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLE 104 (567)
T ss_pred cCHHHHhhhHHHh----cCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHH
Confidence 3467777777777 666666677899999987766555444 322222233 579999964 4445444 444
Q ss_pred ccCCCceeeccCC
Q psy2050 84 WRTSNCDKTSPVK 96 (131)
Q Consensus 84 ~~p~~~v~~~~~~ 96 (131)
+.|.++...+.|+
T Consensus 105 ~l~~l~~~l~vGG 117 (567)
T KOG0345|consen 105 HLPNLNCELLVGG 117 (567)
T ss_pred hhhccceEEEecC
Confidence 4577777665555
No 125
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=89.13 E-value=1.5 Score=30.72 Aligned_cols=42 Identities=21% Similarity=0.202 Sum_probs=31.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~ 80 (131)
++..+.|.|||.-++.++...... ..+++++.......+..+
T Consensus 3 li~G~~G~GKT~l~~~~~~~~~~~-----g~~v~~~s~e~~~~~~~~ 44 (187)
T cd01124 3 LLSGGPGTGKTTFALQFLYAGLAR-----GEPGLYVTLEESPEELIE 44 (187)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHC-----CCcEEEEECCCCHHHHHH
Confidence 568899999999999988776654 367888887555554444
No 126
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=89.13 E-value=1.9 Score=36.98 Aligned_cols=58 Identities=19% Similarity=0.208 Sum_probs=41.1
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
.-+.|++|+.-.. .+.-.++....|.|||.++..++..+...... ...++++.+|..-
T Consensus 153 ~~d~Qk~Av~~a~----~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~-~~~~i~l~APTgk 210 (615)
T PRK10875 153 EVDWQKVAAAVAL----TRRISVISGGPGTGKTTTVAKLLAALIQLADG-ERCRIRLAAPTGK 210 (615)
T ss_pred CCHHHHHHHHHHh----cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCC-CCcEEEEECCcHH
Confidence 4579999986555 55678889999999999988887766543211 1245777888653
No 127
>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=88.89 E-value=2.1 Score=37.32 Aligned_cols=62 Identities=23% Similarity=0.163 Sum_probs=44.5
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC 76 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~ 76 (131)
.+..|-+-|++++..+. .++-.++....|.|||..+-+++......+. ..++++.+|.....
T Consensus 320 ~~~~l~~~Q~~Ai~~~~----~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~---~~~v~l~ApTg~AA 381 (720)
T TIGR01448 320 LRKGLSEEQKQALDTAI----QHKVVILTGGPGTGKTTITRAIIELAEELGG---LLPVGLAAPTGRAA 381 (720)
T ss_pred cCCCCCHHHHHHHHHHH----hCCeEEEECCCCCCHHHHHHHHHHHHHHcCC---CceEEEEeCchHHH
Confidence 35678899999997765 4556888999999999877766655544321 25677888875544
No 128
>KOG0348|consensus
Probab=87.77 E-value=2.2 Score=36.26 Aligned_cols=76 Identities=17% Similarity=0.163 Sum_probs=47.4
Q ss_pred chHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHh---CCCCCCCC-EEEEecCC-chhhhhh-hhcccC
Q psy2050 13 AGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEA---GLSRPKSP-HLIIVPSS-TLCKYKV-PSRWRT 86 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~---~~~~~~~~-~LIv~P~s-l~~~W~~-~~~~~p 86 (131)
-.-|.+++--++ .++-.++-...|-|||+.-+.=+...... ...+..++ .||++|.. ++.|=-+ ++|...
T Consensus 161 TsVQkq~IP~lL----~grD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~ 236 (708)
T KOG0348|consen 161 TSVQKQAIPVLL----EGRDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRELALQIYETVQKLLK 236 (708)
T ss_pred chHhhcchhhhh----cCcceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHHHHHHHHHHHHHHhc
Confidence 346777777666 57778889999999998655443332221 11223455 48999965 5556555 777664
Q ss_pred CCceee
Q psy2050 87 SNCDKT 92 (131)
Q Consensus 87 ~~~v~~ 92 (131)
.....+
T Consensus 237 ~~hWIV 242 (708)
T KOG0348|consen 237 PFHWIV 242 (708)
T ss_pred CceEEe
Confidence 444443
No 129
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=87.75 E-value=3.1 Score=31.51 Aligned_cols=37 Identities=14% Similarity=-0.066 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLA 52 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~ 52 (131)
.++-++.+......+..-+|-.+.|.|||..|-++..
T Consensus 7 ~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 7 VKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHH
Confidence 3444444444444667778899999999999987754
No 130
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=87.63 E-value=2.5 Score=37.40 Aligned_cols=65 Identities=14% Similarity=0.084 Sum_probs=46.0
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKY 78 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W 78 (131)
+++..|+-|.+-...+......+...++-...|.|||+.-+.-+.... . ..+++|.+|.. +..|=
T Consensus 242 ~~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~----~--~~~vvI~t~T~~Lq~Ql 307 (820)
T PRK07246 242 LGLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQS----D--QRQIIVSVPTKILQDQI 307 (820)
T ss_pred CCCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhc----C--CCcEEEEeCcHHHHHHH
Confidence 467889999998777777776665666677999999986665432211 1 47899999964 55563
No 131
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=87.06 E-value=2.5 Score=37.90 Aligned_cols=69 Identities=12% Similarity=0.093 Sum_probs=45.7
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhh-hhh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCK-YKV 80 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~-W~~ 80 (131)
+++..|+-|.+-.+.+......+...++=-..|.|||+.-+.-+...... . .+|++|-++. .++.| +.+
T Consensus 254 ~~~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~--~--~~~vvIsT~T~~LQ~Ql~~k 324 (928)
T PRK08074 254 PKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKK--K--EEPVVISTYTIQLQQQLLEK 324 (928)
T ss_pred CCCcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhc--c--CCeEEEEcCCHHHHHHHHHh
Confidence 56788999999888777777666666666689999998665433222221 1 3667777774 45556 443
No 132
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=86.39 E-value=1.9 Score=38.19 Aligned_cols=58 Identities=10% Similarity=-0.104 Sum_probs=34.7
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhcccCC--Cceee
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSRWRTS--NCDKT 92 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~~~p~--~~v~~ 92 (131)
+.|.|.--..|-|||+.+...+......+ ..+-||+|.. |..|=.+ +..++.. +++..
T Consensus 94 ~~G~Iaem~TGeGKTLva~lpa~l~aL~G-----~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~ 155 (830)
T PRK12904 94 HEGKIAEMKTGEGKTLVATLPAYLNALTG-----KGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGV 155 (830)
T ss_pred cCCchhhhhcCCCcHHHHHHHHHHHHHcC-----CCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEE
Confidence 35667777899999997665443233332 4566999975 4444333 5555543 44444
No 133
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=86.29 E-value=2.1 Score=36.86 Aligned_cols=69 Identities=16% Similarity=0.119 Sum_probs=44.5
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHH-HHHHHHHHhCCCCCCCCEEEEecC-Cchhh-hhh-hhccc
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVI-SFLAYLHEAGLSRPKSPHLIIVPS-STLCK-YKV-PSRWR 85 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~i-a~l~~~~~~~~~~~~~~~LIv~P~-sl~~~-W~~-~~~~~ 85 (131)
..|.|-|.-+|.--+ -.+..-++....+.|||+..= |-+-..... .++.|..+|+ .+.+| ..+ -+++.
T Consensus 215 ~eLlPVQ~laVe~GL---LeG~nllVVSaTasGKTLIgElAGi~~~l~~-----g~KmlfLvPLVALANQKy~dF~~rYs 286 (830)
T COG1202 215 EELLPVQVLAVEAGL---LEGENLLVVSATASGKTLIGELAGIPRLLSG-----GKKMLFLVPLVALANQKYEDFKERYS 286 (830)
T ss_pred ceecchhhhhhhhcc---ccCCceEEEeccCCCcchHHHhhCcHHHHhC-----CCeEEEEehhHHhhcchHHHHHHHhh
Confidence 468899998875322 155566778889999999653 223333222 4889999996 56666 444 45554
Q ss_pred C
Q psy2050 86 T 86 (131)
Q Consensus 86 p 86 (131)
+
T Consensus 287 ~ 287 (830)
T COG1202 287 K 287 (830)
T ss_pred c
Confidence 4
No 134
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=85.64 E-value=1 Score=32.29 Aligned_cols=39 Identities=26% Similarity=0.171 Sum_probs=26.0
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
.+.+-++....|.|||.-|.|+.......+ .+++.+--.
T Consensus 46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g-----~~v~f~~~~ 84 (178)
T PF01695_consen 46 NGENLILYGPPGTGKTHLAVAIANEAIRKG-----YSVLFITAS 84 (178)
T ss_dssp C--EEEEEESTTSSHHHHHHHHHHHHHHTT-------EEEEEHH
T ss_pred cCeEEEEEhhHhHHHHHHHHHHHHHhccCC-----cceeEeecC
Confidence 445667788899999999999987776643 445555433
No 135
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=85.58 E-value=3.4 Score=37.06 Aligned_cols=59 Identities=10% Similarity=-0.126 Sum_probs=35.0
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCch-hhhhh-hhcccCC--Cceeec
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTL-CKYKV-PSRWRTS--NCDKTS 93 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~-~~W~~-~~~~~p~--~~v~~~ 93 (131)
+.|.|-=-..|-|||+.+...+...... ...+-||+|...+ .+=.+ +..++.. +++-..
T Consensus 95 h~G~iaEM~TGEGKTLvA~l~a~l~al~-----G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i 157 (913)
T PRK13103 95 HEGKIAEMRTGEGKTLVGTLAVYLNALS-----GKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIV 157 (913)
T ss_pred ccCccccccCCCCChHHHHHHHHHHHHc-----CCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEE
Confidence 3466655678999999766444333333 3678888997554 43233 5655543 444443
No 136
>KOG0947|consensus
Probab=85.48 E-value=3.4 Score=37.47 Aligned_cols=76 Identities=13% Similarity=-0.008 Sum_probs=54.6
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhccc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSRWR 85 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~~~ 85 (131)
-.+.|-.+|++|+-.|. .+..-+.|.-...|||+.|=..++..... ..+++--.|.- +=+|=-+ |+.-+
T Consensus 294 ~pFelD~FQk~Ai~~le----rg~SVFVAAHTSAGKTvVAEYAialaq~h-----~TR~iYTSPIKALSNQKfRDFk~tF 364 (1248)
T KOG0947|consen 294 YPFELDTFQKEAIYHLE----RGDSVFVAAHTSAGKTVVAEYAIALAQKH-----MTRTIYTSPIKALSNQKFRDFKETF 364 (1248)
T ss_pred CCCCccHHHHHHHHHHH----cCCeEEEEecCCCCcchHHHHHHHHHHhh-----ccceEecchhhhhccchHHHHHHhc
Confidence 56888999999997766 77788999999999999987766533332 36677778844 4445334 77777
Q ss_pred CCCceee
Q psy2050 86 TSNCDKT 92 (131)
Q Consensus 86 p~~~v~~ 92 (131)
.+....+
T Consensus 365 ~DvgLlT 371 (1248)
T KOG0947|consen 365 GDVGLLT 371 (1248)
T ss_pred cccceee
Confidence 7766443
No 137
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=85.23 E-value=5.8 Score=31.28 Aligned_cols=48 Identities=15% Similarity=-0.019 Sum_probs=36.7
Q ss_pred CcchHHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
+++|+|...-..+......++ +-++...-|.||+..|.++...+....
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~ 53 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQN 53 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCC
Confidence 568888888777776655554 346689999999999999987776643
No 138
>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=85.12 E-value=2.9 Score=32.96 Aligned_cols=44 Identities=16% Similarity=0.207 Sum_probs=30.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~ 80 (131)
++-...|.|||+.++.++..+..... ....+++|+...+.+..+
T Consensus 5 ~I~G~aGTGKTvla~~l~~~l~~~~~---~~~~~~l~~n~~l~~~l~ 48 (352)
T PF09848_consen 5 LITGGAGTGKTVLALNLAKELQNSEE---GKKVLYLCGNHPLRNKLR 48 (352)
T ss_pred EEEecCCcCHHHHHHHHHHHhhcccc---CCceEEEEecchHHHHHH
Confidence 45667899999999998877721111 467788888766555444
No 139
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=84.29 E-value=5.2 Score=35.17 Aligned_cols=68 Identities=18% Similarity=0.053 Sum_probs=40.7
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCch-hhhhh-hhcccC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTL-CKYKV-PSRWRT 86 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~-~~W~~-~~~~~p 86 (131)
+...++-|.-|...|. .|.|.=-..|-|||+.+...+...... ...+-||+|...+ .+=.+ +..++.
T Consensus 76 g~r~ydvQlig~l~Ll------~G~VaEM~TGEGKTLvA~l~a~l~AL~-----G~~VhvvT~NdyLA~RDae~m~~ly~ 144 (764)
T PRK12326 76 GLRPFDVQLLGALRLL------AGDVIEMATGEGKTLAGAIAAAGYALQ-----GRRVHVITVNDYLARRDAEWMGPLYE 144 (764)
T ss_pred CCCcchHHHHHHHHHh------CCCcccccCCCCHHHHHHHHHHHHHHc-----CCCeEEEcCCHHHHHHHHHHHHHHHH
Confidence 3444556666654443 344544456999999988766555444 3678889997654 44333 555544
Q ss_pred C
Q psy2050 87 S 87 (131)
Q Consensus 87 ~ 87 (131)
.
T Consensus 145 ~ 145 (764)
T PRK12326 145 A 145 (764)
T ss_pred h
Confidence 3
No 140
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=84.09 E-value=10 Score=26.55 Aligned_cols=45 Identities=16% Similarity=0.121 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHhCCC
Q psy2050 16 QLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~~~~ 60 (131)
|.+.+..+.....+++ .+ ++..+-|.||+-.+.+++..+......
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~ 49 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPN 49 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-C
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCC
Confidence 6677777777766665 44 778899999999999999887765543
No 141
>PRK11054 helD DNA helicase IV; Provisional
Probab=82.89 E-value=4.5 Score=35.15 Aligned_cols=70 Identities=13% Similarity=0.032 Sum_probs=47.2
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh--hhccc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV--PSRWR 85 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~--~~~~~ 85 (131)
...|-+-|+++|.. .....++-...|.|||.+.++-+..+...+.. .+...|+++...-..+.-. +....
T Consensus 194 ~~~L~~~Q~~av~~------~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~-~~~~IL~ltft~~AA~em~eRL~~~l 265 (684)
T PRK11054 194 SSPLNPSQARAVVN------GEDSLLVLAGAGSGKTSVLVARAGWLLARGQA-QPEQILLLAFGRQAAEEMDERIRERL 265 (684)
T ss_pred CCCCCHHHHHHHhC------CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCC-CHHHeEEEeccHHHHHHHHHHHHHhc
Confidence 46789999999842 22334455559999999999988877765432 1567889988665555433 54444
No 142
>PRK07952 DNA replication protein DnaC; Validated
Probab=82.85 E-value=6.9 Score=29.59 Aligned_cols=43 Identities=16% Similarity=0.029 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhh---cc-cCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHN---QQ-LCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~---~~-~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|+.++..+..... .+ .+-+|....|.|||..+.++...+...
T Consensus 80 ~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~ 126 (244)
T PRK07952 80 GQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLR 126 (244)
T ss_pred hHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 45556554443221 22 245789999999999999988776654
No 143
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=82.65 E-value=4.1 Score=28.03 Aligned_cols=25 Identities=32% Similarity=0.396 Sum_probs=18.7
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
+.--+|..++|.|||.-+-+++..+
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 3344678999999998887776654
No 144
>KOG1131|consensus
Probab=81.14 E-value=8.7 Score=32.85 Aligned_cols=59 Identities=15% Similarity=0.169 Sum_probs=40.5
Q ss_pred CcchHHHHHHHHHHHHhh---cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 11 KLAGYQLVGLNWLAVMHN---QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~---~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
..+|-|.+ +|.+..+ .++.|+|-..-|.|||+.-++++.+.....++ ...-||-|...+
T Consensus 16 ~iYPEQ~~---YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~--~~~KliYCSRTv 77 (755)
T KOG1131|consen 16 YIYPEQYE---YMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPD--EHRKLIYCSRTV 77 (755)
T ss_pred ccCHHHHH---HHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCc--ccceEEEecCcc
Confidence 34566654 5554443 45578999999999999999998877665554 345577776443
No 145
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=80.98 E-value=3.7 Score=35.44 Aligned_cols=55 Identities=15% Similarity=0.020 Sum_probs=37.9
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
.|-+-|+++|.+ ..+..++--..|.|||.+.++-+..+...... ++...|+++..
T Consensus 2 ~Ln~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v-~p~~IL~lTFT 56 (672)
T PRK10919 2 RLNPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGY-QARHIAAVTFT 56 (672)
T ss_pred CCCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC-CHHHeeeEech
Confidence 467889998853 22334555669999999999988887764322 14667777763
No 146
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=80.95 E-value=5.4 Score=29.09 Aligned_cols=48 Identities=17% Similarity=0.131 Sum_probs=33.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh-CCCCCCCCEEEEecCCchhhhhh-hhccc
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA-GLSRPKSPHLIIVPSSTLCKYKV-PSRWR 85 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~-~~~~~~~~~LIv~P~sl~~~W~~-~~~~~ 85 (131)
-++..+.|.|||.-++.++.....+ + .+++.|.-..-..+..+ ++.+.
T Consensus 22 ~li~G~~GsGKT~l~~q~l~~~~~~~g-----e~vlyvs~ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 22 VLISGPPGSGKTTLALQFLYNGLKNFG-----EKVLYVSFEEPPEELIENMKSFG 71 (226)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHHHT-------EEEEESSS-HHHHHHHHHTTT
T ss_pred EEEEeCCCCCcHHHHHHHHHHhhhhcC-----CcEEEEEecCCHHHHHHHHHHcC
Confidence 4668899999999999998877665 5 67888886655566655 55553
No 147
>PRK06835 DNA replication protein DnaC; Validated
Probab=80.87 E-value=7.3 Score=30.79 Aligned_cols=47 Identities=13% Similarity=0.046 Sum_probs=31.0
Q ss_pred CcchHHHHHHH----HHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 11 KLAGYQLVGLN----WLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 11 ~L~~~Q~~~v~----~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
..+.++..++. |.......+.+-+|..+.|.|||.-+.|+...+...
T Consensus 160 ~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 160 SPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 44556666655 333222234566778899999999998887766654
No 148
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=80.32 E-value=6.4 Score=34.89 Aligned_cols=67 Identities=15% Similarity=0.045 Sum_probs=41.0
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhcccCC
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSRWRTS 87 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~~~p~ 87 (131)
...++-|.-|.--| +.|.|.=-..|-|||+.+...+......+ ..+-|++|... ..+=.+ +..++..
T Consensus 79 ~~~~dvQlig~l~l------~~G~iaEm~TGEGKTLvA~l~a~l~al~G-----~~v~vvT~neyLA~Rd~e~~~~~~~~ 147 (796)
T PRK12906 79 LRPFDVQIIGGIVL------HEGNIAEMKTGEGKTLTATLPVYLNALTG-----KGVHVVTVNEYLSSRDATEMGELYRW 147 (796)
T ss_pred CCCchhHHHHHHHH------hcCCcccccCCCCCcHHHHHHHHHHHHcC-----CCeEEEeccHHHHHhhHHHHHHHHHh
Confidence 34455566554222 34666666889999999876655554443 66888899654 444333 5555543
No 149
>PRK05973 replicative DNA helicase; Provisional
Probab=80.32 E-value=3.9 Score=30.89 Aligned_cols=34 Identities=18% Similarity=0.239 Sum_probs=25.5
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
-+++...|.|||.-++-++.....++ .+++++.-
T Consensus 67 ~LIaG~PG~GKT~lalqfa~~~a~~G-----e~vlyfSl 100 (237)
T PRK05973 67 VLLGARPGHGKTLLGLELAVEAMKSG-----RTGVFFTL 100 (237)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhcC-----CeEEEEEE
Confidence 37799999999999998887665443 55666654
No 150
>PRK10646 ADP-binding protein; Provisional
Probab=80.23 E-value=4.8 Score=28.42 Aligned_cols=35 Identities=34% Similarity=0.407 Sum_probs=24.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
-+|..++|.|||.-+=+++..+-..... .+||--+
T Consensus 31 i~L~GdLGaGKTtf~rgl~~~Lg~~~~V--~SPTFtl 65 (153)
T PRK10646 31 IYLYGDLGAGKTTFSRGFLQALGHQGNV--KSPTYTL 65 (153)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCCCC--CCCCEee
Confidence 3578899999999888887766443333 4555443
No 151
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=79.70 E-value=9.7 Score=28.88 Aligned_cols=49 Identities=29% Similarity=0.243 Sum_probs=36.7
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hh
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PS 82 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~ 82 (131)
++.+-++-...|.|||.-++|+...+...+ .+++++--+.++.+..+ +.
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g-----~sv~f~~~~el~~~Lk~~~~ 153 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELLKAG-----ISVLFITAPDLLSKLKAAFD 153 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHcC-----CeEEEEEHHHHHHHHHHHHh
Confidence 566778899999999999999887777432 55666665677777666 54
No 152
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=79.60 E-value=4.3 Score=33.41 Aligned_cols=60 Identities=15% Similarity=0.009 Sum_probs=40.7
Q ss_pred chHHHHHHHHHHHHhh--------cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh
Q psy2050 13 AGYQLVGLNWLAVMHN--------QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~--------~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~ 80 (131)
++...+++.|...... ...|.+|....|.|||+.|-++.... ..+++-|-.++++..|.-
T Consensus 251 k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~--------~~~fi~v~~~~l~sk~vG 318 (494)
T COG0464 251 KEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALES--------RSRFISVKGSELLSKWVG 318 (494)
T ss_pred HHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhC--------CCeEEEeeCHHHhccccc
Confidence 4455677777765544 22356779999999999888875522 466665554588888864
No 153
>PRK08181 transposase; Validated
Probab=78.48 E-value=8.9 Score=29.44 Aligned_cols=46 Identities=15% Similarity=-0.002 Sum_probs=31.1
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
+-+-|..++.........+.+-++....|.|||--+.++.......
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~ 133 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIEN 133 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence 4456666664432222356677889999999999998887655544
No 154
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=78.39 E-value=1.5 Score=38.90 Aligned_cols=35 Identities=31% Similarity=0.293 Sum_probs=29.6
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
-.|.|.|||.+=+-.+..+++.-. ..+++||||.-
T Consensus 80 ~METGTGKTy~YlrtmfeLhk~YG---~~KFIivVPs~ 114 (985)
T COG3587 80 LMETGTGKTYTYLRTMFELHKKYG---LFKFIIVVPSL 114 (985)
T ss_pred EEecCCCceeeHHHHHHHHHHHhC---ceeEEEEeccH
Confidence 459999999999999988887655 48999999954
No 155
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=78.36 E-value=3.1 Score=31.21 Aligned_cols=25 Identities=24% Similarity=0.363 Sum_probs=19.2
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|.|||-.++.+...+...+ .++|+|
T Consensus 10 GVGKTT~~~nLA~~La~~g-----~rVLli 34 (268)
T TIGR01281 10 GIGKSTTSSNLSVAFAKLG-----KRVLQI 34 (268)
T ss_pred cCcHHHHHHHHHHHHHhCC-----CeEEEE
Confidence 7899999999887777654 556665
No 156
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=78.32 E-value=6.4 Score=31.02 Aligned_cols=49 Identities=12% Similarity=0.156 Sum_probs=39.1
Q ss_pred CCcchHHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
..++|+|......+......++ .-++...-|.||+..|.++...+..+.
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~ 54 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASG 54 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCC
Confidence 4689999999888777765555 346789999999999999988776654
No 157
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=78.27 E-value=10 Score=34.18 Aligned_cols=56 Identities=11% Similarity=-0.105 Sum_probs=34.1
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chh---hhhh-hhcccCCCceee
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLC---KYKV-PSRWRTSNCDKT 92 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~---~W~~-~~~~~p~~~v~~ 92 (131)
.|-|.--..|-|||+.+...+...... ...+.||+|.. |.. .|.. +-+| -++++-.
T Consensus 96 ~G~IaEm~TGEGKTL~a~lp~~l~al~-----g~~VhIvT~ndyLA~RD~e~m~~l~~~-lGlsv~~ 156 (908)
T PRK13107 96 SNRIAEMRTGEGKTLTATLPAYLNALT-----GKGVHVITVNDYLARRDAENNRPLFEF-LGLTVGI 156 (908)
T ss_pred CCccccccCCCCchHHHHHHHHHHHhc-----CCCEEEEeCCHHHHHHHHHHHHHHHHh-cCCeEEE
Confidence 455666688999999766444322222 35588999964 443 3666 5555 3455554
No 158
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=78.08 E-value=10 Score=29.51 Aligned_cols=36 Identities=19% Similarity=0.097 Sum_probs=26.5
Q ss_pred HHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 20 LNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 20 v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
..+|......+.+.+++..+|.|||-..-+++..+.
T Consensus 122 ~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~ 157 (299)
T TIGR02782 122 RDVLREAVLARKNILVVGGTGSGKTTLANALLAEIA 157 (299)
T ss_pred HHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence 345555555666778899999999998888775553
No 159
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=77.76 E-value=4.2 Score=34.81 Aligned_cols=56 Identities=16% Similarity=0.083 Sum_probs=41.7
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhh
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCK 77 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~ 77 (131)
-..|+-|.+.++.+. .++.++.--..|-||.+.-- |-++.. .+.||||.| .||+..
T Consensus 16 ~~FR~gQ~evI~~~l----~g~d~lvvmPTGgGKSlCyQ--iPAll~------~G~TLVVSPLiSLM~D 72 (590)
T COG0514 16 ASFRPGQQEIIDALL----SGKDTLVVMPTGGGKSLCYQ--IPALLL------EGLTLVVSPLISLMKD 72 (590)
T ss_pred cccCCCHHHHHHHHH----cCCcEEEEccCCCCcchHhh--hHHHhc------CCCEEEECchHHHHHH
Confidence 356778999998888 77889999999999987432 222222 489999999 577654
No 160
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=77.58 E-value=11 Score=28.58 Aligned_cols=36 Identities=28% Similarity=0.475 Sum_probs=26.2
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE-e-cCCchhhhhh
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII-V-PSSTLCKYKV 80 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv-~-P~sl~~~W~~ 80 (131)
|.|||-.++++...+..++ .++.+| + |..-+..|.+
T Consensus 12 GaGKTT~~~~LAs~la~~G-----~~V~lIDaDpn~pl~~W~~ 49 (231)
T PF07015_consen 12 GAGKTTAAMALASELAARG-----ARVALIDADPNQPLAKWAE 49 (231)
T ss_pred CCcHHHHHHHHHHHHHHCC-----CeEEEEeCCCCCcHHHHHH
Confidence 6899999999888887765 445444 3 3456778977
No 161
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=76.71 E-value=3.7 Score=31.01 Aligned_cols=25 Identities=28% Similarity=0.485 Sum_probs=19.9
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|-|||-.++.+...+...+ .++|+|
T Consensus 11 GVGKTT~~~nLA~~La~~G-----~rVLlI 35 (274)
T PRK13235 11 GIGKSTTTQNTVAGLAEMG-----KKVMVV 35 (274)
T ss_pred CccHHHHHHHHHHHHHHCC-----CcEEEE
Confidence 6899999999888887764 567666
No 162
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=76.67 E-value=7.2 Score=33.36 Aligned_cols=66 Identities=15% Similarity=0.058 Sum_probs=41.5
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcc
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRW 84 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~ 84 (131)
|-+-|++++.+ .....++-...|.|||-+.+.-+..+...... ++...|+|..+ .-...=.+ +.+.
T Consensus 2 Ln~~Q~~av~~------~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~-~p~~IL~vTFt~~Aa~em~~Rl~~~ 69 (664)
T TIGR01074 2 LNPQQQEAVEY------VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGY-KARNIAAVTFTNKAAREMKERVAKT 69 (664)
T ss_pred CCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCC-CHHHeEEEeccHHHHHHHHHHHHHH
Confidence 66789888743 23345556679999999999988887754222 14556776553 33444444 4443
No 163
>KOG0340|consensus
Probab=76.49 E-value=8.1 Score=31.36 Aligned_cols=67 Identities=10% Similarity=-0.124 Sum_probs=37.2
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhhhh-hhcccCC--CceeeccCCC
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKYKV-PSRWRTS--NCDKTSPVKP 97 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W~~-~~~~~p~--~~v~~~~~~~ 97 (131)
.++.||=+.-.|.|||..-.--+..-..+.+. .--.||+.|.. +..|=.+ |.-.-.. +++.++.|+.
T Consensus 43 eGrdcig~AkTGsGKT~AFaLPil~rLsedP~--giFalvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~ 113 (442)
T KOG0340|consen 43 EGRDCIGCAKTGSGKTAAFALPILNRLSEDPY--GIFALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGT 113 (442)
T ss_pred cccccccccccCCCcchhhhHHHHHhhccCCC--cceEEEecchHHHHHHHHHHHHHhcccccceEEEEEccH
Confidence 55677878899999997433222222222221 34568999964 5556555 5544433 4444444443
No 164
>PRK10037 cell division protein; Provisional
Probab=76.17 E-value=4 Score=30.45 Aligned_cols=28 Identities=25% Similarity=0.246 Sum_probs=21.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 37 DEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 37 d~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
.--|.|||..++.+...+...+ .++|+|
T Consensus 9 ~KGGvGKTT~a~nLA~~La~~G-----~rVLlI 36 (250)
T PRK10037 9 VRGGVGTTSITAALAWSLQMLG-----ENVLVI 36 (250)
T ss_pred CCCCccHHHHHHHHHHHHHhcC-----CcEEEE
Confidence 3347899999999888877654 467766
No 165
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=76.10 E-value=6.4 Score=34.09 Aligned_cols=46 Identities=24% Similarity=0.344 Sum_probs=30.7
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHH-hCCCCCCCCEEEEecCCchhhhh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHE-AGLSRPKSPHLIIVPSSTLCKYK 79 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~-~~~~~~~~~~LIv~P~sl~~~W~ 79 (131)
++-..-|.|||-.|+-=++.+.- .+..-..+++||+.|..+.....
T Consensus 230 VVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYi 276 (747)
T COG3973 230 VVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYI 276 (747)
T ss_pred EEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHH
Confidence 45778999999988765544332 22222368899999987765443
No 166
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=75.66 E-value=9.9 Score=24.42 Aligned_cols=25 Identities=24% Similarity=0.113 Sum_probs=18.4
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
+...++..+.|.|||..+-.+....
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHh
Confidence 4456779999999997666655444
No 167
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=75.42 E-value=4 Score=30.92 Aligned_cols=25 Identities=36% Similarity=0.607 Sum_probs=19.6
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|.|||-.++.+...+...+ .++|+|
T Consensus 11 GVGKTT~a~nLA~~La~~G-----~rVLli 35 (279)
T PRK13230 11 GIGKSTTVCNIAAALAESG-----KKVLVV 35 (279)
T ss_pred CCcHHHHHHHHHHHHHhCC-----CEEEEE
Confidence 6899999999888887664 456666
No 168
>KOG0333|consensus
Probab=75.20 E-value=4.7 Score=34.29 Aligned_cols=71 Identities=18% Similarity=0.252 Sum_probs=41.1
Q ss_pred chHHHHHHHHHHHHhhcccCeeeeCCCCCCHHH----HHHHHHHHHHHhCC--CCCCCC-EEEEecCCchhh-hhh-hhc
Q psy2050 13 AGYQLVGLNWLAVMHNQQLCGILADEMGLGKTI----QVISFLAYLHEAGL--SRPKSP-HLIIVPSSTLCK-YKV-PSR 83 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~----~~ia~l~~~~~~~~--~~~~~~-~LIv~P~sl~~~-W~~-~~~ 83 (131)
-|-|+.++--++ +.+.-|.--|.|.|||. ..+..|..+..... ..-.+| .+|.+|...+.| =.+ -.+
T Consensus 269 tpIqR~aipl~l----Q~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~k 344 (673)
T KOG0333|consen 269 TPIQRQAIPLGL----QNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNK 344 (673)
T ss_pred chHHHhhccchh----ccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHH
Confidence 356777776555 66667778899999993 33333333321000 001233 578889776554 444 777
Q ss_pred ccCC
Q psy2050 84 WRTS 87 (131)
Q Consensus 84 ~~p~ 87 (131)
|...
T Consensus 345 f~~~ 348 (673)
T KOG0333|consen 345 FGKP 348 (673)
T ss_pred hccc
Confidence 7643
No 169
>PRK06526 transposase; Provisional
Probab=75.04 E-value=4.9 Score=30.49 Aligned_cols=29 Identities=21% Similarity=0.101 Sum_probs=23.3
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.+.+-++....|.|||..+.++.......
T Consensus 97 ~~~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 97 GKENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred cCceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 55677888899999999999987666554
No 170
>KOG0353|consensus
Probab=74.84 E-value=7.3 Score=32.04 Aligned_cols=63 Identities=21% Similarity=0.124 Sum_probs=41.8
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
+.||-|+++++-.. .+.-.++--..|-||.+.- .+..... .+-+|||||+ |++..=.- ++...
T Consensus 94 kfrplq~~ain~~m----a~ed~~lil~tgggkslcy-----qlpal~a---dg~alvi~plislmedqil~lkqlg 158 (695)
T KOG0353|consen 94 KFRPLQLAAINATM----AGEDAFLILPTGGGKSLCY-----QLPALCA---DGFALVICPLISLMEDQILQLKQLG 158 (695)
T ss_pred hcChhHHHHhhhhh----ccCceEEEEeCCCccchhh-----hhhHHhc---CCceEeechhHHHHHHHHHHHHHhC
Confidence 35889999987766 6677888889999998632 1111111 4889999994 67664333 55443
No 171
>PRK08939 primosomal protein DnaI; Reviewed
Probab=74.69 E-value=13 Score=29.06 Aligned_cols=28 Identities=21% Similarity=0.286 Sum_probs=22.0
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
.|-+|....|.|||..+.|+...+...+
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l~~~g 184 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANELAKKG 184 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 3556788999999999999887776543
No 172
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=74.19 E-value=7.5 Score=27.02 Aligned_cols=31 Identities=16% Similarity=0.328 Sum_probs=22.9
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+.+-.-|-|||..++.+...+...+ .++|+|
T Consensus 4 v~s~kgG~GKTt~a~~LA~~la~~g-----~~vllv 34 (169)
T cd02037 4 VMSGKGGVGKSTVAVNLALALAKLG-----YKVGLL 34 (169)
T ss_pred EecCCCcCChhHHHHHHHHHHHHcC-----CcEEEE
Confidence 4455678999999999887776653 566666
No 173
>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=74.07 E-value=13 Score=32.56 Aligned_cols=58 Identities=12% Similarity=0.059 Sum_probs=41.3
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
+..|-+-|++++..+.. ..+-.+|-...|.|||-..-+++...... ..+++.++|...
T Consensus 350 ~~~Ls~~Q~~Av~~i~~---s~~~~il~G~aGTGKTtll~~i~~~~~~~-----g~~V~~~ApTg~ 407 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTG---SGDIAVVVGRAGTGKSTMLKAAREAWEAA-----GYRVIGAALSGK 407 (744)
T ss_pred cCCCCHHHHHHHHHHhc---CCCEEEEEecCCCCHHHHHHHHHHHHHhC-----CCeEEEEeCcHH
Confidence 46788999999987662 23456888999999998777665444333 256778888654
No 174
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=74.06 E-value=4.5 Score=27.48 Aligned_cols=23 Identities=30% Similarity=0.391 Sum_probs=18.1
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
--+|-.+||.|||.=+=+++..+
T Consensus 17 vi~L~GdLGaGKTtf~r~l~~~l 39 (123)
T PF02367_consen 17 VILLSGDLGAGKTTFVRGLARAL 39 (123)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHT
T ss_pred EEEEECCCCCCHHHHHHHHHHHc
Confidence 34567899999999888777665
No 175
>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=73.76 E-value=8.8 Score=34.13 Aligned_cols=53 Identities=13% Similarity=-0.007 Sum_probs=37.0
Q ss_pred HHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hh
Q psy2050 25 VMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PS 82 (131)
Q Consensus 25 ~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~ 82 (131)
+...++...|+..+.|.|||.+..-.+..... . ....+|+.|..+ ..|-.+ +.
T Consensus 12 ~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~---~--~~~ilvlqPrR~aA~qiA~rva 66 (819)
T TIGR01970 12 DALAAHPQVVLEAPPGAGKSTAVPLALLDAPG---I--GGKIIMLEPRRLAARSAAQRLA 66 (819)
T ss_pred HHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc---c--CCeEEEEeCcHHHHHHHHHHHH
Confidence 33346778899999999999998876654321 1 367999999765 334444 54
No 176
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=73.71 E-value=13 Score=28.62 Aligned_cols=37 Identities=24% Similarity=0.346 Sum_probs=24.3
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCch
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTL 75 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~ 75 (131)
..+..|.|.|||+..=+++. ...+ +.-+.|+.|...+
T Consensus 54 ~~vtGevGsGKTv~~Ral~~-s~~~-----d~~~~v~i~~~~~ 90 (269)
T COG3267 54 LAVTGEVGSGKTVLRRALLA-SLNE-----DQVAVVVIDKPTL 90 (269)
T ss_pred EEEEecCCCchhHHHHHHHH-hcCC-----CceEEEEecCcch
Confidence 45688999999999884443 3332 2445577775543
No 177
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=73.55 E-value=4.9 Score=30.28 Aligned_cols=25 Identities=32% Similarity=0.523 Sum_probs=19.6
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|.|||..+..+...+...+ .++|+|
T Consensus 10 GVGKTT~a~nLA~~La~~G-----~~Vlli 34 (275)
T TIGR01287 10 GIGKSTTTQNIAAALAEMG-----KKVMIV 34 (275)
T ss_pred cCcHHHHHHHHHHHHHHCC-----CeEEEE
Confidence 6899999999988888764 456665
No 178
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=73.51 E-value=5 Score=30.95 Aligned_cols=25 Identities=28% Similarity=0.375 Sum_probs=19.3
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|.|||-.++.+...+.+.+ .++|+|
T Consensus 10 GVGKTTta~nLA~~La~~G-----~rVLlI 34 (290)
T CHL00072 10 GIGKSTTSCNISIALARRG-----KKVLQI 34 (290)
T ss_pred CCcHHHHHHHHHHHHHHCC-----CeEEEE
Confidence 6899999999888887764 446554
No 179
>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=73.47 E-value=3.6 Score=28.98 Aligned_cols=46 Identities=17% Similarity=0.167 Sum_probs=28.5
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCch-hhhhh-hh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTL-CKYKV-PS 82 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~-~~W~~-~~ 82 (131)
-+|---.|.|||-..+--+..-...+ ..++||+.|.-++ .+=.+ ++
T Consensus 7 ~~~d~hpGaGKTr~vlp~~~~~~i~~----~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 7 TVLDLHPGAGKTRRVLPEIVREAIKR----RLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp EEEE--TTSSTTTTHHHHHHHHHHHT----T--EEEEESSHHHHHHHHHHTT
T ss_pred eEEecCCCCCCcccccHHHHHHHHHc----cCeEEEecccHHHHHHHHHHHh
Confidence 45666789999999887655433333 5899999998764 34444 44
No 180
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=73.41 E-value=5.2 Score=30.05 Aligned_cols=27 Identities=26% Similarity=0.340 Sum_probs=20.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
=-|-|||-.+..+...+...+ .++|+|
T Consensus 10 KGGVGKTT~~~nLA~~la~~G-----~kVLli 36 (270)
T PRK13185 10 KGGIGKSTTSSNLSAAFAKLG-----KKVLQI 36 (270)
T ss_pred CCCCCHHHHHHHHHHHHHHCC-----CeEEEE
Confidence 347899999999888887654 457766
No 181
>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=73.40 E-value=14 Score=29.42 Aligned_cols=61 Identities=16% Similarity=0.199 Sum_probs=42.9
Q ss_pred CcchHHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC 76 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~ 76 (131)
+|-+-|+++.+.+........ .-++...-|.|||...=++...+... ..++++++|..+..
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-----~~~~~~~a~tg~AA 63 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-----GKKVLVTAPTGIAA 63 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-----cceEEEecchHHHH
Confidence 356779999888866554433 34678889999999877766555332 46788888866544
No 182
>PRK08116 hypothetical protein; Validated
Probab=73.30 E-value=18 Score=27.54 Aligned_cols=41 Identities=24% Similarity=0.258 Sum_probs=27.9
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~ 77 (131)
|-+|..+.|.|||.-+.|+...+...+ .+++.+.-..++..
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~-----~~v~~~~~~~ll~~ 156 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKG-----VPVIFVNFPQLLNR 156 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC-----CeEEEEEHHHHHHH
Confidence 467899999999999998877766542 45555443334433
No 183
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=73.17 E-value=8.7 Score=33.42 Aligned_cols=55 Identities=15% Similarity=0.083 Sum_probs=37.6
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
.|-+-|+++|.+ ..+..++--..|.|||.+.+.-++.+...... ++...|+|+-.
T Consensus 9 ~Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v-~p~~IL~lTFT 63 (721)
T PRK11773 9 SLNDKQREAVAA------PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENA-SPYSIMAVTFT 63 (721)
T ss_pred hcCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCC-ChhHeEeeecc
Confidence 578889999842 22334555569999999999988887764322 14567776663
No 184
>PF12846 AAA_10: AAA-like domain
Probab=73.17 E-value=12 Score=27.89 Aligned_cols=37 Identities=24% Similarity=0.337 Sum_probs=26.4
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
...++...+|.|||..+..++......+ .+++|+=|.
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g-----~~~~i~D~~ 38 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRG-----PRVVIFDPK 38 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcC-----CCEEEEcCC
Confidence 3467788999999998887776665543 556666554
No 185
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=72.99 E-value=5.5 Score=29.90 Aligned_cols=25 Identities=28% Similarity=0.401 Sum_probs=19.3
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|-|||-.+..+...+...+ .++|+|
T Consensus 10 GvGKTT~a~nLA~~la~~G-----~rvlli 34 (267)
T cd02032 10 GIGKSTTSSNLSVALAKRG-----KKVLQI 34 (267)
T ss_pred CCCHHHHHHHHHHHHHHCC-----CcEEEE
Confidence 7899999999888887664 456655
No 186
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=72.73 E-value=4.9 Score=25.56 Aligned_cols=38 Identities=18% Similarity=0.149 Sum_probs=25.3
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
.-++....|.|||..+..++..+.... ..++.+.+...
T Consensus 4 ~~~l~G~~G~GKTtl~~~l~~~~~~~~-----~~~~~~~~~~~ 41 (148)
T smart00382 4 VILIVGPPGSGKTTLARALARELGPPG-----GGVIYIDGEDI 41 (148)
T ss_pred EEEEECCCCCcHHHHHHHHHhccCCCC-----CCEEEECCEEc
Confidence 346788899999999888765553221 24666666543
No 187
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=72.31 E-value=9.3 Score=28.32 Aligned_cols=34 Identities=24% Similarity=0.255 Sum_probs=25.8
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
-+++.+.|.|||.-+.-++...... ..+++.|.-
T Consensus 24 ~lI~G~pGsGKT~la~~~l~~~~~~-----ge~~lyvs~ 57 (237)
T TIGR03877 24 VLLSGGPGTGKSIFSQQFLWNGLQM-----GEPGIYVAL 57 (237)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHc-----CCcEEEEEe
Confidence 3669999999999999888765543 366777764
No 188
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=72.02 E-value=8 Score=33.55 Aligned_cols=55 Identities=15% Similarity=0.054 Sum_probs=38.3
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
.|-+-|+++|.. ..+..++--..|.|||-+.+.-++.+...... ++...|+++..
T Consensus 4 ~Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v-~p~~IL~lTFT 58 (715)
T TIGR01075 4 GLNDKQREAVAA------PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENA-SPHSIMAVTFT 58 (715)
T ss_pred ccCHHHHHHHcC------CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCC-CHHHeEeeecc
Confidence 477889998842 22345667779999999999988887765332 14567776663
No 189
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=71.81 E-value=9.3 Score=28.88 Aligned_cols=25 Identities=16% Similarity=0.094 Sum_probs=19.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-+++.+.|.|||.-++.++......
T Consensus 39 ~lI~G~pGtGKT~l~~qf~~~~a~~ 63 (259)
T TIGR03878 39 INITGVSDTGKSLMVEQFAVTQASR 63 (259)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhC
Confidence 3568899999999999887765443
No 190
>PTZ00293 thymidine kinase; Provisional
Probab=71.64 E-value=9.5 Score=28.37 Aligned_cols=33 Identities=15% Similarity=0.248 Sum_probs=23.6
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
++...|+.|||-+-|-.+...... ..+++++-|
T Consensus 8 vi~GpMfSGKTteLLr~i~~y~~a-----g~kv~~~kp 40 (211)
T PTZ00293 8 VIIGPMFSGKTTELMRLVKRFTYS-----EKKCVVIKY 40 (211)
T ss_pred EEECCCCChHHHHHHHHHHHHHHc-----CCceEEEEe
Confidence 457889999998777765544333 467888877
No 191
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=71.27 E-value=6.5 Score=28.50 Aligned_cols=27 Identities=30% Similarity=0.388 Sum_probs=20.5
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
=-|-|||-.+..+...+...+ .++|+|
T Consensus 8 KGGvGKTt~~~nLA~~la~~G-----~rvLli 34 (212)
T cd02117 8 KGGIGKSTTSQNLSAALAEMG-----KKVLQV 34 (212)
T ss_pred CCcCcHHHHHHHHHHHHHHCC-----CcEEEE
Confidence 457899999998888887764 456665
No 192
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=71.20 E-value=16 Score=31.33 Aligned_cols=40 Identities=20% Similarity=0.199 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
-|.+++..+......+...++..+.|.|||..+-++...+
T Consensus 22 G~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l 61 (608)
T TIGR00764 22 GQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELL 61 (608)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHc
Confidence 4677777777767777788999999999999888876555
No 193
>PHA02518 ParA-like protein; Provisional
Probab=71.19 E-value=6.4 Score=27.99 Aligned_cols=36 Identities=25% Similarity=0.481 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe--cCCchhhhhh
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLIIV--PSSTLCKYKV 80 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~--P~sl~~~W~~ 80 (131)
|.|||-.++.+...+...+ .++|+|- |-.....|..
T Consensus 11 GvGKTT~a~~la~~la~~g-----~~vlliD~D~q~~~~~~~~ 48 (211)
T PHA02518 11 GAGKTTVATNLASWLHADG-----HKVLLVDLDPQGSSTDWAE 48 (211)
T ss_pred CCCHHHHHHHHHHHHHhCC-----CeEEEEeCCCCCChHHHHH
Confidence 6899999999887777653 5666653 4555667866
No 194
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=70.93 E-value=6.8 Score=26.97 Aligned_cols=29 Identities=24% Similarity=0.340 Sum_probs=21.8
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+.-=|.|||..+..+...+...+ .++|+|
T Consensus 6 ~~kgG~GKtt~a~~la~~l~~~g-----~~vllv 34 (179)
T cd02036 6 SGKGGVGKTTTTANLGTALAQLG-----YKVVLI 34 (179)
T ss_pred eCCCCCCHHHHHHHHHHHHHhCC-----CeEEEE
Confidence 34457999999999888777654 567777
No 195
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=70.50 E-value=13 Score=27.51 Aligned_cols=39 Identities=21% Similarity=0.223 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHhhcccC-eeeeCCCCCCHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQLC-GILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~g-~ilad~mGlGKT~~~ia~l~~ 53 (131)
.+.+++..+......+.+ .++..+.|.|||..+-.+...
T Consensus 27 ~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 27 GHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHh
Confidence 456677766655544443 577999999999877765433
No 196
>KOG0780|consensus
Probab=70.33 E-value=3.5 Score=33.82 Aligned_cols=80 Identities=14% Similarity=0.144 Sum_probs=44.7
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhhhhcccCCCceeeccC--CCcchhhhhhcCccCCC
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKVPSRWRTSNCDKTSPV--KPQTITVAQLRVPECDQ 112 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~~~~~~p~~~v~~~~~--~~~~~~~~~~~~~~~~~ 112 (131)
..==|-|||-++--+.+++.+.+ .++.+||- ..-..-.-+++.++...++-.|.. ..+..++.....-+
T Consensus 107 VGLqG~GKTTtc~KlA~y~kkkG-----~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~--- 178 (483)
T KOG0780|consen 107 VGLQGSGKTTTCTKLAYYYKKKG-----YKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDR--- 178 (483)
T ss_pred EeccCCCcceeHHHHHHHHHhcC-----CceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHH---
Confidence 55568999998888877777765 44555555 444444444677766555544333 33333333222100
Q ss_pred CCCCCCCCcEEEE
Q psy2050 113 SPSQEVGYNDIIM 125 (131)
Q Consensus 113 ~~~~~~~~~VvIt 125 (131)
-...+|||||.
T Consensus 179 --fKke~fdvIIv 189 (483)
T KOG0780|consen 179 --FKKENFDVIIV 189 (483)
T ss_pred --HHhcCCcEEEE
Confidence 11236898885
No 197
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=70.25 E-value=6.5 Score=30.31 Aligned_cols=27 Identities=37% Similarity=0.468 Sum_probs=20.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
--|.|||..+..+...+.+.+ .++|+|
T Consensus 12 KGGvGKTt~~~nLa~~la~~g-----~kVLli 38 (295)
T PRK13234 12 KGGIGKSTTSQNTLAALVEMG-----QKILIV 38 (295)
T ss_pred CCCccHHHHHHHHHHHHHHCC-----CeEEEE
Confidence 347899999999888877764 556666
No 198
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=70.20 E-value=7.5 Score=27.77 Aligned_cols=25 Identities=28% Similarity=0.518 Sum_probs=21.8
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
|.+.+.|.|||..+++++..+.+.+
T Consensus 5 I~~t~t~vGKT~vslgL~~~l~~~g 29 (199)
T PF13500_consen 5 ITGTDTGVGKTVVSLGLARALRRRG 29 (199)
T ss_dssp EEESSSSSSHHHHHHHHHHHHHHTT
T ss_pred EEeCCCCCCHHHHHHHHHHHHHhCC
Confidence 5688999999999999998887764
No 199
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=69.76 E-value=7 Score=29.48 Aligned_cols=26 Identities=27% Similarity=0.438 Sum_probs=19.8
Q ss_pred CCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 39 MGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
=|-|||-.++.+...+...+ .++|+|
T Consensus 10 GGVGKTT~a~nLA~~La~~G-----~rVllv 35 (273)
T PRK13232 10 GGIGKSTTTQNLTAALSTMG-----NKILLV 35 (273)
T ss_pred CCCcHHHHHHHHHHHHHhhC-----CCeEEE
Confidence 36899999999888887664 456655
No 200
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=69.73 E-value=7.2 Score=28.56 Aligned_cols=29 Identities=31% Similarity=0.390 Sum_probs=20.6
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+--=|.|||..++.+...+...+ .++|+|
T Consensus 8 s~KGGvGKTt~a~nla~~la~~g-----~~Vlli 36 (246)
T TIGR03371 8 GVKGGVGKTTLTANLASALKLLG-----EPVLAI 36 (246)
T ss_pred eCCCCccHHHHHHHHHHHHHhCC-----CcEEEE
Confidence 33458999999999887776553 455554
No 201
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=69.65 E-value=21 Score=28.19 Aligned_cols=34 Identities=18% Similarity=0.192 Sum_probs=24.3
Q ss_pred HHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 22 WLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 22 ~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
++......+.+-+++..+|.|||-..-+++..+.
T Consensus 136 ~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~ 169 (323)
T PRK13833 136 VIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIV 169 (323)
T ss_pred HHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHh
Confidence 4444444555667899999999998877766553
No 202
>PRK04328 hypothetical protein; Provisional
Probab=69.57 E-value=12 Score=28.17 Aligned_cols=33 Identities=27% Similarity=0.363 Sum_probs=24.4
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
+++.+.|.|||.-+..++......+ .+++.|.-
T Consensus 27 li~G~pGsGKT~l~~~fl~~~~~~g-----e~~lyis~ 59 (249)
T PRK04328 27 LLSGGPGTGKSIFSQQFLWNGLQMG-----EPGVYVAL 59 (249)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhcC-----CcEEEEEe
Confidence 5689999999999998887654443 55665553
No 203
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=69.55 E-value=31 Score=30.09 Aligned_cols=43 Identities=14% Similarity=0.038 Sum_probs=30.3
Q ss_pred CCCCcchHHHHHHHHHHHHhhcc-----cCeeeeCCCCCCHHHHHHHH
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQ-----LCGILADEMGLGKTIQVISF 50 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~-----~g~ilad~mGlGKT~~~ia~ 50 (131)
+++.-|+-|.+-...+....... ..+++=-..|.|||+-=+.-
T Consensus 22 ~~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlP 69 (697)
T PRK11747 22 PGFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLA 69 (697)
T ss_pred CCCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHH
Confidence 46788999999877777666553 33444448999999865543
No 204
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=69.48 E-value=14 Score=30.10 Aligned_cols=50 Identities=18% Similarity=0.136 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhhccc----CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 16 QLVGLNWLAVMHNQQL----CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~----g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.++|..-+.+.-+.++ +-+++...|.|||..|+++...+- . +-|+..+.-
T Consensus 32 AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG---~---~~PF~~isg 85 (398)
T PF06068_consen 32 AREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELG---E---DVPFVSISG 85 (398)
T ss_dssp HHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCT---T---TS-EEEEEG
T ss_pred HHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhC---C---CCCeeEccc
Confidence 3455555555555443 346699999999999988765442 1 477776654
No 205
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=69.48 E-value=6.9 Score=29.12 Aligned_cols=25 Identities=32% Similarity=0.525 Sum_probs=18.8
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
|.|||-.+..+...+...+ .++|+|
T Consensus 11 GvGKTT~~~nLA~~La~~G-----~kVlli 35 (270)
T cd02040 11 GIGKSTTTQNLSAALAEMG-----KKVMIV 35 (270)
T ss_pred cCCHHHHHHHHHHHHHhCC-----CeEEEE
Confidence 6899999998888777654 455555
No 206
>PRK13236 nitrogenase reductase; Reviewed
Probab=69.45 E-value=7.1 Score=30.11 Aligned_cols=19 Identities=37% Similarity=0.555 Sum_probs=16.2
Q ss_pred CCCHHHHHHHHHHHHHHhC
Q psy2050 40 GLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~ 58 (131)
|.|||..++.+...+...+
T Consensus 16 GVGKTt~a~NLA~~La~~G 34 (296)
T PRK13236 16 GIGKSTTSQNTLAAMAEMG 34 (296)
T ss_pred cCCHHHHHHHHHHHHHHCC
Confidence 6899999999888887764
No 207
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=69.42 E-value=7.3 Score=28.53 Aligned_cols=28 Identities=25% Similarity=0.261 Sum_probs=20.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 37 DEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 37 d~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
.-=|.|||..++.+...+...+ .++|+|
T Consensus 8 ~KGGvGKTt~a~~LA~~la~~g-----~~Vlli 35 (251)
T TIGR01969 8 GKGGTGKTTITANLGVALAKLG-----KKVLAL 35 (251)
T ss_pred CCCCCcHHHHHHHHHHHHHHCC-----CeEEEE
Confidence 3347899999998887776643 456665
No 208
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=69.29 E-value=7.7 Score=30.22 Aligned_cols=27 Identities=26% Similarity=0.375 Sum_probs=20.0
Q ss_pred CCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe
Q psy2050 39 MGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~ 70 (131)
=|.|||-.+.|......+.+ .++|+|.
T Consensus 10 GGVGKTT~aaA~A~~~A~~G-----~rtLlvS 36 (305)
T PF02374_consen 10 GGVGKTTVAAALALALARRG-----KRTLLVS 36 (305)
T ss_dssp TTSSHHHHHHHHHHHHHHTT-----S-EEEEE
T ss_pred CCCCcHHHHHHHHHHHhhCC-----CCeeEee
Confidence 37899999999887777654 5677763
No 209
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=69.26 E-value=12 Score=25.87 Aligned_cols=25 Identities=32% Similarity=0.563 Sum_probs=21.0
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
|-+.+.|-|||..++.++..+.+.+
T Consensus 2 I~~t~~~~GKT~va~~L~~~l~~~g 26 (166)
T TIGR00347 2 VTGTDTGVGKTVASSALAAKLKKAG 26 (166)
T ss_pred eecCCCCccHHHHHHHHHHHHHHCC
Confidence 4567899999999999998887764
No 210
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=69.15 E-value=12 Score=28.73 Aligned_cols=41 Identities=20% Similarity=0.055 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|.+.+..+......+. .-++..+.|.|||..+.++...+..
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~ 62 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYG 62 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4455555555444444 5677999999999999988766643
No 211
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=69.12 E-value=21 Score=28.61 Aligned_cols=44 Identities=11% Similarity=0.064 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
-|.++...+......++ .-++...-|.||+..+.++...+..+.
T Consensus 23 Gq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 23 GHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 46677776666666654 457799999999999999998887654
No 212
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.84 E-value=13 Score=29.49 Aligned_cols=42 Identities=17% Similarity=0.011 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|...+..+......++ .. ++..+.|.|||..+-+++..+..
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c 64 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNC 64 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence 56777776666555543 34 78999999999999988766643
No 213
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=68.79 E-value=19 Score=26.14 Aligned_cols=36 Identities=22% Similarity=0.246 Sum_probs=25.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
+++.+.|.|||.-++.++.....+ ..+++.+....-
T Consensus 20 li~G~~G~GKt~~~~~~~~~~~~~-----g~~~~y~s~e~~ 55 (224)
T TIGR03880 20 VVIGEYGTGKTTFSLQFLYQGLKN-----GEKAMYISLEER 55 (224)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhC-----CCeEEEEECCCC
Confidence 568889999999998887654443 256666665443
No 214
>PRK12377 putative replication protein; Provisional
Probab=68.58 E-value=29 Score=26.32 Aligned_cols=26 Identities=15% Similarity=0.086 Sum_probs=21.3
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
+-+|....|.|||-.+.|+...+...
T Consensus 103 ~l~l~G~~GtGKThLa~AIa~~l~~~ 128 (248)
T PRK12377 103 NFVFSGKPGTGKNHLAAAIGNRLLAK 128 (248)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 45778899999999999988777654
No 215
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=68.21 E-value=8 Score=27.25 Aligned_cols=36 Identities=33% Similarity=0.425 Sum_probs=26.4
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~ 70 (131)
-+|..++|.|||.=+=+++..+-..+.. .+||--++
T Consensus 28 v~L~GdLGAGKTtf~rgi~~~Lg~~~~V--~SPTFtlv 63 (149)
T COG0802 28 VLLSGDLGAGKTTLVRGIAKGLGVDGNV--KSPTFTLV 63 (149)
T ss_pred EEEEcCCcCChHHHHHHHHHHcCCCCcc--cCCCeeee
Confidence 4668899999999888888777655555 56654443
No 216
>PF05729 NACHT: NACHT domain
Probab=68.14 E-value=15 Score=24.61 Aligned_cols=26 Identities=23% Similarity=0.247 Sum_probs=20.3
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
++..+.|.|||..+-.++........
T Consensus 4 ~I~G~~G~GKStll~~~~~~~~~~~~ 29 (166)
T PF05729_consen 4 WISGEPGSGKSTLLRKLAQQLAEEEP 29 (166)
T ss_pred EEECCCCCChHHHHHHHHHHHHhcCc
Confidence 56788999999998887776666553
No 217
>cd05568 PTS_IIB_bgl_like PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved in sugar utilization. The domain architecture of the IIB-containing protein includes a region N-terminal to the IIB domain which is homologous to the BglG transcription antiterminator with an RNA-binding domain followed by two homologous domains, PRD1 and PRD2 (PTS Regulation Domains). C-terminal to the IIB domain is a domain similar to the PTS IIA domain. In this system, the BglG-like region and the IIB and IIA-like domains are all expressed together as a single multidomain protein. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include this sensory system with similarity to the bacterial
Probab=67.97 E-value=5.9 Score=24.08 Aligned_cols=27 Identities=11% Similarity=0.018 Sum_probs=16.7
Q ss_pred CEEEEecCCc-hhhhhh--hhcccCCCcee
Q psy2050 65 PHLIIVPSST-LCKYKV--PSRWRTSNCDK 91 (131)
Q Consensus 65 ~~LIv~P~sl-~~~W~~--~~~~~p~~~v~ 91 (131)
+.++||+... ..+=.+ +++.+++..+.
T Consensus 2 kilivC~~G~~~s~~l~~~l~~~~~~~~~v 31 (85)
T cd05568 2 KALVVCPSGIGTSRLLKSKLKKLFPEIEII 31 (85)
T ss_pred eEEEECCCCHHHHHHHHHHHHHHCCCceEE
Confidence 4678888655 333333 88888776553
No 218
>PRK06921 hypothetical protein; Provisional
Probab=67.74 E-value=17 Score=27.70 Aligned_cols=28 Identities=21% Similarity=0.086 Sum_probs=21.5
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
+.+-++..+.|.|||.-+.|++..+...
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANELMRK 144 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 3456778899999999998887766543
No 219
>KOG0342|consensus
Probab=67.50 E-value=7.6 Score=32.61 Aligned_cols=69 Identities=17% Similarity=0.030 Sum_probs=37.8
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCC--CCCCCEEEEecCC-chhhhhh----hhcccCCCceeeccCCC
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEAGLS--RPKSPHLIIVPSS-TLCKYKV----PSRWRTSNCDKTSPVKP 97 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~--~~~~~~LIv~P~s-l~~~W~~----~~~~~p~~~v~~~~~~~ 97 (131)
.++-.+-+.-.|.|||+.-+--.........- ...-.++||||.. +..|=.. +-++.+...+-+..|+.
T Consensus 118 ~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~ 193 (543)
T KOG0342|consen 118 EGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGN 193 (543)
T ss_pred CCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCc
Confidence 44556667889999998654333332222111 1234579999965 4445333 44555555555533333
No 220
>PRK10818 cell division inhibitor MinD; Provisional
Probab=67.48 E-value=8.2 Score=28.91 Aligned_cols=21 Identities=29% Similarity=0.395 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHHHHHHhC
Q psy2050 38 EMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~ 58 (131)
-=|.|||..++.+...+...+
T Consensus 11 KGGvGKTt~a~nlA~~la~~g 31 (270)
T PRK10818 11 KGGVGKTTSSAAIATGLAQKG 31 (270)
T ss_pred CCCCcHHHHHHHHHHHHHHCC
Confidence 347899999999888777653
No 221
>KOG1807|consensus
Probab=67.04 E-value=10 Score=33.73 Aligned_cols=68 Identities=15% Similarity=0.117 Sum_probs=49.3
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCC-CCCCCCEEEEec-CCchhhhhh-hhc
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGL-SRPKSPHLIIVP-SSTLCKYKV-PSR 83 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~-~~~~~~~LIv~P-~sl~~~W~~-~~~ 83 (131)
|.+-|..|...+. ...-.|+....|.|||..++-.+-.+..+.- -....|.||+|= .+.+.|.-. +-.
T Consensus 379 ldsSq~~A~qs~l----tyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~ 449 (1025)
T KOG1807|consen 379 LDSSQQFAKQSKL----TYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYY 449 (1025)
T ss_pred ecHHHHHHHHHHh----hhhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHh
Confidence 4557888887766 4556788999999999999887766655431 122689999998 567777766 543
No 222
>PRK13531 regulatory ATPase RavA; Provisional
Probab=66.72 E-value=13 Score=31.24 Aligned_cols=38 Identities=8% Similarity=-0.015 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 17 LVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 17 ~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+.++-+......+...+|-++.|.|||..|-++....
T Consensus 26 e~vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 26 SHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred HHHHHHHHHHHccCCCEEEECCCChhHHHHHHHHHHHh
Confidence 34444444444466678889999999999988776543
No 223
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=66.48 E-value=32 Score=23.78 Aligned_cols=24 Identities=29% Similarity=0.494 Sum_probs=19.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
++....|.|||..+..+...+...
T Consensus 4 ~~~G~~G~GKTt~~~~la~~~~~~ 27 (173)
T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKK 27 (173)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC
Confidence 557789999999998887766554
No 224
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=66.29 E-value=14 Score=27.60 Aligned_cols=36 Identities=28% Similarity=0.388 Sum_probs=29.1
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
-++..++|.|||.-++-++......+ .|++.|.-..
T Consensus 26 ~lI~G~pGsGKT~f~~qfl~~~~~~g-----e~vlyvs~~e 61 (260)
T COG0467 26 VLITGPPGTGKTIFALQFLYEGAREG-----EPVLYVSTEE 61 (260)
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHhcC-----CcEEEEEecC
Confidence 35688999999999999998877763 7888887643
No 225
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=65.88 E-value=9.6 Score=28.33 Aligned_cols=28 Identities=32% Similarity=0.434 Sum_probs=19.6
Q ss_pred CCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe
Q psy2050 39 MGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~ 70 (131)
=|.|||-.|+-+...+...+ ..++|+|=
T Consensus 12 GGvGKTT~a~nLa~~La~~~----~~kVLliD 39 (259)
T COG1192 12 GGVGKTTTAVNLAAALAKRG----GKKVLLID 39 (259)
T ss_pred CCccHHHHHHHHHHHHHHhc----CCcEEEEe
Confidence 37899999999888777443 14555553
No 226
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=65.84 E-value=34 Score=24.76 Aligned_cols=56 Identities=20% Similarity=0.154 Sum_probs=36.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhhhhcccCCCceeec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKVPSRWRTSNCDKTS 93 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~~~~~~p~~~v~~~ 93 (131)
++....|.|||-++.=+.......+ .+..||-+-..-+.-.++++.|+.-+++-.+
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~~----~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~ 60 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLKG----KKVALISADTYRIGAVEQLKTYAEILGVPFY 60 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTT------EEEEEESTSSTHHHHHHHHHHHHHTEEEE
T ss_pred EEECCCCCchHhHHHHHHHHHhhcc----ccceeecCCCCCccHHHHHHHHHHHhccccc
Confidence 4567789999998887776666552 3444444446667777777777766665543
No 227
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=65.56 E-value=17 Score=29.03 Aligned_cols=42 Identities=12% Similarity=0.088 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|.++...+......++ ..++..+.|.|||..+..+...+..
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 35566677777666665 4677999999999999988877655
No 228
>PRK10867 signal recognition particle protein; Provisional
Probab=65.38 E-value=21 Score=29.37 Aligned_cols=24 Identities=25% Similarity=0.391 Sum_probs=19.6
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
++...-|.|||-++.-+...+...
T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~~ 127 (433)
T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKKK 127 (433)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHh
Confidence 557899999999998887776655
No 229
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=65.29 E-value=4.5 Score=27.92 Aligned_cols=22 Identities=27% Similarity=0.292 Sum_probs=15.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+|-+..|.|||..+.++...+
T Consensus 2 vLleg~PG~GKT~la~~lA~~~ 23 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARSL 23 (131)
T ss_dssp EEEES---HHHHHHHHHHHHHT
T ss_pred EeeECCCccHHHHHHHHHHHHc
Confidence 4678999999999999876554
No 230
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=64.99 E-value=20 Score=27.29 Aligned_cols=40 Identities=23% Similarity=0.152 Sum_probs=27.4
Q ss_pred chHHHHHHHHHHHHhhcccC-eeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 13 AGYQLVGLNWLAVMHNQQLC-GILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~g-~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.+.|.+.+..+. ....| .+++.++|.|||-..-+++..+.
T Consensus 65 ~~~~~~~l~~~~---~~~~GlilisG~tGSGKTT~l~all~~i~ 105 (264)
T cd01129 65 KPENLEIFRKLL---EKPHGIILVTGPTGSGKTTTLYSALSELN 105 (264)
T ss_pred CHHHHHHHHHHH---hcCCCEEEEECCCCCcHHHHHHHHHhhhC
Confidence 445666665554 23344 46799999999999888876653
No 231
>PLN03025 replication factor C subunit; Provisional
Probab=64.80 E-value=18 Score=28.02 Aligned_cols=42 Identities=21% Similarity=0.173 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|.+.+..+......+. .-++....|.|||..+.++...+..
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~ 60 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG 60 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhc
Confidence 45566666555444433 4578999999999999988766643
No 232
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=64.52 E-value=28 Score=27.08 Aligned_cols=39 Identities=15% Similarity=0.055 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
+.+.+..+......++..+|-++.|.|||.-+=++...+
T Consensus 29 ~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l 67 (329)
T COG0714 29 DEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARAL 67 (329)
T ss_pred cHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHh
Confidence 555555555555577788999999999999888776555
No 233
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=64.44 E-value=10 Score=27.47 Aligned_cols=26 Identities=27% Similarity=0.464 Sum_probs=22.0
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|.+.+.|.|||..+++++..+...+.
T Consensus 4 I~~t~t~~GKT~vs~~L~~~l~~~g~ 29 (222)
T PRK00090 4 VTGTDTDVGKTVVTAALAQALREAGY 29 (222)
T ss_pred EEeCCCCcCHHHHHHHHHHHHHHcCC
Confidence 45789999999999999988877654
No 234
>KOG0338|consensus
Probab=64.41 E-value=16 Score=31.21 Aligned_cols=49 Identities=14% Similarity=0.081 Sum_probs=25.4
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCC-CCCCCEEEEecCC-chhhhhh-hhcc
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLS-RPKSPHLIIVPSS-TLCKYKV-PSRW 84 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~-~~~~~~LIv~P~s-l~~~W~~-~~~~ 84 (131)
|.-.|.|||..-+-=+..-.-.++. .+.-++||+||.. +..|=.+ +++.
T Consensus 224 ~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~ql 275 (691)
T KOG0338|consen 224 CAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQL 275 (691)
T ss_pred eecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHH
Confidence 4568999976333222211111111 1246789999964 4445555 4444
No 235
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=64.38 E-value=24 Score=25.67 Aligned_cols=37 Identities=22% Similarity=0.260 Sum_probs=25.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
-+++.+.|.|||.-+..++...... ..+++.+.-...
T Consensus 23 ~~i~G~~G~GKT~l~~~~~~~~~~~-----g~~~~~is~e~~ 59 (229)
T TIGR03881 23 VAVTGEPGTGKTIFCLHFAYKGLRD-----GDPVIYVTTEES 59 (229)
T ss_pred EEEECCCCCChHHHHHHHHHHHHhc-----CCeEEEEEccCC
Confidence 3668899999999998877654433 256777765433
No 236
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=64.34 E-value=26 Score=28.96 Aligned_cols=46 Identities=17% Similarity=0.187 Sum_probs=27.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhhhhcc
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKVPSRW 84 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~~~~~ 84 (131)
.+...-|.|||-.+..+...+...+ .++.++.. ..-+..|.++..|
T Consensus 245 ~LVGptGvGKTTTiaKLA~~L~~~G-----kkVglI~aDt~RiaAvEQLk~y 291 (436)
T PRK11889 245 ALIGPTGVGKTTTLAKMAWQFHGKK-----KTVGFITTDHSRIGTVQQLQDY 291 (436)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHcC-----CcEEEEecCCcchHHHHHHHHH
Confidence 4567799999998888776665432 45555554 3333334443334
No 237
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=64.28 E-value=33 Score=26.95 Aligned_cols=34 Identities=15% Similarity=0.119 Sum_probs=23.3
Q ss_pred HHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 21 NWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 21 ~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+|......+...+++..+|.|||-..-+++...
T Consensus 139 ~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~ 172 (319)
T PRK13894 139 EAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEM 172 (319)
T ss_pred HHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 3444444566677889999999996666655443
No 238
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=64.27 E-value=20 Score=24.91 Aligned_cols=32 Identities=25% Similarity=0.286 Sum_probs=22.6
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.+.-=|.|||..|..+...+...+ .++|+|--
T Consensus 4 ~~~kGG~GKTt~a~~la~~la~~g-----~~VlliD~ 35 (195)
T PF01656_consen 4 TSGKGGVGKTTIAANLAQALARKG-----KKVLLIDL 35 (195)
T ss_dssp EESSTTSSHHHHHHHHHHHHHHTT-----S-EEEEEE
T ss_pred EcCCCCccHHHHHHHHHhcccccc-----cccccccc
Confidence 344458999999999888777743 66776654
No 239
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=64.03 E-value=21 Score=21.26 Aligned_cols=22 Identities=27% Similarity=0.333 Sum_probs=17.0
Q ss_pred eCCCCCCHHHHHHHHHHHHHHh
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~ 57 (131)
+...|.|||..+..+...+...
T Consensus 5 ~g~~G~Gktt~~~~l~~~l~~~ 26 (99)
T cd01983 5 TGKGGVGKTTLAANLAAALAKR 26 (99)
T ss_pred ECCCCCCHHHHHHHHHHHHHHC
Confidence 3344999999999988777664
No 240
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=63.93 E-value=18 Score=26.83 Aligned_cols=35 Identities=11% Similarity=0.085 Sum_probs=25.6
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
-.++..+.|.|||.-+..++......+ .+++.++.
T Consensus 26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g-----~~~~yi~~ 60 (230)
T PRK08533 26 LILIEGDESTGKSILSQRLAYGFLQNG-----YSVSYVST 60 (230)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC-----CcEEEEeC
Confidence 356789999999999988887665443 45566654
No 241
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=63.63 E-value=16 Score=26.04 Aligned_cols=32 Identities=25% Similarity=0.278 Sum_probs=24.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
++.+-.-|-|||..+..+...+...+ .++|+|
T Consensus 21 ~v~s~kgG~GKTt~a~~LA~~la~~G-----~rVllI 52 (204)
T TIGR01007 21 LITSVKPGEGKSTTSANIAVAFAQAG-----YKTLLI 52 (204)
T ss_pred EEecCCCCCCHHHHHHHHHHHHHhCC-----CeEEEE
Confidence 55577889999999998887777653 456665
No 242
>KOG0329|consensus
Probab=63.37 E-value=3.6 Score=32.08 Aligned_cols=58 Identities=17% Similarity=0.100 Sum_probs=36.7
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chhhh----hhhhcccCCCceeeccCCC
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLCKY----KVPSRWRTSNCDKTSPVKP 97 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~~W----~~~~~~~p~~~v~~~~~~~ 97 (131)
--|+|||..-. ++.+..-.+..+.-.+||.|-.. +.-|- ++|.|+.|+.++-++.|+-
T Consensus 87 ksgmgktavfv--l~tlqqiepv~g~vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~ 149 (387)
T KOG0329|consen 87 KSGMGKTAVFV--LATLQQIEPVDGQVSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGL 149 (387)
T ss_pred ccCCCceeeee--hhhhhhcCCCCCeEEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcce
Confidence 46999996432 44444444443445677888753 33343 3388889999999966654
No 243
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=63.18 E-value=10 Score=28.48 Aligned_cols=25 Identities=20% Similarity=0.193 Sum_probs=19.1
Q ss_pred CCCHHHHHHHHHHHHHHh-CCCCCCCCEEEE
Q psy2050 40 GLGKTIQVISFLAYLHEA-GLSRPKSPHLII 69 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~-~~~~~~~~~LIv 69 (131)
|-|||-.++.+...+... + .++|+|
T Consensus 12 GVGKTT~a~nLA~~La~~~G-----~rvLli 37 (275)
T PRK13233 12 GIGKSTTTQNTAAAMAYFHD-----KKVFIH 37 (275)
T ss_pred CCcHHHHHHHHHHHHHHhcC-----CeEEEe
Confidence 689999999888877753 4 557766
No 244
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=62.97 E-value=12 Score=24.37 Aligned_cols=27 Identities=22% Similarity=0.228 Sum_probs=18.8
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
++..++..+.|.|||..+-.++.....
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~ 30 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNA 30 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHH
Confidence 345677889999999999888766544
No 245
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=62.83 E-value=55 Score=25.44 Aligned_cols=48 Identities=17% Similarity=0.032 Sum_probs=30.4
Q ss_pred CCCcchHHHHHHHHHHHH-hhcc--cCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 9 NLKLAGYQLVGLNWLAVM-HNQQ--LCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~-~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
...=|+.|.+.+.-.+.. .... ...++..+.|.|||..+-.++..+..
T Consensus 16 ~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 16 RIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 334466677665433332 2222 24677999999999998888766543
No 246
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=62.80 E-value=21 Score=31.78 Aligned_cols=51 Identities=14% Similarity=0.062 Sum_probs=34.8
Q ss_pred hcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh-hhc
Q psy2050 28 NQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV-PSR 83 (131)
Q Consensus 28 ~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~ 83 (131)
.++...++..+.|.|||.+..-.+... ... .+..+|++|..+ ..|-.+ +.+
T Consensus 18 ~~~~~vvv~A~TGSGKTt~~pl~lL~~---~~~--~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 18 KTAPQVLLKAPTGAGKSTWLPLQLLQH---GGI--NGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred HhCCCEEEEcCCCCCHHHHHHHHHHHc---CCc--CCeEEEECChHHHHHHHHHHHHH
Confidence 366778999999999999887554422 111 357899999765 445555 543
No 247
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=62.75 E-value=12 Score=27.93 Aligned_cols=36 Identities=25% Similarity=0.388 Sum_probs=25.3
Q ss_pred CCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe--cCCchhhhhh
Q psy2050 40 GLGKTIQVISFLAYLHEAGLSRPKSPHLIIV--PSSTLCKYKV 80 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~--P~sl~~~W~~ 80 (131)
|.|||-.++.+...+...+ .++++|- |-..+..|.+
T Consensus 12 GvGKTT~a~nLA~~la~~G-----~~VlliD~DpQ~s~~~w~~ 49 (231)
T PRK13849 12 GAGKTTALMGLCAALASDG-----KRVALFEADENRPLTRWKE 49 (231)
T ss_pred CccHHHHHHHHHHHHHhCC-----CcEEEEeCCCCCCHHHHHH
Confidence 6899999999887777654 4666653 3344667876
No 248
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=62.71 E-value=18 Score=30.36 Aligned_cols=42 Identities=19% Similarity=0.026 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|...+..+......++ ..++..+.|.|||..|-.+...+..
T Consensus 25 Gq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 25 GQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 56666766665444444 5678999999999999988776654
No 249
>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=62.71 E-value=18 Score=25.89 Aligned_cols=33 Identities=21% Similarity=0.269 Sum_probs=23.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
+....|+.|||.+.+-.+...... ..+++++-|
T Consensus 5 ~i~GpM~sGKS~eLi~~~~~~~~~-----~~~v~~~kp 37 (176)
T PF00265_consen 5 FITGPMFSGKSTELIRRIHRYEIA-----GKKVLVFKP 37 (176)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-----T-EEEEEEE
T ss_pred EEECCcCChhHHHHHHHHHHHHhC-----CCeEEEEEe
Confidence 345689999999998877655443 366777776
No 250
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=62.68 E-value=12 Score=28.40 Aligned_cols=26 Identities=31% Similarity=0.321 Sum_probs=20.2
Q ss_pred CCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 39 MGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
=|.|||-.+.++...+...+ +++|+|
T Consensus 11 GGvG~TTltAnLA~aL~~~G-----~~VlaI 36 (243)
T PF06564_consen 11 GGVGKTTLTANLAWALARLG-----ESVLAI 36 (243)
T ss_pred CCCCHHHHHHHHHHHHHHCC-----CcEEEE
Confidence 37899999999988888765 455553
No 251
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=62.64 E-value=12 Score=27.61 Aligned_cols=26 Identities=27% Similarity=0.391 Sum_probs=22.0
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|-+-+.|.|||..+++++..+.+.+.
T Consensus 7 It~t~t~vGKT~vt~~L~~~l~~~g~ 32 (231)
T PRK12374 7 ITGTDTSVGKTVVSRALLQALASQGK 32 (231)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCC
Confidence 44789999999999999988887654
No 252
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=62.55 E-value=30 Score=31.56 Aligned_cols=57 Identities=21% Similarity=0.090 Sum_probs=37.6
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
+..|-+-|++++..+.. ...-.++-..-|.|||-..-+ +....... ...++.++|..
T Consensus 344 g~~Ls~eQr~Av~~il~---s~~v~vv~G~AGTGKTT~l~~-~~~~~e~~----G~~V~~~ApTG 400 (988)
T PRK13889 344 GLVLSGEQADALAHVTD---GRDLGVVVGYAGTGKSAMLGV-AREAWEAA----GYEVRGAALSG 400 (988)
T ss_pred CCCCCHHHHHHHHHHhc---CCCeEEEEeCCCCCHHHHHHH-HHHHHHHc----CCeEEEecCcH
Confidence 46788999999987762 233467888899999986443 33333321 24566777744
No 253
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.24 E-value=17 Score=30.87 Aligned_cols=42 Identities=14% Similarity=0.015 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|...+..+......++ .. |+..+.|.|||..+.++...+..
T Consensus 20 Gq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 20 GQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 56777777766555554 22 78999999999999998766643
No 254
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=62.17 E-value=19 Score=30.24 Aligned_cols=42 Identities=19% Similarity=0.048 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhhccc-C--eeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL-C--GILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~-g--~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|...+..+......++ + -++..+.|.|||..|..++..+..
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 56767666665555554 2 388999999999999988776654
No 255
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=62.07 E-value=19 Score=26.27 Aligned_cols=35 Identities=20% Similarity=0.247 Sum_probs=26.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
-+++...|.|||.-++.++.....+. ..+++.+..
T Consensus 16 ~lI~G~~G~GKT~~~~~~~~~~~~~~----g~~vly~s~ 50 (242)
T cd00984 16 IIIAARPSMGKTAFALNIAENIAKKQ----GKPVLFFSL 50 (242)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhC----CCceEEEeC
Confidence 47799999999999998887766552 266777764
No 256
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=61.74 E-value=45 Score=23.89 Aligned_cols=40 Identities=20% Similarity=-0.002 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHh-hccc-CeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMH-NQQL-CGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 16 Q~~~v~~l~~~~-~~~~-g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
+..++..+.... .... .-+|..+.|.|||..+.++.....
T Consensus 22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~ 63 (226)
T TIGR03420 22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE 63 (226)
T ss_pred cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 334455444432 2222 456788999999999888765543
No 257
>KOG1513|consensus
Probab=61.26 E-value=13 Score=33.48 Aligned_cols=109 Identities=14% Similarity=0.056 Sum_probs=63.9
Q ss_pred CCCCcchHHHHHHHHHHHHhh------cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHN------QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV 80 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~------~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~ 80 (131)
.-..|-.-|.+++.+.+.... ++.|-+++|.-|.||-.+...+|....-.+ +++.|.+.= .-+...=++
T Consensus 261 ~sg~lSALQLEav~YAcQ~He~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLkG----RKrAlW~SVSsDLKfDAER 336 (1300)
T KOG1513|consen 261 DSGHLSALQLEAVTYACQAHEVLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLKG----RKRALWFSVSSDLKFDAER 336 (1300)
T ss_pred cccchhHHHHHHHHHHHhhhhhcCCCCccceeeeccCcccCCCceeEEEEehhhhcc----cceeEEEEeccccccchhh
Confidence 445677789999999887654 223567799999999877777676665554 577775554 445445555
Q ss_pred -hhcc-cCCCceeeccCCCcchhhhhhcCccCCCCCCCCCCCcEEEEcccc
Q psy2050 81 -PSRW-RTSNCDKTSPVKPQTITVAQLRVPECDQSPSQEVGYNDIIMYLNI 129 (131)
Q Consensus 81 -~~~~-~p~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VvIttY~~ 129 (131)
+... ++.+.|...+- .....++.+ .....+..|+..||.-
T Consensus 337 DL~DigA~~I~V~alnK-------~KYakIss~--en~n~krGViFaTYta 378 (1300)
T KOG1513|consen 337 DLRDIGATGIAVHALNK-------FKYAKISSK--ENTNTKRGVIFATYTA 378 (1300)
T ss_pred chhhcCCCCccceehhh-------ccccccccc--ccCCccceeEEEeeHh
Confidence 5544 24444443211 011111111 1222356799999963
No 258
>KOG1133|consensus
Probab=61.16 E-value=23 Score=31.26 Aligned_cols=46 Identities=17% Similarity=0.083 Sum_probs=34.7
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHH
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~ 53 (131)
..++.++-|.+=.+=+......++-||+-...|.|||+..|+..+.
T Consensus 12 fPy~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaalt 57 (821)
T KOG1133|consen 12 FPYTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALT 57 (821)
T ss_pred CCCCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHH
Confidence 4566677777655555555557788999999999999998887543
No 259
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=60.60 E-value=26 Score=27.62 Aligned_cols=46 Identities=15% Similarity=0.087 Sum_probs=31.9
Q ss_pred cchHHHHHHHHHHHHhhcccCe-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
++|+|...-.-+......-..+ ++...-|.|||..+..+...+.+.
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~ 48 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQALLCE 48 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 4677777765555443222234 579999999999999988777654
No 260
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=60.57 E-value=22 Score=27.26 Aligned_cols=46 Identities=22% Similarity=0.316 Sum_probs=28.8
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
+-++..+.|.|||..|-++...+...+... .++++.+....++..+
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~-~~~~v~v~~~~l~~~~ 105 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQILHRLGYVR-KGHLVSVTRDDLVGQY 105 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCcc-cceEEEecHHHHhHhh
Confidence 346789999999999988776666554431 2355444443444333
No 261
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=60.26 E-value=26 Score=27.72 Aligned_cols=48 Identities=15% Similarity=0.164 Sum_probs=35.7
Q ss_pred CcchHHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
.++|+|...-.-+......++ +-++..+-|.||+..|.++...+.++.
T Consensus 2 ~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~ 52 (325)
T PRK06871 2 ALYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQT 52 (325)
T ss_pred CCCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCC
Confidence 357888877666666655554 345689999999999999988777643
No 262
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=60.24 E-value=20 Score=31.18 Aligned_cols=55 Identities=18% Similarity=-0.005 Sum_probs=37.2
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
.|-+-|+++|.. ..+..++--..|.|||-+.+.-+..+....... +...|++.-.
T Consensus 4 ~Ln~~Q~~av~~------~~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~-P~~IL~lTFT 58 (726)
T TIGR01073 4 HLNPEQREAVKT------TEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVA-PWNILAITFT 58 (726)
T ss_pred ccCHHHHHHHhC------CCCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCC-HHHeeeeecc
Confidence 477889999852 223345566789999999999888877653221 4556666553
No 263
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=60.18 E-value=13 Score=29.75 Aligned_cols=29 Identities=31% Similarity=0.293 Sum_probs=21.6
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
.--=|.|||..++.+...+...+ .++|+|
T Consensus 111 n~KGGvGKTT~a~nLA~~La~~G-----~rVLlI 139 (387)
T TIGR03453 111 NFKGGSGKTTTAAHLAQYLALRG-----YRVLAI 139 (387)
T ss_pred ccCCCcCHHHHHHHHHHHHHhcC-----CCEEEE
Confidence 45668999999999887776643 556665
No 264
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=60.08 E-value=13 Score=30.03 Aligned_cols=31 Identities=23% Similarity=0.341 Sum_probs=22.9
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+..--=|.|||-.++.+...+...+ .++|+|
T Consensus 111 v~n~KGGVGKTTta~nLA~~LA~~G-----~rVLlI 141 (387)
T PHA02519 111 VMSHKGGVYKTSSAVHTAQWLALQG-----HRVLLI 141 (387)
T ss_pred EecCCCCCcHHHHHHHHHHHHHhCC-----CcEEEE
Confidence 3355567999999999887776654 567776
No 265
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=59.99 E-value=14 Score=27.65 Aligned_cols=35 Identities=17% Similarity=0.190 Sum_probs=23.8
Q ss_pred HHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 21 NWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 21 ~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.+|....+.++.-+++.++|.|||-..-+++..+.
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~ 152 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIP 152 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCH
T ss_pred HHHhhccccceEEEEECCCccccchHHHHHhhhcc
Confidence 34444333445567799999999998877765443
No 266
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.96 E-value=13 Score=31.30 Aligned_cols=56 Identities=23% Similarity=0.202 Sum_probs=35.3
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|+|.....+.+-+. .|...+..+......++ .+ ++...-|.|||..+-.+...+..
T Consensus 1 m~~~~l~~k~rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 1 MSYQVLARKWRPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred CCcHHHHHHhCCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 45555544433322 45566665555444443 33 78999999999999888766654
No 267
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.92 E-value=24 Score=28.41 Aligned_cols=43 Identities=16% Similarity=-0.021 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhhccc--C-eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL--C-GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g-~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|...+..+.....+++ . -|+..+.|.|||..|.++...+..+
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~ 65 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 46666666665555553 3 4679999999999999988777553
No 268
>KOG1805|consensus
Probab=59.89 E-value=27 Score=31.89 Aligned_cols=56 Identities=20% Similarity=0.172 Sum_probs=39.3
Q ss_pred CCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 10 LKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 10 ~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
..|-.-|++|+-..+. ...-.++-.-.|.|||-+..+++..+...+ +++|+.+=.+
T Consensus 668 ~~LN~dQr~A~~k~L~---aedy~LI~GMPGTGKTTtI~~LIkiL~~~g-----kkVLLtsyTh 723 (1100)
T KOG1805|consen 668 LRLNNDQRQALLKALA---AEDYALILGMPGTGKTTTISLLIKILVALG-----KKVLLTSYTH 723 (1100)
T ss_pred hhcCHHHHHHHHHHHh---ccchheeecCCCCCchhhHHHHHHHHHHcC-----CeEEEEehhh
Confidence 3677889999855442 344455555689999988888887777664 6677777543
No 269
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=59.78 E-value=19 Score=27.04 Aligned_cols=44 Identities=25% Similarity=0.268 Sum_probs=27.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKY 78 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W 78 (131)
-++..+.|.|||..|-++...+...+.. +..+ ++.|. ..++..|
T Consensus 45 vll~GppGtGKTtlA~~ia~~l~~~~~~-~~~~-~v~~~~~~l~~~~ 89 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILGKLFKEMNVL-SKGH-LIEVERADLVGEY 89 (261)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhcCcc-cCCc-eEEecHHHhhhhh
Confidence 4689999999999998876655443322 1233 44443 4455555
No 270
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=59.75 E-value=13 Score=30.13 Aligned_cols=29 Identities=28% Similarity=0.275 Sum_probs=21.3
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
.--=|.|||..++.+...+...+ .++|+|
T Consensus 128 n~KGGvGKTTta~nLA~~LA~~G-----~rVLlI 156 (405)
T PRK13869 128 NFKGGSGKTTTSAHLAQYLALQG-----YRVLAV 156 (405)
T ss_pred cCCCCCCHHHHHHHHHHHHHhcC-----CceEEE
Confidence 44567999999999887776654 456665
No 271
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.67 E-value=23 Score=30.56 Aligned_cols=43 Identities=16% Similarity=-0.050 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|.+.+..|......++ +-++..+.|.|||..+.++...+...
T Consensus 20 Gq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~ 65 (620)
T PRK14948 20 GQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCL 65 (620)
T ss_pred ChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCC
Confidence 46666666665555554 33779999999999999998777653
No 272
>PHA02542 41 41 helicase; Provisional
Probab=59.55 E-value=18 Score=30.09 Aligned_cols=33 Identities=21% Similarity=0.258 Sum_probs=24.9
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~ 70 (131)
.++|...|.|||.-++.++...... ..+++++.
T Consensus 193 iiIaarPgmGKTtfalniA~~~a~~-----g~~Vl~fS 225 (473)
T PHA02542 193 NVLLAGVNVGKSLGLCSLAADYLQQ-----GYNVLYIS 225 (473)
T ss_pred EEEEcCCCccHHHHHHHHHHHHHhc-----CCcEEEEe
Confidence 4789999999999999887665432 35676654
No 273
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=59.48 E-value=13 Score=29.99 Aligned_cols=31 Identities=23% Similarity=0.221 Sum_probs=23.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+..--=|.|||-.++.+...+...+ .++|+|
T Consensus 111 i~n~KGGVGKTT~a~nLA~~LA~~G-----~rVLlI 141 (388)
T PRK13705 111 VAAHKGGVYKTSVSVHLAQDLALKG-----LRVLLV 141 (388)
T ss_pred EECCCCCchHHHHHHHHHHHHHhcC-----CCeEEE
Confidence 3345567999999999887777654 567777
No 274
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=59.43 E-value=14 Score=25.44 Aligned_cols=26 Identities=35% Similarity=0.354 Sum_probs=18.7
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.-++-.+-|.|||...-.++......
T Consensus 26 ~~ll~G~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 26 NLLLTGESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp -EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 45778999999999988877666555
No 275
>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=59.38 E-value=27 Score=32.53 Aligned_cols=59 Identities=12% Similarity=0.112 Sum_probs=39.5
Q ss_pred cchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
+-+-|.+++. ..+...++.-.-|.|||...+.-+......+.. ....|+|+=.....+.
T Consensus 2 ~t~~Q~~ai~------~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~--~~~il~~tFt~~aa~e 60 (1232)
T TIGR02785 2 WTDEQWQAIY------TRGQNILVSASAGSGKTAVLVERIIKKILRGVD--IDRLLVVTFTNAAARE 60 (1232)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCC--HhhEEEEeccHHHHHH
Confidence 3466888883 144566778899999999999877765554422 3567777755444433
No 276
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=59.19 E-value=12 Score=30.64 Aligned_cols=39 Identities=10% Similarity=0.039 Sum_probs=27.5
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
+.+|-...|.|||+++=++...+ .-+++++-...+...|
T Consensus 150 gllL~GPPGcGKTllAraiA~el--------g~~~i~vsa~eL~sk~ 188 (413)
T PLN00020 150 ILGIWGGKGQGKSFQCELVFKKM--------GIEPIVMSAGELESEN 188 (413)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHc--------CCCeEEEEHHHhhcCc
Confidence 56678899999999998876554 3445555555566555
No 277
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=59.01 E-value=14 Score=28.51 Aligned_cols=20 Identities=25% Similarity=0.401 Sum_probs=16.2
Q ss_pred CCCCHHHHHHHHHHHHHHhC
Q psy2050 39 MGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~ 58 (131)
=|-|||..+..+...+...+
T Consensus 9 GGvGKTT~a~nLA~~La~~g 28 (296)
T TIGR02016 9 GGSGKSFTTTNLSHMMAEMG 28 (296)
T ss_pred CCCCHHHHHHHHHHHHHHCC
Confidence 36899999999888777654
No 278
>KOG0651|consensus
Probab=58.93 E-value=14 Score=29.62 Aligned_cols=24 Identities=25% Similarity=0.184 Sum_probs=21.1
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.|++|....|-|||++|=++.+.+
T Consensus 167 kg~ll~GppGtGKTlla~~Vaa~m 190 (388)
T KOG0651|consen 167 KGLLLYGPPGTGKTLLARAVAATM 190 (388)
T ss_pred ceeEEeCCCCCchhHHHHHHHHhc
Confidence 588999999999999999887665
No 279
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=58.81 E-value=17 Score=29.21 Aligned_cols=38 Identities=18% Similarity=0.126 Sum_probs=25.1
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC 76 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~ 76 (131)
.|-+|..+.|.|||..+-++.... ..+++.+....+..
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~~--------~~~~i~v~~~~l~~ 203 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHET--------NATFIRVVGSELVQ 203 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHHh--------CCCEEEeehHHHhH
Confidence 356779999999999888775433 24555554444433
No 280
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=58.76 E-value=24 Score=27.87 Aligned_cols=35 Identities=17% Similarity=0.064 Sum_probs=26.0
Q ss_pred HHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 20 LNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 20 v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
..|+......+.+-+++.++|.|||-..-+++..+
T Consensus 150 ~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~i 184 (332)
T PRK13900 150 KEFLEHAVISKKNIIISGGTSTGKTTFTNAALREI 184 (332)
T ss_pred HHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhC
Confidence 34555555566777889999999998887766544
No 281
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=58.69 E-value=30 Score=26.63 Aligned_cols=57 Identities=19% Similarity=0.102 Sum_probs=31.4
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC 76 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~ 76 (131)
+..+++-|.-|.--| ..|-|.=-..|=|||+++....+...-. ..++=||+.+..+.
T Consensus 75 g~~p~~vQll~~l~L------~~G~laEm~TGEGKTli~~l~a~~~AL~-----G~~V~vvT~NdyLA 131 (266)
T PF07517_consen 75 GLRPYDVQLLGALAL------HKGRLAEMKTGEGKTLIAALPAALNALQ-----GKGVHVVTSNDYLA 131 (266)
T ss_dssp S----HHHHHHHHHH------HTTSEEEESTTSHHHHHHHHHHHHHHTT-----SS-EEEEESSHHHH
T ss_pred CCcccHHHHhhhhhc------ccceeEEecCCCCcHHHHHHHHHHHHHh-----cCCcEEEeccHHHh
Confidence 444555666555222 3456777789999999886443333222 35677777765443
No 282
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=58.61 E-value=45 Score=25.56 Aligned_cols=35 Identities=20% Similarity=0.195 Sum_probs=23.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.+...-|.|||-.+..++........ ..++.+|.-
T Consensus 198 ~~vGptGvGKTTt~~kLa~~~~~~~g---~~~V~li~~ 232 (282)
T TIGR03499 198 ALVGPTGVGKTTTLAKLAARFVLEHG---NKKVALITT 232 (282)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHHcC---CCeEEEEEC
Confidence 44677999999999888776654411 245555554
No 283
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=58.54 E-value=15 Score=27.54 Aligned_cols=26 Identities=23% Similarity=0.477 Sum_probs=21.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|-+.+.|.|||+.+-+++..+...+.
T Consensus 7 VtGTDT~VGKTv~S~aL~~~l~~~g~ 32 (223)
T COG0132 7 VTGTDTGVGKTVVSAALAQALKQQGY 32 (223)
T ss_pred EEeCCCCccHHHHHHHHHHHHHhCCC
Confidence 33789999999999999888776554
No 284
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.50 E-value=28 Score=29.20 Aligned_cols=43 Identities=16% Similarity=0.030 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|...+..+......+. .. ++....|.|||..+.++...+...
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 36666666655555554 23 789999999999999988776543
No 285
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=58.47 E-value=24 Score=23.34 Aligned_cols=33 Identities=12% Similarity=0.144 Sum_probs=22.4
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
++....|.|||..+..++...... ..+++++..
T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~~-----~~~v~~~~~ 35 (165)
T cd01120 3 LVFGPTGSGKTTLALQLALNIATK-----GGKVVYVDI 35 (165)
T ss_pred eEeCCCCCCHHHHHHHHHHHHHhc-----CCEEEEEEC
Confidence 456678999999998887655442 255555544
No 286
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=58.27 E-value=25 Score=25.90 Aligned_cols=40 Identities=10% Similarity=0.073 Sum_probs=28.2
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhC-------CCCCCCCEEEEec
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAG-------LSRPKSPHLIIVP 71 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~-------~~~~~~~~LIv~P 71 (131)
-++++-.-|.|||.-++.++.....-. .....+++|+++-
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~ 49 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSA 49 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEEC
Confidence 378899999999999999876654211 1112577888884
No 287
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=58.23 E-value=23 Score=25.50 Aligned_cols=24 Identities=21% Similarity=0.090 Sum_probs=19.6
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.++..+.|.|||.-++.++.....
T Consensus 22 ~~i~G~~GsGKT~l~~~~a~~~~~ 45 (218)
T cd01394 22 TQVYGPPGTGKTNIAIQLAVETAG 45 (218)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh
Confidence 466889999999999998876644
No 288
>PRK08760 replicative DNA helicase; Provisional
Probab=58.05 E-value=28 Score=28.90 Aligned_cols=44 Identities=18% Similarity=0.182 Sum_probs=32.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~ 80 (131)
-++|...|.|||.-++.++....... ..++++.....-..|+..
T Consensus 232 ivIaarPg~GKTafal~iA~~~a~~~----g~~V~~fSlEMs~~ql~~ 275 (476)
T PRK08760 232 IILAARPAMGKTTFALNIAEYAAIKS----KKGVAVFSMEMSASQLAM 275 (476)
T ss_pred EEEEeCCCCChhHHHHHHHHHHHHhc----CCceEEEeccCCHHHHHH
Confidence 37799999999999998876654331 367888877665566655
No 289
>KOG1132|consensus
Probab=57.91 E-value=17 Score=32.68 Aligned_cols=43 Identities=16% Similarity=0.230 Sum_probs=36.1
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHH
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFL 51 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l 51 (131)
.++.++-|+.-...++........|+|-+..|.|||+.-|+-.
T Consensus 19 P~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~ 61 (945)
T KOG1132|consen 19 PFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCST 61 (945)
T ss_pred cCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHH
Confidence 4567888998888888888888899999999999999877653
No 290
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=57.90 E-value=87 Score=24.50 Aligned_cols=44 Identities=16% Similarity=0.117 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 14 GYQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
..|...+..+......++ .. ++..+-|.||+-.+.++...+...
T Consensus 9 ~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 9 ALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred hhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 346667776666665554 34 789999999999999988776654
No 291
>KOG0989|consensus
Probab=57.60 E-value=28 Score=27.77 Aligned_cols=44 Identities=18% Similarity=0.085 Sum_probs=32.5
Q ss_pred chHHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 13 AGYQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
..+|...|.-+......+. .=++-...|.|||.+++++...+..
T Consensus 38 ~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 38 LAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred hcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 3478888877766555422 3356789999999999999887765
No 292
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.58 E-value=14 Score=33.47 Aligned_cols=57 Identities=28% Similarity=0.234 Sum_probs=35.9
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
|+|..+-.+++-+. -|...+.-+......++ .. |+..+.|.|||..+..+...+.+.
T Consensus 1 MsY~~LaeKyRP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce 65 (944)
T PRK14949 1 MSYQVLARKWRPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCE 65 (944)
T ss_pred CCchhHHHHhCCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCc
Confidence 45555444443333 35555555554444443 44 789999999999999888776543
No 293
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=57.48 E-value=20 Score=23.02 Aligned_cols=22 Identities=18% Similarity=0.246 Sum_probs=17.3
Q ss_pred eCCCCCCHHHHHHHHHHHHHHh
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~ 57 (131)
+.-=|.|||..+..+...+...
T Consensus 6 ~~kgg~gkt~~~~~la~~~~~~ 27 (106)
T cd03111 6 GAKGGVGATTLAANLAVALAKE 27 (106)
T ss_pred CCCCCCcHHHHHHHHHHHHHhc
Confidence 4445899999999988777765
No 294
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=57.40 E-value=24 Score=25.70 Aligned_cols=32 Identities=25% Similarity=0.363 Sum_probs=23.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~ 70 (131)
+++...|.|||..+.++.......+ .++++|.
T Consensus 3 ~~~g~~g~Gkt~~~~~la~~~a~~g-----~~~~l~~ 34 (217)
T cd02035 3 FFTGKGGVGKTTIAAATAVRLAEEG-----KKVLLVS 34 (217)
T ss_pred EEeCCCCchHHHHHHHHHHHHHHCC-----CcEEEEE
Confidence 4566789999999999877776654 4566554
No 295
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=57.10 E-value=58 Score=23.61 Aligned_cols=24 Identities=21% Similarity=0.158 Sum_probs=18.8
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.-++..+.|.|||.-+.++.....
T Consensus 44 ~~~l~G~~G~GKT~La~ai~~~~~ 67 (227)
T PRK08903 44 FFYLWGEAGSGRSHLLQALVADAS 67 (227)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH
Confidence 457799999999998887665443
No 296
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=56.72 E-value=32 Score=27.38 Aligned_cols=47 Identities=19% Similarity=0.140 Sum_probs=33.2
Q ss_pred cchHHHHHHHHHHHHhhcccCe-eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCG-ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~-ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
++|+|...-+-+......-..+ ++...-|.||+..|..+...+.+..
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~ 49 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQGLLCET 49 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 4677877766666542222234 5688999999999999988776654
No 297
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=56.63 E-value=31 Score=28.74 Aligned_cols=35 Identities=20% Similarity=0.131 Sum_probs=25.9
Q ss_pred HHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 20 LNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 20 v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
+..+......++.-++....|.|||..|-.+...+
T Consensus 184 le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l 218 (459)
T PRK11331 184 IETILKRLTIKKNIILQGPPGVGKTFVARRLAYLL 218 (459)
T ss_pred HHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence 44455555567788999999999999888765444
No 298
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=56.24 E-value=35 Score=28.22 Aligned_cols=40 Identities=15% Similarity=0.311 Sum_probs=27.7
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
+++.+.|.|||.-++.++...... ..++|.|....-..|.
T Consensus 98 lI~G~pGsGKTTL~lq~a~~~a~~-----g~kvlYvs~EEs~~qi 137 (454)
T TIGR00416 98 LIGGDPGIGKSTLLLQVACQLAKN-----QMKVLYVSGEESLQQI 137 (454)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhc-----CCcEEEEECcCCHHHH
Confidence 679999999999999887665543 2456666654444443
No 299
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=56.12 E-value=37 Score=24.21 Aligned_cols=26 Identities=23% Similarity=0.224 Sum_probs=19.9
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.+.+++...|.|||....+++..+..
T Consensus 39 ~h~li~G~tgsGKS~~l~~ll~~l~~ 64 (205)
T PF01580_consen 39 PHLLIAGATGSGKSTLLRTLLLSLAL 64 (205)
T ss_dssp -SEEEE--TTSSHHHHHHHHHHHHHT
T ss_pred ceEEEEcCCCCCccHHHHHHHHHHHH
Confidence 36788999999999999998877765
No 300
>KOG0343|consensus
Probab=56.09 E-value=18 Score=31.16 Aligned_cols=66 Identities=23% Similarity=0.099 Sum_probs=37.6
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHH-HHHHHHhCCCCC-CCCEEEEecCC-chhhhhh
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISF-LAYLHEAGLSRP-KSPHLIIVPSS-TLCKYKV 80 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~-l~~~~~~~~~~~-~~~~LIv~P~s-l~~~W~~ 80 (131)
.+.+-|++.+...+ +++--+=|.-.|.|||+.-+.= +-.+.+.+-... .-.+|||.|.. +..|=-+
T Consensus 91 ~~teiQ~~~Ip~aL----~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFe 159 (758)
T KOG0343|consen 91 KMTEIQRDTIPMAL----QGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFE 159 (758)
T ss_pred cHHHHHHhhcchhc----cCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHH
Confidence 34456776665544 4444444788999999855432 333444331110 23479999964 5556444
No 301
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=55.91 E-value=21 Score=22.96 Aligned_cols=34 Identities=29% Similarity=0.363 Sum_probs=23.4
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCch
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTL 75 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~ 75 (131)
+|-...|.|||..+-.++..+ ..+++.+....+.
T Consensus 2 ll~G~~G~GKT~l~~~la~~l--------~~~~~~i~~~~~~ 35 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL--------GFPFIEIDGSELI 35 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT--------TSEEEEEETTHHH
T ss_pred EEECcCCCCeeHHHHHHHhhc--------ccccccccccccc
Confidence 456789999999888776654 3556656555554
No 302
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=55.88 E-value=17 Score=32.33 Aligned_cols=56 Identities=23% Similarity=0.192 Sum_probs=37.7
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|+|..+..+++-+. .|...+..|......++ .. |+...-|.|||..+..+...+.+
T Consensus 1 MsY~vLarKYRPqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 1 MTYQVLARKWRPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CccHhHHHHhCCCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 56666665544433 46666666665555544 34 77899999999999888766654
No 303
>PRK09183 transposase/IS protein; Provisional
Probab=55.77 E-value=16 Score=27.67 Aligned_cols=28 Identities=21% Similarity=0.112 Sum_probs=21.1
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.+.+-++..+.|.|||.-+.++......
T Consensus 101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~ 128 (259)
T PRK09183 101 RNENIVLLGPSGVGKTHLAIALGYEAVR 128 (259)
T ss_pred cCCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence 5556777889999999999887554433
No 304
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=55.76 E-value=26 Score=28.30 Aligned_cols=35 Identities=14% Similarity=0.229 Sum_probs=26.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
++|...|.|||.-++.++....... ..|++++...
T Consensus 198 viag~pg~GKT~~al~ia~~~a~~~----g~~v~~fSlE 232 (421)
T TIGR03600 198 VIGARPSMGKTTLALNIAENVALRE----GKPVLFFSLE 232 (421)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHhC----CCcEEEEECC
Confidence 7799999999999999876554221 3678777643
No 305
>KOG0920|consensus
Probab=55.70 E-value=34 Score=31.02 Aligned_cols=41 Identities=22% Similarity=0.206 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 14 GYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
.++++-++.+. ++.--++..|.|.|||.|+--++.......
T Consensus 176 ~~r~~Il~~i~----~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~ 216 (924)
T KOG0920|consen 176 KMRDTILDAIE----ENQVVVISGETGCGKTTQVPQFILDEAIES 216 (924)
T ss_pred HHHHHHHHHHH----hCceEEEeCCCCCCchhhhhHHHHHHHHhc
Confidence 34444444433 667788899999999999999988765444
No 306
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=55.50 E-value=18 Score=29.99 Aligned_cols=25 Identities=28% Similarity=0.458 Sum_probs=21.7
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCC
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~ 60 (131)
+..-|.|||..+++++..+.+++..
T Consensus 7 g~~SG~GKTTvT~glm~aL~~rg~~ 31 (451)
T COG1797 7 GTSSGSGKTTVTLGLMRALRRRGLK 31 (451)
T ss_pred cCCCCCcHHHHHHHHHHHHHhcCCc
Confidence 6788999999999999999887643
No 307
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=55.45 E-value=28 Score=28.72 Aligned_cols=34 Identities=21% Similarity=0.288 Sum_probs=23.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
-++....|.|||-++..+...+...+ .++++|+.
T Consensus 98 I~lvG~~GsGKTTtaakLA~~L~~~g-----~kV~lV~~ 131 (437)
T PRK00771 98 IMLVGLQGSGKTTTAAKLARYFKKKG-----LKVGLVAA 131 (437)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcC-----CeEEEecC
Confidence 35688999999999988877665442 34554444
No 308
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=55.26 E-value=62 Score=26.26 Aligned_cols=37 Identities=24% Similarity=0.202 Sum_probs=21.9
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
++....|.|||-++.-+...+...... ...++.+|.-
T Consensus 178 ~lvGptGvGKTTT~aKLA~~~~~~~~~-~g~~V~lit~ 214 (388)
T PRK12723 178 ILVGPTGVGKTTTIAKLAAIYGINSDD-KSLNIKIITI 214 (388)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhhhcc-CCCeEEEEec
Confidence 457788999999887665544432111 1245555554
No 309
>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D.
Probab=55.26 E-value=38 Score=22.71 Aligned_cols=34 Identities=26% Similarity=0.351 Sum_probs=24.3
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
++.+-.-|.|||..++.+...+...+ .++|+|-=
T Consensus 4 ~v~s~~~g~G~t~~a~~lA~~la~~~-----~~Vllid~ 37 (157)
T PF13614_consen 4 AVWSPKGGVGKTTLALNLAAALARKG-----KKVLLIDF 37 (157)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTT-----T-EEEEE-
T ss_pred EEECCCCCCCHHHHHHHHHHHHHhcC-----CCeEEEEC
Confidence 45566779999999999888887764 34666543
No 310
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.75 E-value=27 Score=30.65 Aligned_cols=56 Identities=23% Similarity=0.194 Sum_probs=36.1
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|+|..+..+++-+. -|...+.-+......++ .. ++...-|.|||..+..+...+.+
T Consensus 1 Msy~vLarKYRPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 1 MSYQVLARKWRPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred CcchhHHHHhCCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 56666554444433 34455555554444444 34 77999999999999988877765
No 311
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=53.71 E-value=34 Score=24.79 Aligned_cols=25 Identities=16% Similarity=0.096 Sum_probs=20.0
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
..++.+.|.|||.-++.++......
T Consensus 26 ~~i~G~~GsGKT~l~~~la~~~~~~ 50 (225)
T PRK09361 26 TQIYGPPGSGKTNICLQLAVEAAKN 50 (225)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC
Confidence 3668899999999999987765543
No 312
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=53.63 E-value=24 Score=29.42 Aligned_cols=40 Identities=20% Similarity=0.194 Sum_probs=27.5
Q ss_pred cchHHHHHHHHHHHHhhcccCe-eeeCCCCCCHHHHHHHHHHHH
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCG-ILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~-ilad~mGlGKT~~~ia~l~~~ 54 (131)
+-+.|.+.+.++.. ...|- +++.++|.|||-..-+++..+
T Consensus 226 ~~~~~~~~l~~~~~---~~~GlilitGptGSGKTTtL~a~L~~l 266 (486)
T TIGR02533 226 MSPELLSRFERLIR---RPHGIILVTGPTGSGKTTTLYAALSRL 266 (486)
T ss_pred CCHHHHHHHHHHHh---cCCCEEEEEcCCCCCHHHHHHHHHhcc
Confidence 35566666666552 33443 569999999999888776655
No 313
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=53.57 E-value=40 Score=21.04 Aligned_cols=23 Identities=26% Similarity=0.368 Sum_probs=17.1
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.+.-=|.|||..+..+...+...
T Consensus 5 ~~~kgG~Gkst~~~~la~~~~~~ 27 (104)
T cd02042 5 ANQKGGVGKTTTAVNLAAALARR 27 (104)
T ss_pred EeCCCCcCHHHHHHHHHHHHHhC
Confidence 34455899999998887777653
No 314
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=53.41 E-value=53 Score=24.01 Aligned_cols=34 Identities=15% Similarity=0.218 Sum_probs=24.5
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.++..+.|.|||.-+..++...... ..+++.+.-
T Consensus 28 ~~i~G~~GsGKt~l~~~~~~~~~~~-----g~~~~y~~~ 61 (234)
T PRK06067 28 ILIEGDHGTGKSVLSQQFVYGALKQ-----GKKVYVITT 61 (234)
T ss_pred EEEECCCCCChHHHHHHHHHHHHhC-----CCEEEEEEc
Confidence 4668899999999999987655443 255666554
No 315
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=53.32 E-value=30 Score=25.36 Aligned_cols=25 Identities=28% Similarity=0.359 Sum_probs=18.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
+.+--=|.|||..+..+...+...+
T Consensus 6 v~s~kGGvGKTt~a~~lA~~la~~g 30 (261)
T TIGR01968 6 ITSGKGGVGKTTTTANLGTALARLG 30 (261)
T ss_pred EecCCCCccHHHHHHHHHHHHHHcC
Confidence 3344558999999999887776643
No 316
>TIGR00379 cobB cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.
Probab=53.30 E-value=19 Score=29.60 Aligned_cols=27 Identities=26% Similarity=0.330 Sum_probs=22.4
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~ 60 (131)
|-+.+.|.|||..+.+++..+.+.+..
T Consensus 4 I~gT~t~vGKT~vt~~L~~~L~~~G~~ 30 (449)
T TIGR00379 4 IAGTSSGVGKTTISTGIMKALSRRKLR 30 (449)
T ss_pred EEeCCCCCcHHHHHHHHHHHHHHCCCc
Confidence 447789999999999999988877653
No 317
>KOG0950|consensus
Probab=53.02 E-value=38 Score=30.80 Aligned_cols=64 Identities=14% Similarity=0.023 Sum_probs=40.1
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh-hhcccCC--CceeeccCC
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV-PSRWRTS--NCDKTSPVK 96 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~-~~~~~p~--~~v~~~~~~ 96 (131)
.++.+|.+...+-|||+.+=-++....-.. .+.++.+.|- +++.-=.. ...+..+ ..|-.|.|.
T Consensus 239 e~~nliys~Pts~gktlvaeilml~~~l~~----rr~~llilp~vsiv~Ek~~~l~~~~~~~G~~ve~y~g~ 306 (1008)
T KOG0950|consen 239 ERKNLIYSLPTSAGKTLVAEILMLREVLCR----RRNVLLILPYVSIVQEKISALSPFSIDLGFPVEEYAGR 306 (1008)
T ss_pred cccceEEeCCCccchHHHHHHHHHHHHHHH----hhceeEecceeehhHHHHhhhhhhccccCCcchhhccc
Confidence 566889999999999998876654433322 4778888883 44333333 5555543 344445543
No 318
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=52.96 E-value=43 Score=23.37 Aligned_cols=53 Identities=17% Similarity=0.093 Sum_probs=32.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCC-----CCCCCCEEEEecCCchhhhhh-hhccc
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGL-----SRPKSPHLIIVPSSTLCKYKV-PSRWR 85 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~-----~~~~~~~LIv~P~sl~~~W~~-~~~~~ 85 (131)
++++..-|.|||.-++.++........ .....++|.+....-..+..+ +.+..
T Consensus 35 ~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 35 TLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp EEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 677889999999999998877764211 012578898888665555555 55443
No 319
>PRK14974 cell division protein FtsY; Provisional
Probab=52.80 E-value=46 Score=26.47 Aligned_cols=43 Identities=19% Similarity=0.279 Sum_probs=27.3
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC----Cchhhhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS----STLCKYKV 80 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~----sl~~~W~~ 80 (131)
.++....|.|||-++..+...+...+ .+++++... ....||..
T Consensus 143 i~~~G~~GvGKTTtiakLA~~l~~~g-----~~V~li~~Dt~R~~a~eqL~~ 189 (336)
T PRK14974 143 IVFVGVNGTGKTTTIAKLAYYLKKNG-----FSVVIAAGDTFRAGAIEQLEE 189 (336)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcC-----CeEEEecCCcCcHHHHHHHHH
Confidence 35577999999988777765554432 456566543 23456665
No 320
>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]
Probab=52.71 E-value=43 Score=27.72 Aligned_cols=44 Identities=20% Similarity=0.235 Sum_probs=32.6
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~ 80 (131)
-|+|.-.|.|||--++.++....... ..|+.|..-..-..||..
T Consensus 199 ii~AaRP~mGKTafalnia~n~a~~~----~~~v~iFSLEM~~eql~~ 242 (435)
T COG0305 199 IIVAARPGMGKTALALNIALNAAADG----RKPVAIFSLEMSEEQLVM 242 (435)
T ss_pred EEEccCCCCChHHHHHHHHHHHHHhc----CCCeEEEEccCCHHHHHH
Confidence 47799999999999999887666533 467777665566666665
No 321
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=52.45 E-value=28 Score=26.18 Aligned_cols=24 Identities=29% Similarity=0.361 Sum_probs=18.6
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
+..--|-|||..+.++.......+
T Consensus 5 ~~gkgG~GKtt~a~~la~~~a~~g 28 (254)
T cd00550 5 FGGKGGVGKTTISAATAVRLAEQG 28 (254)
T ss_pred EECCCCchHHHHHHHHHHHHHHCC
Confidence 355678999999999887776654
No 322
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.42 E-value=37 Score=28.88 Aligned_cols=42 Identities=24% Similarity=0.110 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhhcccC---eeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQLC---GILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~g---~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|...+..+......++. -++..+.|.|||..+..+...+.+
T Consensus 20 Gq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 20 GQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 355556555555555442 467999999999999988776654
No 323
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=52.37 E-value=41 Score=27.73 Aligned_cols=43 Identities=19% Similarity=-0.011 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhhccc--C-eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL--C-GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g-~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-|...+..+......++ . -++..+.|.|||..+.++...+...
T Consensus 21 Gq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 21 GQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred CcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 46677777776665554 3 4679999999999999988776543
No 324
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=52.30 E-value=21 Score=28.25 Aligned_cols=19 Identities=37% Similarity=0.487 Sum_probs=15.2
Q ss_pred CCCHHHHHHHHHHHHHHhC
Q psy2050 40 GLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 40 GlGKT~~~ia~l~~~~~~~ 58 (131)
|-|||-.+.|+...+...+
T Consensus 12 GVGKTT~aaA~A~~lA~~g 30 (322)
T COG0003 12 GVGKTTIAAATAVKLAESG 30 (322)
T ss_pred cccHHHHHHHHHHHHHHcC
Confidence 6899999999877776665
No 325
>PRK10436 hypothetical protein; Provisional
Probab=52.30 E-value=38 Score=28.12 Aligned_cols=40 Identities=25% Similarity=0.242 Sum_probs=26.4
Q ss_pred cchHHHHHHHHHHHHhhcccCe-eeeCCCCCCHHHHHHHHHHHH
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCG-ILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~-ilad~mGlGKT~~~ia~l~~~ 54 (131)
+-+.|.+.+..+. ....|- +++..+|.|||-+..+++..+
T Consensus 202 ~~~~~~~~l~~~~---~~~~GliLvtGpTGSGKTTtL~a~l~~~ 242 (462)
T PRK10436 202 MTPAQLAQFRQAL---QQPQGLILVTGPTGSGKTVTLYSALQTL 242 (462)
T ss_pred cCHHHHHHHHHHH---HhcCCeEEEECCCCCChHHHHHHHHHhh
Confidence 3445555555544 234454 459999999999888877655
No 326
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=52.27 E-value=31 Score=25.89 Aligned_cols=49 Identities=16% Similarity=0.184 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhc----c-cC--eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 16 QLVGLNWLAVMHNQ----Q-LC--GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 16 Q~~~v~~l~~~~~~----~-~g--~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
-.++++-+...... + .. ++.+-.-|-|||..+..+...+...+ .++|+|
T Consensus 83 ~~e~~~~l~~~l~~~~~~~~~~vi~vts~~~g~Gktt~a~nLA~~la~~g-----~~VllI 138 (274)
T TIGR03029 83 QVEALRALRSQLMLRWFSEGRKALAVVSAKSGEGCSYIAANLAIVFSQLG-----EKTLLI 138 (274)
T ss_pred HHHHHHHHHHHhhhhccCCCCeEEEEECCCCCCCHHHHHHHHHHHHHhcC-----CeEEEE
Confidence 34556655554421 1 11 45577899999999999887776543 566666
No 327
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=52.10 E-value=82 Score=26.03 Aligned_cols=52 Identities=13% Similarity=0.139 Sum_probs=32.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhhhhcccCCCce
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKVPSRWRTSNCD 90 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~~~~~~p~~~v 90 (131)
.+..--|.|||-++.-+...+...+ .++++|+- ..-..-|.+++.|.....+
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~~G-----~kV~lV~~D~~R~aA~eQLk~~a~~~~v 156 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQRKG-----FKPCLVCADTFRAGAFDQLKQNATKARI 156 (429)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCC-----CCEEEEcCcccchhHHHHHHHHhhccCC
Confidence 4477899999998888776665443 45565554 4444556555555544443
No 328
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=52.07 E-value=34 Score=25.50 Aligned_cols=36 Identities=22% Similarity=0.083 Sum_probs=26.0
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
-.+++...|.|||.-++.++....... ..+++++.-
T Consensus 32 ~~~i~g~~G~GKT~l~~~~~~~~~~~~----g~~vl~iS~ 67 (271)
T cd01122 32 LIILTAGTGVGKTTFLREYALDLITQH----GVRVGTISL 67 (271)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHhc----CceEEEEEc
Confidence 357899999999999998877655441 256666655
No 329
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=52.04 E-value=42 Score=27.79 Aligned_cols=42 Identities=19% Similarity=0.179 Sum_probs=28.0
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
-++..+.|.|||.-++-++..-..+. ..++|.|.-..-..+.
T Consensus 24 ~Li~G~pGsGKT~la~qfl~~g~~~~----ge~~lyvs~eE~~~~l 65 (484)
T TIGR02655 24 TLVSGTSGTGKTLFSIQFLYNGIIHF----DEPGVFVTFEESPQDI 65 (484)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHhC----CCCEEEEEEecCHHHH
Confidence 36689999999999999887654431 2566666644333333
No 330
>PRK00784 cobyric acid synthase; Provisional
Probab=51.97 E-value=20 Score=29.75 Aligned_cols=26 Identities=19% Similarity=0.263 Sum_probs=22.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|.+.+.|.|||..+.+++..+...+.
T Consensus 7 ItGT~T~vGKT~vt~~L~~~l~~~G~ 32 (488)
T PRK00784 7 VQGTASDAGKSTLVAGLCRILARRGY 32 (488)
T ss_pred EEeCCCCCcHHHHHHHHHHHHHHCCC
Confidence 44789999999999999988887654
No 331
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=51.71 E-value=39 Score=23.92 Aligned_cols=36 Identities=22% Similarity=0.144 Sum_probs=23.2
Q ss_pred hHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHH
Q psy2050 14 GYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLA 52 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~ 52 (131)
+.|.+-+.+ ..+.+..-+++.+.|.|||-..-+++.
T Consensus 12 ~~~~~~l~~---~v~~g~~i~I~G~tGSGKTTll~aL~~ 47 (186)
T cd01130 12 PLQAAYLWL---AVEARKNILISGGTGSGKTTLLNALLA 47 (186)
T ss_pred HHHHHHHHH---HHhCCCEEEEECCCCCCHHHHHHHHHh
Confidence 334444443 334556678899999999977655443
No 332
>KOG0952|consensus
Probab=51.60 E-value=37 Score=31.38 Aligned_cols=61 Identities=13% Similarity=-0.045 Sum_probs=38.8
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchh----hhhh-hhcccCCCceeeccCCC
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLC----KYKV-PSRWRTSNCDKTSPVKP 97 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~----~W~~-~~~~~p~~~v~~~~~~~ 97 (131)
..++++..|-|||+.+-..+.......+ ..++.+|+| ..++. -|.. +. .|+.++.-..++.
T Consensus 945 ~~~~g~ptgsgkt~~ae~a~~~~~~~~p---~~kvvyIap~kalvker~~Dw~~r~~--~~g~k~ie~tgd~ 1011 (1230)
T KOG0952|consen 945 NFLLGAPTGSGKTVVAELAIFRALSYYP---GSKVVYIAPDKALVKERSDDWSKRDE--LPGIKVIELTGDV 1011 (1230)
T ss_pred hhhhcCCccCcchhHHHHHHHHHhccCC---CccEEEEcCCchhhcccccchhhhcc--cCCceeEeccCcc
Confidence 4677889999999988765544333322 588999999 44544 3555 33 3466666544443
No 333
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=51.60 E-value=35 Score=27.94 Aligned_cols=23 Identities=22% Similarity=0.221 Sum_probs=18.3
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
|-+++...|.|||..|++....+
T Consensus 67 giLi~GppgTGKTAlA~gIa~eL 89 (450)
T COG1224 67 GILIVGPPGTGKTALAMGIAREL 89 (450)
T ss_pred EEEEECCCCCcHHHHHHHHHHHh
Confidence 44669999999999998876544
No 334
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=51.52 E-value=10 Score=23.30 Aligned_cols=26 Identities=8% Similarity=-0.151 Sum_probs=14.9
Q ss_pred EEEEecCCc-hhhhh-h-hhcccCCCcee
Q psy2050 66 HLIIVPSST-LCKYK-V-PSRWRTSNCDK 91 (131)
Q Consensus 66 ~LIv~P~sl-~~~W~-~-~~~~~p~~~v~ 91 (131)
.+||||.-. ..+=. . ++++++...+.
T Consensus 2 ilvvC~~G~~tS~ll~~kl~~~f~~~~i~ 30 (86)
T cd05563 2 ILAVCGSGLGSSLMLKMNVEKVLKELGIE 30 (86)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHCCCc
Confidence 678888654 33322 3 77766655543
No 335
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=51.44 E-value=42 Score=27.88 Aligned_cols=56 Identities=14% Similarity=0.110 Sum_probs=32.6
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhhhhcccCCCceeeccC
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKVPSRWRTSNCDKTSPV 95 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~~~~~~p~~~v~~~~~ 95 (131)
++.==|.|||-++-=+...+...+ .++++||- ..--.--.+++.......|-+|..
T Consensus 105 mvGLQGsGKTTt~~KLA~~lkk~~-----~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~ 161 (451)
T COG0541 105 MVGLQGSGKTTTAGKLAKYLKKKG-----KKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGS 161 (451)
T ss_pred EEeccCCChHhHHHHHHHHHHHcC-----CceEEEecccCChHHHHHHHHHHHHcCCceecC
Confidence 355679999998887777676632 55555554 333222222555555555655554
No 336
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=51.25 E-value=35 Score=25.40 Aligned_cols=37 Identities=22% Similarity=0.240 Sum_probs=29.5
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
.++|...|.|||.-++.++....... ..+++++....
T Consensus 22 ~vi~a~pg~GKT~~~l~ia~~~a~~~----~~~vly~SlEm 58 (259)
T PF03796_consen 22 TVIAARPGVGKTAFALQIALNAALNG----GYPVLYFSLEM 58 (259)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT----SSEEEEEESSS
T ss_pred EEEEecccCCchHHHHHHHHHHHHhc----CCeEEEEcCCC
Confidence 57899999999999999887776653 26788887743
No 337
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=51.18 E-value=64 Score=28.93 Aligned_cols=70 Identities=14% Similarity=0.067 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCC--CCCCEEE-------EecCCchhhhhh-hhc
Q psy2050 16 QLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLHEAGLSR--PKSPHLI-------IVPSSTLCKYKV-PSR 83 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~--~~~~~LI-------v~P~sl~~~W~~-~~~ 83 (131)
|.+-++.++.....+ .+-+|..+.|.|||..+=.+...+... ... -..+.++ +++.+...+|++ +++
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~-~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e~~lk~ 270 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAG-DVPPALRNVRLLSLDLGLLQAGASVKGEFENRLKS 270 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhC-CCCccccCCeEEEeehhhhhcccccchHHHHHHHH
Confidence 555566666543333 367899999999999888776655432 110 0123332 445566778888 777
Q ss_pred ccC
Q psy2050 84 WRT 86 (131)
Q Consensus 84 ~~p 86 (131)
.+.
T Consensus 271 ii~ 273 (852)
T TIGR03345 271 VID 273 (852)
T ss_pred HHH
Confidence 664
No 338
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=51.09 E-value=40 Score=26.08 Aligned_cols=43 Identities=19% Similarity=0.006 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|.+.++-+......+. .-++..+-|.|||..+.++...+...
T Consensus 18 g~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~ 63 (355)
T TIGR02397 18 GQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQ 63 (355)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 45666666665555544 23779999999999998887766543
No 339
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=51.00 E-value=34 Score=25.36 Aligned_cols=37 Identities=19% Similarity=0.082 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLA 52 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~ 52 (131)
|.++-.-+.-....+.+-++-.+.|.|||..+-.+-.
T Consensus 8 Qe~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 8 QEEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp THHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHH
T ss_pred cHHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHH
Confidence 3444333333333455667799999999998877643
No 340
>CHL00175 minD septum-site determining protein; Validated
Probab=50.80 E-value=33 Score=25.80 Aligned_cols=32 Identities=22% Similarity=0.232 Sum_probs=23.3
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
.+.+.--|.|||..+..+...+...+ .++|+|
T Consensus 19 ~v~s~KGGvGKTt~a~nLA~~La~~g-----~~vlli 50 (281)
T CHL00175 19 VITSGKGGVGKTTTTANLGMSIARLG-----YRVALI 50 (281)
T ss_pred EEEcCCCCCcHHHHHHHHHHHHHhCC-----CeEEEE
Confidence 45566778999999999887777653 456655
No 341
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=50.80 E-value=23 Score=28.70 Aligned_cols=40 Identities=23% Similarity=0.198 Sum_probs=25.9
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
+|.+|....|.|||..+-++.... ..+++-+.+..+...|
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~l--------~~~fi~i~~s~l~~k~ 219 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHHT--------TATFIRVVGSEFVQKY 219 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhc--------CCCEEEEehHHHHHHh
Confidence 467889999999999887765432 3455555544443333
No 342
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.56 E-value=40 Score=28.02 Aligned_cols=42 Identities=19% Similarity=-0.009 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhhccc--C-eeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--C-GILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g-~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|...+..+......++ . -++..+.|.|||..|-++...+..
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 35555555554444443 2 378999999999999888766543
No 343
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=50.56 E-value=57 Score=25.93 Aligned_cols=26 Identities=19% Similarity=0.180 Sum_probs=21.4
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.++.-+|....|.|||..+-.+...+
T Consensus 63 ~~~~ilL~G~pGtGKTtla~~lA~~l 88 (327)
T TIGR01650 63 YDRRVMVQGYHGTGKSTHIEQIAARL 88 (327)
T ss_pred cCCcEEEEeCCCChHHHHHHHHHHHH
Confidence 56677889999999999888776655
No 344
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=50.40 E-value=41 Score=23.95 Aligned_cols=25 Identities=16% Similarity=0.073 Sum_probs=19.4
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
..+..+.|.|||.-++.++......
T Consensus 15 ~~i~G~~GsGKT~l~~~~~~~~~~~ 39 (209)
T TIGR02237 15 TQIYGPPGSGKTNICMILAVNAARQ 39 (209)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhC
Confidence 3567899999999999887665543
No 345
>PRK08506 replicative DNA helicase; Provisional
Probab=50.36 E-value=48 Score=27.49 Aligned_cols=36 Identities=14% Similarity=0.071 Sum_probs=26.8
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
-++|...|.|||.-++.++...... ..+++++...-
T Consensus 195 ivIaarpg~GKT~fal~ia~~~~~~-----g~~V~~fSlEM 230 (472)
T PRK08506 195 IIIAARPSMGKTTLCLNMALKALNQ-----DKGVAFFSLEM 230 (472)
T ss_pred EEEEcCCCCChHHHHHHHHHHHHhc-----CCcEEEEeCcC
Confidence 3779999999999999887665432 36777776643
No 346
>KOG1942|consensus
Probab=49.74 E-value=33 Score=27.52 Aligned_cols=26 Identities=27% Similarity=0.250 Sum_probs=20.3
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+++-+||...|.|||..|++....+
T Consensus 63 aGravLlaGppgtGKTAlAlaisqEL 88 (456)
T KOG1942|consen 63 AGRAVLLAGPPGTGKTALALAISQEL 88 (456)
T ss_pred cCcEEEEecCCCCchhHHHHHHHHHh
Confidence 44566789999999999888865544
No 347
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=49.61 E-value=44 Score=29.53 Aligned_cols=43 Identities=19% Similarity=0.069 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|..++.-+......++ .+ ++..+-|.|||..|-++...+.+.
T Consensus 22 GQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 22 GQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 46666666665555544 33 779999999999999887766543
No 348
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=49.49 E-value=1e+02 Score=28.11 Aligned_cols=56 Identities=11% Similarity=-0.075 Sum_probs=34.1
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchh---hhhh-hhcccCCCcee
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLC---KYKV-PSRWRTSNCDK 91 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~---~W~~-~~~~~p~~~v~ 91 (131)
+.|.|---..|=|||+++...+....-. .+++-||.++ .|.. .|-. +-+|. ++.|-
T Consensus 98 h~G~IAEM~TGEGKTL~atlpaylnAL~-----GkgVhVVTvNdYLA~RDae~m~~vy~~L-GLtvg 158 (939)
T PRK12902 98 HEGQIAEMKTGEGKTLVATLPSYLNALT-----GKGVHVVTVNDYLARRDAEWMGQVHRFL-GLSVG 158 (939)
T ss_pred cCCceeeecCCCChhHHHHHHHHHHhhc-----CCCeEEEeCCHHHHHhHHHHHHHHHHHh-CCeEE
Confidence 4566766788999999765433322222 3667777775 4443 5887 76665 34443
No 349
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=49.42 E-value=38 Score=29.49 Aligned_cols=57 Identities=23% Similarity=0.137 Sum_probs=37.9
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--C-eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--C-GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g-~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
|+|..+..+.+-+. -|...+..+......++ . -++..+.|.|||..+..+...+.+.
T Consensus 1 msy~~La~KyRP~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 1 MSYQVLARKWRPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred CCchhHHHHhCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 56655554433322 36666666666665554 3 4789999999999999887766553
No 350
>PHA02533 17 large terminase protein; Provisional
Probab=49.12 E-value=80 Score=26.75 Aligned_cols=58 Identities=19% Similarity=0.084 Sum_probs=36.9
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
..+.|.|+|++-+..|. .++-.++.-.=..|||..+.+++........ ...+++++|.
T Consensus 56 ~Pf~L~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~---~~~v~i~A~~ 113 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNK---DKNVGILAHK 113 (534)
T ss_pred eecCCcHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCC---CCEEEEEeCC
Confidence 46889999999887663 2233355555568999988776544333222 2466777773
No 351
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=49.12 E-value=25 Score=30.72 Aligned_cols=39 Identities=18% Similarity=0.181 Sum_probs=28.4
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
|.+|....|.|||..+-++.... ..+++.+-++.++..|
T Consensus 489 giLL~GppGtGKT~lakalA~e~--------~~~fi~v~~~~l~~~~ 527 (733)
T TIGR01243 489 GVLLFGPPGTGKTLLAKAVATES--------GANFIAVRGPEILSKW 527 (733)
T ss_pred eEEEECCCCCCHHHHHHHHHHhc--------CCCEEEEehHHHhhcc
Confidence 56779999999999888765433 3566767666666666
No 352
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=49.04 E-value=28 Score=30.61 Aligned_cols=56 Identities=21% Similarity=0.176 Sum_probs=36.0
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|+|..+-.+++-+. -|...+..|......++ .+ |+...-|.|||..+.++...+..
T Consensus 1 Msy~vLarKYRP~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC 64 (709)
T PRK08691 1 MAYQVLARKWRPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNC 64 (709)
T ss_pred CcchhHHHHhCCCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 56666554444433 35566665555444444 34 77999999999999888766544
No 353
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=48.92 E-value=30 Score=26.50 Aligned_cols=25 Identities=28% Similarity=0.341 Sum_probs=20.4
Q ss_pred hcccCeeeeCCCCCCHHHHHHHHHH
Q psy2050 28 NQQLCGILADEMGLGKTIQVISFLA 52 (131)
Q Consensus 28 ~~~~g~ilad~mGlGKT~~~ia~l~ 52 (131)
..++..+|+.+-|.|||..+-.++.
T Consensus 31 ~~~~pvLl~G~~GtGKT~li~~~l~ 55 (272)
T PF12775_consen 31 SNGRPVLLVGPSGTGKTSLIQNFLS 55 (272)
T ss_dssp HCTEEEEEESSTTSSHHHHHHHHHH
T ss_pred HcCCcEEEECCCCCchhHHHHhhhc
Confidence 3556788999999999998877664
No 354
>PRK06904 replicative DNA helicase; Validated
Probab=48.66 E-value=81 Score=26.21 Aligned_cols=44 Identities=18% Similarity=0.172 Sum_probs=29.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV 80 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~ 80 (131)
-++|...|.|||.-++.++....... ..|++++....-..+...
T Consensus 224 iiIaarPg~GKTafalnia~~~a~~~----g~~Vl~fSlEMs~~ql~~ 267 (472)
T PRK06904 224 IIVAARPSMGKTTFAMNLCENAAMAS----EKPVLVFSLEMPAEQIMM 267 (472)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHHhc----CCeEEEEeccCCHHHHHH
Confidence 37899999999998887765544321 367887776544444443
No 355
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=48.63 E-value=29 Score=28.45 Aligned_cols=26 Identities=35% Similarity=0.488 Sum_probs=21.9
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|.+..-|.|||..+.+++..+...+.
T Consensus 8 I~gt~s~~GKT~it~~L~~~L~~~G~ 33 (451)
T PRK01077 8 IAAPASGSGKTTVTLGLMRALRRRGL 33 (451)
T ss_pred EEeCCCCCcHHHHHHHHHHHHHhCCC
Confidence 44678999999999999988888764
No 356
>KOG0347|consensus
Probab=48.58 E-value=10 Score=32.55 Aligned_cols=84 Identities=18% Similarity=0.102 Sum_probs=44.4
Q ss_pred eee-eCCCCCCHHHHHH-HHHHHHHHhCC---------CCCCC-CEEEEecCC-chhhhhh-hhcccCC--CceeeccCC
Q psy2050 33 GIL-ADEMGLGKTIQVI-SFLAYLHEAGL---------SRPKS-PHLIIVPSS-TLCKYKV-PSRWRTS--NCDKTSPVK 96 (131)
Q Consensus 33 ~il-ad~mGlGKT~~~i-a~l~~~~~~~~---------~~~~~-~~LIv~P~s-l~~~W~~-~~~~~p~--~~v~~~~~~ 96 (131)
-|| |.|.|.|||+.-- -++..+...+. ..... -.||++|.. +..|=.+ +...++. +++....|+
T Consensus 221 DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GG 300 (731)
T KOG0347|consen 221 DILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGG 300 (731)
T ss_pred hcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeech
Confidence 355 7899999997421 11221111000 00112 269999964 6777777 7777654 555555554
Q ss_pred CcchhhhhhcCccCCCCCCCCCCCcEEEEc
Q psy2050 97 PQTITVAQLRVPECDQSPSQEVGYNDIIMY 126 (131)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~VvItt 126 (131)
-...+ +-+++.. +.+|||.|
T Consensus 301 LavqK--QqRlL~~--------~p~IVVAT 320 (731)
T KOG0347|consen 301 LAVQK--QQRLLNQ--------RPDIVVAT 320 (731)
T ss_pred hHHHH--HHHHHhc--------CCCEEEec
Confidence 43222 2223222 36788876
No 357
>KOG0948|consensus
Probab=48.56 E-value=34 Score=30.69 Aligned_cols=68 Identities=13% Similarity=0.173 Sum_probs=46.5
Q ss_pred CCCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhh-hhh-hhcc
Q psy2050 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCK-YKV-PSRW 84 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~-W~~-~~~~ 84 (131)
-.+.|-|+|..++.-+. .+..-+...-...|||+.|=-.|+...++ +-+++--.|. ++=+| ..+ .+.|
T Consensus 126 YPF~LDpFQ~~aI~Cid----r~eSVLVSAHTSAGKTVVAeYAIA~sLr~-----kQRVIYTSPIKALSNQKYREl~~EF 196 (1041)
T KOG0948|consen 126 YPFTLDPFQSTAIKCID----RGESVLVSAHTSAGKTVVAEYAIAMSLRE-----KQRVIYTSPIKALSNQKYRELLEEF 196 (1041)
T ss_pred CCcccCchHhhhhhhhc----CCceEEEEeecCCCcchHHHHHHHHHHHh-----cCeEEeeChhhhhcchhHHHHHHHh
Confidence 56789999999997665 66667777789999999987766655544 3556666673 44444 333 4443
No 358
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=48.49 E-value=9.6 Score=32.30 Aligned_cols=71 Identities=13% Similarity=0.150 Sum_probs=50.0
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC-Cchhhhhh--hhccc
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS-STLCKYKV--PSRWR 85 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~-sl~~~W~~--~~~~~ 85 (131)
+....|||++-.+.|.... -..-.+.-.--+|||...+.++....... +.|+|++.|. .....|.+ |....
T Consensus 14 ~~~~~Py~~eimd~~~~~~--v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~----P~~~l~v~Pt~~~a~~~~~~rl~Pmi 87 (557)
T PF05876_consen 14 RTDRTPYLREIMDALSDPS--VREVVVMKSAQVGKTELLLNWIGYSIDQD----PGPMLYVQPTDDAAKDFSKERLDPMI 87 (557)
T ss_pred CCCCChhHHHHHHhcCCcC--ccEEEEEEcchhhHhHHHHhhceEEEEeC----CCCEEEEEEcHHHHHHHHHHHHHHHH
Confidence 4678999999887766322 12345556677999998887776555444 6999999996 46777876 66554
No 359
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=48.37 E-value=23 Score=28.01 Aligned_cols=23 Identities=22% Similarity=0.114 Sum_probs=18.3
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~ 53 (131)
.|.+|..+.|.|||..+-++...
T Consensus 157 ~gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh
Confidence 35678999999999988876543
No 360
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=48.19 E-value=57 Score=26.27 Aligned_cols=34 Identities=18% Similarity=0.287 Sum_probs=24.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.++..+.|.|||.-++.++...... ..+++.|.-
T Consensus 85 vLI~G~pG~GKStLllq~a~~~a~~-----g~~VlYvs~ 118 (372)
T cd01121 85 ILIGGDPGIGKSTLLLQVAARLAKR-----GGKVLYVSG 118 (372)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhc-----CCeEEEEEC
Confidence 3668899999999988887665543 245665544
No 361
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.05 E-value=41 Score=28.24 Aligned_cols=57 Identities=21% Similarity=0.154 Sum_probs=36.9
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
|+|...-.+++-+. -|...+..+......++ .. ++...-|.|||..|..+...+...
T Consensus 1 m~y~~l~~kyRP~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509)
T PRK14958 1 MAHQVLARKWRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCE 65 (509)
T ss_pred CCchhHHHHHCCCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 45555444433332 45666666666555544 33 779999999999998887766543
No 362
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=48.04 E-value=32 Score=25.62 Aligned_cols=28 Identities=29% Similarity=0.381 Sum_probs=22.4
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCC
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~ 60 (131)
-.|+-..|.|||..++.-...+..++.+
T Consensus 8 IflG~apGVGKTy~ML~ea~~l~~~G~D 35 (211)
T PF02702_consen 8 IFLGAAPGVGKTYAMLQEAHRLKEQGVD 35 (211)
T ss_dssp EEEESSTTSSHHHHHHHHHHHHHHTT--
T ss_pred EEEecCCCCCHHHHHHHHHHHHHHCCCC
Confidence 4678999999999999988888776643
No 363
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=47.60 E-value=32 Score=27.40 Aligned_cols=34 Identities=21% Similarity=0.280 Sum_probs=24.7
Q ss_pred HHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 21 NWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 21 ~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.++....+.+..-+++..+|.|||-..-+++..+
T Consensus 153 ~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i 186 (344)
T PRK13851 153 AFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAI 186 (344)
T ss_pred HHHHHHHHcCCeEEEECCCCccHHHHHHHHHccc
Confidence 3455555566677889999999999887766544
No 364
>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=47.59 E-value=40 Score=22.25 Aligned_cols=21 Identities=33% Similarity=0.392 Sum_probs=17.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHH
Q psy2050 34 ILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~ 54 (131)
+|..+.|.|||..+-.+...+
T Consensus 3 lL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 3 LLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEESSSSSHHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 567889999999888776655
No 365
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=47.58 E-value=57 Score=27.06 Aligned_cols=36 Identities=17% Similarity=0.244 Sum_probs=26.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCc
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSST 74 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl 74 (131)
++..+.|.|||.-+..++...... ..+++.|.-...
T Consensus 277 li~G~~G~GKT~l~~~~~~~~~~~-----g~~~~yis~e~~ 312 (509)
T PRK09302 277 LVSGATGTGKTLLASKFAEAACRR-----GERCLLFAFEES 312 (509)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHhC-----CCcEEEEEecCC
Confidence 568899999999999988766544 366777765433
No 366
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=47.42 E-value=57 Score=21.52 Aligned_cols=32 Identities=34% Similarity=0.488 Sum_probs=21.6
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEe
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIV 70 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~ 70 (131)
++.-..|.|||..+..+...+...+ .++++|-
T Consensus 3 ~~~GkgG~GKTt~a~~la~~l~~~g-----~~V~~id 34 (116)
T cd02034 3 AITGKGGVGKTTIAALLARYLAEKG-----KPVLAID 34 (116)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCC-----CcEEEEE
Confidence 3456789999999888776665432 4555554
No 367
>KOG0336|consensus
Probab=47.25 E-value=19 Score=29.99 Aligned_cols=79 Identities=14% Similarity=0.132 Sum_probs=44.6
Q ss_pred cccCeeeeCCCCCCHHHHHHH--HHHHHH--HhCCCCCCCCEEEEecCCc-hhhhhh-hhcccC-C-CceeeccCCCcch
Q psy2050 29 QQLCGILADEMGLGKTIQVIS--FLAYLH--EAGLSRPKSPHLIIVPSST-LCKYKV-PSRWRT-S-NCDKTSPVKPQTI 100 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia--~l~~~~--~~~~~~~~~~~LIv~P~sl-~~~W~~-~~~~~p-~-~~v~~~~~~~~~~ 100 (131)
++.-+|-....|-|||+.-+- ++.... ........-.+|+..|..- ..|=+- ..++.. + -.+.+|++..+..
T Consensus 256 QG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygggnR~e 335 (629)
T KOG0336|consen 256 QGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRNE 335 (629)
T ss_pred cCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecCCCchh
Confidence 445566677899999986553 111111 1111112345788888654 445555 666653 3 3455677777776
Q ss_pred hhhhhcC
Q psy2050 101 TVAQLRV 107 (131)
Q Consensus 101 ~~~~~~~ 107 (131)
...+++.
T Consensus 336 qie~lkr 342 (629)
T KOG0336|consen 336 QIEDLKR 342 (629)
T ss_pred HHHHHhc
Confidence 6666653
No 368
>PRK11823 DNA repair protein RadA; Provisional
Probab=47.04 E-value=60 Score=26.74 Aligned_cols=40 Identities=18% Similarity=0.288 Sum_probs=26.3
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~ 77 (131)
.++..+.|.|||.-++.++...... ..+++.+.-..-..|
T Consensus 83 ~lI~G~pG~GKTtL~lq~a~~~a~~-----g~~vlYvs~Ees~~q 122 (446)
T PRK11823 83 VLIGGDPGIGKSTLLLQVAARLAAA-----GGKVLYVSGEESASQ 122 (446)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhc-----CCeEEEEEccccHHH
Confidence 3679999999999999887765532 245555554333333
No 369
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=46.90 E-value=35 Score=22.93 Aligned_cols=25 Identities=24% Similarity=0.388 Sum_probs=19.7
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
..-+.|.|||..+..++..+.+.+.
T Consensus 4 ~~~~~~~Gkt~~~~~l~~~l~~~~~ 28 (134)
T cd03109 4 FGTGTDIGKTVATAILARALKEKGY 28 (134)
T ss_pred EeCCCCcCHHHHHHHHHHHHHHCCC
Confidence 4556889999999999988876543
No 370
>PRK05595 replicative DNA helicase; Provisional
Probab=46.89 E-value=59 Score=26.55 Aligned_cols=35 Identities=17% Similarity=0.205 Sum_probs=25.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
++|...|.|||.-++.++....... ..+++++...
T Consensus 205 viaarpg~GKT~~al~ia~~~a~~~----g~~vl~fSlE 239 (444)
T PRK05595 205 LIAARPSMGKTTFALNIAEYAALRE----GKSVAIFSLE 239 (444)
T ss_pred EEEecCCCChHHHHHHHHHHHHHHc----CCcEEEEecC
Confidence 7799999999999998876544221 2566666554
No 371
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.78 E-value=28 Score=30.08 Aligned_cols=57 Identities=23% Similarity=0.168 Sum_probs=38.0
Q ss_pred CccccCCCCCCcch-----HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 1 MTYELKARNLKLAG-----YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 1 ~~~~~~~~~~~L~~-----~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
|||.....+++-+. -|...+..+......++ .. ++...-|.|||-.+..+...+.+.
T Consensus 1 msy~vla~KyRP~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~ 65 (618)
T PRK14951 1 MSYLVLARKYRPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQ 65 (618)
T ss_pred CchHHHHHHHCCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 55555554443322 36677776666665554 34 779999999999999887776553
No 372
>KOG0991|consensus
Probab=46.69 E-value=59 Score=25.26 Aligned_cols=26 Identities=23% Similarity=0.240 Sum_probs=21.6
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
..-|++...|.|||-.+.++...+..
T Consensus 49 P~liisGpPG~GKTTsi~~LAr~LLG 74 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLARELLG 74 (333)
T ss_pred CceEeeCCCCCchhhHHHHHHHHHhC
Confidence 36788999999999999988766653
No 373
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=46.61 E-value=98 Score=25.35 Aligned_cols=22 Identities=27% Similarity=0.366 Sum_probs=17.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHHH
Q psy2050 34 ILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.+...-|.|||-.+..+.....
T Consensus 225 ~~vGptGvGKTTt~~kLA~~~~ 246 (424)
T PRK05703 225 ALVGPTGVGKTTTLAKLAARYA 246 (424)
T ss_pred EEECCCCCCHHHHHHHHHHHHH
Confidence 4467799999998888776655
No 374
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=46.58 E-value=42 Score=27.84 Aligned_cols=25 Identities=24% Similarity=0.381 Sum_probs=20.1
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-+++.+.|.|||.-++.++......
T Consensus 34 ~li~G~pGsGKT~l~~qf~~~~~~~ 58 (509)
T PRK09302 34 TLVSGTAGTGKTLFALQFLVNGIKR 58 (509)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 3679999999999999887655544
No 375
>PHA02244 ATPase-like protein
Probab=46.39 E-value=82 Score=25.68 Aligned_cols=25 Identities=16% Similarity=0.082 Sum_probs=20.3
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~ 53 (131)
.+..-+|..+.|.|||.-+-++...
T Consensus 118 ~~~PVLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 118 ANIPVFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred cCCCEEEECCCCCCHHHHHHHHHHH
Confidence 5667788999999999988776554
No 376
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=46.31 E-value=24 Score=21.74 Aligned_cols=26 Identities=8% Similarity=-0.070 Sum_probs=14.0
Q ss_pred CEEEEecCCc-hhh-hhh-hhcccCCCce
Q psy2050 65 PHLIIVPSST-LCK-YKV-PSRWRTSNCD 90 (131)
Q Consensus 65 ~~LIv~P~sl-~~~-W~~-~~~~~p~~~v 90 (131)
+.++|||.-. ..+ =.. +++.++...+
T Consensus 2 ~ilivC~~G~~tS~~l~~~i~~~~~~~~i 30 (89)
T cd05566 2 KILVACGTGVATSTVVASKVKELLKENGI 30 (89)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHCCC
Confidence 3567777644 222 233 6666665554
No 377
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=46.30 E-value=44 Score=27.71 Aligned_cols=25 Identities=28% Similarity=0.328 Sum_probs=20.8
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-++..+.|.|||.-++-++.....+
T Consensus 266 ~li~G~~G~GKt~l~~~f~~~~~~~ 290 (484)
T TIGR02655 266 ILATGATGTGKTLLVSKFLENACAN 290 (484)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC
Confidence 4679999999999999988776554
No 378
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=46.28 E-value=1.3e+02 Score=22.99 Aligned_cols=27 Identities=26% Similarity=0.291 Sum_probs=22.4
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
..+|..+-|.||+..+-|++.....++
T Consensus 54 nvLL~G~rGtGKSSlVkall~~y~~~G 80 (249)
T PF05673_consen 54 NVLLWGARGTGKSSLVKALLNEYADQG 80 (249)
T ss_pred ceEEecCCCCCHHHHHHHHHHHHhhcC
Confidence 578899999999999999887666543
No 379
>PRK13768 GTPase; Provisional
Probab=46.03 E-value=46 Score=25.03 Aligned_cols=25 Identities=28% Similarity=0.438 Sum_probs=18.8
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
+++..-|.|||-.+..+...+...+
T Consensus 6 ~v~G~~G~GKTt~~~~~~~~l~~~g 30 (253)
T PRK13768 6 FFLGTAGSGKTTLTKALSDWLEEQG 30 (253)
T ss_pred EEECCCCccHHHHHHHHHHHHHhcC
Confidence 3456689999999988877776543
No 380
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=45.77 E-value=49 Score=28.47 Aligned_cols=43 Identities=19% Similarity=0.047 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|...+..+......++ .-++...-|.|||..+..+...+.+.
T Consensus 28 Gq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 28 GQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 46666666666555554 45779999999999999988777654
No 381
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=45.71 E-value=47 Score=28.68 Aligned_cols=42 Identities=19% Similarity=0.044 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|...+..+......++ +-++...-|.|||..|.++...+.+
T Consensus 20 GQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C 64 (605)
T PRK05896 20 GQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC 64 (605)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 35555666555554443 2367999999999999998777654
No 382
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=45.64 E-value=47 Score=27.42 Aligned_cols=39 Identities=26% Similarity=0.177 Sum_probs=25.8
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhh
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~ 77 (131)
.|.+|..+.|.|||..+-++...+ ..+++-|....+...
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~el--------~~~fi~V~~seL~~k 256 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVANET--------SATFLRVVGSELIQK 256 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhh--------CCCEEEEecchhhhh
Confidence 366889999999999888765433 244554544444433
No 383
>PRK11670 antiporter inner membrane protein; Provisional
Probab=45.42 E-value=32 Score=27.53 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=19.6
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
+.+.--|-|||-.+..+...+...+
T Consensus 112 V~S~KGGVGKTT~avNLA~aLA~~G 136 (369)
T PRK11670 112 VSSGKGGVGKSSTAVNLALALAAEG 136 (369)
T ss_pred EeCCCCCCCHHHHHHHHHHHHHHCC
Confidence 4455668999999999888887654
No 384
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=45.30 E-value=55 Score=27.82 Aligned_cols=40 Identities=18% Similarity=0.115 Sum_probs=26.7
Q ss_pred cchHHHHHHHHHHHHhhcccCe-eeeCCCCCCHHHHHHHHHHHH
Q psy2050 12 LAGYQLVGLNWLAVMHNQQLCG-ILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 12 L~~~Q~~~v~~l~~~~~~~~g~-ilad~mGlGKT~~~ia~l~~~ 54 (131)
+.+.|.+.+..+. ....|- +++..+|.|||-+..+++..+
T Consensus 300 ~~~~~~~~l~~~~---~~~~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 300 FEPDQKALFLEAI---HKPQGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred CCHHHHHHHHHHH---HhcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 3455666665544 244454 459999999999887777654
No 385
>CHL00195 ycf46 Ycf46; Provisional
Probab=45.02 E-value=35 Score=28.55 Aligned_cols=34 Identities=18% Similarity=0.143 Sum_probs=23.6
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
+|-+|....|.|||..|=++.... ..|.+.+-+.
T Consensus 260 kGILL~GPpGTGKTllAkaiA~e~--------~~~~~~l~~~ 293 (489)
T CHL00195 260 RGLLLVGIQGTGKSLTAKAIANDW--------QLPLLRLDVG 293 (489)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHh--------CCCEEEEEhH
Confidence 356779999999999887765443 3555555443
No 386
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.85 E-value=52 Score=27.62 Aligned_cols=42 Identities=21% Similarity=0.051 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|...+..+......++ .-++....|.|||-.|..+...+.+
T Consensus 17 GQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 17 GQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred CcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 35666666655544443 4577999999999988877655543
No 387
>KOG0339|consensus
Probab=44.76 E-value=47 Score=28.50 Aligned_cols=44 Identities=11% Similarity=0.036 Sum_probs=26.6
Q ss_pred CCCCEE-EEecC-Cchhhhhh-hhcccCC--Cceee-ccCCCcchhhhhh
Q psy2050 62 PKSPHL-IIVPS-STLCKYKV-PSRWRTS--NCDKT-SPVKPQTITVAQL 105 (131)
Q Consensus 62 ~~~~~L-Iv~P~-sl~~~W~~-~~~~~p~--~~v~~-~~~~~~~~~~~~~ 105 (131)
+.+|++ |+||. .+..|=.. .++|... +++.. |.|.+.-.....+
T Consensus 294 g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~L 343 (731)
T KOG0339|consen 294 GEGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKEL 343 (731)
T ss_pred CCCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhh
Confidence 468875 67774 56667666 8888644 44443 6666654433333
No 388
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=44.68 E-value=15 Score=27.38 Aligned_cols=26 Identities=27% Similarity=0.387 Sum_probs=18.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
-=|-|||-.+..+...+... . ++|+|
T Consensus 10 KGGvGKTT~a~nLA~~La~~-----G-rVLli 35 (264)
T PRK13231 10 KGGIGKSTTVSNMAAAYSND-----H-RVLVI 35 (264)
T ss_pred CCCCcHHHHHHHHhcccCCC-----C-EEEEE
Confidence 34789999999887766543 2 56665
No 389
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=44.65 E-value=59 Score=21.80 Aligned_cols=25 Identities=24% Similarity=0.308 Sum_probs=18.3
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
+.+.--|-|||..++.+...+...+
T Consensus 4 ~~~~kgg~gkt~~~~~~a~~~~~~~ 28 (139)
T cd02038 4 VTSGKGGVGKTNISANLALALAKLG 28 (139)
T ss_pred EEcCCCCCcHHHHHHHHHHHHHHCC
Confidence 4455668999999998887766543
No 390
>PRK12608 transcription termination factor Rho; Provisional
Probab=44.38 E-value=60 Score=26.39 Aligned_cols=29 Identities=17% Similarity=0.211 Sum_probs=21.5
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.++++++-.+.|.|||..+..++..+..+
T Consensus 132 kGQR~LIvG~pGtGKTTLl~~la~~i~~~ 160 (380)
T PRK12608 132 KGQRGLIVAPPRAGKTVLLQQIAAAVAAN 160 (380)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 44567888889999999887766655443
No 391
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=44.17 E-value=50 Score=28.66 Aligned_cols=40 Identities=15% Similarity=0.130 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
-|.+++..+......+...++..+.|.|||..+-++...+
T Consensus 35 gq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~l~~~l 74 (637)
T PRK13765 35 GQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKAMAELL 74 (637)
T ss_pred ChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHc
Confidence 5777777777666667778889999999999888876544
No 392
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=44.10 E-value=63 Score=24.42 Aligned_cols=42 Identities=19% Similarity=0.082 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|.+.+..+......+. ..++..+-|.|||..+-++...+..
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~ 64 (319)
T PRK00440 21 GQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG 64 (319)
T ss_pred CcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcC
Confidence 35555655555444432 4688999999999988887665543
No 393
>PRK05748 replicative DNA helicase; Provisional
Probab=44.04 E-value=65 Score=26.30 Aligned_cols=41 Identities=15% Similarity=0.049 Sum_probs=28.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~ 77 (131)
-++|...|.|||.-++.++....... ..+++++...--..+
T Consensus 206 ivIaarpg~GKT~~al~ia~~~a~~~----g~~v~~fSlEms~~~ 246 (448)
T PRK05748 206 IIVAARPSVGKTAFALNIAQNVATKT----DKNVAIFSLEMGAES 246 (448)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHhC----CCeEEEEeCCCCHHH
Confidence 37799999999999998876654321 367777765444433
No 394
>CHL00181 cbbX CbbX; Provisional
Probab=43.80 E-value=60 Score=24.98 Aligned_cols=45 Identities=20% Similarity=0.279 Sum_probs=29.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
-++..+.|.|||..|-++...+...+... ..+++.+-...++..+
T Consensus 62 ill~G~pGtGKT~lAr~la~~~~~~g~~~-~~~~~~v~~~~l~~~~ 106 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMADILYKLGYIK-KGHLLTVTRDDLVGQY 106 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCC-CCceEEecHHHHHHHH
Confidence 36789999999999999876666554431 2454444444555545
No 395
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=43.80 E-value=67 Score=24.33 Aligned_cols=23 Identities=26% Similarity=0.183 Sum_probs=18.2
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
..++..+.|.|||.-+.++...+
T Consensus 32 ~~ll~Gp~G~GKT~la~~ia~~~ 54 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLAHIIANEM 54 (305)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 46889999999999888765443
No 396
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=43.68 E-value=50 Score=26.68 Aligned_cols=35 Identities=20% Similarity=0.181 Sum_probs=25.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
+++...|.|||.-++.++....... ..+++++...
T Consensus 199 vi~g~pg~GKT~~~l~~a~~~a~~~----g~~vl~~SlE 233 (434)
T TIGR00665 199 ILAARPSMGKTAFALNIAENAAIKE----GKPVAFFSLE 233 (434)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHhC----CCeEEEEeCc
Confidence 7799999999999998876654421 2566666653
No 397
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=43.66 E-value=51 Score=28.98 Aligned_cols=41 Identities=17% Similarity=0.074 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|...+..+......++ .+ ++...-|.|||..|.++...+..
T Consensus 20 Qe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 20 QNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 5555555555444443 34 88999999999999888766543
No 398
>PRK07004 replicative DNA helicase; Provisional
Probab=43.55 E-value=60 Score=26.83 Aligned_cols=35 Identities=20% Similarity=0.215 Sum_probs=25.2
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
++|...|.|||.-++.++....... ..|++++...
T Consensus 217 viaarpg~GKT~~al~ia~~~a~~~----~~~v~~fSlE 251 (460)
T PRK07004 217 IVAGRPSMGKTAFSMNIGEYVAVEY----GLPVAVFSME 251 (460)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHHc----CCeEEEEeCC
Confidence 7799999999999998876554321 3666666543
No 399
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=43.43 E-value=53 Score=28.00 Aligned_cols=43 Identities=21% Similarity=0.117 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhhccc-C--eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL-C--GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~-g--~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-|...+.-+......++ . -++..+.|.|||..+.++...+...
T Consensus 20 Gqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 20 GQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccc
Confidence 35565655555554544 2 3779999999999999988776543
No 400
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=43.08 E-value=60 Score=25.75 Aligned_cols=39 Identities=18% Similarity=0.097 Sum_probs=25.4
Q ss_pred HHHHHHHHHH-Hhhcc-cCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAV-MHNQQ-LCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 16 Q~~~v~~l~~-~~~~~-~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
|.+++.-|.- ....+ .+.++.+..|.|||..+-++...+
T Consensus 13 q~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll 53 (334)
T PRK13407 13 QEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL 53 (334)
T ss_pred HHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence 6666654442 22244 356779999999999887765443
No 401
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=42.83 E-value=59 Score=23.38 Aligned_cols=24 Identities=21% Similarity=0.263 Sum_probs=18.4
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
++.+-.=|-|||..+..+...+..
T Consensus 39 ~v~s~kgG~GkSt~a~nLA~~la~ 62 (207)
T TIGR03018 39 MVTSSLPGEGKSFTAINLAISLAQ 62 (207)
T ss_pred EEECCCCCCCHHHHHHHHHHHHHH
Confidence 344567799999999988777764
No 402
>PRK08006 replicative DNA helicase; Provisional
Probab=42.74 E-value=71 Score=26.56 Aligned_cols=36 Identities=22% Similarity=0.207 Sum_probs=25.3
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
-++|...|.|||.-++.++....... ..++++....
T Consensus 227 iiIaarPgmGKTafalnia~~~a~~~----g~~V~~fSlE 262 (471)
T PRK08006 227 IIVAARPSMGKTTFAMNLCENAAMLQ----DKPVLIFSLE 262 (471)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHhc----CCeEEEEecc
Confidence 37799999999999998876554321 3566665543
No 403
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=42.66 E-value=74 Score=24.88 Aligned_cols=43 Identities=21% Similarity=0.379 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHhC
Q psy2050 16 QLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~~ 58 (131)
|.++...+......++ .-++..+-|.||+..|.++...+....
T Consensus 9 q~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~ 54 (314)
T PRK07399 9 QPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQG 54 (314)
T ss_pred HHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 6677777666665554 456799999999999999988776553
No 404
>KOG2825|consensus
Probab=42.32 E-value=21 Score=27.83 Aligned_cols=35 Identities=29% Similarity=0.301 Sum_probs=24.8
Q ss_pred Ceee-eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 32 CGIL-ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 32 g~il-ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.+|. +.-=|.|||-.+.++...+... +.++|||..
T Consensus 20 KwifVGGKGGVGKTTcs~sLAvqla~~-----r~~vLiIST 55 (323)
T KOG2825|consen 20 KWIFVGGKGGVGKTTCSCSLAVQLAKV-----RESVLIIST 55 (323)
T ss_pred eEEEEcCcCCcCccchhhHHHHHHhcc-----CCceEEeec
Confidence 3444 4455799999999988777655 366888764
No 405
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=42.29 E-value=1e+02 Score=25.67 Aligned_cols=24 Identities=17% Similarity=0.116 Sum_probs=18.7
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+-+|-..+|.|||..+-++...+
T Consensus 48 ~~ILLiGppG~GKT~lAraLA~~l 71 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIARRLAKLA 71 (441)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 355678899999999888775544
No 406
>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=42.12 E-value=18 Score=25.99 Aligned_cols=14 Identities=29% Similarity=0.515 Sum_probs=11.8
Q ss_pred CCCCCHHHHHHHHH
Q psy2050 38 EMGLGKTIQVISFL 51 (131)
Q Consensus 38 ~mGlGKT~~~ia~l 51 (131)
..|+|||-.++++.
T Consensus 7 tiGCGKTTva~aL~ 20 (168)
T PF08303_consen 7 TIGCGKTTVALALS 20 (168)
T ss_pred CCCcCHHHHHHHHH
Confidence 47999999999864
No 407
>TIGR00313 cobQ cobyric acid synthase CobQ.
Probab=42.06 E-value=29 Score=28.82 Aligned_cols=27 Identities=15% Similarity=0.254 Sum_probs=22.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~ 60 (131)
|.+.+.+.|||..+.+++..+.+.+..
T Consensus 3 I~GT~t~vGKT~v~~~L~~~l~~~G~~ 29 (475)
T TIGR00313 3 VVGTTSSAGKSTLTAGLCRILARRGYR 29 (475)
T ss_pred EeeCCCCCCHHHHHHHHHHHHHhCCCe
Confidence 557889999999999999888876644
No 408
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.01 E-value=56 Score=28.03 Aligned_cols=43 Identities=19% Similarity=0.026 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|...+..|......++ .. ++...-|.|||..+.++...+.+.
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 62 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCA 62 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccc
Confidence 46666666666555554 33 779999999999999988776643
No 409
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=41.79 E-value=71 Score=26.98 Aligned_cols=42 Identities=31% Similarity=0.328 Sum_probs=28.2
Q ss_pred chHHHHHHHHHHHHhhcccCeee-eCCCCCCHHHHHHHHHHHHHHh
Q psy2050 13 AGYQLVGLNWLAVMHNQQLCGIL-ADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 13 ~~~Q~~~v~~l~~~~~~~~g~il-ad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.++|.+.+.-+. +...|=+| ....|-|||.+..+++..+...
T Consensus 243 ~~~~~~~~~~~~---~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~ 285 (500)
T COG2804 243 SPFQLARLLRLL---NRPQGLILVTGPTGSGKTTTLYAALSELNTP 285 (500)
T ss_pred CHHHHHHHHHHH---hCCCeEEEEeCCCCCCHHHHHHHHHHHhcCC
Confidence 455555554444 24445444 8899999999999998776543
No 410
>KOG1806|consensus
Probab=41.75 E-value=48 Score=30.70 Aligned_cols=44 Identities=20% Similarity=0.247 Sum_probs=31.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV 80 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~ 80 (131)
..+...|+|||.++.-++..+.+..+. -+++|++= ..-+++=.+
T Consensus 757 mvvgppgtgktd~avqil~~lyhn~p~---qrTlivthsnqaln~lfe 801 (1320)
T KOG1806|consen 757 MVVGPPGTGKTDVAVQILSVLYHNSPN---QRTLIVTHSNQALNQLFE 801 (1320)
T ss_pred eeecCCCCCCcchhhhhhhhhhhcCCC---cceEEEEecccchhHHHH
Confidence 458899999999999998888887765 55666654 333444434
No 411
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=41.51 E-value=61 Score=28.03 Aligned_cols=43 Identities=16% Similarity=-0.005 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.|...+..+......++ +-|+...-|.|||..|..+...+...
T Consensus 20 GQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~ 65 (620)
T PRK14954 20 AQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (620)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 46777777766555544 34679999999999999988777553
No 412
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=41.41 E-value=50 Score=26.45 Aligned_cols=53 Identities=17% Similarity=0.230 Sum_probs=28.0
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhhhh-hhcccCCCceee
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKV-PSRWRTSNCDKT 92 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W~~-~~~~~p~~~v~~ 92 (131)
+..-=|.|||-+.-=+...+..++ .++++.+-..--.-=.+ ++.|...+.+.+
T Consensus 144 ~vGVNG~GKTTTIaKLA~~l~~~g-----~~VllaA~DTFRAaAiEQL~~w~er~gv~v 197 (340)
T COG0552 144 FVGVNGVGKTTTIAKLAKYLKQQG-----KSVLLAAGDTFRAAAIEQLEVWGERLGVPV 197 (340)
T ss_pred EEecCCCchHhHHHHHHHHHHHCC-----CeEEEEecchHHHHHHHHHHHHHHHhCCeE
Confidence 356679999965544444444443 45555554332222223 666765554444
No 413
>PRK06278 cobyrinic acid a,c-diamide synthase; Validated
Probab=41.39 E-value=33 Score=28.66 Aligned_cols=24 Identities=29% Similarity=0.266 Sum_probs=20.3
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
|-|...|.|||..+.+++..+...
T Consensus 243 Iagt~Tg~GKT~vt~~L~~al~~~ 266 (476)
T PRK06278 243 LLATGSESGKTFLTTSIAGKLRGK 266 (476)
T ss_pred EEeCCCCCCHHHHHHHHHHHHHhC
Confidence 338899999999999999888653
No 414
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.87 E-value=74 Score=26.56 Aligned_cols=42 Identities=24% Similarity=0.101 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-|...+..+......+. .+ ++..+-|.|||..+..+...+..
T Consensus 20 Gq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c 64 (486)
T PRK14953 20 GQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNC 64 (486)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 46666666666665554 33 67999999999988887766543
No 415
>PRK09863 putative frv operon regulatory protein; Provisional
Probab=40.61 E-value=1.2e+02 Score=25.66 Aligned_cols=45 Identities=9% Similarity=0.053 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHhCCCCCCCCEEEEecCCc-hhhhhh--hhcccCCCceee
Q psy2050 45 IQVISFLAYLHEAGLSRPKSPHLIIVPSST-LCKYKV--PSRWRTSNCDKT 92 (131)
Q Consensus 45 ~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl-~~~W~~--~~~~~p~~~v~~ 92 (131)
..|+-+-+++-+... ...+++|||+ .. ..+=.. +++.+|.+.+..
T Consensus 334 yialhfgaalEr~~~--~~~~iliVC~-g~g~s~ll~~kL~~~f~~i~i~~ 381 (584)
T PRK09863 334 LIALYFACALERHQN--ERVPILLLAD-QNSIATINQLIIEQKVLNIRVII 381 (584)
T ss_pred HHHHHHHHHHhhccc--cCceEEEEcC-chhHHHHHHHHHHhhCCCceEEe
Confidence 666666655544322 2578999995 33 334333 778888877664
No 416
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=40.38 E-value=36 Score=28.04 Aligned_cols=26 Identities=27% Similarity=0.502 Sum_probs=22.0
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|-+.+.|.|||..+++++..+.+.+.
T Consensus 6 i~~~~s~~GKT~vt~gl~~~l~~~g~ 31 (433)
T PRK13896 6 LGGTSSGVGKTVATLATIRALEDAGY 31 (433)
T ss_pred EEeCCCCCCHHHHHHHHHHHHHHCCC
Confidence 34778999999999999998887764
No 417
>PRK08840 replicative DNA helicase; Provisional
Probab=40.28 E-value=81 Score=26.17 Aligned_cols=41 Identities=20% Similarity=0.157 Sum_probs=26.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~ 77 (131)
-++|.-.|.|||.-++.++....... ..|+++....--..|
T Consensus 220 iviaarPg~GKTafalnia~~~a~~~----~~~v~~fSlEMs~~q 260 (464)
T PRK08840 220 IIVAARPSMGKTTFAMNLCENAAMDQ----DKPVLIFSLEMPAEQ 260 (464)
T ss_pred EEEEeCCCCchHHHHHHHHHHHHHhC----CCeEEEEeccCCHHH
Confidence 37799999999999987765544321 366776655433333
No 418
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=40.03 E-value=62 Score=23.19 Aligned_cols=22 Identities=18% Similarity=0.567 Sum_probs=17.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHH
Q psy2050 34 ILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~ 55 (131)
+++..+|.|||-..-+++..+.
T Consensus 5 lI~GptGSGKTTll~~ll~~~~ 26 (198)
T cd01131 5 LVTGPTGSGKSTTLAAMIDYIN 26 (198)
T ss_pred EEECCCCCCHHHHHHHHHHHhh
Confidence 5589999999998877765554
No 419
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=39.72 E-value=29 Score=20.33 Aligned_cols=11 Identities=18% Similarity=0.138 Sum_probs=7.5
Q ss_pred CCcEEEEcccc
Q psy2050 119 GYNDIIMYLNI 129 (131)
Q Consensus 119 ~~~VvIttY~~ 129 (131)
++|+||||-.+
T Consensus 46 ~~dliitt~~~ 56 (84)
T cd00133 46 DADLIISTVPL 56 (84)
T ss_pred CccEEEECCcc
Confidence 47777777654
No 420
>KOG0731|consensus
Probab=39.07 E-value=29 Score=30.78 Aligned_cols=21 Identities=24% Similarity=0.230 Sum_probs=18.2
Q ss_pred cCeeeeCCCCCCHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFL 51 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l 51 (131)
+|.+|....|.|||+-|-|..
T Consensus 345 kGvLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 345 KGVLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred CceEEECCCCCcHHHHHHHHh
Confidence 588999999999999887764
No 421
>KOG0733|consensus
Probab=39.00 E-value=28 Score=30.45 Aligned_cols=20 Identities=25% Similarity=0.265 Sum_probs=17.2
Q ss_pred CeeeeCCCCCCHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFL 51 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l 51 (131)
|-+|+...|+|||+.|=|+.
T Consensus 547 GvLL~GPPGCGKTLlAKAVA 566 (802)
T KOG0733|consen 547 GVLLCGPPGCGKTLLAKAVA 566 (802)
T ss_pred ceEEeCCCCccHHHHHHHHh
Confidence 55779999999999988765
No 422
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=38.90 E-value=78 Score=25.86 Aligned_cols=54 Identities=17% Similarity=0.105 Sum_probs=37.1
Q ss_pred CCCEEEEecC-Cchhhhhh-hhcccCCCceeeccCCCcch--hhhhhcCccCCCCCCCCCCCcEEEEc
Q psy2050 63 KSPHLIIVPS-STLCKYKV-PSRWRTSNCDKTSPVKPQTI--TVAQLRVPECDQSPSQEVGYNDIIMY 126 (131)
Q Consensus 63 ~~~~LIv~P~-sl~~~W~~-~~~~~p~~~v~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~VvItt 126 (131)
..|+||.+|. ..+.|-.+ +++-.|..++...+..+..+ ++.+.+- ...+++|||
T Consensus 305 ~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d~~R~EkV~~fR~----------G~~~lLiTT 362 (441)
T COG4098 305 GRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSEDQHRKEKVEAFRD----------GKITLLITT 362 (441)
T ss_pred CCcEEEEecchHHHHHHHHHHHhhCCccceeeeeccCccHHHHHHHHHc----------CceEEEEEe
Confidence 5899999995 56888888 88888988866655555433 3333331 136788877
No 423
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=38.86 E-value=1.3e+02 Score=24.29 Aligned_cols=23 Identities=26% Similarity=0.199 Sum_probs=18.1
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
-+|....|.|||..+..+.....
T Consensus 140 i~lvGptGvGKTTtiakLA~~~~ 162 (374)
T PRK14722 140 FALMGPTGVGKTTTTAKLAARCV 162 (374)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH
Confidence 35688999999999888776543
No 424
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=38.41 E-value=1.2e+02 Score=28.16 Aligned_cols=56 Identities=16% Similarity=0.104 Sum_probs=38.0
Q ss_pred CCCcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 9 NLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 9 ~~~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
...|-+-|++++..+. ...+-.++-..-|.|||-..-++.......+ .+++..+|.
T Consensus 379 ~~~Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~G-----~~V~g~ApT 434 (1102)
T PRK13826 379 HARLSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAREAWEAAG-----YRVVGGALA 434 (1102)
T ss_pred CCCCCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-----CeEEEEcCc
Confidence 4678899999998764 2344567788899999987776554333332 456666664
No 425
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=38.07 E-value=61 Score=24.56 Aligned_cols=21 Identities=24% Similarity=0.355 Sum_probs=16.8
Q ss_pred eeeCCCCCCHHHHHHHHHHHH
Q psy2050 34 ILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~ 54 (131)
++....|.|||-.++++....
T Consensus 5 ~i~GpT~tGKt~~ai~lA~~~ 25 (233)
T PF01745_consen 5 LIVGPTGTGKTALAIALAQKT 25 (233)
T ss_dssp EEE-STTSSHHHHHHHHHHHH
T ss_pred EEECCCCCChhHHHHHHHHHh
Confidence 567889999999999887655
No 426
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=37.89 E-value=77 Score=24.78 Aligned_cols=35 Identities=17% Similarity=0.248 Sum_probs=26.8
Q ss_pred HHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 21 NWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 21 ~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.+|......++.-+++.++|.|||-...+++..+.
T Consensus 134 ayL~~~ie~~~siii~G~t~sGKTt~lnall~~Ip 168 (312)
T COG0630 134 AYLWLAIEARKSIIICGGTASGKTTLLNALLDFIP 168 (312)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHhCC
Confidence 34455555777889999999999998888776553
No 427
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=37.64 E-value=75 Score=24.28 Aligned_cols=32 Identities=19% Similarity=0.278 Sum_probs=22.7
Q ss_pred eeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 35 LADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
+...-|.|||-++..+...+... ..++++|.-
T Consensus 77 l~G~~G~GKTTt~akLA~~l~~~-----g~~V~li~~ 108 (272)
T TIGR00064 77 FVGVNGVGKTTTIAKLANKLKKQ-----GKSVLLAAG 108 (272)
T ss_pred EECCCCCcHHHHHHHHHHHHHhc-----CCEEEEEeC
Confidence 45789999999888877666443 256666664
No 428
>PRK06321 replicative DNA helicase; Provisional
Probab=37.36 E-value=95 Score=25.85 Aligned_cols=41 Identities=22% Similarity=0.208 Sum_probs=27.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhhh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKY 78 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~W 78 (131)
++|...|.|||.-++.++....... ..+++++...--..+.
T Consensus 230 iiaarPgmGKTafal~ia~~~a~~~----g~~v~~fSLEMs~~ql 270 (472)
T PRK06321 230 ILAARPAMGKTALALNIAENFCFQN----RLPVGIFSLEMTVDQL 270 (472)
T ss_pred EEEeCCCCChHHHHHHHHHHHHHhc----CCeEEEEeccCCHHHH
Confidence 7799999999999988665443221 3667776554433333
No 429
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=37.34 E-value=67 Score=27.44 Aligned_cols=44 Identities=27% Similarity=0.135 Sum_probs=32.5
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCC
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~ 60 (131)
.|.+-|++++.+. .+..++--.-|.|||-....-++.+...+..
T Consensus 2 ~Ln~~Q~~av~~~------~gp~lV~AGaGsGKT~vlt~Ria~li~~~~v 45 (655)
T COG0210 2 KLNPEQREAVLHP------DGPLLVLAGAGSGKTRVLTERIAYLIAAGGV 45 (655)
T ss_pred CCCHHHHHHHhcC------CCCeEEEECCCCCchhhHHHHHHHHHHcCCc
Confidence 5778899999553 2334555668999999998888888777544
No 430
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=37.26 E-value=88 Score=24.74 Aligned_cols=24 Identities=21% Similarity=0.147 Sum_probs=19.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.++.+.|.|||.-++.++......
T Consensus 59 eI~G~~GsGKTtLaL~~~~~~~~~ 82 (321)
T TIGR02012 59 EIYGPESSGKTTLALHAIAEAQKA 82 (321)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHc
Confidence 467889999999999887766543
No 431
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=37.24 E-value=1.3e+02 Score=24.30 Aligned_cols=25 Identities=28% Similarity=0.384 Sum_probs=19.4
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
..+++..+|.|||-..-+++..+..
T Consensus 151 lilI~G~TGSGKTT~l~al~~~i~~ 175 (372)
T TIGR02525 151 LGLICGETGSGKSTLAASIYQHCGE 175 (372)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHh
Confidence 3467999999999988887765543
No 432
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=37.23 E-value=86 Score=22.67 Aligned_cols=36 Identities=22% Similarity=0.202 Sum_probs=25.0
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
...+-...|.|||..+-.++..+.... ..+++|+=|
T Consensus 25 H~~I~G~TGsGKS~~~~~ll~~l~~~~----~~~~ii~D~ 60 (229)
T PF01935_consen 25 HIAIFGTTGSGKSNTVKVLLEELLKKK----GAKVIIFDP 60 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcC----CCCEEEEcC
Confidence 333445699999999999888777411 356666666
No 433
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=37.16 E-value=99 Score=25.47 Aligned_cols=36 Identities=25% Similarity=0.178 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHH
Q psy2050 14 GYQLVGLNWLAVMHNQQL--CGILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~ 53 (131)
.+|+-|++-++ ... --.|...-|.|||+-|+|+-..
T Consensus 231 ~eQ~~ALdlLl----d~dI~lV~L~G~AGtGKTlLALaAgle 268 (436)
T COG1875 231 AEQRVALDLLL----DDDIDLVSLGGKAGTGKTLLALAAGLE 268 (436)
T ss_pred HHHHHHHHHhc----CCCCCeEEeeccCCccHhHHHHHHHHH
Confidence 37888887766 333 2355777899999999987543
No 434
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=36.79 E-value=74 Score=28.78 Aligned_cols=51 Identities=14% Similarity=-0.057 Sum_probs=30.7
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC-chh---hhhh-hhcccC
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS-TLC---KYKV-PSRWRT 86 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s-l~~---~W~~-~~~~~p 86 (131)
.|.|.=-..|=|||+.+...+....-. ...+-||++.. |.. .|.. +-+|..
T Consensus 90 ~G~IaEm~TGEGKTL~a~l~ayl~aL~-----G~~VhVvT~NdyLA~RD~e~m~pvy~~LG 145 (870)
T CHL00122 90 DGKIAEMKTGEGKTLVATLPAYLNALT-----GKGVHIVTVNDYLAKRDQEWMGQIYRFLG 145 (870)
T ss_pred CCccccccCCCCchHHHHHHHHHHHhc-----CCceEEEeCCHHHHHHHHHHHHHHHHHcC
Confidence 455656678999999765433222222 36677888854 433 4777 655553
No 435
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=36.70 E-value=57 Score=24.22 Aligned_cols=21 Identities=19% Similarity=0.102 Sum_probs=16.4
Q ss_pred eeeeCCCCCCHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~ 53 (131)
..+...-|.|||..|..+...
T Consensus 22 v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 22 VAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp EEEEESTTSSHHHHHHHHHCH
T ss_pred EEEEcCCcCCcceeeeecccc
Confidence 455777899999999887644
No 436
>PRK10865 protein disaggregation chaperone; Provisional
Probab=36.69 E-value=74 Score=28.54 Aligned_cols=40 Identities=18% Similarity=0.134 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhhc--ccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQ--QLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 16 Q~~~v~~l~~~~~~--~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
|..-++.+...... ..+.+|-.+.|.|||..+-++...+.
T Consensus 183 r~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~ 224 (857)
T PRK10865 183 RDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRII 224 (857)
T ss_pred CHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhh
Confidence 44446666654332 23678899999999999988776554
No 437
>KOG0346|consensus
Probab=36.65 E-value=59 Score=27.38 Aligned_cols=66 Identities=15% Similarity=0.104 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHH-HHHHHHHhCC---CCCCCCEEEEecCC-chhhhhh-hhccc
Q psy2050 16 QLVGLNWLAVMHNQQLCGILADEMGLGKTIQVIS-FLAYLHEAGL---SRPKSPHLIIVPSS-TLCKYKV-PSRWR 85 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia-~l~~~~~~~~---~~~~~~~LIv~P~s-l~~~W~~-~~~~~ 85 (131)
|..++...+ .++.-+--.-.|.|||..-+- ++..+..... .+..-..+|++|.- ++.|=-. +++..
T Consensus 46 Qs~aIplaL----EgKDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkEL~qQvy~viekL~ 117 (569)
T KOG0346|consen 46 QSSAIPLAL----EGKDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKELAQQVYKVIEKLV 117 (569)
T ss_pred hhcccchhh----cCcceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHHHHHHHHHHHHHHH
Confidence 444444444 344333345789999975433 2223332211 11123458899965 5555544 66654
No 438
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=36.62 E-value=81 Score=25.58 Aligned_cols=42 Identities=17% Similarity=0.149 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhhccc------------CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 16 QLVGLNWLAVMHNQQL------------CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~------------g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
|...+..+......+. +-++....|.|||..+.++...+...
T Consensus 10 q~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 10 QEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred hHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 5555555555444432 24579999999999999987766554
No 439
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=36.26 E-value=1.4e+02 Score=23.55 Aligned_cols=26 Identities=27% Similarity=0.264 Sum_probs=21.2
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
..++....|.|||..+-.++..+...
T Consensus 57 ~~lI~G~~GtGKT~l~~~v~~~l~~~ 82 (394)
T PRK00411 57 NVLIYGPPGTGKTTTVKKVFEELEEI 82 (394)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 46889999999999999887666543
No 440
>COG2453 CDC14 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]
Probab=36.14 E-value=1.1e+02 Score=21.78 Aligned_cols=32 Identities=13% Similarity=0.171 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhcccCeeeeCCCCCCHHHHHHH
Q psy2050 18 VGLNWLAVMHNQQLCGILADEMGLGKTIQVIS 49 (131)
Q Consensus 18 ~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia 49 (131)
+.+.|+......+..-++-.-+|+|-|-+.++
T Consensus 93 ~~v~~i~~~~~~g~kVvVHC~~GigRSgtvia 124 (180)
T COG2453 93 KIVDFIEEALSKGKKVVVHCQGGIGRSGTVIA 124 (180)
T ss_pred HHHHHHHHHHhcCCeEEEEcCCCCchHHHHHH
Confidence 56778888777777667788899999999988
No 441
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.70 E-value=47 Score=29.10 Aligned_cols=35 Identities=23% Similarity=0.316 Sum_probs=26.8
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchh
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLC 76 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~ 76 (131)
..|.|||+++.++|......|. +.+|..|- .+++.
T Consensus 5 atgsgkt~~ma~lil~~y~kgy----r~flffvnq~nile 40 (812)
T COG3421 5 ATGSGKTLVMAGLILECYKKGY----RNFLFFVNQANILE 40 (812)
T ss_pred ccCCChhhHHHHHHHHHHHhch----hhEEEEecchhHHH
Confidence 4699999999999999888875 56676554 45554
No 442
>PRK04195 replication factor C large subunit; Provisional
Probab=35.66 E-value=97 Score=25.59 Aligned_cols=24 Identities=21% Similarity=0.138 Sum_probs=19.0
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
...+|..+.|.|||..+-+++..+
T Consensus 40 ~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 40 KALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHc
Confidence 467889999999999887765433
No 443
>PRK05636 replicative DNA helicase; Provisional
Probab=35.58 E-value=1e+02 Score=25.90 Aligned_cols=35 Identities=20% Similarity=0.315 Sum_probs=24.5
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
+++...|.|||.-++.++....... ..++++....
T Consensus 269 iiaarpg~GKT~~al~~a~~~a~~~----g~~v~~fSlE 303 (505)
T PRK05636 269 IVAARPGVGKSTLALDFMRSASIKH----NKASVIFSLE 303 (505)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHhC----CCeEEEEEee
Confidence 7799999999999887765443221 3567776553
No 444
>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=34.90 E-value=68 Score=22.67 Aligned_cols=22 Identities=23% Similarity=0.244 Sum_probs=16.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHhC
Q psy2050 37 DEMGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 37 d~mGlGKT~~~ia~l~~~~~~~ 58 (131)
...|-|||-.|++........+
T Consensus 9 ~g~G~Gkt~~a~g~~~ra~~~g 30 (159)
T cd00561 9 TGNGKGKTTAALGLALRALGHG 30 (159)
T ss_pred CCCCCCHHHHHHHHHHHHHHCC
Confidence 4559999999999877666554
No 445
>KOG1707|consensus
Probab=34.79 E-value=91 Score=26.99 Aligned_cols=25 Identities=28% Similarity=0.321 Sum_probs=19.0
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
+-+|+.|-|.|||.-.+|++..-..
T Consensus 11 RIvliGD~G~GKtSLImSL~~eef~ 35 (625)
T KOG1707|consen 11 RIVLIGDEGVGKTSLIMSLLEEEFV 35 (625)
T ss_pred EEEEECCCCccHHHHHHHHHhhhcc
Confidence 3467888899999988887765543
No 446
>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....
Probab=34.71 E-value=51 Score=22.62 Aligned_cols=16 Identities=31% Similarity=0.274 Sum_probs=12.0
Q ss_pred CCCCHHHHHHHHHHHH
Q psy2050 39 MGLGKTIQVISFLAYL 54 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~ 54 (131)
||.|||-..-.+...+
T Consensus 1 ~GsGKStvg~~lA~~L 16 (158)
T PF01202_consen 1 MGSGKSTVGKLLAKRL 16 (158)
T ss_dssp TTSSHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHh
Confidence 8999999877665444
No 447
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=34.69 E-value=42 Score=23.97 Aligned_cols=20 Identities=20% Similarity=0.466 Sum_probs=13.6
Q ss_pred eeeCCCCCCHHHHHHHH-HHH
Q psy2050 34 ILADEMGLGKTIQVISF-LAY 53 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~-l~~ 53 (131)
++..-+|-|||..|+.. +..
T Consensus 4 ~~~G~pGsGKS~~av~~~i~~ 24 (193)
T PF05707_consen 4 LITGKPGSGKSYYAVSYVIIP 24 (193)
T ss_dssp EEE--TTSSHHHHHHHHHHH-
T ss_pred EEEcCCCCcHhHHHHHHHHHH
Confidence 34567999999999988 443
No 448
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=34.57 E-value=92 Score=23.08 Aligned_cols=33 Identities=24% Similarity=0.230 Sum_probs=20.9
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
+....|+.|||-+-|-.+...... ..+++|.-|
T Consensus 8 ~i~gpM~SGKT~eLl~r~~~~~~~-----g~~v~vfkp 40 (201)
T COG1435 8 FIYGPMFSGKTEELLRRARRYKEA-----GMKVLVFKP 40 (201)
T ss_pred EEEccCcCcchHHHHHHHHHHHHc-----CCeEEEEec
Confidence 456789999999776655433332 355555555
No 449
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=34.50 E-value=98 Score=24.82 Aligned_cols=38 Identities=18% Similarity=0.244 Sum_probs=20.8
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
.++-++...+|.|||...-.++...... ..+.+|.=|.
T Consensus 15 ~~~~li~G~~GsGKT~~i~~ll~~~~~~-----g~~~iI~D~k 52 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQAIRHLLDQIRAR-----GDRAIIYDPK 52 (386)
T ss_dssp GG-EEEEE-TTSSHHHHHHHHHHHHHHT-----T-EEEEEEET
T ss_pred hCcEEEECCCCCCHHHHHHHHHHHHHHc-----CCEEEEEECC
Confidence 3456778889999996444444444333 2455555554
No 450
>TIGR03160 cobT_DBIPRT nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase. Members of this family are nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase, an enzyme of cobalamin biosynthesis.
Probab=34.44 E-value=1e+02 Score=24.55 Aligned_cols=28 Identities=29% Similarity=0.304 Sum_probs=23.2
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
++...++.-|||.|-|-++.+++..+..
T Consensus 152 ~g~dll~~GEmGiGnTTtAaAvl~aL~g 179 (333)
T TIGR03160 152 SGADLLGTGEMGIGNTTPAAALLAALTG 179 (333)
T ss_pred cCCCEEEEeCcCchhhHHHHHHHHHHhC
Confidence 4456788999999999999999887743
No 451
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=34.29 E-value=1e+02 Score=23.52 Aligned_cols=22 Identities=23% Similarity=0.181 Sum_probs=16.9
Q ss_pred Ceee-eCCCCCCHHHHHHHHHHH
Q psy2050 32 CGIL-ADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 32 g~il-ad~mGlGKT~~~ia~l~~ 53 (131)
+.+| ..+.|.|||..+-++...
T Consensus 44 ~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 44 NMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred eEEEeeCcCCCCHHHHHHHHHHH
Confidence 4555 899999999988776543
No 452
>KOG0344|consensus
Probab=34.27 E-value=40 Score=28.96 Aligned_cols=68 Identities=13% Similarity=0.113 Sum_probs=41.6
Q ss_pred hHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHH-HHHHHhCCC--CCCCCEEEEecC-Cchhhhhh-hhccc
Q psy2050 14 GYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFL-AYLHEAGLS--RPKSPHLIIVPS-STLCKYKV-PSRWR 85 (131)
Q Consensus 14 ~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l-~~~~~~~~~--~~~~~~LIv~P~-sl~~~W~~-~~~~~ 85 (131)
+-|.+++-.+. ..+.++-+...|-|||+.-..=+ ..+...... ...-..+|+.|. .+..|=.+ ..++.
T Consensus 161 ~iq~~aipvfl----~~r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptreLa~Qi~re~~k~~ 233 (593)
T KOG0344|consen 161 PIQKQAIPVFL----EKRDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRELAAQIYREMRKYS 233 (593)
T ss_pred cccchhhhhhh----cccceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHHHHHHHHHHHHhcC
Confidence 45777776666 55667778899999976444322 222222100 113457899994 66777666 77776
No 453
>PRK00105 cobT nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase; Reviewed
Probab=34.16 E-value=1.1e+02 Score=24.50 Aligned_cols=28 Identities=25% Similarity=0.266 Sum_probs=23.2
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
++...+..-|||.|-|-++.+++..+..
T Consensus 152 ~g~dll~~GEmGiGnTTtAaAvl~aL~g 179 (335)
T PRK00105 152 AGTDLLGVGEMGIGNTTPAAALVAALTG 179 (335)
T ss_pred cCCCEEEEeCcCcchhHHHHHHHHHHhC
Confidence 4456788999999999999999887743
No 454
>PRK08727 hypothetical protein; Validated
Probab=34.07 E-value=66 Score=23.74 Aligned_cols=25 Identities=28% Similarity=0.278 Sum_probs=19.2
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-++....|.|||--+.++.......
T Consensus 44 l~l~G~~G~GKThL~~a~~~~~~~~ 68 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAAAEQA 68 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc
Confidence 4778999999998888776655443
No 455
>cd02439 DMB-PRT_CobT Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT. Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT/CobT, not to be confused with the CobT subunit of cobaltochelatase, which does not belong to this group) catalyzes the synthesis of alpha-ribazole-5'-phosphate, from nicotinate mononucleotide (NAMN) and 5,6-dimethylbenzimidazole (DMB). This function is essential to the anaerobic biosynthesis pathway of cobalamin (vitamin B12), which is the largest and most complex cofactor in a number of enzyme-catalyzed reactions in bacteria, archaea and eukaryotes. Only eubacteria and archaebacteria can synthesize vitamin B12; multicellular organisms have lost this ability during evolution. DMB-PRT/CobT works sequentially with CobC (a phosphatase) to couple the lower ligand of cobalamin to a ribosyl moiety. DMB is the most common lower ligand of cobamides; other lower ligands include adenine, 5-methoxyben
Probab=34.05 E-value=1e+02 Score=24.17 Aligned_cols=29 Identities=28% Similarity=0.355 Sum_probs=24.0
Q ss_pred hcccCeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 28 NQQLCGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 28 ~~~~g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
..+...|+.-|||.|-|-++.+++..+-.
T Consensus 135 ~~g~dll~~GEmgiGnTTtAaavl~aL~~ 163 (315)
T cd02439 135 DSGYDLLVIGEMGIGNTTTAAAVLAALGG 163 (315)
T ss_pred hcCCCEEEEcCccccccHHHHHHHHHHhC
Confidence 35556788999999999999999887754
No 456
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=34.04 E-value=79 Score=26.07 Aligned_cols=24 Identities=25% Similarity=0.344 Sum_probs=18.1
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
-++..+.|+|||.-+-|+...+..
T Consensus 144 l~i~G~~G~GKTHLl~Ai~~~l~~ 167 (450)
T PRK14087 144 LFIYGESGMGKTHLLKAAKNYIES 167 (450)
T ss_pred eEEECCCCCcHHHHHHHHHHHHHH
Confidence 467999999999877776555443
No 457
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=34.02 E-value=93 Score=25.62 Aligned_cols=23 Identities=26% Similarity=0.296 Sum_probs=18.8
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
-+++..-|.|||-++.-++..+.
T Consensus 102 i~~vG~~GsGKTTtaakLA~~l~ 124 (428)
T TIGR00959 102 ILMVGLQGSGKTTTCGKLAYYLK 124 (428)
T ss_pred EEEECCCCCcHHHHHHHHHHHHH
Confidence 45688999999999988877654
No 458
>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.
Probab=33.86 E-value=63 Score=25.61 Aligned_cols=29 Identities=21% Similarity=0.401 Sum_probs=20.8
Q ss_pred eCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 36 ADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 36 ad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
..--|.|||..+..+...+...+ .++++|
T Consensus 37 ~gkgG~GKSt~a~nLa~~la~~g-----~rVlli 65 (329)
T cd02033 37 YGKGGIGKSFTLANLSYMMAQQG-----KRVLLI 65 (329)
T ss_pred ECCCCCCHHHHHHHHHHHHHHCC-----CcEEEE
Confidence 34678999999998877776653 455555
No 459
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=33.75 E-value=1.7e+02 Score=20.55 Aligned_cols=44 Identities=18% Similarity=0.284 Sum_probs=25.8
Q ss_pred cccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchhh
Q psy2050 29 QQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCK 77 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~~ 77 (131)
....-++-.|.|.||+..|=++ +.. ..+...|++.|--..+-..
T Consensus 21 ~~~pVlI~GE~GtGK~~lA~~I----H~~-s~r~~~pfi~vnc~~~~~~ 64 (168)
T PF00158_consen 21 SDLPVLITGETGTGKELLARAI----HNN-SPRKNGPFISVNCAALPEE 64 (168)
T ss_dssp STS-EEEECSTTSSHHHHHHHH----HHC-STTTTS-EEEEETTTS-HH
T ss_pred CCCCEEEEcCCCCcHHHHHHHH----HHh-hhcccCCeEEEehhhhhcc
Confidence 3345678999999999966543 222 1222578877766665444
No 460
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=33.61 E-value=1.2e+02 Score=23.40 Aligned_cols=23 Identities=26% Similarity=0.190 Sum_probs=18.4
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~ 54 (131)
..++....|.|||..+-++...+
T Consensus 53 ~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 53 HVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred cEEEECCCCccHHHHHHHHHHHh
Confidence 46779999999999888765543
No 461
>PRK06749 replicative DNA helicase; Provisional
Probab=33.16 E-value=1.4e+02 Score=24.40 Aligned_cols=34 Identities=12% Similarity=0.050 Sum_probs=24.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP 71 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P 71 (131)
.++|.-.|.|||.-++.++...... ..++++...
T Consensus 189 iiIaarPgmGKTafal~ia~~~a~~-----g~~v~~fSl 222 (428)
T PRK06749 189 VVLGARPSMGKTAFALNVGLHAAKS-----GAAVGLFSL 222 (428)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHhc-----CCCEEEEEe
Confidence 4789999999999999887666543 245555443
No 462
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=33.16 E-value=1e+02 Score=26.25 Aligned_cols=42 Identities=19% Similarity=0.052 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhhccc--Ce-eeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL--CG-ILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~--g~-ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|...+..+......+. .. ++..+.|.|||..+.+++..+..
T Consensus 18 Gqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 18 GQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 46666666555555554 23 78999999999999988877654
No 463
>PHA00547 hypothetical protein
Probab=32.81 E-value=1.3e+02 Score=23.74 Aligned_cols=40 Identities=18% Similarity=0.371 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
.|.+.+......+ +..-.++-..+|.|||+-+.-+.....
T Consensus 61 ~~~~~~k~VK~ik-~spis~i~G~LGsGKTlLMT~LA~~~K 100 (337)
T PHA00547 61 YQLNAFRLVNFIW-DNPLSVIIGKLGTGKTLLLTYLSQTMK 100 (337)
T ss_pred HHHHHHHHHHHHh-cCCceEEeccCCCchhHHHHHHHHHHH
Confidence 4555554433333 444456667799999997765544443
No 464
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=32.80 E-value=1.6e+02 Score=21.93 Aligned_cols=41 Identities=22% Similarity=0.291 Sum_probs=26.9
Q ss_pred HHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC
Q psy2050 24 AVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73 (131)
Q Consensus 24 ~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s 73 (131)
........||.+...-|.|||-++-++...+ ++.++|.+.+
T Consensus 26 ~~al~~~~~~~~~GpagtGKtetik~La~~l---------G~~~~vfnc~ 66 (231)
T PF12774_consen 26 TQALSLNLGGALSGPAGTGKTETIKDLARAL---------GRFVVVFNCS 66 (231)
T ss_dssp HHHHCTTTEEEEESSTTSSHHHHHHHHHHCT---------T--EEEEETT
T ss_pred HHHhccCCCCCCcCCCCCCchhHHHHHHHHh---------CCeEEEeccc
Confidence 3334466789999999999998876654433 5555555543
No 465
>KOG0726|consensus
Probab=32.75 E-value=44 Score=26.79 Aligned_cols=22 Identities=32% Similarity=0.249 Sum_probs=18.7
Q ss_pred ccCeeeeCCCCCCHHHHHHHHH
Q psy2050 30 QLCGILADEMGLGKTIQVISFL 51 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l 51 (131)
.+|.||..+.|.|||+-|=|+.
T Consensus 219 PKGVIlyG~PGTGKTLLAKAVA 240 (440)
T KOG0726|consen 219 PKGVILYGEPGTGKTLLAKAVA 240 (440)
T ss_pred CCeeEEeCCCCCchhHHHHHHh
Confidence 3588999999999999887764
No 466
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=32.65 E-value=56 Score=27.05 Aligned_cols=21 Identities=24% Similarity=0.257 Sum_probs=17.6
Q ss_pred CeeeeCCCCCCHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLA 52 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~ 52 (131)
|.+|....|.|||..+-++..
T Consensus 90 giLL~GppGtGKT~la~alA~ 110 (495)
T TIGR01241 90 GVLLVGPPGTGKTLLAKAVAG 110 (495)
T ss_pred cEEEECCCCCCHHHHHHHHHH
Confidence 678899999999998887653
No 467
>PRK07773 replicative DNA helicase; Validated
Probab=32.57 E-value=79 Score=28.43 Aligned_cols=36 Identities=19% Similarity=0.096 Sum_probs=26.6
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecC
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPS 72 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~ 72 (131)
-++|...|.|||.-++.++....... ..+++++.-.
T Consensus 220 ivIagrPg~GKT~fal~ia~~~a~~~----~~~V~~fSlE 255 (886)
T PRK07773 220 IIVAARPSMGKTTFGLDFARNCAIRH----RLAVAIFSLE 255 (886)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHHHhc----CCeEEEEecC
Confidence 47799999999999999887665432 3667776653
No 468
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=32.55 E-value=15 Score=30.93 Aligned_cols=72 Identities=15% Similarity=0.146 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCC-----------CCCCCCEEEEecCCchhhhhh-hhccc
Q psy2050 18 VGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGL-----------SRPKSPHLIIVPSSTLCKYKV-PSRWR 85 (131)
Q Consensus 18 ~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~-----------~~~~~~~LIv~P~sl~~~W~~-~~~~~ 85 (131)
+|+++-+.....+++-.++.+.|.||+-.+..++........ ..+..|..|..|+-.=..-.+ +++..
T Consensus 18 ~Al~~gl~i~~~GYNIfv~G~~GtGr~t~v~~~l~~~a~~~~~P~D~cYV~NF~~p~~P~~l~LpaG~G~~f~~~m~~li 97 (509)
T PF13654_consen 18 EALEFGLGIRKPGYNIFVMGPPGTGRRTYVRRFLEERAKKKPTPPDWCYVNNFDDPRKPKALSLPAGQGKKFKKDMEELI 97 (509)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 345566666677788889999999999999988755443322 135788899999877777666 77666
Q ss_pred CCCc
Q psy2050 86 TSNC 89 (131)
Q Consensus 86 p~~~ 89 (131)
..+.
T Consensus 98 e~l~ 101 (509)
T PF13654_consen 98 EELK 101 (509)
T ss_dssp ----
T ss_pred cccc
Confidence 5544
No 469
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=32.45 E-value=73 Score=29.46 Aligned_cols=44 Identities=18% Similarity=0.181 Sum_probs=31.3
Q ss_pred CCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh-hhhhhhc
Q psy2050 38 EMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC-KYKVPSR 83 (131)
Q Consensus 38 ~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~-~W~~~~~ 83 (131)
.-|.|||-..+.-+......... ..+.++++|...-- .-.++.+
T Consensus 9 ~aGSGKT~~l~~ri~~~l~~~~~--~~~~illVPeq~TF~~e~rl~~ 53 (1158)
T TIGR02773 9 RAGTGKSTFCIDEIKQKIKENPL--GKPIILIVPDQMTFQMEQALLN 53 (1158)
T ss_pred CCCCChHHHHHHHHHHHHhhCCC--CCcEEEEcCCcccHHHHHHHHH
Confidence 37999999999998887766544 57888999976433 3333443
No 470
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=31.93 E-value=1.2e+02 Score=23.87 Aligned_cols=42 Identities=17% Similarity=0.033 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 15 YQLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 15 ~Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
.|...+.-+......+. .-++..+-|.|||..+-++...+..
T Consensus 21 g~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 21 GQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 46666666665555543 3567999999999888887655544
No 471
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=31.89 E-value=1.2e+02 Score=23.97 Aligned_cols=24 Identities=17% Similarity=0.097 Sum_probs=18.8
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.++.+.|.|||.-++.++......
T Consensus 59 eI~Gp~GsGKTtLal~~~~~~~~~ 82 (325)
T cd00983 59 EIYGPESSGKTTLALHAIAEAQKL 82 (325)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHc
Confidence 458899999999998887665443
No 472
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=31.83 E-value=2.3e+02 Score=26.43 Aligned_cols=67 Identities=13% Similarity=0.099 Sum_probs=40.5
Q ss_pred CcchHHHHHHHHHHHHhhcccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh---hhhh-hhccc
Q psy2050 11 KLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC---KYKV-PSRWR 85 (131)
Q Consensus 11 ~L~~~Q~~~v~~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~---~W~~-~~~~~ 85 (131)
.+++|-.+-+.-+. -+.|.|-=...|=|||+++..-+....-.+ ++-.+|-+-..|.. .|-. +-.|.
T Consensus 167 ~m~~yDVQliGgiv----Lh~G~IAEM~TGEGKTLvAtlp~yLnAL~G----kgVHvVTVNDYLA~RDaewmgply~fL 237 (1112)
T PRK12901 167 DMVHYDVQLIGGVV----LHQGKIAEMATGEGKTLVATLPVYLNALTG----NGVHVVTVNDYLAKRDSEWMGPLYEFH 237 (1112)
T ss_pred CCcccchHHhhhhh----hcCCceeeecCCCCchhHHHHHHHHHHHcC----CCcEEEEechhhhhccHHHHHHHHHHh
Confidence 35555555444444 456777767789999998875444333333 34555555566654 5888 55553
No 473
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=31.69 E-value=76 Score=24.36 Aligned_cols=20 Identities=35% Similarity=0.404 Sum_probs=14.8
Q ss_pred CCCCHHHHHHHHHHHHHHhC
Q psy2050 39 MGLGKTIQVISFLAYLHEAG 58 (131)
Q Consensus 39 mGlGKT~~~ia~l~~~~~~~ 58 (131)
=|.|||..+-.++..+...+
T Consensus 9 GG~GKTtiaalll~~l~~~~ 28 (255)
T COG3640 9 GGVGKTTIAALLLKRLLSKG 28 (255)
T ss_pred CCccHHHHHHHHHHHHHhcC
Confidence 37899998887666666553
No 474
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=31.67 E-value=1.1e+02 Score=27.52 Aligned_cols=40 Identities=18% Similarity=0.137 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
|.+-++.+......+ ...+|-.+.|.|||..+-++...+.
T Consensus 178 r~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~ 219 (852)
T TIGR03346 178 RDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIV 219 (852)
T ss_pred cHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHh
Confidence 445566666544332 3678899999999999988766553
No 475
>PRK13886 conjugal transfer protein TraL; Provisional
Probab=31.45 E-value=1e+02 Score=23.31 Aligned_cols=31 Identities=26% Similarity=0.438 Sum_probs=21.3
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+.+.-=|.|||..+..+...+...+ .+++++
T Consensus 7 i~~~KGGvGKSt~a~~la~~l~~~g-----~~vl~i 37 (241)
T PRK13886 7 VLQGKGGVGKSFIAATIAQYKASKG-----QKPLCI 37 (241)
T ss_pred EecCCCCCcHHHHHHHHHHHHHhCC-----CCEEEE
Confidence 3345558999999999887776553 445554
No 476
>KOG0652|consensus
Probab=31.18 E-value=59 Score=25.70 Aligned_cols=23 Identities=22% Similarity=0.148 Sum_probs=19.3
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~ 53 (131)
+|.++-...|.|||+.+-|+.+.
T Consensus 206 KGvLmYGPPGTGKTlmARAcAaq 228 (424)
T KOG0652|consen 206 KGVLMYGPPGTGKTLMARACAAQ 228 (424)
T ss_pred CceEeeCCCCCcHHHHHHHHHHh
Confidence 47778999999999999988643
No 477
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=31.13 E-value=1.5e+02 Score=24.43 Aligned_cols=45 Identities=16% Similarity=0.237 Sum_probs=28.0
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCC----chhhhhh-hhc
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS----TLCKYKV-PSR 83 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~s----l~~~W~~-~~~ 83 (131)
.+...-|.|||-.+..+.......+ .++.+|+-.. -+.||.. .+.
T Consensus 210 ~lvGptGvGKTTt~akLA~~l~~~g-----~~V~lItaDtyR~gAveQLk~yae~ 259 (407)
T PRK12726 210 SLIGQTGVGKTTTLVKLGWQLLKQN-----RTVGFITTDTFRSGAVEQFQGYADK 259 (407)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHcC-----CeEEEEeCCccCccHHHHHHHHhhc
Confidence 3466779999998888766554432 4455555422 2667877 443
No 478
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=30.66 E-value=1.2e+02 Score=20.08 Aligned_cols=21 Identities=19% Similarity=0.256 Sum_probs=15.4
Q ss_pred cccCeeeeCCCCCCHHHHHHH
Q psy2050 29 QQLCGILADEMGLGKTIQVIS 49 (131)
Q Consensus 29 ~~~g~ilad~mGlGKT~~~ia 49 (131)
...--++-.|.|.||+..|-+
T Consensus 20 ~~~pvli~GE~GtGK~~~A~~ 40 (138)
T PF14532_consen 20 SSSPVLITGEPGTGKSLLARA 40 (138)
T ss_dssp SSS-EEEECCTTSSHHHHHHC
T ss_pred CCCcEEEEcCCCCCHHHHHHH
Confidence 344567899999999996553
No 479
>PRK05632 phosphate acetyltransferase; Reviewed
Probab=30.57 E-value=68 Score=27.91 Aligned_cols=26 Identities=19% Similarity=0.381 Sum_probs=22.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCC
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGL 59 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~ 59 (131)
|.+.+.|.|||..+++++..+.+.+.
T Consensus 7 I~~T~t~~GKT~vslgL~~~L~~~G~ 32 (684)
T PRK05632 7 LAPTGTGVGLTSVSLGLMRALERKGV 32 (684)
T ss_pred EEECCCCCCHHHHHHHHHHHHHhCCC
Confidence 44789999999999999988887654
No 480
>cd07029 RNAP_I_III_AC19 AC19 subunit of Eukaryotic RNA polymerase (RNAP) I and RNAP III. The eukaryotic AC19 subunit of RNA polymerase (RNAP) I and RNAP III is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP I is responsible for the synthesis of ribosomal RNA precursor, while RNAP III functions in the synthesis of 5S and tRNA. The AC19 subunit is the equivalent of the RPB11 subunit of RNAP II. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association. The homology of AC19 to RPB11 suggests a similar function. The AC19 subunit is likely to ass
Probab=30.38 E-value=31 Score=21.77 Aligned_cols=13 Identities=23% Similarity=0.186 Sum_probs=11.5
Q ss_pred CCcEEEEccccCC
Q psy2050 119 GYNDIIMYLNIPH 131 (131)
Q Consensus 119 ~~~VvIttY~~~~ 131 (131)
..+|....|.+||
T Consensus 33 ~p~V~fagY~vpH 45 (85)
T cd07029 33 NPEVEFCGYSIPH 45 (85)
T ss_pred CCCceEEeecccC
Confidence 4689999999998
No 481
>PF05559 DUF763: Protein of unknown function (DUF763); InterPro: IPR008482 This family consists of several uncharacterised bacterial and archaeal proteins of unknown function.
Probab=30.24 E-value=59 Score=25.81 Aligned_cols=22 Identities=23% Similarity=0.341 Sum_probs=17.5
Q ss_pred CCCC-HHHHHHHHHHHHHHhCCC
Q psy2050 39 MGLG-KTIQVISFLAYLHEAGLS 60 (131)
Q Consensus 39 mGlG-KT~~~ia~l~~~~~~~~~ 60 (131)
-|+| ||+.|+|+++.+....+.
T Consensus 275 ~GvGp~TlRALaLvaelIyg~p~ 297 (319)
T PF05559_consen 275 KGVGPSTLRALALVAELIYGVPP 297 (319)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCC
Confidence 5778 999999999988765444
No 482
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=30.18 E-value=1.1e+02 Score=23.57 Aligned_cols=31 Identities=23% Similarity=0.265 Sum_probs=21.7
Q ss_pred HHHHHhhcccCeeeeCCCCCCHHHHHHHHHH
Q psy2050 22 WLAVMHNQQLCGILADEMGLGKTIQVISFLA 52 (131)
Q Consensus 22 ~l~~~~~~~~g~ilad~mGlGKT~~~ia~l~ 52 (131)
++......+...+++...|.|||-..-+++.
T Consensus 136 ~l~~~v~~~~~ili~G~tGsGKTTll~al~~ 166 (308)
T TIGR02788 136 FLRLAIASRKNIIISGGTGSGKTTFLKSLVD 166 (308)
T ss_pred HHHHHhhCCCEEEEECCCCCCHHHHHHHHHc
Confidence 3333444566778899999999987766553
No 483
>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=30.16 E-value=81 Score=28.32 Aligned_cols=47 Identities=21% Similarity=0.269 Sum_probs=30.4
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEec-CCchhhhhh-hhcc
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVP-SSTLCKYKV-PSRW 84 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P-~sl~~~W~~-~~~~ 84 (131)
++=..||.|||-..+-.+...... +..++|+|.= .+++.+=.+ |++-
T Consensus 53 vVRSpMGTGKTtaLi~wLk~~l~~----~~~~VLvVShRrSL~~sL~~rf~~~ 101 (824)
T PF02399_consen 53 VVRSPMGTGKTTALIRWLKDALKN----PDKSVLVVSHRRSLTKSLAERFKKA 101 (824)
T ss_pred EEECCCCCCcHHHHHHHHHHhccC----CCCeEEEEEhHHHHHHHHHHHHhhc
Confidence 556789999998877766544221 1577787755 566666555 5543
No 484
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=30.14 E-value=2.2e+02 Score=26.39 Aligned_cols=52 Identities=15% Similarity=0.071 Sum_probs=31.4
Q ss_pred ccCeeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEEecCCchh---hhhh-hhccc
Q psy2050 30 QLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLC---KYKV-PSRWR 85 (131)
Q Consensus 30 ~~g~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv~P~sl~~---~W~~-~~~~~ 85 (131)
+.|.|-=...|=|||+++..-+....-.+ .+-.+|-+-..|.. .|-. +-.|.
T Consensus 151 h~G~IAEM~TGEGKTLvatlp~yLnAL~G----~gVHvVTvNDYLA~RDaewm~p~y~fl 206 (1025)
T PRK12900 151 HSGKISEMATGEGKTLVSTLPTFLNALTG----RGVHVVTVNDYLAQRDKEWMNPVFEFH 206 (1025)
T ss_pred hcCCccccCCCCCcchHhHHHHHHHHHcC----CCcEEEeechHhhhhhHHHHHHHHHHh
Confidence 45666555778999998764433333333 35555656566654 5888 55553
No 485
>cd06927 RNAP_L L subunit of Archaeal RNA polymerase. The archaeal L subunit of RNA polymerase (RNAP) is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. A single distinct RNAP complex is found in archaea, which may be responsible for the synthesis of all RNAs. The archaeal RNAP harbors homologues of all eukaryotic RNAP II subunits with two exceptions (RPB8 and RPB9). The 12 archaeal subunits are designated by letters and can be divided into three functional groups that are engaged in: (I) catalysis (A'/A", B'/B" or B); (II) assembly (L, N, D and P); and (III) auxiliary functions (F, E, H and K). The assembly of the two largest archaeal RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of the archaeal D/L heterodimer.
Probab=30.07 E-value=35 Score=21.40 Aligned_cols=13 Identities=15% Similarity=0.120 Sum_probs=11.5
Q ss_pred CCcEEEEccccCC
Q psy2050 119 GYNDIIMYLNIPH 131 (131)
Q Consensus 119 ~~~VvIttY~~~~ 131 (131)
..+|...+|.+||
T Consensus 33 ~~~V~fAgY~vpH 45 (83)
T cd06927 33 DPGVKVASYDIEH 45 (83)
T ss_pred CCCeEEEEeecCC
Confidence 3689999999999
No 486
>PRK06893 DNA replication initiation factor; Validated
Probab=29.62 E-value=92 Score=22.87 Aligned_cols=25 Identities=8% Similarity=-0.153 Sum_probs=19.0
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-+|....|.|||--+.++.......
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~~~~ 66 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLN 66 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3688999999998888776555443
No 487
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=29.36 E-value=1.5e+02 Score=23.31 Aligned_cols=22 Identities=23% Similarity=0.498 Sum_probs=17.7
Q ss_pred eeeeCCCCCCHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~ 54 (131)
.+++...|.|||-..-+++..+
T Consensus 125 ili~G~tGSGKTT~l~al~~~i 146 (343)
T TIGR01420 125 ILVTGPTGSGKSTTLASMIDYI 146 (343)
T ss_pred EEEECCCCCCHHHHHHHHHHhh
Confidence 4569999999999888776554
No 488
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=29.34 E-value=2.7e+02 Score=22.36 Aligned_cols=50 Identities=24% Similarity=0.202 Sum_probs=34.0
Q ss_pred CCCCcchHHHHHHH-HHHHHhhccc--CeeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 8 RNLKLAGYQLVGLN-WLAVMHNQQL--CGILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 8 ~~~~L~~~Q~~~v~-~l~~~~~~~~--g~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
.+..-|+-|.+.+. .+......+. ..++-...|.|||.++--++-.+...
T Consensus 17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 34666778887755 3333333333 47888999999999998877666554
No 489
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=29.05 E-value=99 Score=27.08 Aligned_cols=31 Identities=23% Similarity=0.244 Sum_probs=23.1
Q ss_pred eeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 34 ILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 34 ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
+-+...|-|||..++.+...+...+ .++|+|
T Consensus 536 vtS~~~g~GKTtva~nLA~~la~~G-----~rVLlI 566 (726)
T PRK09841 536 ITGATPDSGKTFVSSTLAAVIAQSD-----QKVLFI 566 (726)
T ss_pred EecCCCCCCHHHHHHHHHHHHHhCC-----CeEEEE
Confidence 3366779999999999887776543 556666
No 490
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=29.02 E-value=1.2e+02 Score=23.39 Aligned_cols=25 Identities=8% Similarity=0.138 Sum_probs=19.6
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
++.+--=|.|||..+..+...+...
T Consensus 97 av~~~KGGvGkTT~a~nLA~~la~~ 121 (322)
T TIGR03815 97 AVIGGRGGAGASTLAAALALAAARH 121 (322)
T ss_pred EEEcCCCCCcHHHHHHHHHHHHHhc
Confidence 4556778899999999887777654
No 491
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=28.99 E-value=1.3e+02 Score=24.06 Aligned_cols=25 Identities=24% Similarity=0.211 Sum_probs=19.8
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHh
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEA 57 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~ 57 (131)
-+|....|.|||.-+-++...+...
T Consensus 139 l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 139 LFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHh
Confidence 3679999999999988877666543
No 492
>PRK08084 DNA replication initiation factor; Provisional
Probab=28.95 E-value=2e+02 Score=21.17 Aligned_cols=39 Identities=21% Similarity=-0.028 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhhcc--cCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 17 LVGLNWLAVMHNQQ--LCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 17 ~~~v~~l~~~~~~~--~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
..++..+....... ..-++....|.|||--+.++.....
T Consensus 30 ~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~ 70 (235)
T PRK08084 30 DSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS 70 (235)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 44555554432222 2457899999999988777655444
No 493
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=28.73 E-value=1.3e+02 Score=24.04 Aligned_cols=23 Identities=26% Similarity=0.202 Sum_probs=17.9
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 33 GILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
|+|..-+|.|||-.+-++...+.
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~ 24 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLR 24 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHH
Confidence 56777899999998877765554
No 494
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=28.70 E-value=1.8e+02 Score=27.04 Aligned_cols=48 Identities=19% Similarity=0.189 Sum_probs=30.7
Q ss_pred CCCcchHHHHHHH-HHHHHhh-cccC-ee-eeCCCCCCHHHHHHHHHHHHHH
Q psy2050 9 NLKLAGYQLVGLN-WLAVMHN-QQLC-GI-LADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 9 ~~~L~~~Q~~~v~-~l~~~~~-~~~g-~i-lad~mGlGKT~~~ia~l~~~~~ 56 (131)
...=|+-|.+.+. ++..... .+.+ ++ +....|.|||.++-.++..+..
T Consensus 756 ~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 756 YLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred cCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4444666776665 3333332 2223 33 7999999999999998766543
No 495
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.69 E-value=1.2e+02 Score=26.45 Aligned_cols=41 Identities=20% Similarity=0.125 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhccc---CeeeeCCCCCCHHHHHHHHHHHHHH
Q psy2050 16 QLVGLNWLAVMHNQQL---CGILADEMGLGKTIQVISFLAYLHE 56 (131)
Q Consensus 16 Q~~~v~~l~~~~~~~~---g~ilad~mGlGKT~~~ia~l~~~~~ 56 (131)
|...+..+......++ .-|+..+-|.|||..|..+...+..
T Consensus 21 Qe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 21 QETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 3444455554444443 3456999999999999988776654
No 496
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=28.66 E-value=1.6e+02 Score=24.00 Aligned_cols=22 Identities=23% Similarity=0.243 Sum_probs=17.4
Q ss_pred CeeeeCCCCCCHHHHHHHHHHH
Q psy2050 32 CGILADEMGLGKTIQVISFLAY 53 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~ 53 (131)
+-++..+.|.|||..|-++...
T Consensus 110 ~iLl~Gp~GtGKT~lAr~lA~~ 131 (412)
T PRK05342 110 NILLIGPTGSGKTLLAQTLARI 131 (412)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 4577899999999988876543
No 497
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=28.55 E-value=96 Score=18.10 Aligned_cols=20 Identities=20% Similarity=0.272 Sum_probs=15.1
Q ss_pred eeCCCCCCHHHHHHHHHHHH
Q psy2050 35 LADEMGLGKTIQVISFLAYL 54 (131)
Q Consensus 35 lad~mGlGKT~~~ia~l~~~ 54 (131)
++..+|.|||-.+-.+...+
T Consensus 4 i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 4 ITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EECCCCCCHHHHHHHHHHHh
Confidence 46789999998877765544
No 498
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=28.42 E-value=90 Score=27.26 Aligned_cols=32 Identities=22% Similarity=0.164 Sum_probs=24.6
Q ss_pred eeeeCCCCCCHHHHHHHHHHHHHHhCCCCCCCCEEEE
Q psy2050 33 GILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLII 69 (131)
Q Consensus 33 ~ilad~mGlGKT~~~ia~l~~~~~~~~~~~~~~~LIv 69 (131)
++.+..-|-|||..+..+...+...+ .++|+|
T Consensus 550 ~vts~~~G~GKTt~a~nLA~~lA~~g-----~rvLlI 581 (754)
T TIGR01005 550 ETQRPRPVLGKSDIEANAAALIASGG-----KRALLI 581 (754)
T ss_pred EeecCCCCCChhHHHHHHHHHHHhCC-----CeEEEE
Confidence 45578899999999999887776543 567766
No 499
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=28.30 E-value=69 Score=27.08 Aligned_cols=25 Identities=24% Similarity=0.158 Sum_probs=19.9
Q ss_pred cCeeeeCCCCCCHHHHHHHHHHHHH
Q psy2050 31 LCGILADEMGLGKTIQVISFLAYLH 55 (131)
Q Consensus 31 ~g~ilad~mGlGKT~~~ia~l~~~~ 55 (131)
+|.+|-...|.|||..+-++...+.
T Consensus 217 ~GILLyGPPGTGKT~LAKAlA~eL~ 241 (512)
T TIGR03689 217 KGVLLYGPPGCGKTLIAKAVANSLA 241 (512)
T ss_pred cceEEECCCCCcHHHHHHHHHHhhc
Confidence 4677899999999998887765553
No 500
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=28.20 E-value=1.4e+02 Score=26.18 Aligned_cols=55 Identities=16% Similarity=0.161 Sum_probs=33.1
Q ss_pred CeeeeCCCCCCHHHHHHHHHHHHHHhCCCC-CCCCEEEEec-CCc------hhhhhh-hhcccC
Q psy2050 32 CGILADEMGLGKTIQVISFLAYLHEAGLSR-PKSPHLIIVP-SST------LCKYKV-PSRWRT 86 (131)
Q Consensus 32 g~ilad~mGlGKT~~~ia~l~~~~~~~~~~-~~~~~LIv~P-~sl------~~~W~~-~~~~~p 86 (131)
+-+|..+.|.|||..+-++...+....... -....++... .++ ..+|++ +++++.
T Consensus 205 n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~ 268 (731)
T TIGR02639 205 NPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAVVS 268 (731)
T ss_pred ceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHHHH
Confidence 678899999999999888766554422110 0133444444 222 236777 777664
Done!