Query psy11637
Match_columns 67
No_of_seqs 103 out of 1092
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 23:44:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11637.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11637hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00603 rad25 DNA repair hel 99.7 2.8E-18 6E-23 128.1 -1.4 66 1-66 246-311 (732)
2 KOG1123|consensus 99.6 2.3E-15 5.1E-20 110.0 5.9 66 1-66 293-358 (776)
3 COG1061 SSL2 DNA or RNA helica 99.5 2.6E-16 5.7E-21 111.7 -1.7 60 6-65 32-92 (442)
4 PF04851 ResIII: Type III rest 99.5 9.8E-16 2.1E-20 94.2 -1.8 57 8-64 1-61 (184)
5 PHA02558 uvsW UvsW helicase; P 99.2 6.5E-13 1.4E-17 95.4 -1.1 55 8-65 112-170 (501)
6 KOG0354|consensus 99.2 1.1E-12 2.5E-17 98.2 0.1 58 5-66 57-119 (746)
7 PRK11448 hsdR type I restricti 99.2 9.2E-13 2E-17 102.2 -2.7 59 7-65 410-475 (1123)
8 TIGR00614 recQ_fam ATP-depende 99.1 3.3E-12 7.2E-17 90.9 -1.7 54 9-65 10-63 (470)
9 TIGR01389 recQ ATP-dependent D 99.1 1.3E-11 2.7E-16 89.9 -1.6 53 10-65 13-65 (591)
10 PRK11057 ATP-dependent DNA hel 99.1 1.1E-11 2.5E-16 90.8 -2.0 53 10-65 25-77 (607)
11 COG4096 HsdR Type I site-speci 99.0 2.4E-11 5.3E-16 92.0 -0.7 60 7-66 162-228 (875)
12 cd00268 DEADc DEAD-box helicas 99.0 3E-11 6.6E-16 76.4 -1.8 53 10-65 21-81 (203)
13 PRK13766 Hef nuclease; Provisi 99.0 4.6E-11 1E-15 88.8 -2.1 55 7-65 12-70 (773)
14 PRK01172 ski2-like helicase; P 98.9 3.6E-11 7.8E-16 88.6 -2.9 55 8-65 20-77 (674)
15 COG4889 Predicted helicase [Ge 98.9 1.2E-10 2.6E-15 89.6 -0.4 62 3-64 154-217 (1518)
16 COG1111 MPH1 ERCC4-like helica 98.9 6.9E-11 1.5E-15 86.0 -2.1 56 7-66 12-71 (542)
17 PLN03137 ATP-dependent DNA hel 98.9 8.5E-11 1.8E-15 91.6 -2.2 54 9-65 459-512 (1195)
18 PRK02362 ski2-like helicase; P 98.9 8.5E-11 1.8E-15 87.6 -3.0 55 9-65 22-79 (737)
19 PTZ00424 helicase 45; Provisio 98.9 1E-10 2.2E-15 80.6 -2.5 53 10-65 50-108 (401)
20 COG1204 Superfamily II helicas 98.9 9.6E-11 2.1E-15 88.4 -3.1 54 10-65 31-88 (766)
21 PF13086 AAA_11: AAA domain; P 98.8 1.3E-10 2.7E-15 73.5 -2.9 55 10-66 1-66 (236)
22 PF00270 DEAD: DEAD/DEAH box h 98.8 1.5E-10 3.3E-15 70.7 -2.9 50 13-65 2-56 (169)
23 PRK11192 ATP-dependent RNA hel 98.8 2.1E-10 4.5E-15 80.4 -2.9 53 10-65 23-85 (434)
24 PLN00206 DEAD-box ATP-dependen 98.8 6.5E-10 1.4E-14 80.2 -0.9 53 10-65 143-208 (518)
25 COG0514 RecQ Superfamily II DN 98.8 2.2E-09 4.9E-14 79.3 1.2 53 9-64 16-68 (590)
26 TIGR00348 hsdR type I site-spe 98.7 6.3E-10 1.4E-14 82.7 -2.2 58 8-65 236-305 (667)
27 smart00487 DEXDc DEAD-like hel 98.7 1.1E-09 2.4E-14 66.7 -1.0 56 7-64 5-65 (201)
28 PRK00254 ski2-like helicase; P 98.7 6.5E-10 1.4E-14 82.7 -2.9 55 9-65 22-80 (720)
29 PRK10590 ATP-dependent RNA hel 98.7 8.3E-10 1.8E-14 78.4 -2.4 54 9-65 22-87 (456)
30 PRK10917 ATP-dependent DNA hel 98.7 1E-09 2.2E-14 81.6 -2.2 58 8-65 259-322 (681)
31 PRK01297 ATP-dependent RNA hel 98.7 1E-09 2.2E-14 78.1 -2.7 53 10-65 109-174 (475)
32 PRK13767 ATP-dependent helicas 98.7 2.1E-09 4.6E-14 81.8 -1.7 54 9-65 31-96 (876)
33 TIGR00643 recG ATP-dependent D 98.6 1.2E-09 2.7E-14 80.4 -3.0 58 8-65 233-296 (630)
34 PRK05580 primosome assembly pr 98.6 1.8E-09 3.9E-14 80.4 -2.3 58 8-65 142-202 (679)
35 PRK04837 ATP-dependent RNA hel 98.6 2.2E-09 4.7E-14 75.3 -2.1 53 10-65 30-95 (423)
36 PRK11776 ATP-dependent RNA hel 98.6 2E-09 4.4E-14 76.1 -2.4 53 10-65 26-84 (460)
37 KOG1802|consensus 98.6 7E-09 1.5E-13 78.1 -0.2 57 7-66 407-467 (935)
38 smart00488 DEXDc2 DEAD-like he 98.6 4.5E-09 9.7E-14 71.5 -1.6 59 5-63 3-71 (289)
39 smart00489 DEXDc3 DEAD-like he 98.6 4.5E-09 9.7E-14 71.5 -1.6 59 5-63 3-71 (289)
40 TIGR03158 cas3_cyano CRISPR-as 98.6 4.8E-09 1E-13 72.8 -1.6 51 14-65 1-51 (357)
41 PRK09401 reverse gyrase; Revie 98.6 4.4E-09 9.5E-14 82.3 -2.3 55 8-65 78-135 (1176)
42 TIGR03817 DECH_helic helicase/ 98.5 5.8E-09 1.3E-13 78.4 -2.4 53 10-65 36-93 (742)
43 PTZ00110 helicase; Provisional 98.5 5.3E-09 1.1E-13 76.1 -2.6 53 10-65 152-215 (545)
44 TIGR00580 mfd transcription-re 98.5 5.4E-09 1.2E-13 80.3 -2.7 59 7-65 448-512 (926)
45 PRK11634 ATP-dependent RNA hel 98.5 7.1E-09 1.5E-13 76.8 -2.4 53 10-65 28-86 (629)
46 COG0556 UvrB Helicase subunit 98.5 1.7E-08 3.6E-13 74.6 -0.4 64 2-65 4-69 (663)
47 PRK04537 ATP-dependent RNA hel 98.4 1.4E-08 3E-13 74.5 -2.5 53 10-65 31-96 (572)
48 PRK14701 reverse gyrase; Provi 98.4 1.6E-08 3.5E-13 81.2 -2.3 54 9-65 78-134 (1638)
49 TIGR00376 DNA helicase, putati 98.4 1.8E-08 3.9E-13 74.9 -2.3 56 9-66 156-214 (637)
50 KOG0351|consensus 98.4 4E-07 8.7E-12 70.4 4.4 53 9-64 263-315 (941)
51 KOG0353|consensus 98.3 1.1E-07 2.3E-12 68.9 0.5 53 10-65 94-146 (695)
52 COG1205 Distinct helicase fami 98.3 4.9E-08 1.1E-12 74.6 -1.4 53 10-65 70-127 (851)
53 KOG1803|consensus 98.3 8.9E-08 1.9E-12 71.2 -0.4 57 8-66 183-242 (649)
54 PRK10689 transcription-repair 98.3 3.6E-08 7.7E-13 77.2 -2.7 59 7-65 597-661 (1147)
55 TIGR01407 dinG_rel DnaQ family 98.3 5.8E-08 1.3E-12 73.7 -1.5 58 7-64 242-303 (850)
56 TIGR01054 rgy reverse gyrase. 98.3 4.1E-08 8.8E-13 77.0 -2.6 55 8-65 76-133 (1171)
57 cd00046 DEXDc DEAD-like helica 98.3 2.2E-08 4.7E-13 57.8 -3.8 36 30-65 2-42 (144)
58 PF13245 AAA_19: Part of AAA d 98.3 3.1E-08 6.8E-13 55.9 -3.1 48 17-66 1-55 (76)
59 PRK15483 type III restriction- 98.2 2E-07 4.4E-12 72.2 -1.1 35 30-64 61-100 (986)
60 COG1201 Lhr Lhr-like helicases 98.2 4.4E-07 9.6E-12 69.3 0.7 53 9-64 21-84 (814)
61 KOG0952|consensus 98.1 2E-07 4.2E-12 72.7 -2.0 51 13-65 113-176 (1230)
62 TIGR02621 cas3_GSU0051 CRISPR- 98.1 1E-06 2.2E-11 67.6 1.8 56 8-65 13-74 (844)
63 PF13604 AAA_30: AAA domain; P 98.1 1.6E-07 3.5E-12 60.5 -2.8 54 11-65 2-58 (196)
64 COG4581 Superfamily II RNA hel 98.1 3.3E-07 7.2E-12 71.3 -1.8 56 7-65 116-174 (1041)
65 PLN03142 Probable chromatin-re 98.1 2.1E-07 4.5E-12 72.5 -3.0 56 9-64 168-230 (1033)
66 TIGR03714 secA2 accessory Sec 98.1 4.2E-07 9E-12 69.1 -1.4 53 9-64 67-122 (762)
67 COG1199 DinG Rad3-related DNA 98.0 4.6E-07 9.9E-12 66.6 -2.7 57 7-63 12-73 (654)
68 KOG0352|consensus 98.0 2.6E-06 5.6E-11 62.3 1.2 50 13-64 23-72 (641)
69 TIGR01587 cas3_core CRISPR-ass 98.0 4.5E-07 9.8E-12 61.9 -2.6 35 31-65 2-41 (358)
70 PHA02653 RNA helicase NPH-II; 97.9 3.3E-06 7.2E-11 63.5 0.4 54 9-65 159-234 (675)
71 PF00176 SNF2_N: SNF2 family N 97.9 6.7E-07 1.5E-11 58.7 -3.1 50 14-63 1-68 (299)
72 PRK12899 secA preprotein trans 97.9 2.1E-06 4.6E-11 66.5 -0.9 54 8-64 90-146 (970)
73 TIGR00604 rad3 DNA repair heli 97.9 3E-06 6.4E-11 63.4 -0.1 57 7-63 6-70 (705)
74 PRK07246 bifunctional ATP-depe 97.8 2.2E-06 4.8E-11 65.4 -1.1 57 8-64 243-302 (820)
75 PRK08074 bifunctional ATP-depe 97.8 2.9E-06 6.3E-11 65.3 -1.4 57 8-64 255-316 (928)
76 PRK09694 helicase Cas3; Provis 97.8 2.3E-06 5E-11 65.9 -2.1 54 8-64 284-342 (878)
77 COG1110 Reverse gyrase [DNA re 97.7 4.5E-06 9.8E-11 65.3 -1.8 55 9-66 81-138 (1187)
78 TIGR00631 uvrb excinuclease AB 97.6 5.4E-06 1.2E-10 62.1 -1.6 62 3-64 2-65 (655)
79 COG1202 Superfamily II helicas 97.6 1.6E-05 3.4E-10 59.9 0.8 55 8-64 214-272 (830)
80 PRK11747 dinG ATP-dependent DN 97.6 4.1E-06 8.8E-11 62.9 -2.9 57 8-64 23-89 (697)
81 PF12340 DUF3638: Protein of u 97.6 2.2E-05 4.7E-10 52.7 0.8 45 2-46 15-59 (229)
82 TIGR03117 cas_csf4 CRISPR-asso 97.6 7.8E-06 1.7E-10 61.2 -1.5 50 15-64 2-57 (636)
83 KOG0350|consensus 97.6 3.3E-05 7.2E-10 57.1 1.6 56 9-64 158-226 (620)
84 PRK04914 ATP-dependent helicas 97.5 1E-05 2.2E-10 62.9 -1.5 56 7-63 149-209 (956)
85 PF00580 UvrD-helicase: UvrD/R 97.5 4.3E-06 9.3E-11 55.1 -3.2 48 13-65 3-57 (315)
86 TIGR00595 priA primosomal prot 97.5 3.7E-06 8.1E-11 61.1 -4.4 34 32-65 1-37 (505)
87 PRK09200 preprotein translocas 97.5 1.3E-05 2.8E-10 61.3 -1.7 53 9-64 75-130 (790)
88 PRK05298 excinuclease ABC subu 97.5 1.3E-05 2.8E-10 59.8 -1.6 62 2-63 4-67 (652)
89 cd00009 AAA The AAA+ (ATPases 97.4 1.6E-05 3.5E-10 46.0 -1.1 48 14-61 5-55 (151)
90 PF02562 PhoH: PhoH-like prote 97.4 2.1E-05 4.6E-10 51.8 -1.2 47 13-62 7-58 (205)
91 COG1198 PriA Primosomal protei 97.4 2.3E-05 4.9E-10 59.6 -1.2 56 9-64 197-256 (730)
92 TIGR00963 secA preprotein tran 97.3 2.6E-05 5.6E-10 59.4 -1.3 53 9-64 53-108 (745)
93 TIGR02768 TraA_Ti Ti-type conj 97.3 2.2E-05 4.8E-10 59.4 -1.8 56 8-65 350-408 (744)
94 smart00382 AAA ATPases associa 97.3 2.1E-05 4.6E-10 44.9 -1.5 34 29-62 3-39 (148)
95 TIGR01448 recD_rel helicase, p 97.3 1.9E-05 4.1E-10 59.6 -2.4 55 8-65 321-380 (720)
96 PRK13833 conjugal transfer pro 97.3 2.2E-05 4.8E-10 54.7 -2.0 40 10-51 128-167 (323)
97 COG1203 CRISPR-associated heli 97.3 2.3E-05 5E-10 59.2 -2.1 56 10-65 195-258 (733)
98 TIGR02782 TrbB_P P-type conjug 97.3 2.9E-05 6.3E-10 53.2 -1.6 35 15-51 121-155 (299)
99 TIGR01447 recD exodeoxyribonuc 97.2 3.3E-05 7.2E-10 57.3 -1.7 50 13-65 148-205 (586)
100 KOG0335|consensus 97.2 1.6E-05 3.4E-10 58.1 -3.3 60 5-67 91-166 (482)
101 PRK08181 transposase; Validate 97.2 6.2E-05 1.3E-09 51.2 -0.5 47 11-59 88-140 (269)
102 PRK10875 recD exonuclease V su 97.2 4.9E-05 1.1E-09 56.8 -1.1 50 13-65 155-211 (615)
103 PRK11664 ATP-dependent RNA hel 97.1 4.7E-05 1E-09 58.3 -1.8 37 29-65 21-60 (812)
104 PRK06526 transposase; Provisio 97.1 0.00011 2.5E-09 49.4 -0.2 28 22-51 94-121 (254)
105 PF05970 PIF1: PIF1-like helic 97.1 5.5E-05 1.2E-09 52.8 -1.7 55 11-65 2-62 (364)
106 KOG0348|consensus 97.1 6.9E-05 1.5E-09 56.0 -1.4 48 14-64 163-222 (708)
107 TIGR02640 gas_vesic_GvpN gas v 97.0 6.7E-05 1.5E-09 50.2 -1.6 46 14-59 6-52 (262)
108 COG0513 SrmB Superfamily II DN 97.0 5.5E-05 1.2E-09 55.1 -2.2 51 11-64 52-110 (513)
109 cd01129 PulE-GspE PulE/GspE Th 97.0 0.00011 2.4E-09 49.5 -0.7 42 10-52 63-104 (264)
110 KOG0947|consensus 97.0 0.00014 3.1E-09 57.1 -0.6 54 8-64 295-351 (1248)
111 COG2804 PulE Type II secretory 97.0 0.00031 6.8E-09 51.6 1.1 41 11-52 242-282 (500)
112 KOG0390|consensus 97.0 8.2E-05 1.8E-09 56.9 -1.9 56 8-63 236-308 (776)
113 PRK12898 secA preprotein trans 97.0 0.00013 2.9E-09 54.9 -0.8 50 10-64 101-155 (656)
114 KOG1805|consensus 97.0 8.7E-05 1.9E-09 58.0 -1.9 55 10-66 669-726 (1100)
115 PF07652 Flavi_DEAD: Flaviviru 96.9 7.4E-05 1.6E-09 47.3 -1.9 37 29-65 5-45 (148)
116 TIGR01970 DEAH_box_HrpB ATP-de 96.9 0.00014 3E-09 55.9 -1.0 37 29-65 18-57 (819)
117 PRK10536 hypothetical protein; 96.9 0.00021 4.6E-09 48.8 -0.1 34 14-50 63-96 (262)
118 PF01695 IstB_IS21: IstB-like 96.9 8.5E-05 1.8E-09 47.4 -2.0 31 29-59 48-81 (178)
119 PRK13894 conjugal transfer ATP 96.9 9.6E-05 2.1E-09 51.3 -1.9 39 11-51 133-171 (319)
120 KOG1000|consensus 96.9 0.00013 2.9E-09 54.2 -1.4 53 10-64 198-252 (689)
121 KOG0392|consensus 96.9 6.7E-05 1.5E-09 59.9 -3.1 56 8-64 973-1042(1549)
122 PRK13889 conjugal transfer rel 96.9 0.00013 2.8E-09 57.1 -1.6 55 9-65 345-402 (988)
123 TIGR03420 DnaA_homol_Hda DnaA 96.8 0.0005 1.1E-08 44.0 1.2 32 20-51 30-61 (226)
124 COG3587 Restriction endonuclea 96.8 0.00016 3.6E-09 56.0 -1.3 34 31-64 77-115 (985)
125 KOG0385|consensus 96.8 5.7E-05 1.2E-09 58.1 -3.8 57 8-64 165-228 (971)
126 KOG0951|consensus 96.8 0.00013 2.9E-09 58.5 -1.9 55 10-66 309-377 (1674)
127 PF00437 T2SE: Type II/IV secr 96.8 0.0001 2.3E-09 48.9 -2.3 24 29-52 128-151 (270)
128 KOG0387|consensus 96.8 0.00015 3.3E-09 55.9 -1.7 56 9-64 204-266 (923)
129 KOG1807|consensus 96.8 0.00024 5.3E-09 54.9 -0.7 56 8-66 376-440 (1025)
130 KOG1133|consensus 96.8 0.00061 1.3E-08 52.1 1.3 41 3-45 8-51 (821)
131 PRK13851 type IV secretion sys 96.8 0.0003 6.5E-09 49.3 -0.3 24 29-52 163-186 (344)
132 PRK05642 DNA replication initi 96.7 0.00029 6.4E-09 46.5 -0.5 31 29-59 46-79 (234)
133 PRK09183 transposase/IS protei 96.7 0.00023 5E-09 47.8 -1.0 31 29-59 103-136 (259)
134 PRK10436 hypothetical protein; 96.7 0.00015 3.1E-09 52.7 -2.2 41 10-51 201-241 (462)
135 COG4098 comFA Superfamily II D 96.7 0.00033 7.3E-09 50.2 -0.3 59 8-67 95-157 (441)
136 COG1200 RecG RecG-like helicas 96.7 8.4E-05 1.8E-09 56.1 -3.5 55 9-63 261-321 (677)
137 PRK08084 DNA replication initi 96.7 0.00072 1.6E-08 44.6 1.2 49 2-50 12-67 (235)
138 TIGR01650 PD_CobS cobaltochela 96.7 0.00026 5.6E-09 49.6 -1.0 49 5-55 43-91 (327)
139 TIGR02533 type_II_gspE general 96.7 0.00027 5.8E-09 51.5 -1.2 42 10-52 225-266 (486)
140 PF06745 KaiC: KaiC; InterPro 96.7 0.0002 4.4E-09 46.3 -1.6 44 18-61 7-56 (226)
141 cd01130 VirB11-like_ATPase Typ 96.6 0.00072 1.6E-08 42.9 0.7 39 10-50 9-47 (186)
142 KOG0345|consensus 96.6 0.00038 8.2E-09 51.3 -0.7 50 12-64 30-90 (567)
143 PRK13104 secA preprotein trans 96.6 0.00025 5.5E-09 55.0 -1.7 53 9-64 79-134 (896)
144 TIGR02538 type_IV_pilB type IV 96.6 0.00065 1.4E-08 50.1 0.4 43 9-52 298-340 (564)
145 KOG0330|consensus 96.6 0.00044 9.6E-09 50.1 -0.5 49 13-64 86-140 (476)
146 PF13191 AAA_16: AAA ATPase do 96.6 0.0011 2.4E-08 40.7 1.3 41 12-52 5-48 (185)
147 KOG0948|consensus 96.6 0.00041 8.8E-09 53.7 -0.8 54 8-64 127-183 (1041)
148 PF13207 AAA_17: AAA domain; P 96.6 0.00013 2.7E-09 42.6 -2.9 24 31-54 2-25 (121)
149 PRK13900 type IV secretion sys 96.5 0.00049 1.1E-08 47.9 -0.4 24 29-52 161-184 (332)
150 KOG1806|consensus 96.5 0.0012 2.5E-08 52.4 1.5 50 13-65 741-795 (1320)
151 KOG0949|consensus 96.5 0.00061 1.3E-08 53.9 -0.2 54 10-66 511-569 (1330)
152 KOG0386|consensus 96.5 0.00023 5E-09 55.9 -2.6 59 8-66 392-457 (1157)
153 PRK12402 replication factor C 96.4 0.0011 2.3E-08 44.7 0.6 38 14-51 22-59 (337)
154 TIGR03877 thermo_KaiC_1 KaiC d 96.4 0.00059 1.3E-08 44.9 -0.7 45 16-60 7-56 (237)
155 cd01124 KaiC KaiC is a circadi 96.4 0.00026 5.7E-09 43.9 -2.4 31 31-61 2-35 (187)
156 PHA02244 ATPase-like protein 96.3 0.00048 1E-08 49.3 -1.5 41 17-59 110-150 (383)
157 PRK13826 Dtr system oriT relax 96.3 0.00044 9.6E-09 54.7 -1.8 56 8-65 379-437 (1102)
158 COG1474 CDC6 Cdc6-related prot 96.3 0.0017 3.6E-08 45.9 1.2 48 5-52 15-66 (366)
159 TIGR02928 orc1/cdc6 family rep 96.3 0.0014 3E-08 44.9 0.7 45 7-51 15-63 (365)
160 COG1219 ClpX ATP-dependent pro 96.3 0.00029 6.3E-09 50.1 -2.6 27 29-55 98-124 (408)
161 cd01394 radB RadB. The archaea 96.3 0.00059 1.3E-08 43.8 -1.2 44 17-60 6-54 (218)
162 KOG1132|consensus 96.3 0.00096 2.1E-08 51.9 -0.2 43 4-46 15-58 (945)
163 PF00004 AAA: ATPase family as 96.2 0.00018 3.9E-09 42.0 -3.4 29 32-60 2-30 (132)
164 PRK00440 rfc replication facto 96.2 0.0016 3.4E-08 43.5 0.7 36 15-50 22-60 (319)
165 PRK11054 helD DNA helicase IV; 96.2 0.00035 7.5E-09 52.8 -2.8 53 8-65 194-253 (684)
166 PLN03025 replication factor C 96.2 0.00083 1.8E-08 45.9 -0.8 38 14-51 17-57 (319)
167 PLN02165 adenylate isopentenyl 96.2 0.00037 8E-09 49.0 -2.7 25 29-53 44-68 (334)
168 PF00448 SRP54: SRP54-type pro 96.2 0.00038 8.3E-09 45.1 -2.4 32 29-60 2-36 (196)
169 PRK08727 hypothetical protein; 96.2 0.00097 2.1E-08 43.9 -0.6 31 29-59 42-75 (233)
170 PRK08903 DnaA regulatory inact 96.2 0.0023 4.9E-08 41.4 1.1 24 28-51 42-65 (227)
171 COG1484 DnaC DNA replication p 96.2 0.00065 1.4E-08 45.7 -1.5 32 28-59 105-139 (254)
172 COG1197 Mfd Transcription-repa 96.2 0.00048 1E-08 54.6 -2.4 58 8-65 592-655 (1139)
173 KOG0340|consensus 96.2 0.0016 3.4E-08 46.9 0.4 51 10-63 29-85 (442)
174 PRK09361 radB DNA repair and r 96.2 0.00095 2.1E-08 43.1 -0.7 45 16-60 9-58 (225)
175 TIGR02525 plasmid_TraJ plasmid 96.2 0.00081 1.8E-08 47.7 -1.1 23 29-51 150-172 (372)
176 TIGR02237 recomb_radB DNA repa 96.1 0.00051 1.1E-08 43.8 -2.0 42 20-61 2-48 (209)
177 PF07088 GvpD: GvpD gas vesicl 96.1 0.0028 6E-08 46.2 1.4 43 20-62 2-46 (484)
178 COG0467 RAD55 RecA-superfamily 96.1 0.0009 1.9E-08 44.4 -1.1 44 19-62 12-60 (260)
179 PF01745 IPT: Isopentenyl tran 96.1 0.00037 8E-09 46.9 -2.9 28 31-58 4-31 (233)
180 TIGR02788 VirB11 P-type DNA tr 96.1 0.0015 3.3E-08 44.7 0.0 23 29-51 145-167 (308)
181 PRK10919 ATP-dependent DNA hel 96.1 0.0004 8.7E-09 52.1 -3.2 51 10-65 2-59 (672)
182 KOG0328|consensus 96.0 0.017 3.7E-07 40.9 5.0 48 14-64 53-106 (400)
183 PF12846 AAA_10: AAA-like doma 96.0 0.00044 9.5E-09 45.2 -2.7 31 29-59 2-35 (304)
184 KOG0389|consensus 96.0 0.00049 1.1E-08 53.2 -2.8 61 5-65 394-460 (941)
185 PRK13342 recombination factor 96.0 0.00099 2.1E-08 47.1 -1.3 39 19-57 27-65 (413)
186 PF07728 AAA_5: AAA domain (dy 96.0 0.00046 1E-08 41.3 -2.6 28 31-58 2-29 (139)
187 COG2805 PilT Tfp pilus assembl 96.0 0.00068 1.5E-08 47.8 -2.1 24 29-52 126-149 (353)
188 TIGR01420 pilT_fam pilus retra 95.9 0.0013 2.8E-08 45.7 -0.9 33 18-51 113-145 (343)
189 PRK09751 putative ATP-dependen 95.9 0.00027 5.8E-09 57.2 -4.8 33 33-65 1-49 (1490)
190 PF13401 AAA_22: AAA domain; P 95.9 0.00062 1.3E-08 39.9 -2.2 24 29-52 5-28 (131)
191 TIGR02760 TraI_TIGR conjugativ 95.9 0.0014 3.1E-08 54.3 -0.9 57 8-65 1017-1080(1960)
192 PRK12906 secA preprotein trans 95.9 0.00077 1.7E-08 51.9 -2.3 53 9-64 77-132 (796)
193 TIGR02655 circ_KaiC circadian 95.9 0.0013 2.7E-08 47.7 -1.2 44 17-60 8-57 (484)
194 KOG0344|consensus 95.8 0.0022 4.8E-08 47.9 -0.1 52 10-64 158-220 (593)
195 KOG0342|consensus 95.8 0.0021 4.6E-08 47.5 -0.2 50 12-64 106-165 (543)
196 TIGR03819 heli_sec_ATPase heli 95.8 0.0016 3.4E-08 45.6 -0.9 35 15-51 167-201 (340)
197 KOG0391|consensus 95.8 0.00048 1E-08 55.5 -3.8 58 8-65 613-677 (1958)
198 PRK04328 hypothetical protein; 95.8 0.0016 3.5E-08 43.3 -0.8 44 17-60 10-58 (249)
199 COG0419 SbcC ATPase involved i 95.8 0.0019 4.2E-08 49.7 -0.6 37 10-49 10-46 (908)
200 PRK06893 DNA replication initi 95.7 0.0024 5.2E-08 41.9 -0.2 22 30-51 41-62 (229)
201 PRK04195 replication factor C 95.7 0.0019 4.1E-08 46.6 -0.7 32 28-59 39-70 (482)
202 COG2256 MGS1 ATPase related to 95.7 0.0016 3.4E-08 47.2 -1.1 38 15-52 29-72 (436)
203 PRK13103 secA preprotein trans 95.7 0.00099 2.1E-08 51.9 -2.3 52 10-64 80-134 (913)
204 TIGR00635 ruvB Holliday juncti 95.7 0.0013 2.8E-08 44.1 -1.5 26 29-54 31-56 (305)
205 TIGR03878 thermo_KaiC_2 KaiC d 95.7 0.0021 4.6E-08 43.0 -0.5 33 28-60 36-71 (259)
206 cd00984 DnaB_C DnaB helicase C 95.7 0.0015 3.2E-08 42.3 -1.3 42 19-60 3-49 (242)
207 KOG0384|consensus 95.7 0.00091 2E-08 53.5 -2.7 57 8-64 368-431 (1373)
208 PRK13107 preprotein translocas 95.7 0.0012 2.5E-08 51.5 -2.1 53 9-64 79-134 (908)
209 PRK06835 DNA replication prote 95.7 0.0016 3.5E-08 45.4 -1.3 50 10-59 160-217 (329)
210 PF13238 AAA_18: AAA domain; P 95.7 0.0021 4.6E-08 37.2 -0.6 19 32-50 2-20 (129)
211 TIGR02524 dot_icm_DotB Dot/Icm 95.7 0.002 4.3E-08 45.4 -0.9 23 29-51 135-157 (358)
212 cd01120 RecA-like_NTPases RecA 95.6 0.00073 1.6E-08 40.2 -2.7 30 31-60 2-34 (165)
213 TIGR02655 circ_KaiC circadian 95.6 0.0018 3.9E-08 46.9 -1.2 45 16-60 249-298 (484)
214 PF09848 DUF2075: Uncharacteri 95.6 0.0015 3.4E-08 45.2 -1.5 34 30-63 3-41 (352)
215 PHA02774 E1; Provisional 95.6 0.0025 5.4E-08 48.0 -0.6 46 18-63 423-469 (613)
216 PRK14712 conjugal transfer nic 95.6 0.0014 3E-08 53.7 -2.1 56 9-65 834-896 (1623)
217 TIGR02760 TraI_TIGR conjugativ 95.6 0.0024 5.1E-08 53.0 -0.8 57 8-65 427-486 (1960)
218 PF13671 AAA_33: AAA domain; P 95.6 0.0023 5E-08 38.0 -0.6 20 31-50 2-21 (143)
219 PRK05707 DNA polymerase III su 95.6 0.0021 4.5E-08 44.7 -1.0 41 10-50 3-44 (328)
220 PRK00080 ruvB Holliday junctio 95.6 0.0016 3.5E-08 44.6 -1.6 27 28-54 51-77 (328)
221 TIGR01313 therm_gnt_kin carboh 95.6 0.00091 2E-08 41.1 -2.6 21 32-52 2-22 (163)
222 cd01131 PilT Pilus retraction 95.6 0.0031 6.8E-08 40.5 -0.2 23 29-51 2-24 (198)
223 PHA02544 44 clamp loader, smal 95.6 0.0018 3.8E-08 43.7 -1.4 47 14-60 25-75 (316)
224 PF02456 Adeno_IVa2: Adenoviru 95.6 0.0042 9.1E-08 44.0 0.5 37 28-64 87-128 (369)
225 PRK00091 miaA tRNA delta(2)-is 95.5 0.00096 2.1E-08 46.2 -2.7 25 30-54 6-30 (307)
226 cd01393 recA_like RecA is a b 95.5 0.003 6.5E-08 40.5 -0.3 45 17-61 6-61 (226)
227 PRK06067 flagellar accessory p 95.5 0.0021 4.5E-08 41.9 -1.1 45 16-60 11-60 (234)
228 PRK12377 putative replication 95.5 0.0017 3.6E-08 43.8 -1.6 24 29-52 102-125 (248)
229 KOG0334|consensus 95.5 0.0073 1.6E-07 47.6 1.6 51 10-63 387-448 (997)
230 TIGR03881 KaiC_arch_4 KaiC dom 95.5 0.0022 4.8E-08 41.4 -1.1 44 17-60 7-55 (229)
231 cd00544 CobU Adenosylcobinamid 95.5 0.0014 3.1E-08 41.7 -2.0 32 31-62 2-33 (169)
232 COG0606 Predicted ATPase with 95.4 0.0072 1.6E-07 44.5 1.4 39 10-48 177-218 (490)
233 COG0324 MiaA tRNA delta(2)-iso 95.4 0.0011 2.4E-08 46.2 -2.8 26 30-55 5-30 (308)
234 PRK07952 DNA replication prote 95.4 0.0012 2.6E-08 44.3 -2.5 46 14-59 80-133 (244)
235 PRK12904 preprotein translocas 95.4 0.0016 3.4E-08 50.4 -2.2 53 9-64 78-133 (830)
236 TIGR03499 FlhF flagellar biosy 95.4 0.0014 3E-08 44.5 -2.3 23 29-51 195-217 (282)
237 cd00071 GMPK Guanosine monopho 95.4 0.0014 3.1E-08 40.0 -2.1 22 32-53 3-24 (137)
238 KOG0745|consensus 95.4 0.0016 3.4E-08 48.0 -2.1 30 29-58 227-256 (564)
239 COG1223 Predicted ATPase (AAA+ 95.4 0.0036 7.7E-08 43.9 -0.3 45 14-58 125-181 (368)
240 cd01123 Rad51_DMC1_radA Rad51_ 95.4 0.003 6.6E-08 40.7 -0.6 44 17-60 6-60 (235)
241 PRK05973 replicative DNA helic 95.4 0.0015 3.3E-08 43.8 -2.1 32 29-60 65-99 (237)
242 KOG1002|consensus 95.4 0.0013 2.9E-08 49.2 -2.5 57 8-64 182-242 (791)
243 PF12775 AAA_7: P-loop contain 95.4 0.0095 2.1E-07 40.4 1.7 33 17-51 24-56 (272)
244 PRK00131 aroK shikimate kinase 95.4 0.0012 2.7E-08 40.3 -2.5 25 29-53 5-29 (175)
245 PF00931 NB-ARC: NB-ARC domain 95.4 0.0063 1.4E-07 40.0 0.7 40 12-51 1-42 (287)
246 COG1224 TIP49 DNA helicase TIP 95.3 0.0017 3.6E-08 46.9 -2.1 43 14-56 43-93 (450)
247 COG3421 Uncharacterized protei 95.3 0.0012 2.6E-08 50.2 -3.0 32 32-63 1-36 (812)
248 PRK08118 topology modulation p 95.3 0.001 2.3E-08 41.9 -2.9 23 30-52 3-25 (167)
249 TIGR03880 KaiC_arch_3 KaiC dom 95.3 0.0037 8.1E-08 40.4 -0.5 44 18-61 4-52 (224)
250 PRK11773 uvrD DNA-dependent he 95.3 0.0014 3E-08 49.4 -2.8 51 10-65 9-66 (721)
251 PRK07261 topology modulation p 95.3 0.0015 3.2E-08 41.2 -2.4 22 30-51 2-23 (171)
252 TIGR02236 recomb_radA DNA repa 95.3 0.0034 7.4E-08 42.6 -0.8 43 18-60 83-136 (310)
253 PRK00411 cdc6 cell division co 95.2 0.0077 1.7E-07 41.7 0.9 44 9-52 32-79 (394)
254 KOG4439|consensus 95.2 0.0031 6.6E-08 48.6 -1.1 58 6-63 321-393 (901)
255 KOG0989|consensus 95.2 0.002 4.2E-08 45.5 -2.0 40 14-53 40-82 (346)
256 PRK14729 miaA tRNA delta(2)-is 95.2 0.0017 3.6E-08 45.0 -2.4 22 30-51 6-27 (300)
257 PRK13709 conjugal transfer nic 95.2 0.0021 4.5E-08 53.0 -2.2 56 9-65 966-1028(1747)
258 TIGR02881 spore_V_K stage V sp 95.2 0.0043 9.3E-08 41.2 -0.4 21 29-49 43-63 (261)
259 TIGR01075 uvrD DNA helicase II 95.2 0.0013 2.8E-08 49.4 -3.2 51 10-65 4-61 (715)
260 PF13555 AAA_29: P-loop contai 95.2 0.0047 1E-07 33.8 -0.2 18 29-46 24-41 (62)
261 PF06068 TIP49: TIP49 C-termin 95.2 0.0021 4.5E-08 46.2 -2.1 41 14-54 28-76 (398)
262 PRK13764 ATPase; Provisional 95.1 0.0035 7.6E-08 47.0 -1.1 24 29-52 258-281 (602)
263 PRK08233 hypothetical protein; 95.1 0.002 4.3E-08 39.8 -2.1 24 30-53 5-28 (182)
264 PRK03992 proteasome-activating 95.1 0.0031 6.8E-08 44.5 -1.4 29 29-57 166-194 (389)
265 TIGR03263 guanyl_kin guanylate 95.1 0.0019 4.2E-08 40.1 -2.2 24 29-52 2-25 (180)
266 PRK14532 adenylate kinase; Pro 95.1 0.0019 4.1E-08 40.6 -2.3 24 30-53 2-25 (188)
267 PRK12326 preprotein translocas 95.0 0.0018 3.9E-08 49.7 -2.9 51 9-64 75-130 (764)
268 PRK11131 ATP-dependent RNA hel 95.0 0.011 2.5E-07 47.7 1.4 29 14-45 78-106 (1294)
269 KOG4284|consensus 95.0 0.047 1E-06 42.3 4.4 47 14-63 51-103 (980)
270 PRK14530 adenylate kinase; Pro 95.0 0.0018 3.8E-08 41.8 -2.7 24 29-52 4-27 (215)
271 PRK04296 thymidine kinase; Pro 95.0 0.002 4.3E-08 41.3 -2.5 33 29-61 3-38 (190)
272 TIGR00174 miaA tRNA isopenteny 95.0 0.002 4.3E-08 44.4 -2.6 23 32-54 3-25 (287)
273 cd01428 ADK Adenylate kinase ( 94.9 0.0019 4.2E-08 40.3 -2.5 22 31-52 2-23 (194)
274 PRK10078 ribose 1,5-bisphospho 94.9 0.0037 8.1E-08 39.5 -1.2 25 29-53 3-27 (186)
275 TIGR01967 DEAH_box_HrpA ATP-de 94.9 0.013 2.9E-07 47.2 1.5 36 29-64 83-122 (1283)
276 KOG1131|consensus 94.9 0.0092 2E-07 45.0 0.5 39 12-50 18-57 (755)
277 TIGR01359 UMP_CMP_kin_fam UMP- 94.8 0.002 4.2E-08 40.2 -2.7 21 32-52 3-23 (183)
278 PRK05800 cobU adenosylcobinami 94.8 0.0016 3.4E-08 41.4 -3.2 32 30-61 3-34 (170)
279 PF06309 Torsin: Torsin; Inte 94.8 0.011 2.3E-07 36.7 0.5 19 33-51 58-76 (127)
280 PRK13341 recombination factor 94.8 0.0049 1.1E-07 47.0 -1.1 41 14-54 32-78 (725)
281 KOG0331|consensus 94.8 0.0035 7.7E-08 46.4 -1.9 49 13-64 116-176 (519)
282 CHL00095 clpC Clp protease ATP 94.8 0.01 2.2E-07 45.6 0.5 40 12-51 184-223 (821)
283 PF13479 AAA_24: AAA domain 94.8 0.0085 1.9E-07 38.9 0.1 20 29-48 4-23 (213)
284 PRK14722 flhF flagellar biosyn 94.8 0.0035 7.6E-08 44.6 -1.9 24 28-51 137-160 (374)
285 PRK08939 primosomal protein Dn 94.7 0.0041 8.8E-08 42.9 -1.5 24 29-52 157-180 (306)
286 TIGR00390 hslU ATP-dependent p 94.7 0.0032 6.9E-08 45.8 -2.1 29 29-57 48-76 (441)
287 TIGR00382 clpX endopeptidase C 94.7 0.0035 7.5E-08 45.1 -2.0 28 29-56 117-144 (413)
288 PRK13947 shikimate kinase; Pro 94.7 0.0022 4.8E-08 39.5 -2.6 25 30-54 3-27 (171)
289 PRK03839 putative kinase; Prov 94.7 0.0022 4.7E-08 40.1 -2.8 23 30-52 2-24 (180)
290 KOG2373|consensus 94.7 0.031 6.8E-07 40.6 2.8 31 18-48 262-293 (514)
291 PF01078 Mg_chelatase: Magnesi 94.7 0.01 2.2E-07 39.4 0.2 33 14-47 7-41 (206)
292 PRK06217 hypothetical protein; 94.7 0.0026 5.7E-08 40.1 -2.4 24 30-53 3-26 (183)
293 PRK05342 clpX ATP-dependent pr 94.6 0.0026 5.6E-08 45.6 -2.8 28 29-56 109-136 (412)
294 KOG0346|consensus 94.6 0.0057 1.2E-07 45.2 -1.1 47 15-64 46-104 (569)
295 TIGR02012 tigrfam_recA protein 94.6 0.005 1.1E-07 43.0 -1.4 44 16-59 40-89 (321)
296 PRK12723 flagellar biosynthesi 94.6 0.0032 7E-08 44.9 -2.4 22 29-50 175-196 (388)
297 PRK04301 radA DNA repair and r 94.6 0.0072 1.6E-07 41.4 -0.6 43 18-60 90-143 (317)
298 cd02021 GntK Gluconate kinase 94.6 0.0032 7E-08 38.1 -2.1 20 32-51 3-22 (150)
299 COG3973 Superfamily I DNA and 94.5 0.005 1.1E-07 46.8 -1.6 36 29-64 227-271 (747)
300 TIGR00064 ftsY signal recognit 94.5 0.0037 8E-08 42.4 -2.2 32 29-60 73-107 (272)
301 KOG0731|consensus 94.5 0.0061 1.3E-07 47.0 -1.2 31 28-58 344-374 (774)
302 COG4185 Uncharacterized protei 94.5 0.031 6.7E-07 36.5 2.1 25 31-55 5-29 (187)
303 PHA00729 NTP-binding motif con 94.5 0.0076 1.7E-07 40.4 -0.7 23 29-51 18-40 (226)
304 KOG0338|consensus 94.5 0.0063 1.4E-07 45.7 -1.2 50 12-64 205-263 (691)
305 PRK00300 gmk guanylate kinase; 94.4 0.0037 8E-08 39.6 -2.1 24 29-52 6-29 (205)
306 PRK10416 signal recognition pa 94.4 0.0038 8.2E-08 43.3 -2.3 32 29-60 115-149 (318)
307 KOG0922|consensus 94.4 0.0091 2E-07 45.4 -0.4 49 14-65 55-107 (674)
308 PRK06762 hypothetical protein; 94.4 0.0028 6.1E-08 39.0 -2.7 23 30-52 4-26 (166)
309 cd01122 GP4d_helicase GP4d_hel 94.4 0.0053 1.2E-07 40.5 -1.5 33 28-60 30-66 (271)
310 PRK09302 circadian clock prote 94.4 0.008 1.7E-07 43.5 -0.7 46 15-60 16-67 (509)
311 PRK09354 recA recombinase A; P 94.4 0.0073 1.6E-07 42.7 -1.0 45 16-60 45-95 (349)
312 PLN02748 tRNA dimethylallyltra 94.4 0.0041 8.8E-08 45.5 -2.3 26 29-54 23-48 (468)
313 cd02023 UMPK Uridine monophosp 94.4 0.0029 6.4E-08 40.1 -2.7 21 32-52 3-23 (198)
314 cd03115 SRP The signal recogni 94.4 0.0028 6E-08 39.4 -2.8 29 31-59 3-34 (173)
315 cd00983 recA RecA is a bacter 94.4 0.0062 1.3E-07 42.7 -1.3 46 16-61 40-91 (325)
316 PRK14531 adenylate kinase; Pro 94.3 0.0028 6.1E-08 40.1 -2.9 24 29-52 3-26 (183)
317 PF01935 DUF87: Domain of unkn 94.3 0.0043 9.3E-08 40.1 -2.1 31 29-59 24-58 (229)
318 COG1137 YhbG ABC-type (unclass 94.3 0.068 1.5E-06 36.2 3.6 21 32-52 34-54 (243)
319 cd01368 KISc_KIF23_like Kinesi 94.3 0.061 1.3E-06 37.5 3.5 34 14-47 68-108 (345)
320 PRK14737 gmk guanylate kinase; 94.3 0.0032 6.9E-08 40.4 -2.7 24 29-52 5-28 (186)
321 TIGR01351 adk adenylate kinase 94.3 0.0034 7.4E-08 40.4 -2.6 22 31-52 2-23 (210)
322 TIGR02639 ClpA ATP-dependent C 94.3 0.015 3.3E-07 44.1 0.5 37 15-51 187-226 (731)
323 PRK11034 clpA ATP-dependent Cl 94.3 0.0041 9E-08 47.6 -2.5 43 14-56 462-516 (758)
324 PF05496 RuvB_N: Holliday junc 94.3 0.0057 1.2E-07 41.3 -1.6 42 14-55 28-77 (233)
325 PTZ00454 26S protease regulato 94.3 0.0069 1.5E-07 43.2 -1.3 29 28-56 179-207 (398)
326 PF13476 AAA_23: AAA domain; P 94.2 0.0064 1.4E-07 37.5 -1.4 20 29-48 20-39 (202)
327 PRK06921 hypothetical protein; 94.2 0.0053 1.1E-07 41.5 -1.9 32 29-60 118-153 (266)
328 PRK05201 hslU ATP-dependent pr 94.2 0.0035 7.7E-08 45.6 -2.9 28 29-56 51-78 (443)
329 PF01637 Arch_ATPase: Archaeal 94.2 0.019 4E-07 36.0 0.7 41 12-52 4-44 (234)
330 COG1419 FlhF Flagellar GTP-bin 94.1 0.023 5E-07 41.1 1.1 23 28-50 203-225 (407)
331 TIGR02322 phosphon_PhnN phosph 94.1 0.01 2.3E-07 36.9 -0.6 21 30-50 3-23 (179)
332 TIGR02880 cbbX_cfxQ probable R 94.1 0.011 2.4E-07 40.1 -0.4 19 30-48 60-78 (284)
333 KOG0388|consensus 94.1 0.0022 4.7E-08 49.8 -4.3 57 8-64 565-628 (1185)
334 PLN02840 tRNA dimethylallyltra 94.1 0.0039 8.5E-08 45.1 -2.8 26 29-54 22-47 (421)
335 TIGR02238 recomb_DMC1 meiotic 94.1 0.013 2.8E-07 40.6 -0.2 44 17-60 83-137 (313)
336 KOG2228|consensus 94.1 0.042 9.1E-07 39.5 2.3 52 7-58 22-82 (408)
337 cd02020 CMPK Cytidine monophos 94.1 0.0029 6.2E-08 37.7 -3.1 21 32-52 3-23 (147)
338 PRK06696 uridine kinase; Valid 94.0 0.0066 1.4E-07 39.5 -1.6 24 29-52 23-46 (223)
339 TIGR01074 rep ATP-dependent DN 94.0 0.02 4.3E-07 42.5 0.7 48 11-63 2-56 (664)
340 PRK05057 aroK shikimate kinase 94.0 0.0044 9.5E-08 39.1 -2.4 24 29-52 5-28 (172)
341 PRK06547 hypothetical protein; 94.0 0.0069 1.5E-07 38.5 -1.5 23 29-51 16-38 (172)
342 TIGR01242 26Sp45 26S proteasom 94.0 0.0053 1.2E-07 42.7 -2.2 27 29-55 157-183 (364)
343 PRK05480 uridine/cytidine kina 94.0 0.006 1.3E-07 39.0 -1.9 24 29-52 7-30 (209)
344 PTZ00361 26 proteosome regulat 94.0 0.011 2.4E-07 42.8 -0.7 29 29-57 218-246 (438)
345 CHL00181 cbbX CbbX; Provisiona 94.0 0.011 2.5E-07 40.3 -0.6 22 29-50 60-81 (287)
346 cd00464 SK Shikimate kinase (S 94.0 0.0036 7.9E-08 37.6 -2.8 22 31-52 2-23 (154)
347 TIGR01360 aden_kin_iso1 adenyl 93.9 0.011 2.3E-07 36.7 -0.8 21 30-50 5-25 (188)
348 cd01125 repA Hexameric Replica 93.9 0.0061 1.3E-07 39.9 -2.0 22 29-50 2-23 (239)
349 cd01126 TraG_VirD4 The TraG/Tr 93.9 0.043 9.3E-07 38.3 2.1 17 30-46 1-17 (384)
350 PRK11823 DNA repair protein Ra 93.9 0.0099 2.1E-07 42.9 -1.1 45 17-61 67-116 (446)
351 PRK14961 DNA polymerase III su 93.9 0.022 4.8E-07 39.8 0.6 38 14-51 20-61 (363)
352 KOG0090|consensus 93.9 0.056 1.2E-06 36.6 2.5 25 28-52 38-62 (238)
353 TIGR03015 pepcterm_ATPase puta 93.9 0.013 2.9E-07 38.3 -0.5 25 29-53 44-68 (269)
354 TIGR02639 ClpA ATP-dependent C 93.8 0.0097 2.1E-07 45.1 -1.3 41 14-54 458-510 (731)
355 COG0563 Adk Adenylate kinase a 93.8 0.014 2.9E-07 37.5 -0.5 22 30-51 2-23 (178)
356 cd01365 KISc_KIF1A_KIF1B Kines 93.8 0.09 2E-06 36.6 3.5 33 15-47 69-108 (356)
357 PF00406 ADK: Adenylate kinase 93.8 0.011 2.5E-07 35.9 -0.8 19 33-51 1-19 (151)
358 COG0703 AroK Shikimate kinase 93.8 0.0049 1.1E-07 39.8 -2.6 25 29-53 3-27 (172)
359 COG1102 Cmk Cytidylate kinase 93.7 0.0047 1E-07 40.1 -2.7 23 31-53 3-25 (179)
360 cd01373 KISc_KLP2_like Kinesin 93.7 0.084 1.8E-06 36.6 3.3 34 14-47 54-94 (337)
361 cd01370 KISc_KIP3_like Kinesin 93.7 0.076 1.6E-06 36.9 3.1 34 14-47 67-107 (338)
362 KOG0341|consensus 93.7 0.034 7.4E-07 40.9 1.4 51 11-64 193-257 (610)
363 PRK10865 protein disaggregatio 93.7 0.011 2.4E-07 45.7 -1.1 38 15-52 183-223 (857)
364 cd01376 KISc_KID_like Kinesin 93.7 0.093 2E-06 36.1 3.5 34 13-47 59-100 (319)
365 cd01121 Sms Sms (bacterial rad 93.7 0.013 2.9E-07 41.5 -0.7 44 17-60 69-117 (372)
366 TIGR02746 TraC-F-type type-IV 93.7 0.0064 1.4E-07 45.9 -2.4 31 29-59 431-464 (797)
367 TIGR01073 pcrA ATP-dependent D 93.7 0.026 5.7E-07 42.6 0.8 49 10-63 4-59 (726)
368 cd00227 CPT Chloramphenicol (C 93.7 0.015 3.2E-07 36.4 -0.5 24 29-52 3-26 (175)
369 PRK13873 conjugal transfer ATP 93.7 0.0076 1.6E-07 46.1 -2.1 23 29-51 442-464 (811)
370 PRK08116 hypothetical protein; 93.7 0.0049 1.1E-07 41.6 -2.9 30 30-59 116-148 (268)
371 PRK09302 circadian clock prote 93.6 0.012 2.5E-07 42.7 -1.1 44 17-60 260-308 (509)
372 PHA02624 large T antigen; Prov 93.6 0.014 3.1E-07 44.2 -0.7 41 19-59 421-462 (647)
373 PF04665 Pox_A32: Poxvirus A32 93.6 0.0093 2E-07 40.3 -1.6 33 29-61 14-49 (241)
374 cd02025 PanK Pantothenate kina 93.6 0.0046 9.9E-08 40.6 -3.0 20 33-52 4-23 (220)
375 PRK13949 shikimate kinase; Pro 93.6 0.0052 1.1E-07 38.7 -2.6 23 30-52 3-25 (169)
376 COG4962 CpaF Flp pilus assembl 93.6 0.015 3.3E-07 41.3 -0.5 47 14-62 161-209 (355)
377 PF05729 NACHT: NACHT domain 93.6 0.0073 1.6E-07 36.2 -1.9 22 30-51 2-23 (166)
378 PRK05703 flhF flagellar biosyn 93.6 0.0082 1.8E-07 43.1 -2.0 22 29-50 222-243 (424)
379 TIGR03744 traC_PFL_4706 conjug 93.6 0.0067 1.5E-07 47.0 -2.5 24 28-51 475-498 (893)
380 smart00763 AAA_PrkA PrkA AAA d 93.6 0.026 5.6E-07 40.2 0.5 23 29-51 79-101 (361)
381 COG0553 HepA Superfamily II DN 93.6 0.0048 1E-07 45.9 -3.3 57 8-64 336-401 (866)
382 PF00485 PRK: Phosphoribulokin 93.5 0.014 2.9E-07 37.2 -0.8 21 32-52 3-23 (194)
383 PRK14955 DNA polymerase III su 93.5 0.026 5.7E-07 39.9 0.5 38 14-51 20-61 (397)
384 PLN03187 meiotic recombination 93.5 0.014 3E-07 41.1 -0.9 44 18-61 114-168 (344)
385 PF00625 Guanylate_kin: Guanyl 93.5 0.004 8.6E-08 39.2 -3.3 25 29-53 3-27 (183)
386 PRK08699 DNA polymerase III su 93.5 0.012 2.6E-07 40.9 -1.2 40 11-50 2-43 (325)
387 PTZ00088 adenylate kinase 1; P 93.5 0.0056 1.2E-07 40.7 -2.7 24 29-52 7-30 (229)
388 PRK00279 adk adenylate kinase; 93.5 0.0057 1.2E-07 39.5 -2.7 23 30-52 2-24 (215)
389 PRK14528 adenylate kinase; Pro 93.5 0.0052 1.1E-07 39.1 -2.8 23 30-52 3-25 (186)
390 cd01367 KISc_KIF2_like Kinesin 93.5 0.091 2E-06 36.2 3.1 31 15-46 65-103 (322)
391 TIGR01241 FtsH_fam ATP-depende 93.5 0.0066 1.4E-07 43.9 -2.6 30 28-57 88-117 (495)
392 PRK06620 hypothetical protein; 93.4 0.017 3.6E-07 37.8 -0.6 21 29-49 45-65 (214)
393 TIGR00416 sms DNA repair prote 93.4 0.015 3.3E-07 42.1 -0.8 44 17-60 81-129 (454)
394 KOG1533|consensus 93.3 0.037 8E-07 38.2 1.0 16 31-46 5-20 (290)
395 TIGR03689 pup_AAA proteasome A 93.3 0.0099 2.1E-07 43.9 -1.9 25 28-52 216-240 (512)
396 PF05872 DUF853: Bacterial pro 93.3 0.037 8E-07 40.9 1.0 22 29-50 20-41 (502)
397 CHL00195 ycf46 Ycf46; Provisio 93.3 0.008 1.7E-07 44.0 -2.4 32 28-59 259-290 (489)
398 PRK14738 gmk guanylate kinase; 93.3 0.0094 2E-07 38.5 -1.8 23 29-51 14-36 (206)
399 COG1222 RPT1 ATP-dependent 26S 93.3 0.013 2.9E-07 42.1 -1.2 26 28-53 185-210 (406)
400 PRK02496 adk adenylate kinase; 93.3 0.0062 1.3E-07 38.2 -2.7 23 30-52 3-25 (184)
401 PRK04841 transcriptional regul 93.3 0.017 3.7E-07 43.5 -0.8 30 29-59 33-62 (903)
402 COG1875 NYN ribonuclease and A 93.3 0.015 3.3E-07 42.1 -1.0 43 8-51 223-268 (436)
403 COG5008 PilU Tfp pilus assembl 93.3 0.015 3.3E-07 40.9 -1.0 23 29-51 128-150 (375)
404 PRK04182 cytidylate kinase; Pr 93.3 0.0055 1.2E-07 37.6 -2.9 23 31-53 3-25 (180)
405 TIGR00362 DnaA chromosomal rep 93.3 0.012 2.5E-07 41.5 -1.6 22 30-51 138-159 (405)
406 COG1643 HrpA HrpA-like helicas 93.2 0.051 1.1E-06 42.4 1.7 36 29-64 66-105 (845)
407 PRK04220 2-phosphoglycerate ki 93.2 0.013 2.9E-07 40.7 -1.3 29 29-57 93-121 (301)
408 cd01363 Motor_domain Myosin an 93.2 0.099 2.1E-06 33.2 2.8 29 17-46 14-42 (186)
409 TIGR00150 HI0065_YjeE ATPase, 93.2 0.011 2.5E-07 36.5 -1.5 24 29-52 23-46 (133)
410 PRK01184 hypothetical protein; 93.2 0.016 3.6E-07 36.2 -0.9 16 31-46 4-19 (184)
411 cd01375 KISc_KIF9_like Kinesin 93.1 0.095 2.1E-06 36.3 2.8 35 13-47 59-100 (334)
412 PF02534 T4SS-DNA_transf: Type 93.1 0.053 1.2E-06 38.5 1.6 18 29-46 45-62 (469)
413 PRK11889 flhF flagellar biosyn 93.1 0.0082 1.8E-07 43.7 -2.5 31 29-59 242-275 (436)
414 PF10443 RNA12: RNA12 protein; 93.1 0.033 7.1E-07 40.6 0.5 31 16-46 5-35 (431)
415 PRK08356 hypothetical protein; 93.1 0.017 3.7E-07 36.8 -0.9 19 30-48 7-25 (195)
416 KOG0923|consensus 93.1 0.059 1.3E-06 41.7 1.8 38 9-49 264-301 (902)
417 PRK08533 flagellar accessory p 93.1 0.0094 2E-07 39.3 -2.1 33 28-60 24-59 (230)
418 PRK00771 signal recognition pa 93.1 0.009 1.9E-07 43.3 -2.4 32 29-60 96-130 (437)
419 TIGR02173 cyt_kin_arch cytidyl 93.0 0.0064 1.4E-07 37.1 -2.8 23 31-53 3-25 (171)
420 TIGR03346 chaperone_ClpB ATP-d 93.0 0.036 7.7E-07 42.8 0.6 37 15-51 178-217 (852)
421 PRK13880 conjugal transfer cou 93.0 0.074 1.6E-06 40.1 2.2 25 22-46 169-193 (636)
422 PRK10867 signal recognition pa 93.0 0.0079 1.7E-07 43.5 -2.8 32 29-60 101-136 (433)
423 cd01128 rho_factor Transcripti 93.0 0.014 3E-07 39.3 -1.5 35 18-52 6-40 (249)
424 PRK09087 hypothetical protein; 93.0 0.046 1E-06 36.0 1.0 20 30-49 46-65 (226)
425 PRK14956 DNA polymerase III su 93.0 0.035 7.6E-07 40.9 0.5 39 14-52 22-64 (484)
426 TIGR00929 VirB4_CagE type IV s 92.9 0.011 2.4E-07 44.3 -2.2 34 28-61 434-471 (785)
427 PRK12724 flagellar biosynthesi 92.9 0.0098 2.1E-07 43.2 -2.4 22 30-51 225-246 (432)
428 PRK13531 regulatory ATPase Rav 92.8 0.028 6E-07 41.6 -0.2 36 15-50 25-61 (498)
429 TIGR01243 CDC48 AAA family ATP 92.8 0.02 4.4E-07 43.3 -0.9 31 29-59 488-518 (733)
430 PF13481 AAA_25: AAA domain; P 92.8 0.012 2.7E-07 36.7 -1.8 22 29-50 33-54 (193)
431 PRK13850 type IV secretion sys 92.8 0.085 1.8E-06 40.2 2.3 24 23-46 134-157 (670)
432 COG0714 MoxR-like ATPases [Gen 92.8 0.017 3.8E-07 39.6 -1.3 40 15-54 29-69 (329)
433 smart00072 GuKc Guanylate kina 92.8 0.013 2.8E-07 37.0 -1.8 24 29-52 3-26 (184)
434 PF05876 Terminase_GpA: Phage 92.8 0.067 1.5E-06 39.7 1.7 54 10-64 16-73 (557)
435 PTZ00301 uridine kinase; Provi 92.7 0.019 4.1E-07 37.7 -1.1 21 31-51 6-26 (210)
436 TIGR00618 sbcc exonuclease Sbc 92.6 0.031 6.7E-07 43.8 -0.2 21 29-49 27-47 (1042)
437 TIGR00959 ffh signal recogniti 92.6 0.011 2.5E-07 42.6 -2.4 32 29-60 100-135 (428)
438 PRK14962 DNA polymerase III su 92.6 0.044 9.6E-07 40.0 0.6 38 14-51 18-59 (472)
439 cd01369 KISc_KHC_KIF5 Kinesin 92.5 0.16 3.5E-06 34.8 3.2 33 14-47 56-96 (325)
440 PF07724 AAA_2: AAA domain (Cd 92.5 0.023 4.9E-07 36.1 -0.9 25 29-53 4-28 (171)
441 TIGR00235 udk uridine kinase. 92.5 0.028 6.2E-07 36.0 -0.5 23 29-51 7-29 (207)
442 cd01374 KISc_CENP_E Kinesin mo 92.5 0.15 3.3E-06 34.9 3.1 33 14-46 53-92 (321)
443 TIGR01425 SRP54_euk signal rec 92.5 0.011 2.4E-07 42.8 -2.6 32 29-60 101-135 (429)
444 PF13304 AAA_21: AAA domain; P 92.5 0.037 7.9E-07 33.9 0.0 19 31-49 2-20 (303)
445 COG0630 VirB11 Type IV secreto 92.4 0.045 9.8E-07 37.9 0.4 23 29-51 144-166 (312)
446 TIGR02688 conserved hypothetic 92.4 0.02 4.3E-07 41.9 -1.4 20 29-48 210-229 (449)
447 TIGR02759 TraD_Ftype type IV c 92.4 0.013 2.8E-07 43.6 -2.4 32 28-59 176-210 (566)
448 PRK13946 shikimate kinase; Pro 92.4 0.0098 2.1E-07 37.6 -2.7 26 29-54 11-36 (184)
449 PRK11331 5-methylcytosine-spec 92.4 0.041 8.8E-07 40.3 0.2 23 29-51 195-217 (459)
450 PRK12726 flagellar biosynthesi 92.4 0.013 2.9E-07 42.3 -2.3 32 28-59 206-240 (407)
451 CHL00122 secA preprotein trans 92.3 0.018 4E-07 44.9 -1.7 52 10-64 74-128 (870)
452 TIGR01243 CDC48 AAA family ATP 92.3 0.016 3.5E-07 43.8 -2.0 30 29-58 213-242 (733)
453 PTZ00112 origin recognition co 92.3 0.047 1E-06 43.6 0.5 45 7-51 755-804 (1164)
454 PRK13948 shikimate kinase; Pro 92.3 0.011 2.3E-07 38.1 -2.6 25 29-53 11-35 (182)
455 PRK11034 clpA ATP-dependent Cl 92.3 0.051 1.1E-06 41.8 0.6 30 21-50 200-229 (758)
456 TIGR00767 rho transcription te 92.3 0.011 2.4E-07 42.8 -2.8 26 26-51 166-191 (415)
457 PRK08154 anaerobic benzoate ca 92.3 0.015 3.2E-07 39.9 -2.1 45 11-55 108-160 (309)
458 PRK12608 transcription termina 92.3 0.038 8.2E-07 39.6 -0.1 33 18-50 123-155 (380)
459 PRK12902 secA preprotein trans 92.3 0.021 4.5E-07 44.9 -1.5 53 9-64 82-137 (939)
460 PHA02530 pseT polynucleotide k 92.3 0.029 6.3E-07 37.5 -0.7 23 30-52 4-26 (300)
461 PRK03731 aroL shikimate kinase 92.2 0.0093 2E-07 36.8 -2.9 24 30-53 4-27 (171)
462 PRK00625 shikimate kinase; Pro 92.2 0.011 2.3E-07 37.7 -2.7 23 30-52 2-24 (173)
463 PRK14527 adenylate kinase; Pro 92.2 0.033 7.2E-07 35.2 -0.5 23 29-51 7-29 (191)
464 KOG0951|consensus 92.2 0.016 3.5E-07 47.2 -2.3 35 28-62 1159-1195(1674)
465 cd00106 KISc Kinesin motor dom 92.2 0.22 4.7E-06 34.0 3.5 19 29-47 80-98 (328)
466 PF14532 Sigma54_activ_2: Sigm 92.2 0.058 1.2E-06 32.5 0.6 20 29-48 22-41 (138)
467 PRK05541 adenylylsulfate kinas 92.1 0.029 6.4E-07 34.9 -0.7 24 29-52 8-31 (176)
468 COG0610 Type I site-specific r 92.1 0.03 6.4E-07 44.0 -0.8 36 28-63 273-313 (962)
469 cd01371 KISc_KIF3 Kinesin moto 92.1 0.15 3.2E-06 35.2 2.7 34 14-47 61-101 (333)
470 PF03215 Rad17: Rad17 cell cyc 92.0 0.013 2.8E-07 43.3 -2.8 24 29-52 46-69 (519)
471 KOG0343|consensus 92.0 0.038 8.3E-07 42.0 -0.3 48 14-64 95-152 (758)
472 COG0542 clpA ATP-binding subun 92.0 0.099 2.1E-06 40.6 1.9 39 14-52 495-545 (786)
473 PLN02200 adenylate kinase fami 92.0 0.012 2.5E-07 39.1 -2.8 24 29-52 44-67 (234)
474 COG0464 SpoVK ATPases of the A 92.0 0.02 4.3E-07 41.2 -1.8 29 29-57 277-305 (494)
475 PRK14952 DNA polymerase III su 92.0 0.053 1.1E-06 40.7 0.3 38 14-51 17-58 (584)
476 TIGR00763 lon ATP-dependent pr 92.0 0.027 5.8E-07 43.0 -1.2 28 29-56 348-375 (775)
477 PF02463 SMC_N: RecF/RecN/SMC 91.9 0.078 1.7E-06 33.9 1.1 20 29-48 25-44 (220)
478 cd00820 PEPCK_HprK Phosphoenol 91.9 0.028 6E-07 33.7 -1.0 21 29-49 16-36 (107)
479 CHL00176 ftsH cell division pr 91.9 0.014 3.1E-07 44.0 -2.7 30 29-58 217-246 (638)
480 COG2255 RuvB Holliday junction 91.9 0.027 5.9E-07 39.6 -1.1 45 8-52 17-76 (332)
481 PRK06995 flhF flagellar biosyn 91.9 0.018 4E-07 42.3 -2.1 23 29-51 257-279 (484)
482 PF13173 AAA_14: AAA domain 91.9 0.013 2.8E-07 35.0 -2.5 31 29-59 3-35 (128)
483 cd03279 ABC_sbcCD SbcCD and ot 91.9 0.038 8.3E-07 35.6 -0.4 21 29-49 29-49 (213)
484 PRK12727 flagellar biosynthesi 91.9 0.019 4.1E-07 43.0 -2.1 22 29-50 351-372 (559)
485 cd02019 NK Nucleoside/nucleoti 91.9 0.03 6.5E-07 30.3 -0.8 20 32-51 3-22 (69)
486 TIGR03754 conj_TOL_TraD conjug 91.9 0.018 3.8E-07 43.7 -2.3 23 28-50 180-202 (643)
487 PLN02199 shikimate kinase 91.8 0.021 4.6E-07 39.9 -1.8 26 28-53 102-127 (303)
488 PRK13721 conjugal transfer ATP 91.8 0.023 5E-07 43.7 -1.7 24 28-51 449-472 (844)
489 PF00005 ABC_tran: ABC transpo 91.8 0.067 1.5E-06 31.5 0.6 21 29-49 12-32 (137)
490 TIGR00665 DnaB replicative DNA 91.8 0.033 7.2E-07 39.4 -0.8 44 17-60 183-231 (434)
491 PF10412 TrwB_AAD_bind: Type I 91.8 0.02 4.3E-07 40.4 -1.9 23 28-50 15-37 (386)
492 PF09439 SRPRB: Signal recogni 91.8 0.072 1.6E-06 34.6 0.8 22 29-50 4-25 (181)
493 PRK14974 cell division protein 91.8 0.023 4.9E-07 39.9 -1.7 31 29-59 141-174 (336)
494 PRK14963 DNA polymerase III su 91.8 0.062 1.3E-06 39.5 0.5 38 14-51 18-59 (504)
495 COG0411 LivG ABC-type branched 91.8 0.15 3.3E-06 34.8 2.4 21 29-49 31-51 (250)
496 PRK06964 DNA polymerase III su 91.8 0.029 6.4E-07 39.4 -1.1 40 11-50 2-43 (342)
497 PRK13765 ATP-dependent proteas 91.8 0.05 1.1E-06 41.2 0.1 39 14-52 35-74 (637)
498 TIGR03574 selen_PSTK L-seryl-t 91.7 0.036 7.8E-07 36.5 -0.7 21 32-52 3-23 (249)
499 COG1136 SalX ABC-type antimicr 91.7 0.062 1.3E-06 36.0 0.4 18 28-45 31-48 (226)
500 KOG0991|consensus 91.6 0.022 4.7E-07 39.6 -1.8 23 29-51 49-71 (333)
No 1
>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=99.67 E-value=2.8e-18 Score=128.12 Aligned_cols=66 Identities=76% Similarity=1.248 Sum_probs=58.7
Q ss_pred CccccccceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecceee
Q psy11637 1 MTIDLKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVVF 66 (67)
Q Consensus 1 ~~~~l~~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~v 66 (67)
++++|.+.+.|||||++++++|+..+..++|+|++|||+|||++++.+++..++++||+||+..+|
T Consensus 246 ~~i~L~~~~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l~k~tLILvps~~Lv 311 (732)
T TIGR00603 246 LNIDLKPTTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTVKKSCLVLCTSAVSV 311 (732)
T ss_pred CCcccccCCCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHhCCCEEEEeCcHHHH
Confidence 467788889999999999999997654468999999999999999999999999999999997654
No 2
>KOG1123|consensus
Probab=99.59 E-value=2.3e-15 Score=109.98 Aligned_cols=66 Identities=74% Similarity=1.244 Sum_probs=63.0
Q ss_pred CccccccceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecceee
Q psy11637 1 MTIDLKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVVF 66 (67)
Q Consensus 1 ~~~~l~~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~v 66 (67)
|+|+|.+...+||||+..+.+.|.++..++|+|++|+|+|||+++..+++..+++.|++|.+.++|
T Consensus 293 l~idLKPst~iRpYQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa~tikK~clvLcts~VSV 358 (776)
T KOG1123|consen 293 LDIDLKPSTQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAACTIKKSCLVLCTSAVSV 358 (776)
T ss_pred CCcCcCcccccCchHHHHHHHHhCCCcccCceEEEecCCCCceeeeeeeeeecccEEEEecCccCH
Confidence 578999999999999999999999888899999999999999999999999999999999999886
No 3
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.55 E-value=2.6e-16 Score=111.71 Aligned_cols=60 Identities=42% Similarity=0.646 Sum_probs=53.2
Q ss_pred ccceeeccchhhHHHHHhcCCc-ceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 6 KPSAVLRPYQEKSLRKMFGNGR-ARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 6 ~~~~~lR~yQ~~av~~~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
...+.|||||++|+++|.+... ++++++++|||+|||++++.++.....++|||||+..+
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~~~Lvlv~~~~L 92 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKRSTLVLVPTKEL 92 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcCCEEEEECcHHH
Confidence 4567899999999999998521 48999999999999999999999999999999999754
No 4
>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=99.50 E-value=9.8e-16 Score=94.23 Aligned_cols=57 Identities=19% Similarity=0.469 Sum_probs=46.4
Q ss_pred ceeeccchhhHHHHHhcC---C-cceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGN---G-RARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~---~-~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~ 64 (67)
+++|||||+++++++.+. . ..+++++.+|||||||.+++.++.++..+++|++|+..
T Consensus 1 ~~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~~~l~~~p~~~ 61 (184)
T PF04851_consen 1 KYKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELARKVLIVAPNIS 61 (184)
T ss_dssp --EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHCEEEEEESSHH
T ss_pred CCCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccccceeEecCHHH
Confidence 368999999999998852 1 23789999999999999999888877669999999864
No 5
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.24 E-value=6.5e-13 Score=95.37 Aligned_cols=55 Identities=20% Similarity=0.256 Sum_probs=45.4
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE----EEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC----TVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~----~~~~~~lil~p~~~~ 65 (67)
...|||||++++..++++ +++++++|||+|||.++..++. ..+.++||++||..+
T Consensus 112 ~~~~r~~Q~~av~~~l~~---~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL 170 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKN---NRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSL 170 (501)
T ss_pred cCCCCHHHHHHHHHHHhc---CceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHH
Confidence 368999999999999986 5789999999999998866543 223499999999754
No 6
>KOG0354|consensus
Probab=99.24 E-value=1.1e-12 Score=98.25 Aligned_cols=58 Identities=21% Similarity=0.419 Sum_probs=50.3
Q ss_pred cccceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecceee
Q psy11637 5 LKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVVF 66 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~v 66 (67)
....+.||+||++.++..+ . ++.+|.+|||+|||++|+-++... +++++|+||+...|
T Consensus 57 ~p~~~~lR~YQ~eivq~AL-g---kNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv 119 (746)
T KOG0354|consen 57 YPTNLELRNYQEELVQPAL-G---KNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLV 119 (746)
T ss_pred ccCcccccHHHHHHhHHhh-c---CCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHH
Confidence 3456899999999999999 4 699999999999999999888753 68999999997654
No 7
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.19 E-value=9.2e-13 Score=102.16 Aligned_cols=59 Identities=20% Similarity=0.314 Sum_probs=46.3
Q ss_pred cceeeccchhhHHHHHhcC--CcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeeccee
Q psy11637 7 PSAVLRPYQEKSLRKMFGN--GRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVV 65 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~--~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~ 65 (67)
..+.+||||.+|++++.++ ...++++++||||||||.+++.++.++ .+++||++|++.+
T Consensus 410 ~~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L 475 (1123)
T PRK11448 410 YGLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSAL 475 (1123)
T ss_pred cCCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHH
Confidence 3468999999999887742 112679999999999999987776542 3699999998754
No 8
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.14 E-value=3.3e-12 Score=90.88 Aligned_cols=54 Identities=24% Similarity=0.310 Sum_probs=46.4
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
..+||+|++++..++++ ++.++++|||+|||++++..+....+.++|++|+..+
T Consensus 10 ~~~r~~Q~~ai~~~l~g---~dvlv~apTGsGKTl~y~lp~l~~~~~~lVi~P~~~L 63 (470)
T TIGR00614 10 SSFRPVQLEVINAVLLG---RDCFVVMPTGGGKSLCYQLPALCSDGITLVISPLISL 63 (470)
T ss_pred CCCCHHHHHHHHHHHcC---CCEEEEcCCCCcHhHHHHHHHHHcCCcEEEEecHHHH
Confidence 37899999999999987 5899999999999998876655567889999998753
No 9
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.06 E-value=1.3e-11 Score=89.85 Aligned_cols=53 Identities=25% Similarity=0.374 Sum_probs=46.0
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
.|||+|++++..++++ ++.+++||||+|||++++..+....+.++|++|+.++
T Consensus 13 ~fr~~Q~~~i~~il~g---~dvlv~~PTG~GKTl~y~lpal~~~g~~lVisPl~sL 65 (591)
T TIGR01389 13 DFRPGQEEIISHVLDG---RDVLVVMPTGGGKSLCYQVPALLLKGLTVVISPLISL 65 (591)
T ss_pred CCCHHHHHHHHHHHcC---CCEEEEcCCCccHhHHHHHHHHHcCCcEEEEcCCHHH
Confidence 6999999999999986 5899999999999999976655567889999998653
No 10
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.05 E-value=1.1e-11 Score=90.78 Aligned_cols=53 Identities=25% Similarity=0.367 Sum_probs=46.0
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
.+||+|++++..+++. ++.++++|||+|||++++..+....+.++|++|+..+
T Consensus 25 ~~r~~Q~~ai~~il~g---~dvlv~apTGsGKTl~y~lpal~~~g~tlVisPl~sL 77 (607)
T PRK11057 25 QFRPGQQEIIDAVLSG---RDCLVVMPTGGGKSLCYQIPALVLDGLTLVVSPLISL 77 (607)
T ss_pred CCCHHHHHHHHHHHcC---CCEEEEcCCCchHHHHHHHHHHHcCCCEEEEecHHHH
Confidence 6899999999999986 6899999999999999876666667889999998653
No 11
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.04 E-value=2.4e-11 Score=91.98 Aligned_cols=60 Identities=20% Similarity=0.335 Sum_probs=49.2
Q ss_pred cceeeccchhhHHHHHhcC--CcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecceee
Q psy11637 7 PSAVLRPYQEKSLRKMFGN--GRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVVF 66 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~--~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~v 66 (67)
....+|+||..|+.++.++ ....+.+++|.||+|||.++.+++.++ .+|+||++.++.+|
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv 228 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALV 228 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHH
Confidence 4578999999999886653 122569999999999999999998864 57999999987654
No 12
>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=98.98 E-value=3e-11 Score=76.38 Aligned_cols=53 Identities=17% Similarity=0.224 Sum_probs=42.1
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE-E-------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC-T-------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~-~-------~~~~~lil~p~~~~ 65 (67)
.++++|+++++.+.++ ++.++.+|||+|||.+++..+. . .+.+++|++|+..+
T Consensus 21 ~~~~~Q~~~~~~~~~~---~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L 81 (203)
T cd00268 21 KPTPIQARAIPPLLSG---RDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTREL 81 (203)
T ss_pred CCCHHHHHHHHHHhcC---CcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHH
Confidence 5899999999999985 6899999999999988643322 1 23479999998653
No 13
>PRK13766 Hef nuclease; Provisional
Probab=98.95 E-value=4.6e-11 Score=88.79 Aligned_cols=55 Identities=20% Similarity=0.333 Sum_probs=45.8
Q ss_pred cceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeeccee
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGVV 65 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~~ 65 (67)
+.+++|+||++++...++. ++++++|||+|||.+++.++.. .++++||++|+..+
T Consensus 12 ~~~~~r~yQ~~~~~~~l~~----n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L 70 (773)
T PRK13766 12 NTIEARLYQQLLAATALKK----NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPL 70 (773)
T ss_pred CcCCccHHHHHHHHHHhcC----CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHH
Confidence 4678999999999988874 8999999999999987665543 36899999999654
No 14
>PRK01172 ski2-like helicase; Provisional
Probab=98.95 E-value=3.6e-11 Score=88.58 Aligned_cols=55 Identities=15% Similarity=0.239 Sum_probs=45.5
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
.++|+|+|.++++.+.++ ++.++++|||||||+++..++.+ .++++++++|+..+
T Consensus 20 ~~~l~~~Q~~ai~~l~~~---~nvlv~apTGSGKTl~a~lail~~l~~~~k~v~i~P~raL 77 (674)
T PRK01172 20 DFELYDHQRMAIEQLRKG---ENVIVSVPTAAGKTLIAYSAIYETFLAGLKSIYIVPLRSL 77 (674)
T ss_pred CCCCCHHHHHHHHHHhcC---CcEEEECCCCchHHHHHHHHHHHHHHhCCcEEEEechHHH
Confidence 577999999999998665 68999999999999998655443 26789999999754
No 15
>COG4889 Predicted helicase [General function prediction only]
Probab=98.94 E-value=1.2e-10 Score=89.63 Aligned_cols=62 Identities=23% Similarity=0.383 Sum_probs=51.9
Q ss_pred cccccceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEEE-eeeeEEEeecce
Q psy11637 3 IDLKPSAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCTV-RKRALVLCNSGV 64 (67)
Q Consensus 3 ~~l~~~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~~-~~~~lil~p~~~ 64 (67)
+++....++||||++|+++.+++ ..+.+|-+.|.||+|||++++-+...+ ..++|+++|+..
T Consensus 154 l~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~~~iL~LvPSIs 217 (1518)
T COG4889 154 LPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAAARILFLVPSIS 217 (1518)
T ss_pred cccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhhhheEeecchHH
Confidence 45556789999999999998864 224789999999999999999888775 579999999864
No 16
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=98.92 E-value=6.9e-11 Score=85.97 Aligned_cols=56 Identities=21% Similarity=0.317 Sum_probs=48.4
Q ss_pred cceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeecceee
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGVVF 66 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~~v 66 (67)
...+.|.||.....+.+.. +.++++|||-|||+|++.++.. .++++||++||.-+|
T Consensus 12 ~~ie~R~YQ~~i~a~al~~----NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV 71 (542)
T COG1111 12 NTIEPRLYQLNIAAKALFK----NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLV 71 (542)
T ss_pred ccccHHHHHHHHHHHHhhc----CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHH
Confidence 4568999999999998884 8999999999999999988873 356899999998765
No 17
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=98.91 E-value=8.5e-11 Score=91.56 Aligned_cols=54 Identities=20% Similarity=0.276 Sum_probs=47.2
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
..|||+|++++..++.+ ++.+++||||+|||++++..+....+.+|||+|+..+
T Consensus 459 ~sFRp~Q~eaI~aiL~G---rDVLVimPTGSGKSLcYQLPAL~~~GiTLVISPLiSL 512 (1195)
T PLN03137 459 HSFRPNQREIINATMSG---YDVFVLMPTGGGKSLTYQLPALICPGITLVISPLVSL 512 (1195)
T ss_pred CCCCHHHHHHHHHHHcC---CCEEEEcCCCccHHHHHHHHHHHcCCcEEEEeCHHHH
Confidence 36899999999999986 6899999999999999977666667889999998754
No 18
>PRK02362 ski2-like helicase; Provisional
Probab=98.88 E-value=8.5e-11 Score=87.58 Aligned_cols=55 Identities=20% Similarity=0.285 Sum_probs=44.4
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
.+|+|.|.++++..+..+ ++.++++|||||||+++..++.+ .+++++|++|+..+
T Consensus 22 ~~l~p~Q~~ai~~~~~~g--~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~raL 79 (737)
T PRK02362 22 EELYPPQAEAVEAGLLDG--KNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLRAL 79 (737)
T ss_pred CcCCHHHHHHHHHHHhCC--CcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChHHH
Confidence 469999999999844443 69999999999999999655433 36799999999754
No 19
>PTZ00424 helicase 45; Provisional
Probab=98.88 E-value=1e-10 Score=80.60 Aligned_cols=53 Identities=17% Similarity=0.202 Sum_probs=42.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~~~ 65 (67)
.++|+|++++..++++ ++.++.+|||||||.+++..+.. .+.++||++|+..+
T Consensus 50 ~~~~~Q~~ai~~i~~~---~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L 108 (401)
T PTZ00424 50 KPSAIQQRGIKPILDG---YDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTREL 108 (401)
T ss_pred CCCHHHHHHHHHHhCC---CCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHH
Confidence 5899999999999987 57889999999999887543322 24589999999754
No 20
>COG1204 Superfamily II helicase [General function prediction only]
Probab=98.87 E-value=9.6e-11 Score=88.41 Aligned_cols=54 Identities=19% Similarity=0.236 Sum_probs=46.6
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~~ 65 (67)
++.|.|+++++.++..+ +|.+|++|||||||.+++.++.. .++|++++||++++
T Consensus 31 el~~~qq~av~~~~~~~--~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkAL 88 (766)
T COG1204 31 ELFNPQQEAVEKGLLSD--ENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKAL 88 (766)
T ss_pred HhhHHHHHHhhccccCC--CcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHH
Confidence 78899999999987764 79999999999999999877664 24799999999765
No 21
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=98.84 E-value=1.3e-10 Score=73.50 Aligned_cols=55 Identities=20% Similarity=0.244 Sum_probs=39.4
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE-----------EEeeeeEEEeecceee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC-----------TVRKRALVLCNSGVVF 66 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~-----------~~~~~~lil~p~~~~v 66 (67)
+|.+.|++|++.+++.. .-.+|.+|+|+|||.+...++. ..+.++|+++|++.||
T Consensus 1 ~ln~~Q~~Ai~~~~~~~--~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~av 66 (236)
T PF13086_consen 1 KLNESQREAIQSALSSN--GITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAV 66 (236)
T ss_dssp ---HHHHHHHHHHCTSS--E-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHH
T ss_pred CCCHHHHHHHHHHHcCC--CCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhH
Confidence 47789999999999874 2488999999999976654432 2367899999998875
No 22
>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=98.82 E-value=1.5e-10 Score=70.73 Aligned_cols=50 Identities=20% Similarity=0.470 Sum_probs=40.4
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-E----eeeeEEEeeccee
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-V----RKRALVLCNSGVV 65 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-~----~~~~lil~p~~~~ 65 (67)
|+|+++++.+.++ ++.++.+|||+|||.++...+.. . ..++++++|+...
T Consensus 2 ~~Q~~~~~~i~~~---~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l 56 (169)
T PF00270_consen 2 PLQQEAIEAIISG---KNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRAL 56 (169)
T ss_dssp HHHHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHH
T ss_pred HHHHHHHHHHHcC---CCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccc
Confidence 7899999999954 67999999999999999755443 2 2489999998653
No 23
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=98.81 E-value=2.1e-10 Score=80.40 Aligned_cols=53 Identities=17% Similarity=0.181 Sum_probs=42.4
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----------~~~~~lil~p~~~~ 65 (67)
.++++|++++..++++ ++.++++|||+|||.+++..+.. ...++||++||..+
T Consensus 23 ~p~~iQ~~ai~~~~~g---~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eL 85 (434)
T PRK11192 23 RPTAIQAEAIPPALDG---RDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTREL 85 (434)
T ss_pred CCCHHHHHHHHHHhCC---CCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHH
Confidence 5789999999999976 68999999999999987543321 13589999999754
No 24
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.79 E-value=6.5e-10 Score=80.25 Aligned_cols=53 Identities=19% Similarity=0.225 Sum_probs=42.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-------------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-------------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-------------~~~~~lil~p~~~~ 65 (67)
.++|+|.+++..++++ ++.++++|||||||++++..+.. .+.++||++||..+
T Consensus 143 ~ptpiQ~~aip~il~g---~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreL 208 (518)
T PLN00206 143 FPTPIQMQAIPAALSG---RSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTREL 208 (518)
T ss_pred CCCHHHHHHHHHHhcC---CCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHH
Confidence 6889999999999976 68999999999999988643211 24579999999754
No 25
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=98.76 E-value=2.2e-09 Score=79.32 Aligned_cols=53 Identities=25% Similarity=0.371 Sum_probs=47.1
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~ 64 (67)
-.+||-|+++|+..++. ++.+++||||+|||+++.-.+.-..+.||||.|-.+
T Consensus 16 ~~FR~gQ~evI~~~l~g---~d~lvvmPTGgGKSlCyQiPAll~~G~TLVVSPLiS 68 (590)
T COG0514 16 ASFRPGQQEIIDALLSG---KDTLVVMPTGGGKSLCYQIPALLLEGLTLVVSPLIS 68 (590)
T ss_pred cccCCCHHHHHHHHHcC---CcEEEEccCCCCcchHhhhHHHhcCCCEEEECchHH
Confidence 37899999999999998 699999999999999998777777889999999654
No 26
>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=98.74 E-value=6.3e-10 Score=82.65 Aligned_cols=58 Identities=19% Similarity=0.289 Sum_probs=45.3
Q ss_pred ceeeccchhhHHHHHhcC--C-----cceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGN--G-----RARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~--~-----~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~ 65 (67)
+.-.|+||.+|+++++++ . ..++++|.+|||||||.+++.++..+ ..++||++|+..+
T Consensus 236 k~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L 305 (667)
T TIGR00348 236 KPYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRREL 305 (667)
T ss_pred eeehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHH
Confidence 456799999999987643 1 23689999999999999998776542 4689999998643
No 27
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.73 E-value=1.1e-09 Score=66.66 Aligned_cols=56 Identities=29% Similarity=0.485 Sum_probs=44.4
Q ss_pred cceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecce
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGV 64 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~ 64 (67)
....+||+|+++++.+.... .+.++.+|||+|||.+++..+.+. .+++++++|+..
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~--~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~ 65 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGL--RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRE 65 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCC--CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHH
Confidence 35689999999999988753 488999999999999776554432 367999999754
No 28
>PRK00254 ski2-like helicase; Provisional
Probab=98.71 E-value=6.5e-10 Score=82.74 Aligned_cols=55 Identities=24% Similarity=0.320 Sum_probs=43.6
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE----EEeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC----TVRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~----~~~~~~lil~p~~~~ 65 (67)
..|+|.|.+++..++..+ ++.++.+|||||||.++...+. ..++++++++|+.++
T Consensus 22 ~~l~~~Q~~ai~~~~~~g--~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aL 80 (720)
T PRK00254 22 EELYPPQAEALKSGVLEG--KNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKAL 80 (720)
T ss_pred CCCCHHHHHHHHHHHhCC--CcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHH
Confidence 368999999999855444 6899999999999999954432 236799999999754
No 29
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=98.71 E-value=8.3e-10 Score=78.36 Aligned_cols=54 Identities=19% Similarity=0.209 Sum_probs=42.5
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-E-----------eeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-V-----------RKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-~-----------~~~~lil~p~~~~ 65 (67)
..+.|+|++++..+++. ++.++++|||||||.+++..+.. + ..++||++||..+
T Consensus 22 ~~pt~iQ~~ai~~il~g---~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreL 87 (456)
T PRK10590 22 REPTPIQQQAIPAVLEG---RDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTREL 87 (456)
T ss_pred CCCCHHHHHHHHHHhCC---CCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHH
Confidence 36889999999999986 68999999999999987543321 1 1269999999754
No 30
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=98.70 E-value=1e-09 Score=81.60 Aligned_cols=58 Identities=14% Similarity=0.239 Sum_probs=46.5
Q ss_pred ceeeccchhhHHHHHhcCC---cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNG---RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~---~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
.++|+++|++++.++.+.. ...+.++.+|||||||.+++..+.. .+.+++|++||..+
T Consensus 259 ~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~g~q~lilaPT~~L 322 (681)
T PRK10917 259 PFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEAGYQAALMAPTEIL 322 (681)
T ss_pred CCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHH
Confidence 5689999999999988742 2357899999999999998765543 35689999999754
No 31
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.68 E-value=1e-09 Score=78.07 Aligned_cols=53 Identities=17% Similarity=0.242 Sum_probs=42.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-E------------eeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-V------------RKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-~------------~~~~lil~p~~~~ 65 (67)
.++|+|.+++..++++ ++.++.+|||||||++++..+.. + ..++||++||..+
T Consensus 109 ~~~~iQ~~ai~~~~~G---~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreL 174 (475)
T PRK01297 109 YCTPIQAQVLGYTLAG---HDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTREL 174 (475)
T ss_pred CCCHHHHHHHHHHhCC---CCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHH
Confidence 5789999999999886 68999999999999887543321 1 3579999999764
No 32
>PRK13767 ATP-dependent helicase; Provisional
Probab=98.66 E-value=2.1e-09 Score=81.84 Aligned_cols=54 Identities=19% Similarity=0.266 Sum_probs=42.6
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE------------EeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT------------VRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~------------~~~~~lil~p~~~~ 65 (67)
..|+|.|++++..++++ ++.++++|||||||.++...+.. .+.++||++|+.++
T Consensus 31 ~~~tpiQ~~Ai~~il~g---~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraL 96 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEG---KNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRAL 96 (876)
T ss_pred CCCCHHHHHHHHHHHcC---CCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHH
Confidence 35999999999998876 69999999999999987643321 12369999998754
No 33
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=98.65 E-value=1.2e-09 Score=80.43 Aligned_cols=58 Identities=14% Similarity=0.244 Sum_probs=45.5
Q ss_pred ceeeccchhhHHHHHhcC---CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGN---GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~---~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
.++|.++|+++++++++. ....+.++.+|||||||.+++..+.. .+.+++|++||..+
T Consensus 233 pf~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~g~qvlilaPT~~L 296 (630)
T TIGR00643 233 PFKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEAGYQVALMAPTEIL 296 (630)
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHH
Confidence 468999999999998864 22346799999999999998654432 36689999999754
No 34
>PRK05580 primosome assembly protein PriA; Validated
Probab=98.64 E-value=1.8e-09 Score=80.43 Aligned_cols=58 Identities=22% Similarity=0.195 Sum_probs=46.3
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
...|+++|+++++++.+.......++.+|||||||.+++.++.. .++++||++|+..+
T Consensus 142 ~~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L 202 (679)
T PRK05580 142 PPTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIAL 202 (679)
T ss_pred CCCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHH
Confidence 45799999999999987411256899999999999999766543 36789999999754
No 35
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.63 E-value=2.2e-09 Score=75.27 Aligned_cols=53 Identities=23% Similarity=0.248 Sum_probs=41.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-------------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-------------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-------------~~~~~lil~p~~~~ 65 (67)
.+.|.|++++..++++ ++.++.+|||||||++++..+.. .+.++||++||..+
T Consensus 30 ~pt~iQ~~aip~il~g---~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreL 95 (423)
T PRK04837 30 NCTPIQALALPLTLAG---RDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTREL 95 (423)
T ss_pred CCCHHHHHHHHHHhCC---CcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHH
Confidence 5678999999999986 68999999999999987543321 12479999999754
No 36
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=98.62 E-value=2e-09 Score=76.09 Aligned_cols=53 Identities=25% Similarity=0.361 Sum_probs=41.7
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-E-----eeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-V-----RKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-~-----~~~~lil~p~~~~ 65 (67)
.+.|.|++++..++++ ++.++.+|||||||.+++..+.. + ..++||++||..+
T Consensus 26 ~~t~iQ~~ai~~~l~g---~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreL 84 (460)
T PRK11776 26 EMTPIQAQSLPAILAG---KDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTREL 84 (460)
T ss_pred CCCHHHHHHHHHHhcC---CCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHH
Confidence 5789999999999986 68999999999999876443322 1 2368999999753
No 37
>KOG1802|consensus
Probab=98.60 E-value=7e-09 Score=78.15 Aligned_cols=57 Identities=19% Similarity=0.244 Sum_probs=50.1
Q ss_pred cceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeecceee
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGVVF 66 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~~v 66 (67)
...+|...|..|++.++.+ --.+|.+|+|+|||+++..++.. ..+++|+++|+++||
T Consensus 407 ~lpkLN~SQ~~AV~~VL~r---plsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAV 467 (935)
T KOG1802|consen 407 NLPKLNASQSNAVKHVLQR---PLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAV 467 (935)
T ss_pred CchhhchHHHHHHHHHHcC---CceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhH
Confidence 3467888999999999997 47899999999999999887765 578999999999987
No 38
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=98.58 E-value=4.5e-09 Score=71.48 Aligned_cols=59 Identities=17% Similarity=0.222 Sum_probs=42.0
Q ss_pred cccceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEE----EEee-----eeEEEeecc
Q psy11637 5 LKPSAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACC----TVRK-----RALVLCNSG 63 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~----~~~~-----~~lil~p~~ 63 (67)
+.+.+++||.|.+.++.+.+. ..++++++.+|||+|||+.++..+. ..+. +++|.++|.
T Consensus 3 ~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~ 71 (289)
T smart00488 3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTV 71 (289)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccH
Confidence 345666799999988775542 1236899999999999988875542 1222 788887764
No 39
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=98.58 E-value=4.5e-09 Score=71.48 Aligned_cols=59 Identities=17% Similarity=0.222 Sum_probs=42.0
Q ss_pred cccceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEE----EEee-----eeEEEeecc
Q psy11637 5 LKPSAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACC----TVRK-----RALVLCNSG 63 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~----~~~~-----~~lil~p~~ 63 (67)
+.+.+++||.|.+.++.+.+. ..++++++.+|||+|||+.++..+. ..+. +++|.++|.
T Consensus 3 ~~FPy~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~ 71 (289)
T smart00489 3 FYFPYEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTV 71 (289)
T ss_pred ccCCCCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccH
Confidence 345666799999988775542 1236899999999999988875542 1222 788887764
No 40
>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=98.57 E-value=4.8e-09 Score=72.79 Aligned_cols=51 Identities=20% Similarity=0.207 Sum_probs=41.5
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
||.++++.+.+.+ .++.++.+|||||||.+++..+.....++++++|+.++
T Consensus 1 hQ~~~~~~~~~~~-~~~~~i~apTGsGKT~~~~~~~l~~~~~~~~~~P~~aL 51 (357)
T TIGR03158 1 HQVATFEALQSKD-ADIIFNTAPTGAGKTLAWLTPLLHGENDTIALYPTNAL 51 (357)
T ss_pred CHHHHHHHHHcCC-CCEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeChHHH
Confidence 7999999999864 13578899999999999877665666789999998754
No 41
>PRK09401 reverse gyrase; Reviewed
Probab=98.56 E-value=4.4e-09 Score=82.33 Aligned_cols=55 Identities=16% Similarity=0.289 Sum_probs=43.5
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
.+.++|+|++++..++++ ++.++++|||+|||..++.++. ..+.+++|++||..+
T Consensus 78 G~~pt~iQ~~~i~~il~g---~dv~i~ApTGsGKT~f~l~~~~~l~~~g~~alIL~PTreL 135 (1176)
T PRK09401 78 GSKPWSLQRTWAKRLLLG---ESFAIIAPTGVGKTTFGLVMSLYLAKKGKKSYIIFPTRLL 135 (1176)
T ss_pred CCCCcHHHHHHHHHHHCC---CcEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeccHHH
Confidence 357899999999999986 6899999999999965443222 235789999999764
No 42
>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=98.53 E-value=5.8e-09 Score=78.40 Aligned_cols=53 Identities=21% Similarity=0.156 Sum_probs=43.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-----EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-----VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-----~~~~~lil~p~~~~ 65 (67)
.|+++|++++..++++ ++.++..|||||||.+++..+.. .+.++||++||..+
T Consensus 36 ~p~~~Q~~ai~~il~G---~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraL 93 (742)
T TIGR03817 36 RPWQHQARAAELAHAG---RHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKAL 93 (742)
T ss_pred cCCHHHHHHHHHHHCC---CCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHH
Confidence 6889999999999876 68999999999999998654332 24589999999754
No 43
>PTZ00110 helicase; Provisional
Probab=98.52 E-value=5.3e-09 Score=76.12 Aligned_cols=53 Identities=19% Similarity=0.173 Sum_probs=41.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE-E----------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC-T----------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~-~----------~~~~~lil~p~~~~ 65 (67)
++.|.|.+++..+++. ++.++++|||||||++++..+. . .+..+||++||..+
T Consensus 152 ~pt~iQ~~aip~~l~G---~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreL 215 (545)
T PTZ00110 152 EPTPIQVQGWPIALSG---RDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTREL 215 (545)
T ss_pred CCCHHHHHHHHHHhcC---CCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHH
Confidence 5788999999999986 6899999999999998753221 1 13468999999754
No 44
>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=98.52 E-value=5.4e-09 Score=80.32 Aligned_cols=59 Identities=20% Similarity=0.206 Sum_probs=46.3
Q ss_pred cceeeccchhhHHHHHhcC---CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 7 PSAVLRPYQEKSLRKMFGN---GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~---~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
..+++.|.|+++++.+++. +...+.++++|||||||.+++.++.. .+.+++|++||..+
T Consensus 448 ~~f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g~qvlvLvPT~~L 512 (926)
T TIGR00580 448 FPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLL 512 (926)
T ss_pred CCCCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhCCeEEEEeCcHHH
Confidence 3567899999999999874 22357899999999999988755432 36789999999754
No 45
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=98.51 E-value=7.1e-09 Score=76.84 Aligned_cols=53 Identities=17% Similarity=0.197 Sum_probs=41.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE-E-----EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC-T-----VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~-~-----~~~~~lil~p~~~~ 65 (67)
++.|+|++++..+++. ++.++.+|||+|||.++...+. . ...++||++||..+
T Consensus 28 ~ptpiQ~~ai~~ll~g---~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreL 86 (629)
T PRK11634 28 KPSPIQAECIPHLLNG---RDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTREL 86 (629)
T ss_pred CCCHHHHHHHHHHHcC---CCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHH
Confidence 6789999999999976 6899999999999988743321 1 13478999999754
No 46
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.50 E-value=1.7e-08 Score=74.55 Aligned_cols=64 Identities=14% Similarity=0.228 Sum_probs=53.0
Q ss_pred ccccccceeeccchhhHHHHHhcC--CcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 2 TIDLKPSAVLRPYQEKSLRKMFGN--GRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 2 ~~~l~~~~~lR~yQ~~av~~~~~~--~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
+|.|...+.+-.-|-+|++++.++ +..+..++.+.||||||++++.+|.+.++|+||++|++++
T Consensus 4 ~F~l~s~f~PaGDQP~AI~~Lv~gi~~g~~~QtLLGvTGSGKTfT~AnVI~~~~rPtLV~AhNKTL 69 (663)
T COG0556 4 PFKLHSPFKPAGDQPEAIAELVEGIENGLKHQTLLGVTGSGKTFTMANVIAKVQRPTLVLAHNKTL 69 (663)
T ss_pred ceEeccCCCCCCCcHHHHHHHHHHHhcCceeeEEeeeccCCchhHHHHHHHHhCCCeEEEecchhH
Confidence 355666666666799999997764 2236789999999999999999999999999999998764
No 47
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=98.43 E-value=1.4e-08 Score=74.47 Aligned_cols=53 Identities=23% Similarity=0.202 Sum_probs=42.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-------------EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-------------VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-------------~~~~~lil~p~~~~ 65 (67)
.+.|.|++++..+++. ++.++.+|||||||.+++..+.. ...++||++||..+
T Consensus 31 ~ptpiQ~~~ip~~l~G---~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreL 96 (572)
T PRK04537 31 RCTPIQALTLPVALPG---GDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTREL 96 (572)
T ss_pred CCCHHHHHHHHHHhCC---CCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHH
Confidence 5778899999999986 68999999999999988654321 02589999999754
No 48
>PRK14701 reverse gyrase; Provisional
Probab=98.43 E-value=1.6e-08 Score=81.15 Aligned_cols=54 Identities=20% Similarity=0.280 Sum_probs=42.8
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
+.+++.|++++..++++ ++.++++|||+|||.+++.++.. .+.+++|++||..+
T Consensus 78 ~~pt~iQ~~~i~~il~G---~d~li~APTGsGKTl~~~~~al~~~~~g~~aLVl~PTreL 134 (1638)
T PRK14701 78 FEFWSIQKTWAKRILRG---KSFSIVAPTGMGKSTFGAFIALFLALKGKKCYIILPTTLL 134 (1638)
T ss_pred CCCCHHHHHHHHHHHcC---CCEEEEEcCCCCHHHHHHHHHHHHHhcCCeEEEEECHHHH
Confidence 47899999999999997 68899999999999854322221 24589999999754
No 49
>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=98.41 E-value=1.8e-08 Score=74.85 Aligned_cols=56 Identities=21% Similarity=0.147 Sum_probs=46.6
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecceee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVVF 66 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~v 66 (67)
..|-+.|.+|++.++... +..+|.+|+|+|||.++..++.. .+.++|+++||+.||
T Consensus 156 ~~ln~~Q~~Av~~~l~~~--~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~sn~Av 214 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSK--DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAV 214 (637)
T ss_pred CCCCHHHHHHHHHHhcCC--CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCcHHHH
Confidence 356778999999988753 57889999999999998877765 367999999999875
No 50
>KOG0351|consensus
Probab=98.38 E-value=4e-07 Score=70.39 Aligned_cols=53 Identities=19% Similarity=0.282 Sum_probs=46.5
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~ 64 (67)
-.+||.|.++|..++.+ +..++.||||+||++|+...+....+=++||.|-.+
T Consensus 263 ~~FR~~Q~eaI~~~l~G---kd~fvlmpTG~GKSLCYQlPA~l~~gitvVISPL~S 315 (941)
T KOG0351|consen 263 KGFRPNQLEAINATLSG---KDCFVLMPTGGGKSLCYQLPALLLGGVTVVISPLIS 315 (941)
T ss_pred ccCChhHHHHHHHHHcC---CceEEEeecCCceeeEeeccccccCCceEEeccHHH
Confidence 47899999999998887 689999999999999998888778888899988643
No 51
>KOG0353|consensus
Probab=98.35 E-value=1.1e-07 Score=68.87 Aligned_cols=53 Identities=26% Similarity=0.406 Sum_probs=47.1
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~~ 65 (67)
++||.|.+++...... ...++++|||.|||+++...+...++.+|+++|-..+
T Consensus 94 kfrplq~~ain~~ma~---ed~~lil~tgggkslcyqlpal~adg~alvi~plisl 146 (695)
T KOG0353|consen 94 KFRPLQLAAINATMAG---EDAFLILPTGGGKSLCYQLPALCADGFALVICPLISL 146 (695)
T ss_pred hcChhHHHHhhhhhcc---CceEEEEeCCCccchhhhhhHHhcCCceEeechhHHH
Confidence 6799999999998886 5889999999999999988888889999999997543
No 52
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=98.34 E-value=4.9e-08 Score=74.63 Aligned_cols=53 Identities=25% Similarity=0.233 Sum_probs=45.5
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-----EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-----VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-----~~~~~lil~p~~~~ 65 (67)
.|+.||.+|++.+.+. ++.+|.-|||||||.+++..+.. ...++|+|.|++++
T Consensus 70 ~lY~HQ~~A~~~~~~G---~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnAL 127 (851)
T COG1205 70 RLYSHQVDALRLIREG---RNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNAL 127 (851)
T ss_pred cccHHHHHHHHHHHCC---CCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhh
Confidence 4899999999999887 79999999999999999866543 35578999999875
No 53
>KOG1803|consensus
Probab=98.32 E-value=8.9e-08 Score=71.17 Aligned_cols=57 Identities=26% Similarity=0.236 Sum_probs=47.3
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecceee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVVF 66 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~v 66 (67)
+..|-+.|++|+....+.. .-.+|++|+|+|||.+...++.. .++++|+.+||+.||
T Consensus 183 ~~~ln~SQk~Av~~~~~~k--~l~~I~GPPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn~AV 242 (649)
T KOG1803|consen 183 NKNLNSSQKAAVSFAINNK--DLLIIHGPPGTGKTRTLVEIISQLVKQKKRVLVCAPSNVAV 242 (649)
T ss_pred CccccHHHHHHHHHHhccC--CceEeeCCCCCCceeeHHHHHHHHHHcCCeEEEEcCchHHH
Confidence 3456678999988877653 56888999999999999888876 478999999999886
No 54
>PRK10689 transcription-repair coupling factor; Provisional
Probab=98.32 E-value=3.6e-08 Score=77.19 Aligned_cols=59 Identities=19% Similarity=0.220 Sum_probs=45.7
Q ss_pred cceeeccchhhHHHHHhcC---CcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 7 PSAVLRPYQEKSLRKMFGN---GRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~---~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
..+.+.+.|++++..+++. ....+.++++|||+|||.+++.++. ..+.+++|++||+.+
T Consensus 597 ~~~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~g~qvlvLvPT~eL 661 (1147)
T PRK10689 597 FPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLL 661 (1147)
T ss_pred CCCCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHH
Confidence 4567889999999998874 2235789999999999988754332 236789999999754
No 55
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.32 E-value=5.8e-08 Score=73.70 Aligned_cols=58 Identities=22% Similarity=0.256 Sum_probs=42.2
Q ss_pred cceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 7 PSAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..++.||.|.++++.+.+. .+++..++.+|||+|||..++..+.. .+++++|.+||..
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~~~~~vvi~t~t~~ 303 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAITEKPVVISTNTKV 303 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhcCCCeEEEEeCcHH
Confidence 3578999999877654432 11267888999999999888654322 3679999999864
No 56
>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=98.31 E-value=4.1e-08 Score=76.99 Aligned_cols=55 Identities=18% Similarity=0.296 Sum_probs=43.1
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
...+.|.|+.++..++.+ ++.++.+|||+|||..++.++. ..+.+++|++||..+
T Consensus 76 g~~p~~iQ~~~i~~il~G---~d~vi~ApTGsGKT~f~l~~~~~l~~~g~~vLIL~PTreL 133 (1171)
T TIGR01054 76 GSEPWSIQKMWAKRVLRG---DSFAIIAPTGVGKTTFGLAMSLFLAKKGKRCYIILPTTLL 133 (1171)
T ss_pred CCCCcHHHHHHHHHHhCC---CeEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeCHHHH
Confidence 357889999999999987 6889999999999975443322 235789999999754
No 57
>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=98.26 E-value=2.2e-08 Score=57.75 Aligned_cols=36 Identities=22% Similarity=0.392 Sum_probs=29.6
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeeccee
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVV 65 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~ 65 (67)
+.++.+|||+|||.+++.++... .++++|++|+..+
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l 42 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTREL 42 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHH
Confidence 57899999999999998776653 3799999998753
No 58
>PF13245 AAA_19: Part of AAA domain
Probab=98.26 E-value=3.1e-08 Score=55.89 Aligned_cols=48 Identities=23% Similarity=0.294 Sum_probs=33.9
Q ss_pred hHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-------eeeeEEEeecceee
Q psy11637 17 KSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-------RKRALVLCNSGVVF 66 (67)
Q Consensus 17 ~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-------~~~~lil~p~~~~v 66 (67)
++++..+.. ++..+|.+|+|||||.+++..+.+. ++++++++|++.++
T Consensus 1 ~av~~al~~--~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa 55 (76)
T PF13245_consen 1 EAVRRALAG--SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAA 55 (76)
T ss_pred CHHHHHHhh--CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHH
Confidence 355554552 1456679999999998776665542 67899999998653
No 59
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.19 E-value=2e-07 Score=72.21 Aligned_cols=35 Identities=14% Similarity=0.155 Sum_probs=29.3
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecce
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGV 64 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~ 64 (67)
+..+.|+||+|||.+++..+.++ ..++||+||+.+
T Consensus 61 n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~a 100 (986)
T PRK15483 61 NIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPA 100 (986)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHH
Confidence 67889999999999998887764 357999999964
No 60
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=98.18 E-value=4.4e-07 Score=69.30 Aligned_cols=53 Identities=19% Similarity=0.288 Sum_probs=41.6
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----E-------eeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----V-------RKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~-------~~~~lil~p~~~ 64 (67)
..|+|.|++|+..+.++ .+.+|++|||||||..|...+.. . +-.+|+|.|-++
T Consensus 21 ~~~t~~Q~~a~~~i~~G---~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkA 84 (814)
T COG1201 21 TSLTPPQRYAIPEIHSG---ENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKA 84 (814)
T ss_pred CCCCHHHHHHHHHHhCC---CceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHH
Confidence 47899999999999976 79999999999999988543221 1 135889888654
No 61
>KOG0952|consensus
Probab=98.14 E-value=2e-07 Score=72.72 Aligned_cols=51 Identities=12% Similarity=0.201 Sum_probs=40.5
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-------------EeeeeEEEeeccee
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-------------VRKRALVLCNSGVV 65 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-------------~~~~~lil~p~~~~ 65 (67)
.-|.++..-+++.+ .+.+|++|||||||.+++..|.+ -+.++++|+|++++
T Consensus 113 ~iQS~vFp~aY~Sn--eNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKAL 176 (1230)
T KOG0952|consen 113 RIQSEVFPVAYKSN--ENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKAL 176 (1230)
T ss_pred HHHHHhhhhhhcCC--CCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHH
Confidence 34888887777765 79999999999999999765543 14589999999865
No 62
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=98.14 E-value=1e-06 Score=67.63 Aligned_cols=56 Identities=20% Similarity=0.205 Sum_probs=38.3
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEee---eeEEE---EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGV---TACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~---~~~~~---~~~~~lil~p~~~~ 65 (67)
.+++.|||++++..++++. ...++.+|||||||.+++ ..... ...+.++++|+...
T Consensus 13 G~~PtpiQ~~~i~~il~G~--~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReL 74 (844)
T TIGR02621 13 GYSPFPWQLSLAERFVAGQ--PPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTV 74 (844)
T ss_pred CCCCCHHHHHHHHHHHcCC--CcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHH
Confidence 4568999999999999752 246667999999997432 11111 12356667798754
No 63
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=98.09 E-value=1.6e-07 Score=60.53 Aligned_cols=54 Identities=24% Similarity=0.351 Sum_probs=39.3
Q ss_pred eccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 11 lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
|-+.|++|++.++..+. +..+|.+|.|+|||++...+... .+.++++++||..|
T Consensus 2 L~~~Q~~a~~~~l~~~~-~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~A 58 (196)
T PF13604_consen 2 LNEEQREAVRAILTSGD-RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKA 58 (196)
T ss_dssp S-HHHHHHHHHHHHCTC-SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHH
T ss_pred CCHHHHHHHHHHHhcCC-eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHH
Confidence 56789999999986531 46778899999999877555433 35799999999754
No 64
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.08 E-value=3.3e-07 Score=71.33 Aligned_cols=56 Identities=18% Similarity=0.245 Sum_probs=46.9
Q ss_pred cceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
..+.|=|+|++|+..+-.. ++.++++|||||||+++..++.. .+.++++..|.+++
T Consensus 116 ~~F~LD~fQ~~a~~~Ler~---esVlV~ApTssGKTvVaeyAi~~al~~~qrviYTsPIKAL 174 (1041)
T COG4581 116 YPFELDPFQQEAIAILERG---ESVLVCAPTSSGKTVVAEYAIALALRDGQRVIYTSPIKAL 174 (1041)
T ss_pred CCCCcCHHHHHHHHHHhCC---CcEEEEccCCCCcchHHHHHHHHHHHcCCceEeccchhhh
Confidence 4578889999999988776 69999999999999999766654 46789999998765
No 65
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=98.08 E-value=2.1e-07 Score=72.46 Aligned_cols=56 Identities=18% Similarity=0.263 Sum_probs=43.4
Q ss_pred eeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~~ 64 (67)
.+|||||.+++...+.. ..+.++++...+|.|||+.+++++.. ..+|+|||||.++
T Consensus 168 ~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~Sl 230 (1033)
T PLN03142 168 GKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKST 230 (1033)
T ss_pred cchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHH
Confidence 58999999999765431 12267999999999999988777643 2468999999864
No 66
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=98.07 E-value=4.2e-07 Score=69.06 Aligned_cols=53 Identities=17% Similarity=0.270 Sum_probs=42.3
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..+||||.+++-.+..+. ..++.|+||+|||++++..+.. .+..++|++|+..
T Consensus 67 lglrpydVQlig~l~l~~---G~Iaem~TGeGKTLta~Lpa~l~aL~g~~V~VVTpn~y 122 (762)
T TIGR03714 67 LGMFPYDVQVLGAIVLHQ---GNIAEMKTGEGKTLTATMPLYLNALTGKGAMLVTTNDY 122 (762)
T ss_pred cCCCccHHHHHHHHHhcC---CceeEecCCcchHHHHHHHHHHHhhcCCceEEeCCCHH
Confidence 468999999999988653 3688999999999999765432 3567999999874
No 67
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=97.97 E-value=4.6e-07 Score=66.59 Aligned_cols=57 Identities=19% Similarity=0.253 Sum_probs=42.4
Q ss_pred cceeeccchhhHHHHHhcCCc-ceeeeEEEeCCCCceeEeeeeEEEE----eeeeEEEeecc
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGR-ARSGVIVLPCGAGKSLVGVTACCTV----RKRALVLCNSG 63 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~~----~~~~lil~p~~ 63 (67)
+.+.+||.|.++++.+..... ++..++-+|||+|||+-++..+... +.+++|.++|.
T Consensus 12 ~~~~~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~~~viist~t~ 73 (654)
T COG1199 12 PGFEPRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYLLPALAYAREEGKKVIISTRTK 73 (654)
T ss_pred CCCCCCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHHHHHHHHHHHcCCcEEEECCCH
Confidence 457899999999988665322 2458899999999999887665543 36777776664
No 68
>KOG0352|consensus
Probab=97.97 E-value=2.6e-06 Score=62.31 Aligned_cols=50 Identities=20% Similarity=0.190 Sum_probs=42.1
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecce
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGV 64 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~ 64 (67)
|-|+.|+..+.+.. ....++||||+|||+++.......++=++|+.|-.+
T Consensus 23 ~LQE~A~~c~VK~k--~DVyVsMPTGaGKSLCyQLPaL~~~gITIV~SPLiA 72 (641)
T KOG0352|consen 23 RLQEQAINCIVKRK--CDVYVSMPTGAGKSLCYQLPALVHGGITIVISPLIA 72 (641)
T ss_pred hHHHHHHHHHHhcc--CcEEEeccCCCchhhhhhchHHHhCCeEEEehHHHH
Confidence 56999999999875 678899999999999998777777778888887643
No 69
>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=97.97 E-value=4.5e-07 Score=61.91 Aligned_cols=35 Identities=20% Similarity=0.211 Sum_probs=28.1
Q ss_pred eeEEEeCCCCceeEeeeeEEE-----EeeeeEEEeeccee
Q psy11637 31 GVIVLPCGAGKSLVGVTACCT-----VRKRALVLCNSGVV 65 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~-----~~~~~lil~p~~~~ 65 (67)
.++.+|||||||.+++..+.+ ...++++++|+..+
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L 41 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRAT 41 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHH
Confidence 478899999999998776652 35789999998754
No 70
>PHA02653 RNA helicase NPH-II; Provisional
Probab=97.87 E-value=3.3e-06 Score=63.46 Aligned_cols=54 Identities=13% Similarity=0.083 Sum_probs=36.3
Q ss_pred eeeccc----hhhHHHHHhcCCcceeeeEEEeCCCCceeEe-------------eeeEEE-----EeeeeEEEeeccee
Q psy11637 9 AVLRPY----QEKSLRKMFGNGRARSGVIVLPCGAGKSLVG-------------VTACCT-----VRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~y----Q~~av~~~~~~~~~~~~~i~~pTGsGKT~i~-------------~~~~~~-----~~~~~lil~p~~~~ 65 (67)
..|++. |+++++.++++ +..++.++||||||... +..... ...++++++||..+
T Consensus 159 ~~l~~~~~~iQ~qil~~i~~g---kdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreL 234 (675)
T PHA02653 159 IPLASLQPDVQLKIFEAWISR---KPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVAL 234 (675)
T ss_pred ccCCchhHHHHHHHHHHHHhC---CCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHH
Confidence 466665 55555666655 68899999999999862 111111 23589999999654
No 71
>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=97.87 E-value=6.7e-07 Score=58.74 Aligned_cols=50 Identities=22% Similarity=0.397 Sum_probs=33.2
Q ss_pred chhhHHHHHhcC----------CcceeeeEEEeCCCCceeEeeeeEEEE--------eeeeEEEeecc
Q psy11637 14 YQEKSLRKMFGN----------GRARSGVIVLPCGAGKSLVGVTACCTV--------RKRALVLCNSG 63 (67)
Q Consensus 14 yQ~~av~~~~~~----------~~~~~~~i~~pTGsGKT~i~~~~~~~~--------~~~~lil~p~~ 63 (67)
||.++++..++. ...+.+++...+|+|||.++++++..+ ..++||+||+.
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~ 68 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSS 68 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TT
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccc
Confidence 799999875532 235678888999999999998887632 12599999984
No 72
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=97.86 E-value=2.1e-06 Score=66.51 Aligned_cols=54 Identities=17% Similarity=0.201 Sum_probs=42.1
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
.|.+||||.+++-.+..+ +..+..|+||+|||++++..+.. .+.+++|++||..
T Consensus 90 p~~~tp~qvQ~I~~i~l~---~gvIAeaqTGeGKTLAf~LP~l~~aL~g~~v~IVTpTrE 146 (970)
T PRK12899 90 QWDMVPYDVQILGAIAMH---KGFITEMQTGEGKTLTAVMPLYLNALTGKPVHLVTVNDY 146 (970)
T ss_pred CCCCChHHHHHhhhhhcC---CCeEEEeCCCCChHHHHHHHHHHHHhhcCCeEEEeCCHH
Confidence 355899999999888876 45777899999999999765442 2346899999864
No 73
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.86 E-value=3e-06 Score=63.39 Aligned_cols=57 Identities=14% Similarity=0.244 Sum_probs=39.9
Q ss_pred cceee-ccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE----Ee--eeeEEEeecc
Q psy11637 7 PSAVL-RPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT----VR--KRALVLCNSG 63 (67)
Q Consensus 7 ~~~~l-R~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~----~~--~~~lil~p~~ 63 (67)
+.+.. ||.|++.++.+.+. ..++++++.+|||+|||+..+..+.. .+ .++++.+.|.
T Consensus 6 FPy~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRTh 70 (705)
T TIGR00604 6 FPYEKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTH 70 (705)
T ss_pred cCCCCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccc
Confidence 34444 99999999987754 23478999999999999877654432 12 4566666553
No 74
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.84 E-value=2.2e-06 Score=65.38 Aligned_cols=57 Identities=16% Similarity=0.131 Sum_probs=42.1
Q ss_pred ceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE--EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT--VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~--~~~~~lil~p~~~ 64 (67)
.++.||-|.+..+++.+. .++...++.++||+|||+.++..+.. .+.+++|.+||..
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayllp~l~~~~~~~vvI~t~T~~ 302 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYLLPLLAQSDQRQIIVSVPTKI 302 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHHHHHHHhcCCCcEEEEeCcHH
Confidence 578999999966654432 11256788899999999988755332 3678999999864
No 75
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.77 E-value=2.9e-06 Score=65.29 Aligned_cols=57 Identities=14% Similarity=0.166 Sum_probs=42.0
Q ss_pred ceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEE----EEeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACC----TVRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~----~~~~~~lil~p~~~ 64 (67)
.++.||-|.+..+.+.+. .++...++-+|||+|||+-++..+. ..+++++|-++|..
T Consensus 255 ~~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~ 316 (928)
T PRK08074 255 KYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQ 316 (928)
T ss_pred CCcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHH
Confidence 578999999977665542 1226778889999999998875433 24678888888864
No 76
>PRK09694 helicase Cas3; Provisional
Probab=97.76 E-value=2.3e-06 Score=65.88 Aligned_cols=54 Identities=13% Similarity=0.054 Sum_probs=39.4
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~ 64 (67)
.+.+||+|+.+.+. ... .+..+|.+|||+|||..++.++..+ ..+++|..||.+
T Consensus 284 ~~~p~p~Q~~~~~~-~~~--pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~A 342 (878)
T PRK09694 284 GYQPRQLQTLVDAL-PLQ--PGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQA 342 (878)
T ss_pred CCCChHHHHHHHhh-ccC--CCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHH
Confidence 46789999977433 222 2678889999999999988765532 357888888754
No 77
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.66 E-value=4.5e-06 Score=65.27 Aligned_cols=55 Identities=18% Similarity=0.256 Sum_probs=43.3
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeecceee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVVF 66 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~v 66 (67)
+.++..|+--..+++++ ++.-+++|||.|||+.++.... ..++|..+++||+.+|
T Consensus 81 ~~~ws~QR~WakR~~rg---~SFaiiAPTGvGKTTfg~~~sl~~a~kgkr~yii~PT~~Lv 138 (1187)
T COG1110 81 FRPWSAQRVWAKRLVRG---KSFAIIAPTGVGKTTFGLLMSLYLAKKGKRVYIIVPTTTLV 138 (1187)
T ss_pred CCchHHHHHHHHHHHcC---CceEEEcCCCCchhHHHHHHHHHHHhcCCeEEEEecCHHHH
Confidence 35566688888888876 6888999999999988765443 3468999999998764
No 78
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=97.64 E-value=5.4e-06 Score=62.10 Aligned_cols=62 Identities=16% Similarity=0.219 Sum_probs=51.2
Q ss_pred cccccceeeccchhhHHHHHhcCCc--ceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecce
Q psy11637 3 IDLKPSAVLRPYQEKSLRKMFGNGR--ARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSGV 64 (67)
Q Consensus 3 ~~l~~~~~lR~yQ~~av~~~~~~~~--~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~~ 64 (67)
|+|..++.+.-.|.++++++.+.-. .+..++.+.||||||++++.++...++++|||+|+..
T Consensus 2 f~~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~~~p~Lvi~~n~~ 65 (655)
T TIGR00631 2 FKLHSPFQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQVNRPTLVIAHNKT 65 (655)
T ss_pred ceeccCCCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHhCCCEEEEECCHH
Confidence 5677778888899999999776421 2356789999999999999999999999999999853
No 79
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=97.64 E-value=1.6e-05 Score=59.89 Aligned_cols=55 Identities=24% Similarity=0.213 Sum_probs=43.1
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeee-EEE---EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTA-CCT---VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~-~~~---~~~~~lil~p~~~ 64 (67)
.-.|+|-|.-++++=+-.+ ++.+++.+|+||||+++-.+ +.+ -+++.|+++|-.+
T Consensus 214 ~~eLlPVQ~laVe~GLLeG--~nllVVSaTasGKTLIgElAGi~~~l~~g~KmlfLvPLVA 272 (830)
T COG1202 214 IEELLPVQVLAVEAGLLEG--ENLLVVSATASGKTLIGELAGIPRLLSGGKKMLFLVPLVA 272 (830)
T ss_pred cceecchhhhhhhhccccC--CceEEEeccCCCcchHHHhhCcHHHHhCCCeEEEEehhHH
Confidence 3578999999999955444 79999999999999999433 322 3689999999754
No 80
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=97.59 E-value=4.1e-06 Score=62.88 Aligned_cols=57 Identities=19% Similarity=0.165 Sum_probs=41.5
Q ss_pred ceeeccchhhHHHHHhc---CC---cceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFG---NG---RARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~---~~---~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~ 64 (67)
.++.||-|.++.+++.+ .+ +++..+|-+|||+|||+-++..+.. .++|++|=++|..
T Consensus 23 ~~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLlPai~~A~~~~k~vVIST~T~~ 89 (697)
T PRK11747 23 GFIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLLAGIPIARAEKKKLVISTATVA 89 (697)
T ss_pred CCCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHHHHHHHHHHcCCeEEEEcCCHH
Confidence 58899999998777664 21 1356888899999999988754432 4678777777653
No 81
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=97.59 E-value=2.2e-05 Score=52.67 Aligned_cols=45 Identities=27% Similarity=0.444 Sum_probs=38.9
Q ss_pred ccccccceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEee
Q psy11637 2 TIDLKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 2 ~~~l~~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
-+|+..++.+||-|.+...++.+...+.+.+..|-+|.|||.|.+
T Consensus 15 l~E~e~~iliR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~ 59 (229)
T PF12340_consen 15 LFEIESNILIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIV 59 (229)
T ss_pred HHHHHcCceeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHH
Confidence 367788999999999999999986445788899999999999885
No 82
>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=97.58 E-value=7.8e-06 Score=61.25 Aligned_cols=50 Identities=18% Similarity=0.211 Sum_probs=37.0
Q ss_pred hhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE-----EeeeeEEEeecce
Q psy11637 15 QEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT-----VRKRALVLCNSGV 64 (67)
Q Consensus 15 Q~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~-----~~~~~lil~p~~~ 64 (67)
|++.++++.+. .++...++.+|||+|||..++..+.. .+.+++|.+||..
T Consensus 2 Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~ 57 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLA 57 (636)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHH
Confidence 77777776653 22367888899999999888655422 3689999999864
No 83
>KOG0350|consensus
Probab=97.57 E-value=3.3e-05 Score=57.14 Aligned_cols=56 Identities=29% Similarity=0.355 Sum_probs=40.9
Q ss_pred eeeccchhhHHHHHhcCC------cceeeeEEEeCCCCceeEeeeeEEE-E------eeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNG------RARSGVIVLPCGAGKSLVGVTACCT-V------RKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~------~~~~~~i~~pTGsGKT~i~~~~~~~-~------~~~~lil~p~~~ 64 (67)
-.+.|-|...+..++... ..+...+.+|||||||+.+.-.|-. + .-|.+||+|+..
T Consensus 158 s~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~ 226 (620)
T KOG0350|consen 158 SRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRE 226 (620)
T ss_pred ccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHH
Confidence 456788988888876421 2567889999999999998654432 1 247999999864
No 84
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.54 E-value=1e-05 Score=62.88 Aligned_cols=56 Identities=20% Similarity=0.129 Sum_probs=45.1
Q ss_pred cceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-----EeeeeEEEeecc
Q psy11637 7 PSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-----VRKRALVLCNSG 63 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-----~~~~~lil~p~~ 63 (67)
....|.|||.+++.+++... ..+.++.-.+|.|||+.+.+++.. ..+|+|||||..
T Consensus 149 ~~~~l~pHQl~~~~~vl~~~-~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~s 209 (956)
T PRK04914 149 ARASLIPHQLYIAHEVGRRH-APRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPET 209 (956)
T ss_pred CCCCCCHHHHHHHHHHhhcc-CCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHH
Confidence 35679999999999887653 257889999999999999777654 246999999974
No 85
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=97.52 E-value=4.3e-06 Score=55.08 Aligned_cols=48 Identities=19% Similarity=0.164 Sum_probs=34.8
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----E---eeeeEEEeeccee
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----V---RKRALVLCNSGVV 65 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~---~~~~lil~p~~~~ 65 (67)
+-|++++.. .+ +..+|.+..|||||.+.+.-+.. . ..++|+++.|+.|
T Consensus 3 ~eQ~~~i~~-~~----~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~a 57 (315)
T PF00580_consen 3 DEQRRIIRS-TE----GPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAA 57 (315)
T ss_dssp HHHHHHHHS--S----SEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHH
T ss_pred HHHHHHHhC-CC----CCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHH
Confidence 557788777 32 58899999999999988654332 1 4689999998765
No 86
>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=97.47 E-value=3.7e-06 Score=61.14 Aligned_cols=34 Identities=26% Similarity=0.255 Sum_probs=27.2
Q ss_pred eEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 32 VIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
++.+|||||||.+++.++.. .++++||++|+...
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L 37 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIAL 37 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHH
Confidence 47899999999999766643 36789999998653
No 87
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=97.47 E-value=1.3e-05 Score=61.32 Aligned_cols=53 Identities=15% Similarity=0.235 Sum_probs=39.6
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~ 64 (67)
..+|||+.+++-.+.-.. + .+..|.||+|||++++..+. ..+..++|++||..
T Consensus 75 ~g~~p~~vQl~~~~~l~~--G-~Iaem~TGeGKTL~a~lp~~l~al~G~~v~VvTpt~~ 130 (790)
T PRK09200 75 LGMRPYDVQLIGALVLHE--G-NIAEMQTGEGKTLTATMPLYLNALEGKGVHLITVNDY 130 (790)
T ss_pred hCCCCchHHHHhHHHHcC--C-ceeeecCCCcchHHHHHHHHHHHHcCCCeEEEeCCHH
Confidence 457888777777655432 2 38899999999999876554 24788999999864
No 88
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=97.47 E-value=1.3e-05 Score=59.81 Aligned_cols=62 Identities=13% Similarity=0.191 Sum_probs=51.3
Q ss_pred ccccccceeeccchhhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecc
Q psy11637 2 TIDLKPSAVLRPYQEKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSG 63 (67)
Q Consensus 2 ~~~l~~~~~lR~yQ~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~ 63 (67)
.|.+...+.|++.|..+++++.+.- ..++.++.+.+||||+++++.++...++++|||+|+.
T Consensus 4 ~~~~~~~~~~~~~Q~~ai~~l~~~~~~~~~~~ll~Gl~gs~ka~lia~l~~~~~r~vLIVt~~~ 67 (652)
T PRK05298 4 PFKLVSPYKPAGDQPQAIEELVEGIEAGEKHQTLLGVTGSGKTFTMANVIARLQRPTLVLAHNK 67 (652)
T ss_pred CcccccCCCCChHHHHHHHHHHHhhhcCCCcEEEEcCCCcHHHHHHHHHHHHhCCCEEEEECCH
Confidence 3678889999999999999987642 1125678999999999998888877889999999984
No 89
>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=97.45 E-value=1.6e-05 Score=46.01 Aligned_cols=48 Identities=17% Similarity=0.159 Sum_probs=31.1
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEee
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV---RKRALVLCN 61 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~p 61 (67)
-+.+.+...+........++.+|+|+|||.++..++... +.+++++..
T Consensus 5 ~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 55 (151)
T cd00009 5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNA 55 (151)
T ss_pred HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEeh
Confidence 344445555544233678899999999999887776654 445554443
No 90
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=97.39 E-value=2.1e-05 Score=51.81 Aligned_cols=47 Identities=17% Similarity=0.311 Sum_probs=32.4
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeec
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNS 62 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~ 62 (67)
+.|+.+++.+++. ...++.+|.|+|||+++++.+.+. ..++++.-|.
T Consensus 7 ~~Q~~~~~al~~~---~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~ 58 (205)
T PF02562_consen 7 EEQKFALDALLNN---DLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPP 58 (205)
T ss_dssp HHHHHHHHHHHH----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S
T ss_pred HHHHHHHHHHHhC---CeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 4799999999955 578888999999999998776542 2455555444
No 91
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.39 E-value=2.3e-05 Score=59.59 Aligned_cols=56 Identities=21% Similarity=0.202 Sum_probs=46.2
Q ss_pred eeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..|-+-|+.|++.+.+. +.....++.+.||||||-+++.++.. .++-+||++|...
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~ 256 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIA 256 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEecccc
Confidence 46677899999998876 33467899999999999999998876 4778999999754
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=97.35 E-value=2.6e-05 Score=59.42 Aligned_cols=53 Identities=15% Similarity=0.239 Sum_probs=38.2
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~ 64 (67)
..+|||+.+.+-.+.-. ...+..|+||+|||++++..+. ..+..++|++||..
T Consensus 53 lg~~p~~vQlig~~~l~---~G~Iaem~TGeGKTLva~lpa~l~aL~G~~V~VvTpt~~ 108 (745)
T TIGR00963 53 LGMRPFDVQLIGGIALH---KGKIAEMKTGEGKTLTATLPAYLNALTGKGVHVVTVNDY 108 (745)
T ss_pred hCCCccchHHhhhhhhc---CCceeeecCCCccHHHHHHHHHHHHHhCCCEEEEcCCHH
Confidence 46788877777665443 2237789999999999875543 23667999999864
No 93
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=97.34 E-value=2.2e-05 Score=59.45 Aligned_cols=56 Identities=27% Similarity=0.235 Sum_probs=44.4
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
.+.|-+-|++|++.++..+ +..+|.+++|+|||++.-.+.. ..+.++++++||..|
T Consensus 350 ~~~Ls~~Q~~Av~~i~~s~--~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~A 408 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTGSG--DIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKA 408 (744)
T ss_pred cCCCCHHHHHHHHHHhcCC--CEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHH
Confidence 4568889999999998753 5788999999999988766543 236789999998654
No 94
>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=97.34 E-value=2.1e-05 Score=44.91 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=26.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeee---eEEEeec
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKR---ALVLCNS 62 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~---~lil~p~ 62 (67)
.+.++.+|+|+|||.++..++...... ++++..+
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~ 39 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGE 39 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCE
Confidence 578899999999999998888876553 5555544
No 95
>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=97.31 E-value=1.9e-05 Score=59.62 Aligned_cols=55 Identities=13% Similarity=0.088 Sum_probs=43.1
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---Ee--eeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VR--KRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~--~~~lil~p~~~~ 65 (67)
.+.|.+.|++|++.+..+ +..+|.+++|+|||++...++.. .+ .++++++||..|
T Consensus 321 ~~~l~~~Q~~Ai~~~~~~---~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~A 380 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQH---KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRA 380 (720)
T ss_pred CCCCCHHHHHHHHHHHhC---CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHH
Confidence 467888999999998765 58889999999999988655443 34 578888998643
No 96
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=97.30 E-value=2.2e-05 Score=54.68 Aligned_cols=40 Identities=18% Similarity=0.207 Sum_probs=29.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+.+.|.+.+..+.+.+ .+.+|+++||||||+..-+++..
T Consensus 128 ~~~~~~~~~L~~~v~~~--~nilI~G~tGSGKTTll~aL~~~ 167 (323)
T PRK13833 128 IMTEAQASVIRSAIDSR--LNIVISGGTGSGKTTLANAVIAE 167 (323)
T ss_pred CCCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHH
Confidence 34456777777766654 67889999999999998666543
No 97
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=97.30 E-value=2.3e-05 Score=59.16 Aligned_cols=56 Identities=18% Similarity=0.197 Sum_probs=42.1
Q ss_pred eeccchhhHHHHHhcCCcce-eeeEEEeCCCCceeEeeeeEE----E---EeeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRAR-SGVIVLPCGAGKSLVGVTACC----T---VRKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~-~~~i~~pTGsGKT~i~~~~~~----~---~~~~~lil~p~~~~ 65 (67)
..+++|.++++......... ..++.+|||+|||..++..+. . ...+.+.+-|..++
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ 258 (733)
T COG1203 195 EGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTI 258 (733)
T ss_pred hhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHH
Confidence 34789999999988754334 788899999999998865433 2 35688888887654
No 98
>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=97.28 E-value=2.9e-05 Score=53.24 Aligned_cols=35 Identities=20% Similarity=0.223 Sum_probs=26.0
Q ss_pred hhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 15 QEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 15 Q~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
|.+.+..+.+.+ ++.+|++|||||||+++-+++..
T Consensus 121 ~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~al~~~ 155 (299)
T TIGR02782 121 QRDVLREAVLAR--KNILVVGGTGSGKTTLANALLAE 155 (299)
T ss_pred HHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHH
Confidence 455555555543 68899999999999998776654
No 99
>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=97.24 E-value=3.3e-05 Score=57.30 Aligned_cols=50 Identities=14% Similarity=0.157 Sum_probs=39.0
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE--------eeeeEEEeeccee
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV--------RKRALVLCNSGVV 65 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~--------~~~~lil~p~~~~ 65 (67)
+.|++|+..++.+ +..+|.+++|+|||++...++..+ +.++++.+||--|
T Consensus 148 ~~Qk~A~~~al~~---~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkA 205 (586)
T TIGR01447 148 NWQKVAVALALKS---NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKA 205 (586)
T ss_pred HHHHHHHHHHhhC---CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHH
Confidence 6899999999886 689999999999999876554321 1468889998533
No 100
>KOG0335|consensus
Probab=97.24 E-value=1.6e-05 Score=58.05 Aligned_cols=60 Identities=22% Similarity=0.208 Sum_probs=45.1
Q ss_pred cccceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----------------EeeeeEEEeecceeeC
Q psy11637 5 LKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----------------VRKRALVLCNSGVVFC 67 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----------------~~~~~lil~p~~~~v~ 67 (67)
...-..+-|+|+-++..+.+. +..+.+++||||||..++..+-. ...+.+|++||..+|+
T Consensus 91 ~~~~~~ptpvQk~sip~i~~G---rdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~ 166 (482)
T KOG0335|consen 91 RSGYTKPTPVQKYSIPIISGG---RDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVD 166 (482)
T ss_pred cccccCCCcceeeccceeecC---CceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhh
Confidence 334456788999999988876 67889999999999887654321 0246899999987764
No 101
>PRK08181 transposase; Validated
Probab=97.21 E-value=6.2e-05 Score=51.16 Aligned_cols=47 Identities=19% Similarity=0.205 Sum_probs=31.3
Q ss_pred eccchhhHHH---HHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 11 LRPYQEKSLR---KMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 11 lR~yQ~~av~---~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
+-..|..++. +|.+.+ .+.++.+|+|+|||+.+.++... .+.+++++
T Consensus 88 ~~~~~~~~L~~~~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~ 140 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFT 140 (269)
T ss_pred CCHHHHHHHHHHHHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeee
Confidence 3345555553 466544 67899999999999999877643 34455543
No 102
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=97.21 E-value=4.9e-05 Score=56.75 Aligned_cols=50 Identities=20% Similarity=0.195 Sum_probs=38.5
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-------eeeeEEEeeccee
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-------RKRALVLCNSGVV 65 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-------~~~~lil~p~~~~ 65 (67)
++|++|+...+.+ +..+|.+++|+|||++...++..+ ..++++.+||.-|
T Consensus 155 d~Qk~Av~~a~~~---~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkA 211 (615)
T PRK10875 155 DWQKVAAAVALTR---RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKA 211 (615)
T ss_pred HHHHHHHHHHhcC---CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHH
Confidence 6899999988876 589999999999999875554321 2467888888543
No 103
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=97.14 E-value=4.7e-05 Score=58.32 Aligned_cols=37 Identities=19% Similarity=0.187 Sum_probs=28.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
++.++.+|||||||+.+...+.. .++++++++||..+
T Consensus 21 ~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPrR~a 60 (812)
T PRK11664 21 PQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPRRLA 60 (812)
T ss_pred CCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECChHHH
Confidence 67899999999999988544332 24689999999764
No 104
>PRK06526 transposase; Provisional
Probab=97.09 E-value=0.00011 Score=49.36 Aligned_cols=28 Identities=18% Similarity=0.247 Sum_probs=21.9
Q ss_pred HhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 22 MFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 22 ~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
|++.+ .+.++.+|+|+|||+++.++...
T Consensus 94 fi~~~--~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 94 FVTGK--ENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred hhhcC--ceEEEEeCCCCchHHHHHHHHHH
Confidence 55443 68899999999999999876543
No 105
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=97.09 E-value=5.5e-05 Score=52.79 Aligned_cols=55 Identities=20% Similarity=0.268 Sum_probs=41.9
Q ss_pred eccchhhHHHHHhcC---CcceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEeeccee
Q psy11637 11 LRPYQEKSLRKMFGN---GRARSGVIVLPCGAGKSLVGVTACCTV---RKRALVLCNSGVV 65 (67)
Q Consensus 11 lR~yQ~~av~~~~~~---~~~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~p~~~~ 65 (67)
|-+-|+++++.+++. .++.+..|.+|-|+|||++.-.+.... +..+++++||-.|
T Consensus 2 Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg~A 62 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTGIA 62 (364)
T ss_pred CCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchHHH
Confidence 567799998887542 334678899999999999987665543 5678999998655
No 106
>KOG0348|consensus
Probab=97.07 E-value=6.9e-05 Score=55.99 Aligned_cols=48 Identities=19% Similarity=0.289 Sum_probs=37.7
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-----------E-eeeeEEEeecce
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-----------V-RKRALVLCNSGV 64 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-----------~-~~~~lil~p~~~ 64 (67)
-|+++|=.+++. +..+|..+||||||+.++..+-. . +--+||+|||.-
T Consensus 163 VQkq~IP~lL~g---rD~lV~aQTGSGKTLAYllPiVq~Lq~m~~ki~Rs~G~~ALVivPTRE 222 (708)
T KOG0348|consen 163 VQKQAIPVLLEG---RDALVRAQTGSGKTLAYLLPIVQSLQAMEPKIQRSDGPYALVIVPTRE 222 (708)
T ss_pred HhhcchhhhhcC---cceEEEcCCCCcccHHHHHHHHHHHHhcCccccccCCceEEEEechHH
Confidence 589999888885 78999999999999988654321 1 345899999964
No 107
>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=97.04 E-value=6.7e-05 Score=50.19 Aligned_cols=46 Identities=9% Similarity=0.166 Sum_probs=31.7
Q ss_pred chhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 14 YQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 14 yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
+.++.+++.+.. ..+...++.+|+|+|||.++..+....+.+++.+
T Consensus 6 ~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i 52 (262)
T TIGR02640 6 AVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKRDRPVMLI 52 (262)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEE
Confidence 344555544432 1126888999999999999988877667676655
No 108
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=97.04 E-value=5.5e-05 Score=55.09 Aligned_cols=51 Identities=18% Similarity=0.195 Sum_probs=37.7
Q ss_pred eccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE-EE------eee-eEEEeecce
Q psy11637 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC-TV------RKR-ALVLCNSGV 64 (67)
Q Consensus 11 lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~-~~------~~~-~lil~p~~~ 64 (67)
+=|.|..++-.++.. ++.+..++||||||..++..+. .+ ... +||++||.-
T Consensus 52 pt~IQ~~~IP~~l~g---~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRE 110 (513)
T COG0513 52 PTPIQLAAIPLILAG---RDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRE 110 (513)
T ss_pred CCHHHHHHHHHHhCC---CCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHH
Confidence 345799999999987 6899999999999877743222 11 112 899999964
No 109
>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=97.02 E-value=0.00011 Score=49.50 Aligned_cols=42 Identities=21% Similarity=0.276 Sum_probs=30.6
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+-+.|.+.+++++... .+..+|.+|||||||++..+++...
T Consensus 63 g~~~~~~~~l~~~~~~~-~GlilisG~tGSGKTT~l~all~~i 104 (264)
T cd01129 63 GLKPENLEIFRKLLEKP-HGIILVTGPTGSGKTTTLYSALSEL 104 (264)
T ss_pred CCCHHHHHHHHHHHhcC-CCEEEEECCCCCcHHHHHHHHHhhh
Confidence 35566778888777542 1567889999999999887665543
No 110
>KOG0947|consensus
Probab=96.97 E-value=0.00014 Score=57.09 Aligned_cols=54 Identities=17% Similarity=0.149 Sum_probs=42.7
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeE---EEEeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAC---CTVRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~---~~~~~~~lil~p~~~ 64 (67)
.|.|=.+|++|+..+..+ .+.++.++|.+|||++|-.++ .....|+++-.|-.+
T Consensus 295 pFelD~FQk~Ai~~lerg---~SVFVAAHTSAGKTvVAEYAialaq~h~TR~iYTSPIKA 351 (1248)
T KOG0947|consen 295 PFELDTFQKEAIYHLERG---DSVFVAAHTSAGKTVVAEYAIALAQKHMTRTIYTSPIKA 351 (1248)
T ss_pred CCCccHHHHHHHHHHHcC---CeEEEEecCCCCcchHHHHHHHHHHhhccceEecchhhh
Confidence 456667899999998887 689999999999999995443 345778888877554
No 111
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.96 E-value=0.00031 Score=51.60 Aligned_cols=41 Identities=20% Similarity=0.327 Sum_probs=30.1
Q ss_pred eccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 11 lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+-++|.+.+.++++..+ +-.++.+|||||||++..+++.++
T Consensus 242 ~~~~~~~~~~~~~~~p~-GliLvTGPTGSGKTTTLY~~L~~l 282 (500)
T COG2804 242 MSPFQLARLLRLLNRPQ-GLILVTGPTGSGKTTTLYAALSEL 282 (500)
T ss_pred CCHHHHHHHHHHHhCCC-eEEEEeCCCCCCHHHHHHHHHHHh
Confidence 35667777777777642 566777999999999887666553
No 112
>KOG0390|consensus
Probab=96.96 E-value=8.2e-05 Score=56.93 Aligned_cols=56 Identities=25% Similarity=0.437 Sum_probs=41.3
Q ss_pred ceeeccchhhHHHHHhcC--C-----cceeeeEEEeCCCCceeEeeeeEEEE-----e-----eeeEEEeecc
Q psy11637 8 SAVLRPYQEKSLRKMFGN--G-----RARSGVIVLPCGAGKSLVGVTACCTV-----R-----KRALVLCNSG 63 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~--~-----~~~~~~i~~pTGsGKT~i~~~~~~~~-----~-----~~~lil~p~~ 63 (67)
...|||||+|.++-..++ + ..+..++.-.+|+|||+....++... + .+.|||+|.+
T Consensus 236 ~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~s 308 (776)
T KOG0390|consen 236 KKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSS 308 (776)
T ss_pred hhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHH
Confidence 358999999999876653 1 12345666789999999988776542 3 6889999975
No 113
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=96.96 E-value=0.00013 Score=54.95 Aligned_cols=50 Identities=16% Similarity=0.151 Sum_probs=36.9
Q ss_pred eeccc--hhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 10 VLRPY--QEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 10 ~lR~y--Q~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
.+||| |..++-.++.+ + +..|.||+|||.+++..+.. .+..++|++||..
T Consensus 101 g~~p~~VQ~~~~~~ll~G----~-Iae~~TGeGKTla~~lp~~~~al~G~~v~VvTptre 155 (656)
T PRK12898 101 GQRHFDVQLMGGLALLSG----R-LAEMQTGEGKTLTATLPAGTAALAGLPVHVITVNDY 155 (656)
T ss_pred CCCCChHHHHHHHHHhCC----C-eeeeeCCCCcHHHHHHHHHHHhhcCCeEEEEcCcHH
Confidence 34555 77777666654 3 78899999999999755443 3678999999864
No 114
>KOG1805|consensus
Probab=96.95 E-value=8.7e-05 Score=58.02 Aligned_cols=55 Identities=18% Similarity=0.123 Sum_probs=46.9
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecceee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVVF 66 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~v 66 (67)
.|..-|++|+.+.+... +..+|.+=+|+|||++...++.- .++++|+.+=|..||
T Consensus 669 ~LN~dQr~A~~k~L~ae--dy~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAV 726 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAE--DYALILGMPGTGKTTTISLLIKILVALGKKVLLTSYTHSAV 726 (1100)
T ss_pred hcCHHHHHHHHHHHhcc--chheeecCCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHH
Confidence 56778999999999875 68999999999999999888765 488999988887776
No 115
>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=96.95 E-value=7.4e-05 Score=47.29 Aligned_cols=37 Identities=35% Similarity=0.320 Sum_probs=24.7
Q ss_pred eeeeEEEeCCCCceeEee-eeEEE---EeeeeEEEeeccee
Q psy11637 29 RSGVIVLPCGAGKSLVGV-TACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~-~~~~~---~~~~~lil~p~~~~ 65 (67)
...+|.+.||+|||.-.+ .++.+ .+.|+||++||.+.
T Consensus 5 ~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvv 45 (148)
T PF07652_consen 5 ELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVV 45 (148)
T ss_dssp EEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHH
T ss_pred ceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHH
Confidence 678899999999998543 33332 46899999999764
No 116
>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=96.92 E-value=0.00014 Score=55.86 Aligned_cols=37 Identities=24% Similarity=0.222 Sum_probs=29.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
...++.+|||||||+.+...+.. .+.+++++.|+..+
T Consensus 18 ~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR~a 57 (819)
T TIGR01970 18 PQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRRLA 57 (819)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcHHH
Confidence 68899999999999988544332 35689999999764
No 117
>PRK10536 hypothetical protein; Provisional
Probab=96.91 E-value=0.00021 Score=48.79 Aligned_cols=34 Identities=15% Similarity=0.175 Sum_probs=26.4
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.|...++.+.+. ...++.+|+|+|||+++.++..
T Consensus 63 ~Q~~~l~al~~~---~lV~i~G~aGTGKT~La~a~a~ 96 (262)
T PRK10536 63 AQAHYLKAIESK---QLIFATGEAGCGKTWISAAKAA 96 (262)
T ss_pred HHHHHHHHHhcC---CeEEEECCCCCCHHHHHHHHHH
Confidence 577777766553 5888899999999999977655
No 118
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=96.91 E-value=8.5e-05 Score=47.45 Aligned_cols=31 Identities=19% Similarity=0.284 Sum_probs=22.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
.+.++.+|+|+|||..+.+++.++ +.+++++
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~ 81 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFI 81 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEe
Confidence 678889999999999998876543 4455554
No 119
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.90 E-value=9.6e-05 Score=51.25 Aligned_cols=39 Identities=13% Similarity=0.141 Sum_probs=28.6
Q ss_pred eccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 11 lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+-+.|.+.++...+.+ .+.+|++|||||||+...+++..
T Consensus 133 ~~~~~~~~L~~~v~~~--~~ilI~G~tGSGKTTll~aL~~~ 171 (319)
T PRK13894 133 MTAAQREAIIAAVRAH--RNILVIGGTGSGKTTLVNAIINE 171 (319)
T ss_pred CCHHHHHHHHHHHHcC--CeEEEECCCCCCHHHHHHHHHHh
Confidence 3345667776666554 78999999999999888766643
No 120
>KOG1000|consensus
Probab=96.88 E-value=0.00013 Score=54.23 Aligned_cols=53 Identities=19% Similarity=0.317 Sum_probs=45.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE--EeeeeEEEeecce
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT--VRKRALVLCNSGV 64 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~--~~~~~lil~p~~~ 64 (67)
.|-|||++.+.-.++++ ++.++--..|-|||+-+++++.. ...+.||+||..+
T Consensus 198 ~LlPFQreGv~faL~Rg--GR~llADeMGLGKTiQAlaIA~yyraEwplliVcPAsv 252 (689)
T KOG1000|consen 198 RLLPFQREGVIFALERG--GRILLADEMGLGKTIQALAIARYYRAEWPLLIVCPASV 252 (689)
T ss_pred hhCchhhhhHHHHHhcC--CeEEEecccccchHHHHHHHHHHHhhcCcEEEEecHHH
Confidence 57799999999988876 78999999999999999887764 5789999999754
No 121
>KOG0392|consensus
Probab=96.87 E-value=6.7e-05 Score=59.89 Aligned_cols=56 Identities=27% Similarity=0.441 Sum_probs=42.7
Q ss_pred ceeeccchhhHHHH--HhcCCcceeeeEEEeCCCCceeEeeeeEEE------------EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRK--MFGNGRARSGVIVLPCGAGKSLVGVTACCT------------VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~--~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~------------~~~~~lil~p~~~ 64 (67)
+.+||.||+|.+.+ +++. .+-+|+++-..|-|||+-.+.+++. ...|.|||||++-
T Consensus 973 ~a~LRkYQqEGVnWLaFLnk-y~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsTL 1042 (1549)
T KOG0392|consen 973 SAKLRKYQQEGVNWLAFLNK-YKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPSTL 1042 (1549)
T ss_pred hHHHHHHHHhccHHHHHHHH-hcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCchh
Confidence 46899999999987 4442 2368999999999999887665542 1346899999863
No 122
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=96.86 E-value=0.00013 Score=57.07 Aligned_cols=55 Identities=25% Similarity=0.160 Sum_probs=42.3
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
+.|-+-|++|++.++... +..+|.++.|+|||++.-.+.. ..+.+++.++||..|
T Consensus 345 ~~Ls~eQr~Av~~il~s~--~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTGkA 402 (988)
T PRK13889 345 LVLSGEQADALAHVTDGR--DLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSGIA 402 (988)
T ss_pred CCCCHHHHHHHHHHhcCC--CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcHHH
Confidence 568889999999998753 4678999999999987543322 236688999998654
No 123
>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=96.84 E-value=0.0005 Score=44.01 Aligned_cols=32 Identities=25% Similarity=0.276 Sum_probs=22.7
Q ss_pred HHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 20 RKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 20 ~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+++.........++.+|+|+|||+++..+...
T Consensus 30 ~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~ 61 (226)
T TIGR03420 30 RQLAAGKGDRFLYLWGESGSGKSHLLQAACAA 61 (226)
T ss_pred HHHHhcCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 33443333467889999999999998766544
No 124
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.83 E-value=0.00016 Score=56.01 Aligned_cols=34 Identities=15% Similarity=0.191 Sum_probs=28.2
Q ss_pred eeEEEeCCCCceeEeeeeEEEEe-----eeeEEEeecce
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVR-----KRALVLCNSGV 64 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~-----~~~lil~p~~~ 64 (67)
.=|.|.||+|||.+++..+.+++ .+.+|+|||.+
T Consensus 77 iDI~METGTGKTy~YlrtmfeLhk~YG~~KFIivVPs~A 115 (985)
T COG3587 77 IDILMETGTGKTYTYLRTMFELHKKYGLFKFIIVVPSLA 115 (985)
T ss_pred eeEEEecCCCceeeHHHHHHHHHHHhCceeEEEEeccHH
Confidence 34679999999999999888753 58999999864
No 125
>KOG0385|consensus
Probab=96.82 E-value=5.7e-05 Score=58.13 Aligned_cols=57 Identities=21% Similarity=0.284 Sum_probs=44.4
Q ss_pred ceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~~ 64 (67)
..+|||||.+.+.+...- .-+-+|++---.|-|||+-.+++... ..+|.||+||.++
T Consensus 165 ~g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~St 228 (971)
T KOG0385|consen 165 GGELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKST 228 (971)
T ss_pred CCccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhh
Confidence 378999999999986642 11267999999999999887665543 3689999999765
No 126
>KOG0951|consensus
Probab=96.81 E-value=0.00013 Score=58.51 Aligned_cols=55 Identities=18% Similarity=0.225 Sum_probs=40.4
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE--------------EeeeeEEEeecceee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT--------------VRKRALVLCNSGVVF 66 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~--------------~~~~~lil~p~~~~v 66 (67)
.|.+-|....+..+... .+.++++|||+|||-+++.-+.+ ...++.+++|..++|
T Consensus 309 sLNrIQS~v~daAl~~~--EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLv 377 (1674)
T KOG0951|consen 309 SLNRIQSKVYDAALRGD--ENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALV 377 (1674)
T ss_pred hhhHHHHHHHHHHhcCc--CcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHH
Confidence 35556666666666654 79999999999999999754432 134889999987654
No 127
>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=96.80 E-value=0.0001 Score=48.87 Aligned_cols=24 Identities=21% Similarity=0.192 Sum_probs=20.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
++.++.+|||||||+...+++...
T Consensus 128 ~~ili~G~tGSGKTT~l~all~~i 151 (270)
T PF00437_consen 128 GNILISGPTGSGKTTLLNALLEEI 151 (270)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHC
T ss_pred eEEEEECCCccccchHHHHHhhhc
Confidence 789999999999999987776654
No 128
>KOG0387|consensus
Probab=96.80 E-value=0.00015 Score=55.86 Aligned_cols=56 Identities=21% Similarity=0.421 Sum_probs=42.4
Q ss_pred eeeccchhhHHHHHhc-CCcceeeeEEEeCCCCceeEeeeeEE------EEeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFG-NGRARSGVIVLPCGAGKSLVGVTACC------TVRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~-~~~~~~~~i~~pTGsGKT~i~~~~~~------~~~~~~lil~p~~~ 64 (67)
-.|.|||++.+++..+ +.+...|++--..|-|||+-..++.. +..+|+|||||.+.
T Consensus 204 ~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Ti 266 (923)
T KOG0387|consen 204 SKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATI 266 (923)
T ss_pred HHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccHHH
Confidence 3688999999999665 22335688999999999987754433 23579999999864
No 129
>KOG1807|consensus
Probab=96.78 E-value=0.00024 Score=54.86 Aligned_cols=56 Identities=25% Similarity=0.294 Sum_probs=44.4
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---------EeeeeEEEeecceee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---------VRKRALVLCNSGVVF 66 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---------~~~~~lil~p~~~~v 66 (67)
-..|-+.|+.|.+..+.. +-.+|.+|+|+|||++.+.++.. ...|++++|-|+-+|
T Consensus 376 ~~ildsSq~~A~qs~lty---elsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhav 440 (1025)
T KOG1807|consen 376 LVILDSSQQFAKQSKLTY---ELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAV 440 (1025)
T ss_pred ceeecHHHHHHHHHHhhh---hhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHH
Confidence 345666799999998887 57899999999999999876643 256899998876554
No 130
>KOG1133|consensus
Probab=96.76 E-value=0.00061 Score=52.08 Aligned_cols=41 Identities=29% Similarity=0.467 Sum_probs=32.0
Q ss_pred cccccceeeccchhhHHHHHhc---CCcceeeeEEEeCCCCceeEe
Q psy11637 3 IDLKPSAVLRPYQEKSLRKMFG---NGRARSGVIVLPCGAGKSLVG 45 (67)
Q Consensus 3 ~~l~~~~~lR~yQ~~av~~~~~---~~~~~~~~i~~pTGsGKT~i~ 45 (67)
+++.+.+++++-|.+.++++.. .+ +.|++-.|||+|||+-.
T Consensus 8 ~~F~fPy~PYdIQ~~lM~elyrvLe~G--kIgIfESPTGTGKSLSL 51 (821)
T KOG1133|consen 8 IEFPFPYTPYDIQEDLMRELYRVLEEG--KIGIFESPTGTGKSLSL 51 (821)
T ss_pred cccCCCCCchhHHHHHHHHHHHHHhcC--CeeeeeCCCCCCchHHH
Confidence 3566777888889999887554 44 68999999999998643
No 131
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=96.76 E-value=0.0003 Score=49.35 Aligned_cols=24 Identities=21% Similarity=0.350 Sum_probs=20.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.+|++|||||||+..-+++...
T Consensus 163 ~nilI~G~tGSGKTTll~aLl~~i 186 (344)
T PRK13851 163 LTMLLCGPTGSGKTTMSKTLISAI 186 (344)
T ss_pred CeEEEECCCCccHHHHHHHHHccc
Confidence 789999999999999987776653
No 132
>PRK05642 DNA replication initiation factor; Validated
Probab=96.74 E-value=0.00029 Score=46.46 Aligned_cols=31 Identities=23% Similarity=0.147 Sum_probs=21.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
...++.+|+|+|||+.+.++... .+.+++++
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~ 79 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYL 79 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEe
Confidence 34678899999999997665432 23455554
No 133
>PRK09183 transposase/IS protein; Provisional
Probab=96.73 E-value=0.00023 Score=47.81 Aligned_cols=31 Identities=16% Similarity=0.247 Sum_probs=22.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
.+.++.+|+|+|||+.+.++... .+.+++++
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~ 136 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFT 136 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 67889999999999999776432 34455554
No 134
>PRK10436 hypothetical protein; Provisional
Probab=96.72 E-value=0.00015 Score=52.68 Aligned_cols=41 Identities=22% Similarity=0.242 Sum_probs=28.9
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+-+.|.+.+++.+... .+..++.+|||||||++..+++..
T Consensus 201 G~~~~~~~~l~~~~~~~-~GliLvtGpTGSGKTTtL~a~l~~ 241 (462)
T PRK10436 201 GMTPAQLAQFRQALQQP-QGLILVTGPTGSGKTVTLYSALQT 241 (462)
T ss_pred CcCHHHHHHHHHHHHhc-CCeEEEECCCCCChHHHHHHHHHh
Confidence 34556777777766542 256778899999999987655544
No 135
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=96.71 E-value=0.00033 Score=50.16 Aligned_cols=59 Identities=19% Similarity=0.221 Sum_probs=45.1
Q ss_pred ceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecceeeC
Q psy11637 8 SAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVVFC 67 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~v~ 67 (67)
..+|-|+|+.+-...+.. .++...++.+-||+|||-+....+.. .++++.+..|+ +=||
T Consensus 95 ~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPR-vDVc 157 (441)
T COG4098 95 KGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPR-VDVC 157 (441)
T ss_pred ccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCc-ccch
Confidence 457889999998886653 22367889999999999998766654 57888888887 4444
No 136
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.71 E-value=8.4e-05 Score=56.11 Aligned_cols=55 Identities=15% Similarity=0.241 Sum_probs=44.0
Q ss_pred eeeccchhhHHHHHhcC---CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecc
Q psy11637 9 AVLRPYQEKSLRKMFGN---GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSG 63 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~---~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~ 63 (67)
|+|=..|+++++++... ...-+.++.+..|||||++++..+.. .+..+.+++||-
T Consensus 261 F~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G~Q~ALMAPTE 321 (677)
T COG1200 261 FKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAGYQAALMAPTE 321 (677)
T ss_pred CCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcCCeeEEeccHH
Confidence 55667899999999863 34578899999999999999766554 467888889985
No 137
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.70 E-value=0.00072 Score=44.58 Aligned_cols=49 Identities=16% Similarity=0.222 Sum_probs=29.1
Q ss_pred ccccccceeeccc----hhhHHH---HHhcCCcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 2 TIDLKPSAVLRPY----QEKSLR---KMFGNGRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 2 ~~~l~~~~~lR~y----Q~~av~---~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
++++++...+-++ +..++. ++.......+.++.+|+|+|||+.+.+++.
T Consensus 12 ~~~~~~~~~fd~f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~ 67 (235)
T PRK08084 12 PLYLPDDETFASFYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACA 67 (235)
T ss_pred CCCCCCcCCccccccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence 3445555444333 333443 333333335788899999999998866554
No 138
>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=96.69 E-value=0.00026 Score=49.62 Aligned_cols=49 Identities=16% Similarity=0.141 Sum_probs=35.6
Q ss_pred cccceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 5 LKPSAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
..+.+.+++.-..++-.++..+ ++.++.+|+|+|||.++..++..++.+
T Consensus 43 ~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~~~ 91 (327)
T TIGR01650 43 IDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLNWP 91 (327)
T ss_pred CCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHCCC
Confidence 3445667766666677766554 689999999999999998776655433
No 139
>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=96.66 E-value=0.00027 Score=51.47 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=29.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+-|.|.+.+++.+...+ +-.++.+|||||||++..+++...
T Consensus 225 g~~~~~~~~l~~~~~~~~-GlilitGptGSGKTTtL~a~L~~l 266 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPH-GIILVTGPTGSGKTTTLYAALSRL 266 (486)
T ss_pred CCCHHHHHHHHHHHhcCC-CEEEEEcCCCCCHHHHHHHHHhcc
Confidence 345567777777776431 456788999999999887655543
No 140
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=96.66 E-value=0.0002 Score=46.27 Aligned_cols=44 Identities=20% Similarity=0.363 Sum_probs=30.9
Q ss_pred HHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---E-eeeeEEEee
Q psy11637 18 SLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---V-RKRALVLCN 61 (67)
Q Consensus 18 av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~-~~~~lil~p 61 (67)
.+|+.+..+ .+...+|.+|+|+|||..++.++.. . +.+++++.-
T Consensus 7 ~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ 56 (226)
T PF06745_consen 7 GLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSF 56 (226)
T ss_dssp THHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEES
T ss_pred hHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEe
Confidence 467777543 2456888899999999999877654 2 678887763
No 141
>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=96.60 E-value=0.00072 Score=42.92 Aligned_cols=39 Identities=18% Similarity=0.140 Sum_probs=29.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.+-+.|.+.++..++.+ ...++++|||||||+..-+++.
T Consensus 9 ~~~~~~~~~l~~~v~~g--~~i~I~G~tGSGKTTll~aL~~ 47 (186)
T cd01130 9 TFSPLQAAYLWLAVEAR--KNILISGGTGSGKTTLLNALLA 47 (186)
T ss_pred CCCHHHHHHHHHHHhCC--CEEEEECCCCCCHHHHHHHHHh
Confidence 44456777777777765 6889999999999987755443
No 142
>KOG0345|consensus
Probab=96.60 E-value=0.00038 Score=51.32 Aligned_cols=50 Identities=20% Similarity=0.312 Sum_probs=36.2
Q ss_pred ccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----------eeeeEEEeecce
Q psy11637 12 RPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----------RKRALVLCNSGV 64 (67)
Q Consensus 12 R~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----------~~~~lil~p~~~ 64 (67)
=|-|..++=-++++ ...++.+|||||||..++..+.+. +--.|||+||.-
T Consensus 30 TpVQa~tIPlll~~---KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRE 90 (567)
T KOG0345|consen 30 TPVQAATIPLLLKN---KDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRE 90 (567)
T ss_pred CHHHHhhhHHHhcC---CceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHH
Confidence 45677777777776 678899999999999886544321 124799999863
No 143
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=96.59 E-value=0.00025 Score=55.03 Aligned_cols=53 Identities=15% Similarity=0.222 Sum_probs=36.4
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..+|||=.+.+-.+.-+ ..-+..|+||+|||+++...+.. .+..++|++||..
T Consensus 79 lg~~~ydvQliGg~~Lh---~G~Iaem~TGeGKTL~a~Lpa~~~al~G~~V~VvTpn~y 134 (896)
T PRK13104 79 LGLRHFDVQLIGGMVLH---EGNIAEMRTGEGKTLVATLPAYLNAISGRGVHIVTVNDY 134 (896)
T ss_pred cCCCcchHHHhhhhhhc---cCccccccCCCCchHHHHHHHHHHHhcCCCEEEEcCCHH
Confidence 45667766655554333 34467899999999998755542 3567999999864
No 144
>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=96.57 E-value=0.00065 Score=50.12 Aligned_cols=43 Identities=19% Similarity=0.173 Sum_probs=30.1
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
..+.|.|.+.+++.+... .+..++.+|||||||++..+++...
T Consensus 298 lg~~~~~~~~l~~~~~~~-~Glilv~G~tGSGKTTtl~a~l~~~ 340 (564)
T TIGR02538 298 LGFEPDQKALFLEAIHKP-QGMVLVTGPTGSGKTVSLYTALNIL 340 (564)
T ss_pred cCCCHHHHHHHHHHHHhc-CCeEEEECCCCCCHHHHHHHHHHhh
Confidence 345566777787776542 1567788999999998876555443
No 145
>KOG0330|consensus
Probab=96.57 E-value=0.00044 Score=50.06 Aligned_cols=49 Identities=20% Similarity=0.132 Sum_probs=37.2
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeecce
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSGV 64 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~~ 64 (67)
+-|++++=-.+.+ ++.+..+.||||||..++..+.. ...+.||++||.-
T Consensus 86 ~IQ~~aiP~~L~g---~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRE 140 (476)
T KOG0330|consen 86 KIQSEAIPVALGG---RDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRE 140 (476)
T ss_pred hhhhhhcchhhCC---CcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHH
Confidence 3577777777765 68889999999999988765542 2357999999863
No 146
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.56 E-value=0.0011 Score=40.71 Aligned_cols=41 Identities=20% Similarity=0.268 Sum_probs=25.5
Q ss_pred ccchhhHHHHHhc---CCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 12 RPYQEKSLRKMFG---NGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 12 R~yQ~~av~~~~~---~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
|+.|.+.+...++ .+.....+|.++.|+|||.+...+....
T Consensus 5 R~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~ 48 (185)
T PF13191_consen 5 REEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL 48 (185)
T ss_dssp -HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 7788888888773 2335678899999999998876555443
No 147
>KOG0948|consensus
Probab=96.56 E-value=0.00041 Score=53.68 Aligned_cols=54 Identities=19% Similarity=0.252 Sum_probs=43.3
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~ 64 (67)
.|+|-|+|..++..+-+. .+.++++-|.+|||++|.-+|. +-+.|+++-.|-.+
T Consensus 127 PF~LDpFQ~~aI~Cidr~---eSVLVSAHTSAGKTVVAeYAIA~sLr~kQRVIYTSPIKA 183 (1041)
T KOG0948|consen 127 PFTLDPFQSTAIKCIDRG---ESVLVSAHTSAGKTVVAEYAIAMSLREKQRVIYTSPIKA 183 (1041)
T ss_pred CcccCchHhhhhhhhcCC---ceEEEEeecCCCcchHHHHHHHHHHHhcCeEEeeChhhh
Confidence 478889999999887765 6999999999999999965444 34778888877554
No 148
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=96.55 E-value=0.00013 Score=42.64 Aligned_cols=24 Identities=25% Similarity=0.199 Sum_probs=18.9
Q ss_pred eeEEEeCCCCceeEeeeeEEEEee
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
-+|.+|+|||||+++-.++...+-
T Consensus 2 I~I~G~~gsGKST~a~~La~~~~~ 25 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERLGF 25 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHTC
T ss_pred EEEECCCCCCHHHHHHHHHHHHCC
Confidence 368899999999999777665443
No 149
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=96.54 E-value=0.00049 Score=47.95 Aligned_cols=24 Identities=17% Similarity=0.124 Sum_probs=20.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.+|++|||||||+..-+++...
T Consensus 161 ~nili~G~tgSGKTTll~aL~~~i 184 (332)
T PRK13900 161 KNIIISGGTSTGKTTFTNAALREI 184 (332)
T ss_pred CcEEEECCCCCCHHHHHHHHHhhC
Confidence 789999999999999887666543
No 150
>KOG1806|consensus
Probab=96.53 E-value=0.0012 Score=52.43 Aligned_cols=50 Identities=24% Similarity=0.328 Sum_probs=39.1
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeeccee
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVV 65 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~ 65 (67)
|-|-+++...... +-.++++|+|.|||.++..++.-. ..+++|++|++.|
T Consensus 741 ~~qveai~sg~qp---gltmvvgppgtgktd~avqil~~lyhn~p~qrTlivthsnqa 795 (1320)
T KOG1806|consen 741 PTQVEAILSGMQP---GLTMVVGPPGTGKTDVAVQILSVLYHNSPNQRTLIVTHSNQA 795 (1320)
T ss_pred HHHHHHHHhcCCC---CceeeecCCCCCCcchhhhhhhhhhhcCCCcceEEEEecccc
Confidence 3566666654444 688999999999999998877653 5799999999865
No 151
>KOG0949|consensus
Probab=96.49 E-value=0.00061 Score=53.88 Aligned_cols=54 Identities=24% Similarity=0.311 Sum_probs=41.5
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecceee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSGVVF 66 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~~~v 66 (67)
.+-.+|++.++-.=.. .+++|++||-+|||++..-++.+. .+=+++++|+.++|
T Consensus 511 ~Pd~WQ~elLDsvDr~---eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLV 569 (1330)
T KOG0949|consen 511 CPDEWQRELLDSVDRN---ESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALV 569 (1330)
T ss_pred CCcHHHHHHhhhhhcc---cceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHh
Confidence 3344788877764443 799999999999999998777653 45688999998775
No 152
>KOG0386|consensus
Probab=96.48 E-value=0.00023 Score=55.94 Aligned_cols=59 Identities=17% Similarity=0.277 Sum_probs=47.5
Q ss_pred ceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeecceee
Q psy11637 8 SAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSGVVF 66 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~~~v 66 (67)
..+||+||...+++...- +.+-+|++---+|-|||+-.++++.. ..+|.||+||+.+++
T Consensus 392 GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~ 457 (1157)
T KOG0386|consen 392 GGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLV 457 (1157)
T ss_pred CCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccC
Confidence 468999999999986541 22268999999999999888777654 478999999998764
No 153
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.41 E-value=0.0011 Score=44.72 Aligned_cols=38 Identities=13% Similarity=0.068 Sum_probs=24.8
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
...+.+.++++.+...+.++.+|+|+|||+++..++..
T Consensus 22 ~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 22 EVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred HHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 33444444555542236889999999999988665443
No 154
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=96.40 E-value=0.00059 Score=44.88 Aligned_cols=45 Identities=11% Similarity=0.174 Sum_probs=32.8
Q ss_pred hhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 16 EKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 16 ~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
.+.+|+.+..+ .+...+|.+|+|+|||+.++.++.. .+.+++++.
T Consensus 7 i~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs 56 (237)
T TIGR03877 7 IPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA 56 (237)
T ss_pred cHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence 35677777653 2456788899999999999876653 366777775
No 155
>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=96.37 E-value=0.00026 Score=43.93 Aligned_cols=31 Identities=13% Similarity=0.091 Sum_probs=24.0
Q ss_pred eeEEEeCCCCceeEeeeeEEE---EeeeeEEEee
Q psy11637 31 GVIVLPCGAGKSLVGVTACCT---VRKRALVLCN 61 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p 61 (67)
.+|.+|+|+|||.+++.++.. .+++++++.-
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~ 35 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTL 35 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 478899999999999876553 4677887753
No 156
>PHA02244 ATPase-like protein
Probab=96.34 E-value=0.00048 Score=49.25 Aligned_cols=41 Identities=10% Similarity=0.118 Sum_probs=29.9
Q ss_pred hHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 17 KSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 17 ~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
..+.+|++.+ ...++.+|||+|||.++.+++...+.+.+.+
T Consensus 110 ~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~lg~pfv~I 150 (383)
T PHA02244 110 ADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEALDLDFYFM 150 (383)
T ss_pred HHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhCCCEEEE
Confidence 3445666665 6788999999999999987776666554443
No 157
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=96.34 E-value=0.00044 Score=54.71 Aligned_cols=56 Identities=23% Similarity=0.201 Sum_probs=43.7
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
.+.|-+-|++|++.+...+ +..+|.++.|+|||++.-.+.. ..+.+++.++||..|
T Consensus 379 ~~~Ls~eQ~~Av~~i~~~~--r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTgkA 437 (1102)
T PRK13826 379 HARLSDEQKTAIEHVAGPA--RIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAGKA 437 (1102)
T ss_pred CCCCCHHHHHHHHHHhccC--CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcHHH
Confidence 3578889999999986443 6788999999999998866544 346788888988644
No 158
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.0017 Score=45.93 Aligned_cols=48 Identities=17% Similarity=0.166 Sum_probs=36.1
Q ss_pred cccceeeccchhhHHHHHhc----CCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 5 LKPSAVLRPYQEKSLRKMFG----NGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~~----~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+++...-|+-|.+.+..++. ++...+.+|.+|||+|||.++-.++.++
T Consensus 15 iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l 66 (366)
T COG1474 15 IPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEEL 66 (366)
T ss_pred CcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHH
Confidence 34456778889988887664 3445679999999999999887666553
No 159
>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=96.33 E-value=0.0014 Score=44.87 Aligned_cols=45 Identities=24% Similarity=0.168 Sum_probs=32.5
Q ss_pred cceeeccchhhHHHHHhc----CCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 7 PSAVLRPYQEKSLRKMFG----NGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~----~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..+.-|+.|.+.+..++. .+...+.+|.+|+|+|||.++-.+...
T Consensus 15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~ 63 (365)
T TIGR02928 15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE 63 (365)
T ss_pred CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 345567788888877664 223467899999999999988666543
No 160
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=96.32 E-value=0.00029 Score=50.13 Aligned_cols=27 Identities=22% Similarity=0.351 Sum_probs=21.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
.+.++++|||||||+.+..++..++-|
T Consensus 98 SNILLiGPTGsGKTlLAqTLAk~LnVP 124 (408)
T COG1219 98 SNILLIGPTGSGKTLLAQTLAKILNVP 124 (408)
T ss_pred ccEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 478899999999999987776655444
No 161
>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=96.29 E-value=0.00059 Score=43.83 Aligned_cols=44 Identities=23% Similarity=0.400 Sum_probs=32.0
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
+.+|+.+..+ .+....|.+++|+|||..++.++.. .+++++++.
T Consensus 6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 4577777643 2356788899999999999887754 356777763
No 162
>KOG1132|consensus
Probab=96.28 E-value=0.00096 Score=51.89 Aligned_cols=43 Identities=23% Similarity=0.289 Sum_probs=34.0
Q ss_pred ccccceeeccchhhHHHHHhcCC-cceeeeEEEeCCCCceeEee
Q psy11637 4 DLKPSAVLRPYQEKSLRKMFGNG-RARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 4 ~l~~~~~lR~yQ~~av~~~~~~~-~~~~~~i~~pTGsGKT~i~~ 46 (67)
+..+.++++|-|...+.+++... ...++++-.|||+|||+-.+
T Consensus 15 ~V~fP~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLL 58 (945)
T KOG1132|consen 15 PVEFPFQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLL 58 (945)
T ss_pred eeeccCCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHH
Confidence 44567788999999999988752 23679999999999997554
No 163
>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=96.25 E-value=0.00018 Score=41.96 Aligned_cols=29 Identities=14% Similarity=0.124 Sum_probs=22.3
Q ss_pred eEEEeCCCCceeEeeeeEEEEeeeeEEEe
Q psy11637 32 VIVLPCGAGKSLVGVTACCTVRKRALVLC 60 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~~~~~lil~ 60 (67)
++++|+|+|||.++-.++...+.+++.+.
T Consensus 2 ll~G~~G~GKT~l~~~la~~l~~~~~~i~ 30 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYLGFPFIEID 30 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHTTSEEEEEE
T ss_pred EEECcCCCCeeHHHHHHHhhccccccccc
Confidence 68899999999998877776665554443
No 164
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=96.24 E-value=0.0016 Score=43.50 Aligned_cols=36 Identities=17% Similarity=0.220 Sum_probs=24.0
Q ss_pred hhhHHHH---HhcCCcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 15 QEKSLRK---MFGNGRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 15 Q~~av~~---~~~~~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
|.++++. +++.+...+.++.+|+|+|||.++..++.
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~ 60 (319)
T PRK00440 22 QEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAR 60 (319)
T ss_pred cHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence 5555544 44443334578999999999988865544
No 165
>PRK11054 helD DNA helicase IV; Provisional
Probab=96.23 E-value=0.00035 Score=52.78 Aligned_cols=53 Identities=23% Similarity=0.248 Sum_probs=38.9
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-------EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-------VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-------~~~~~lil~p~~~~ 65 (67)
+..|.+.|++|+.. .. ++.+|.+..|||||.+...-+.. ...++|+++.++.|
T Consensus 194 ~~~L~~~Q~~av~~---~~--~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~A 253 (684)
T PRK11054 194 SSPLNPSQARAVVN---GE--DSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQA 253 (684)
T ss_pred CCCCCHHHHHHHhC---CC--CCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHH
Confidence 45788899998863 21 46789999999999998765422 24588988887644
No 166
>PLN03025 replication factor C subunit; Provisional
Probab=96.20 E-value=0.00083 Score=45.91 Aligned_cols=38 Identities=16% Similarity=0.233 Sum_probs=26.2
Q ss_pred chhhHHHH---HhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRK---MFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~---~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.|.++++. +...+...+.++.+|+|+|||..+..++..
T Consensus 17 g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~ 57 (319)
T PLN03025 17 GNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHE 57 (319)
T ss_pred CcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 46666554 444433346789999999999888766554
No 167
>PLN02165 adenylate isopentenyltransferase
Probab=96.19 E-value=0.00037 Score=48.99 Aligned_cols=25 Identities=28% Similarity=0.318 Sum_probs=20.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
...+|.+|||||||.++..++...+
T Consensus 44 ~iivIiGPTGSGKStLA~~LA~~l~ 68 (334)
T PLN02165 44 KVVVIMGATGSGKSRLSVDLATRFP 68 (334)
T ss_pred CEEEEECCCCCcHHHHHHHHHHHcC
Confidence 5678889999999999987766544
No 168
>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=96.18 E-value=0.00038 Score=45.13 Aligned_cols=32 Identities=19% Similarity=0.298 Sum_probs=21.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~ 60 (67)
+..++++|||+|||++..-++.+. +.++.+++
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis 36 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS 36 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence 346789999999999987666542 44554443
No 169
>PRK08727 hypothetical protein; Validated
Probab=96.18 E-value=0.00097 Score=43.92 Aligned_cols=31 Identities=19% Similarity=0.361 Sum_probs=21.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
...++.+|+|+|||+.+.+++.. .+.+++++
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~ 75 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYL 75 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 34788899999999988776443 23455544
No 170
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=96.17 E-value=0.0023 Score=41.42 Aligned_cols=24 Identities=17% Similarity=0.061 Sum_probs=19.3
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+..++.+|+|+|||+.+.++...
T Consensus 42 ~~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 357888999999999988766543
No 171
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.17 E-value=0.00065 Score=45.67 Aligned_cols=32 Identities=19% Similarity=0.297 Sum_probs=24.7
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
..+.++.+|+|+|||+++.++..++ +.+++|+
T Consensus 105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~ 139 (254)
T COG1484 105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFI 139 (254)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEE
Confidence 3789999999999999998876653 3455554
No 172
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=96.16 E-value=0.00048 Score=54.56 Aligned_cols=58 Identities=22% Similarity=0.259 Sum_probs=44.9
Q ss_pred ceeeccchhhHHHHHhcC---CcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGN---GRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~---~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~~ 65 (67)
.+.-=|=|..|++++.+. +..-..+|++..|.|||-||+-++-. -++-+.|+|||+.+
T Consensus 592 PyeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPTTlL 655 (1139)
T COG1197 592 PYEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPTTLL 655 (1139)
T ss_pred CCcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcCCCeEEEEcccHHh
Confidence 344445599999998863 44577899999999999999866554 36789999999754
No 173
>KOG0340|consensus
Probab=96.16 E-value=0.0016 Score=46.86 Aligned_cols=51 Identities=22% Similarity=0.221 Sum_probs=39.6
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-E-----eeeeEEEeecc
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-V-----RKRALVLCNSG 63 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-~-----~~~~lil~p~~ 63 (67)
+.-|-|+.++-+++++ ++.+-.+-||||||.-+..-+.. + +-..+|+.||.
T Consensus 29 ~pTpiQ~~cIpkILeG---rdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTr 85 (442)
T KOG0340|consen 29 KPTPIQQACIPKILEG---RDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTR 85 (442)
T ss_pred CCCchHhhhhHHHhcc---cccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchH
Confidence 4457799999999987 68888999999999877554432 2 44789999885
No 174
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=96.16 E-value=0.00095 Score=43.12 Aligned_cols=45 Identities=24% Similarity=0.356 Sum_probs=32.5
Q ss_pred hhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 16 EKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 16 ~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
.+.+|+.+..+ .+....+.+|+|+|||.+++.++.. .+.+++++.
T Consensus 9 i~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~ 58 (225)
T PRK09361 9 CKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID 58 (225)
T ss_pred cHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 34578888643 2456788999999999999877653 356777664
No 175
>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=96.15 E-value=0.00081 Score=47.68 Aligned_cols=23 Identities=26% Similarity=0.323 Sum_probs=18.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+..+|++|||||||+...+++..
T Consensus 150 GlilI~G~TGSGKTT~l~al~~~ 172 (372)
T TIGR02525 150 GLGLICGETGSGKSTLAASIYQH 172 (372)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 56788999999999998776543
No 176
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=96.14 E-value=0.00051 Score=43.78 Aligned_cols=42 Identities=21% Similarity=0.359 Sum_probs=29.3
Q ss_pred HHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEee
Q psy11637 20 RKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCN 61 (67)
Q Consensus 20 ~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p 61 (67)
|+++..+ .+....|.+|+|+|||..++.++.. .+.+++++.-
T Consensus 2 D~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~ 48 (209)
T TIGR02237 2 DELLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDT 48 (209)
T ss_pred hhhhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEC
Confidence 4555543 2466888899999999999877653 3567777653
No 177
>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins. GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding
Probab=96.10 E-value=0.0028 Score=46.23 Aligned_cols=43 Identities=12% Similarity=0.236 Sum_probs=34.1
Q ss_pred HHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE--eeeeEEEeec
Q psy11637 20 RKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV--RKRALVLCNS 62 (67)
Q Consensus 20 ~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~--~~~~lil~p~ 62 (67)
+++|..+.+...+|.+.+|+|||+.++.++..+ ..+++++..+
T Consensus 2 ~~FF~~~~G~TLLIKG~PGTGKTtfaLelL~~l~~~~~v~YISTR 46 (484)
T PF07088_consen 2 KRFFTQEPGQTLLIKGEPGTGKTTFALELLNSLKDHGNVMYISTR 46 (484)
T ss_pred chhhcCCCCcEEEEecCCCCCceeeehhhHHHHhccCCeEEEEec
Confidence 467766555788889999999999999888765 4567888766
No 178
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.09 E-value=0.0009 Score=44.36 Aligned_cols=44 Identities=23% Similarity=0.394 Sum_probs=32.9
Q ss_pred HHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeec
Q psy11637 19 LRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNS 62 (67)
Q Consensus 19 v~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~ 62 (67)
+++++..+ .++..+|.+++|+|||+.++.++.. .+.|+++++-.
T Consensus 12 lD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~ 60 (260)
T COG0467 12 LDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTE 60 (260)
T ss_pred hHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEec
Confidence 56777642 3467888999999999999887764 36788887643
No 179
>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=96.09 E-value=0.00037 Score=46.90 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=20.9
Q ss_pred eeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
-+|.+|||+|||-.+..++.+.+.++++
T Consensus 4 ~~i~GpT~tGKt~~ai~lA~~~g~pvI~ 31 (233)
T PF01745_consen 4 YLIVGPTGTGKTALAIALAQKTGAPVIS 31 (233)
T ss_dssp EEEE-STTSSHHHHHHHHHHHH--EEEE
T ss_pred EEEECCCCCChhHHHHHHHHHhCCCEEE
Confidence 4688999999999998888877777654
No 180
>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=96.08 E-value=0.0015 Score=44.68 Aligned_cols=23 Identities=17% Similarity=0.109 Sum_probs=19.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+.++++|||||||+..-+++..
T Consensus 145 ~~ili~G~tGsGKTTll~al~~~ 167 (308)
T TIGR02788 145 KNIIISGGTGSGKTTFLKSLVDE 167 (308)
T ss_pred CEEEEECCCCCCHHHHHHHHHcc
Confidence 68999999999999987665544
No 181
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=96.05 E-value=0.0004 Score=52.07 Aligned_cols=51 Identities=14% Similarity=0.197 Sum_probs=36.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----E---eeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----V---RKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~---~~~~lil~p~~~~ 65 (67)
.|.|-|++|+... . +..+|.+.+|||||.+...-+.. . ..++|+++-|+-|
T Consensus 2 ~Ln~~Q~~av~~~--~---g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kA 59 (672)
T PRK10919 2 RLNPGQQQAVEFV--T---GPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKA 59 (672)
T ss_pred CCCHHHHHHHhCC--C---CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHH
Confidence 4678899988742 2 57889999999999887543332 1 3568888877643
No 182
>KOG0328|consensus
Probab=96.05 E-value=0.017 Score=40.88 Aligned_cols=48 Identities=17% Similarity=0.288 Sum_probs=37.4
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-E-----eeeeEEEeecce
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-V-----RKRALVLCNSGV 64 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-~-----~~~~lil~p~~~ 64 (67)
-|+.|+-.++++ ++.+..+-.|+|||.++.--+.. . .-.+||+.||.-
T Consensus 53 IQqrAi~~IlkG---rdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRE 106 (400)
T KOG0328|consen 53 IQQRAIPQILKG---RDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRE 106 (400)
T ss_pred HHhhhhhhhhcc---cceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHH
Confidence 499999999987 68888999999999887543332 1 346899999863
No 183
>PF12846 AAA_10: AAA-like domain
Probab=96.05 E-value=0.00044 Score=45.20 Aligned_cols=31 Identities=16% Similarity=0.176 Sum_probs=22.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
.+.+|.++||+|||+.+..++.. .+.+++++
T Consensus 2 ~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~ 35 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIF 35 (304)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEE
Confidence 57899999999999888766553 24444444
No 184
>KOG0389|consensus
Probab=96.03 E-value=0.00049 Score=53.16 Aligned_cols=61 Identities=18% Similarity=0.219 Sum_probs=46.5
Q ss_pred cccceeeccchhhHHHHHh-cCCcceeeeEEEeCCCCceeEeeeeEEE-----EeeeeEEEeeccee
Q psy11637 5 LKPSAVLRPYQEKSLRKMF-GNGRARSGVIVLPCGAGKSLVGVTACCT-----VRKRALVLCNSGVV 65 (67)
Q Consensus 5 l~~~~~lR~yQ~~av~~~~-~~~~~~~~~i~~pTGsGKT~i~~~~~~~-----~~~~~lil~p~~~~ 65 (67)
+++.++|.|||.-.+.+.. -+.++-+|++--..|-|||.-+.++... ..+|=|||||+++.
T Consensus 394 l~s~i~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTl 460 (941)
T KOG0389|consen 394 LSSGIQLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTL 460 (941)
T ss_pred cCCCCcccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhH
Confidence 5567899999999999843 1222368999999999999877655443 26799999998753
No 185
>PRK13342 recombination factor protein RarA; Reviewed
Probab=96.00 E-value=0.00099 Score=47.15 Aligned_cols=39 Identities=26% Similarity=0.310 Sum_probs=26.7
Q ss_pred HHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 19 LRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 19 v~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
+.++++.+...+.++.+|+|+|||+++..++...+.+.+
T Consensus 27 L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~ 65 (413)
T PRK13342 27 LRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFE 65 (413)
T ss_pred HHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence 444555544457889999999999998776654444333
No 186
>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=95.99 E-value=0.00046 Score=41.34 Aligned_cols=28 Identities=18% Similarity=0.290 Sum_probs=21.4
Q ss_pred eeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
.++.+|+|+|||.++-.++...+.+.+.
T Consensus 2 vlL~G~~G~GKt~l~~~la~~~~~~~~~ 29 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAALLGRPVIR 29 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHTCEEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHhhcceEE
Confidence 5789999999999987777665555433
No 187
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=95.98 E-value=0.00068 Score=47.77 Aligned_cols=24 Identities=21% Similarity=0.153 Sum_probs=18.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+-.++.+|||||||++.++.+...
T Consensus 126 GLILVTGpTGSGKSTTlAamId~i 149 (353)
T COG2805 126 GLILVTGPTGSGKSTTLAAMIDYI 149 (353)
T ss_pred ceEEEeCCCCCcHHHHHHHHHHHH
Confidence 345566999999999988877654
No 188
>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=95.94 E-value=0.0013 Score=45.67 Aligned_cols=33 Identities=21% Similarity=0.158 Sum_probs=22.9
Q ss_pred HHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 18 SLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 18 av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+.+++... .+..+|.+|||||||++..+++..
T Consensus 113 ~l~~~~~~~-~g~ili~G~tGSGKTT~l~al~~~ 145 (343)
T TIGR01420 113 VLRELAERP-RGLILVTGPTGSGKSTTLASMIDY 145 (343)
T ss_pred HHHHHHhhc-CcEEEEECCCCCCHHHHHHHHHHh
Confidence 344444322 267889999999999998766553
No 189
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=95.93 E-value=0.00027 Score=57.25 Aligned_cols=33 Identities=24% Similarity=0.385 Sum_probs=23.9
Q ss_pred EEEeCCCCceeEeee-eEEE---------------EeeeeEEEeeccee
Q psy11637 33 IVLPCGAGKSLVGVT-ACCT---------------VRKRALVLCNSGVV 65 (67)
Q Consensus 33 i~~pTGsGKT~i~~~-~~~~---------------~~~~~lil~p~~~~ 65 (67)
|++|||||||.++.. ++.+ .+.++|||+|++++
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKAL 49 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKAL 49 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHH
Confidence 478999999999865 2211 13579999998754
No 190
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.93 E-value=0.00062 Score=39.94 Aligned_cols=24 Identities=29% Similarity=0.238 Sum_probs=17.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+..+|.+|+|+|||.++..++...
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~ 28 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQL 28 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHH
T ss_pred cccEEEcCCCCCHHHHHHHHHHHh
Confidence 578899999999999887776653
No 191
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=95.91 E-value=0.0014 Score=54.28 Aligned_cols=57 Identities=12% Similarity=0.064 Sum_probs=42.2
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeee----eE---EEEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVT----AC---CTVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~----~~---~~~~~~~lil~p~~~~ 65 (67)
...|-+.|++|++.++.... +..+|.++.|+|||++... +. ...+.+++.++||..|
T Consensus 1017 ~~~Lt~~Q~~Ai~~il~~~~-~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~A 1080 (1960)
T TIGR02760 1017 LERLTHGQKQAIHLIISTKD-RFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEA 1080 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCCC-cEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHH
Confidence 45688899999999986531 5678889999999998832 21 1235678889998755
No 192
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=95.89 E-value=0.00077 Score=51.91 Aligned_cols=53 Identities=17% Similarity=0.250 Sum_probs=35.2
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..+|||=.+.+-.+.-+ ...+.-|.||+|||+++...+.. .+..+.+++|+..
T Consensus 77 ~g~~~~dvQlig~l~l~---~G~iaEm~TGEGKTLvA~l~a~l~al~G~~v~vvT~ney 132 (796)
T PRK12906 77 LGLRPFDVQIIGGIVLH---EGNIAEMKTGEGKTLTATLPVYLNALTGKGVHVVTVNEY 132 (796)
T ss_pred hCCCCchhHHHHHHHHh---cCCcccccCCCCCcHHHHHHHHHHHHcCCCeEEEeccHH
Confidence 34566644444443322 22377899999999999765543 4778889998864
No 193
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.88 E-value=0.0013 Score=47.67 Aligned_cols=44 Identities=16% Similarity=0.295 Sum_probs=33.1
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~ 60 (67)
+.+|+++..+ .+...+|.+|+|+|||+.++.++.. .+++.+++.
T Consensus 8 ~gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs 57 (484)
T TIGR02655 8 EGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVT 57 (484)
T ss_pred hhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 4577777653 3467888999999999999887654 256887775
No 194
>KOG0344|consensus
Probab=95.83 E-value=0.0022 Score=47.94 Aligned_cols=52 Identities=25% Similarity=0.322 Sum_probs=38.2
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-----------EeeeeEEEeecce
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-----------VRKRALVLCNSGV 64 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-----------~~~~~lil~p~~~ 64 (67)
.+-|-|.+|+--++.. +..+.++|||+|||+-+..-+.. .+-+.+|+.|+..
T Consensus 158 ~Pt~iq~~aipvfl~~---r~~lAcapTGsgKtlaf~~Pil~~L~~~~~~~~~~gl~a~Il~ptre 220 (593)
T KOG0344|consen 158 EPTPIQKQAIPVFLEK---RDVLACAPTGSGKTLAFNLPILQHLKDLSQEKHKVGLRALILSPTRE 220 (593)
T ss_pred CCCcccchhhhhhhcc---cceEEeccCCCcchhhhhhHHHHHHHHhhcccCccceEEEEecchHH
Confidence 3446688888777776 68999999999998777543321 2357899998753
No 195
>KOG0342|consensus
Probab=95.82 E-value=0.0021 Score=47.49 Aligned_cols=50 Identities=18% Similarity=0.377 Sum_probs=37.1
Q ss_pred ccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE----------eeeeEEEeecce
Q psy11637 12 RPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV----------RKRALVLCNSGV 64 (67)
Q Consensus 12 R~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~----------~~~~lil~p~~~ 64 (67)
=+-|+..+..++.. ++.+..+-||+|||+.++-.+-+. +-.++|++||.-
T Consensus 106 T~VQ~~ti~pll~g---kDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRE 165 (543)
T KOG0342|consen 106 TPVQQKTIPPLLEG---KDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRE 165 (543)
T ss_pred hHHHHhhcCccCCC---ccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHH
Confidence 34577777777776 588999999999999887544321 336899999863
No 196
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=95.81 E-value=0.0016 Score=45.58 Aligned_cols=35 Identities=17% Similarity=0.120 Sum_probs=24.3
Q ss_pred hhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 15 QEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 15 Q~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+.+.++.+.+.+ .+.+++++||+|||+...+++..
T Consensus 167 ~~~~L~~~v~~~--~~ili~G~tGsGKTTll~al~~~ 201 (340)
T TIGR03819 167 VARLLRAIVAAR--LAFLISGGTGSGKTTLLSALLAL 201 (340)
T ss_pred HHHHHHHHHhCC--CeEEEECCCCCCHHHHHHHHHcc
Confidence 344444444443 68999999999999877655544
No 197
>KOG0391|consensus
Probab=95.81 E-value=0.00048 Score=55.45 Aligned_cols=58 Identities=19% Similarity=0.320 Sum_probs=44.2
Q ss_pred ceeeccchhhHHHHHhc-CCcceeeeEEEeCCCCceeEeeeeEEEE------eeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFG-NGRARSGVIVLPCGAGKSLVGVTACCTV------RKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~-~~~~~~~~i~~pTGsGKT~i~~~~~~~~------~~~~lil~p~~~~ 65 (67)
...||+||...+++... +.++-+|++.--.|-|||+-.+++..++ =++-||||||.+.
T Consensus 613 rGqLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsvi 677 (1958)
T KOG0391|consen 613 RGQLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVI 677 (1958)
T ss_pred HHHHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhh
Confidence 46899999999998553 2223789999999999998776544332 3688999999764
No 198
>PRK04328 hypothetical protein; Provisional
Probab=95.80 E-value=0.0016 Score=43.28 Aligned_cols=44 Identities=11% Similarity=0.172 Sum_probs=31.6
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
+.+|+.+..+ .+...+|.+|+|+|||..++.++.. .+.+++++.
T Consensus 10 ~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis 58 (249)
T PRK04328 10 PGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA 58 (249)
T ss_pred hhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence 4677877653 2456778899999999998876653 356777664
No 199
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=95.77 E-value=0.0019 Score=49.72 Aligned_cols=37 Identities=30% Similarity=0.419 Sum_probs=25.4
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeE
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~ 49 (67)
.+|+|-.--++..+.. +-.+|++|||||||++.-++.
T Consensus 10 Nf~S~~~~~~~~~f~~---gi~lI~G~nGsGKSSIldAI~ 46 (908)
T COG0419 10 NFRSFKDIDIEKLFDS---GIFLIVGPNGAGKSSILDAIT 46 (908)
T ss_pred ccccccccceeecCCC---CeEEEECCCCCcHHHHHHHHH
Confidence 4677763333333443 688999999999999875543
No 200
>PRK06893 DNA replication initiation factor; Validated
Probab=95.75 E-value=0.0024 Score=41.91 Aligned_cols=22 Identities=18% Similarity=-0.156 Sum_probs=18.1
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..++.+|+|+|||+.+.+++..
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~ 62 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNH 62 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4578999999999998777654
No 201
>PRK04195 replication factor C large subunit; Provisional
Probab=95.75 E-value=0.0019 Score=46.61 Aligned_cols=32 Identities=16% Similarity=0.176 Sum_probs=24.0
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
....++.+|+|+|||+++.+++...+..++.+
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~el~~~~iel 70 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALANDYGWEVIEL 70 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHcCCCEEEE
Confidence 46788999999999999877766655444433
No 202
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.74 E-value=0.0016 Score=47.20 Aligned_cols=38 Identities=29% Similarity=0.349 Sum_probs=28.0
Q ss_pred hhhHH------HHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 15 QEKSL------RKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 15 Q~~av------~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
|+..+ .+.++.++-.+.++-+|+|+|||+++-.++...
T Consensus 29 Q~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~ 72 (436)
T COG2256 29 QEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT 72 (436)
T ss_pred hHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh
Confidence 77666 345565556789999999999999986655443
No 203
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=95.73 E-value=0.00099 Score=51.93 Aligned_cols=52 Identities=21% Similarity=0.256 Sum_probs=35.6
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeecce
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGV 64 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~ 64 (67)
.+|||=.+.+-.+.-+ ..-+.-|.||.|||+++...+. ..+..+.|++|+..
T Consensus 80 Gm~~ydVQliGg~~Lh---~G~iaEM~TGEGKTLvA~l~a~l~al~G~~VhvvT~ndy 134 (913)
T PRK13103 80 GMRHFDVQLIGGMTLH---EGKIAEMRTGEGKTLVGTLAVYLNALSGKGVHVVTVNDY 134 (913)
T ss_pred CCCcchhHHHhhhHhc---cCccccccCCCCChHHHHHHHHHHHHcCCCEEEEeCCHH
Confidence 4566655555543333 3456679999999999875554 35788999998864
No 204
>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=95.73 E-value=0.0013 Score=44.12 Aligned_cols=26 Identities=15% Similarity=0.137 Sum_probs=20.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.+.++.+|+|+|||..+..++...+.
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~~~~ 56 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANEMGV 56 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 46889999999999998777665543
No 205
>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=95.72 E-value=0.0021 Score=43.01 Aligned_cols=33 Identities=21% Similarity=0.043 Sum_probs=25.4
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
+...+|.+|+|+|||..++.++.. .+++++++.
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis 71 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT 71 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence 356778899999999999876553 356787775
No 206
>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=95.68 E-value=0.0015 Score=42.35 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=29.1
Q ss_pred HHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEEE----eeeeEEEe
Q psy11637 19 LRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCTV----RKRALVLC 60 (67)
Q Consensus 19 v~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~~----~~~~lil~ 60 (67)
+++++.+ ..+...+|.+++|+|||..++.++... +.+++++.
T Consensus 3 LD~~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s 49 (242)
T cd00984 3 LDNLTGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS 49 (242)
T ss_pred hhhhhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence 4455542 123567889999999999988776542 66777775
No 207
>KOG0384|consensus
Probab=95.68 E-value=0.00091 Score=53.53 Aligned_cols=57 Identities=19% Similarity=0.223 Sum_probs=43.4
Q ss_pred ceeeccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~~ 64 (67)
.-+||+||-+.+.+.+.. -...++++.--.|-|||+-...++.. ..+|.||++|-.+
T Consensus 368 g~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst 431 (1373)
T KOG0384|consen 368 GNELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLST 431 (1373)
T ss_pred cchhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhh
Confidence 368999999999874421 11268999999999999887655443 5789999999754
No 208
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=95.67 E-value=0.0012 Score=51.54 Aligned_cols=53 Identities=17% Similarity=0.217 Sum_probs=35.0
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
+.+|||=.+.+-.+.-+ ..-+..|+||.|||++++..+.. .+..++|++|+..
T Consensus 79 lgm~~ydVQliGgl~L~---~G~IaEm~TGEGKTL~a~lp~~l~al~g~~VhIvT~ndy 134 (908)
T PRK13107 79 FEMRHFDVQLLGGMVLD---SNRIAEMRTGEGKTLTATLPAYLNALTGKGVHVITVNDY 134 (908)
T ss_pred hCCCcCchHHhcchHhc---CCccccccCCCCchHHHHHHHHHHHhcCCCEEEEeCCHH
Confidence 34566655555443332 34567899999999998755542 3567899998864
No 209
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.67 E-value=0.0016 Score=45.41 Aligned_cols=50 Identities=20% Similarity=0.192 Sum_probs=32.0
Q ss_pred eeccchhhHHHH---HhcC--CcceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 10 VLRPYQEKSLRK---MFGN--GRARSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 10 ~lR~yQ~~av~~---~~~~--~~~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
..|.+++.+++. |.+. ....+.++.+|||+|||+.+.+++..+ +..++++
T Consensus 160 ~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~ 217 (329)
T PRK06835 160 SPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYR 217 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEE
Confidence 445556666653 3331 122678889999999999998776653 3455544
No 210
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=95.66 E-value=0.0021 Score=37.21 Aligned_cols=19 Identities=21% Similarity=0.097 Sum_probs=15.1
Q ss_pred eEEEeCCCCceeEeeeeEE
Q psy11637 32 VIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~ 50 (67)
+|.+++|||||+++-.+..
T Consensus 2 ~i~G~~GsGKtTia~~L~~ 20 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAE 20 (129)
T ss_dssp EEEESTTSSHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 5789999999998865443
No 211
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=95.66 E-value=0.002 Score=45.40 Aligned_cols=23 Identities=22% Similarity=0.085 Sum_probs=19.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+..+|++|||||||++..+++..
T Consensus 135 glilI~GpTGSGKTTtL~aLl~~ 157 (358)
T TIGR02524 135 GIVFITGATGSGKSTLLAAIIRE 157 (358)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 67888999999999988766543
No 212
>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=95.64 E-value=0.00073 Score=40.18 Aligned_cols=30 Identities=13% Similarity=0.295 Sum_probs=21.9
Q ss_pred eeEEEeCCCCceeEeeeeEEEE---eeeeEEEe
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTV---RKRALVLC 60 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~ 60 (67)
.+|.+|+|+|||.++..++... +++++++.
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~ 34 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVD 34 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence 4688999999999887665543 45666554
No 213
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.63 E-value=0.0018 Score=46.90 Aligned_cols=45 Identities=22% Similarity=0.299 Sum_probs=32.8
Q ss_pred hhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 16 EKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 16 ~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
.+.+|+.+..+ .+...+|.+|+|+|||+.++.++.. .+.+++++.
T Consensus 249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s 298 (484)
T TIGR02655 249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA 298 (484)
T ss_pred hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 44567777653 2456788899999999999887764 356777764
No 214
>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=95.62 E-value=0.0015 Score=45.18 Aligned_cols=34 Identities=24% Similarity=0.405 Sum_probs=27.2
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecc
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSG 63 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~ 63 (67)
..+|.+.+|||||++++.++..+ +.+.++++++.
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~ 41 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNH 41 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecc
Confidence 46788999999999999887765 56777887764
No 215
>PHA02774 E1; Provisional
Probab=95.60 E-value=0.0025 Score=47.96 Aligned_cols=46 Identities=20% Similarity=0.234 Sum_probs=33.9
Q ss_pred HHHHHhcCCc-ceeeeEEEeCCCCceeEeeeeEEEEeeeeEEEeecc
Q psy11637 18 SLRKMFGNGR-ARSGVIVLPCGAGKSLVGVTACCTVRKRALVLCNSG 63 (67)
Q Consensus 18 av~~~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~~ 63 (67)
+++.|++... ....++.+|+|+|||..+++++..++++++-.++..
T Consensus 423 ~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~~ 469 (613)
T PHA02774 423 ALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNSK 469 (613)
T ss_pred HHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEECc
Confidence 3455665433 245778899999999999999988877777666654
No 216
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=95.60 E-value=0.0014 Score=53.66 Aligned_cols=56 Identities=20% Similarity=0.118 Sum_probs=41.9
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---E----EeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---T----VRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~----~~~~~lil~p~~~~ 65 (67)
..|-+-|++|+..++.... +..+|.+..|+|||++.-.++. . .+.+++.++||.-|
T Consensus 834 ~~Lt~~Qr~Av~~iLts~d-r~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkA 896 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSD-RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRA 896 (1623)
T ss_pred cccCHHHHHHHHHHHhCCC-ceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHH
Confidence 4678899999999997531 6788999999999998643322 1 24568889998655
No 217
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=95.60 E-value=0.0024 Score=53.01 Aligned_cols=57 Identities=12% Similarity=0.151 Sum_probs=44.6
Q ss_pred ceeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeeccee
Q psy11637 8 SAVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGVV 65 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~~ 65 (67)
.+.|-+-|++|+..++.... +..+|.++.|+|||.+.-.+.. ..+.+++.++||..|
T Consensus 427 ~~~Ls~~Q~~Av~~il~s~~-~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPTgrA 486 (1960)
T TIGR02760 427 EFALSPSNKDAVSTLFTSTK-RFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAGSLS 486 (1960)
T ss_pred cCCCCHHHHHHHHHHHhCCC-CeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCCHHH
Confidence 35677889999999987531 6788899999999998865543 347789999998643
No 218
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=95.59 E-value=0.0023 Score=38.04 Aligned_cols=20 Identities=25% Similarity=0.282 Sum_probs=15.9
Q ss_pred eeEEEeCCCCceeEeeeeEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~ 50 (67)
.++++|+|||||+.+-.+..
T Consensus 2 ii~~G~pgsGKSt~a~~l~~ 21 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLAK 21 (143)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 36789999999998866553
No 219
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=95.57 E-value=0.0021 Score=44.74 Aligned_cols=41 Identities=22% Similarity=0.430 Sum_probs=32.4
Q ss_pred eeccchhhHHHHHhcCCc-ceeeeEEEeCCCCceeEeeeeEE
Q psy11637 10 VLRPYQEKSLRKMFGNGR-ARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.+.|+|+...++++..+. .+.-++.+|.|.|||.++..++.
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~ 44 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAA 44 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHH
Confidence 458999999999997654 34567899999999988865543
No 220
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.56 E-value=0.0016 Score=44.57 Aligned_cols=27 Identities=15% Similarity=0.128 Sum_probs=21.2
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.++.++.+|+|+|||.++..++...+.
T Consensus 51 ~~~~ll~GppG~GKT~la~~ia~~l~~ 77 (328)
T PRK00080 51 LDHVLLYGPPGLGKTTLANIIANEMGV 77 (328)
T ss_pred CCcEEEECCCCccHHHHHHHHHHHhCC
Confidence 357889999999999998776655443
No 221
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=95.56 E-value=0.00091 Score=41.10 Aligned_cols=21 Identities=24% Similarity=0.371 Sum_probs=16.8
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
++++|+|+|||+++-.+....
T Consensus 2 ~l~G~~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHRL 22 (163)
T ss_pred EEECCCCCCHHHHHHHHHHhc
Confidence 578999999999987665544
No 222
>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=95.56 E-value=0.0031 Score=40.51 Aligned_cols=23 Identities=22% Similarity=0.133 Sum_probs=18.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+-.+|++|||||||++...++..
T Consensus 2 GlilI~GptGSGKTTll~~ll~~ 24 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDY 24 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35678899999999998765544
No 223
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=95.56 E-value=0.0018 Score=43.66 Aligned_cols=47 Identities=19% Similarity=0.294 Sum_probs=28.7
Q ss_pred chhhHHH---HHhcCCcceeeeE-EEeCCCCceeEeeeeEEEEeeeeEEEe
Q psy11637 14 YQEKSLR---KMFGNGRARSGVI-VLPCGAGKSLVGVTACCTVRKRALVLC 60 (67)
Q Consensus 14 yQ~~av~---~~~~~~~~~~~~i-~~pTGsGKT~i~~~~~~~~~~~~lil~ 60 (67)
.|++..+ .+.+.+.-.+.++ .+|+|+|||..+..++...+..++.+-
T Consensus 25 ~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~ 75 (316)
T PHA02544 25 LPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVN 75 (316)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEec
Confidence 4665544 4454443234445 799999999988776655544444443
No 224
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=95.56 E-value=0.0042 Score=44.03 Aligned_cols=37 Identities=19% Similarity=0.173 Sum_probs=26.5
Q ss_pred ceeeeEEEeCCCCceeEe-----eeeEEEEeeeeEEEeecce
Q psy11637 28 ARSGVIVLPCGAGKSLVG-----VTACCTVRKRALVLCNSGV 64 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~-----~~~~~~~~~~~lil~p~~~ 64 (67)
.-.++|.+|||+|||-.. ..++.-..+-+.||+|..=
T Consensus 87 P~I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfFItP~~~ 128 (369)
T PF02456_consen 87 PFIGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFFITPQKD 128 (369)
T ss_pred ceEEEEECCCCCCHHHHHHHhhhcCcccCCCCceEEECCCCC
Confidence 345888999999999543 3444445677889998753
No 225
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=95.55 E-value=0.00096 Score=46.18 Aligned_cols=25 Identities=24% Similarity=0.299 Sum_probs=20.4
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
-.+|++|||||||.++..++...+.
T Consensus 6 ~i~i~GptgsGKt~la~~la~~~~~ 30 (307)
T PRK00091 6 VIVIVGPTASGKTALAIELAKRLNG 30 (307)
T ss_pred EEEEECCCCcCHHHHHHHHHHhCCC
Confidence 4678899999999999888776544
No 226
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=95.55 E-value=0.003 Score=40.54 Aligned_cols=45 Identities=20% Similarity=0.328 Sum_probs=31.7
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---Ee------eeeEEEee
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VR------KRALVLCN 61 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~------~~~lil~p 61 (67)
+.+|+++..+ .+....|.+|+|+|||.+++.++.. .+ .+++++..
T Consensus 6 ~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~ 61 (226)
T cd01393 6 KALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDT 61 (226)
T ss_pred HHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEec
Confidence 4567777542 2467888999999999999876643 22 66777654
No 227
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.53 E-value=0.0021 Score=41.89 Aligned_cols=45 Identities=22% Similarity=0.281 Sum_probs=32.2
Q ss_pred hhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 16 EKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 16 ~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
.+.+|+.+..+ .+...++.+|+|+|||+.+..++.. .+++++++.
T Consensus 11 i~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~ 60 (234)
T PRK06067 11 NEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT 60 (234)
T ss_pred CHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence 45677777653 2356777899999999999877643 356777664
No 228
>PRK12377 putative replication protein; Provisional
Probab=95.52 E-value=0.0017 Score=43.77 Aligned_cols=24 Identities=17% Similarity=0.097 Sum_probs=20.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.++.+|+|+|||+++.+++..+
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l 125 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRL 125 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 467888999999999998877654
No 229
>KOG0334|consensus
Probab=95.50 E-value=0.0073 Score=47.58 Aligned_cols=51 Identities=22% Similarity=0.275 Sum_probs=40.8
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE----------eee-eEEEeecc
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV----------RKR-ALVLCNSG 63 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~----------~~~-~lil~p~~ 63 (67)
.++|-|.+|+=.+..+ +..|.++-||||||+-++..+.+. .+| .+|++||.
T Consensus 387 k~~~IQ~qAiP~ImsG---rdvIgvakTgSGKT~af~LPmirhi~dQr~~~~gdGPi~li~aPtr 448 (997)
T KOG0334|consen 387 KPTPIQAQAIPAIMSG---RDVIGVAKTGSGKTLAFLLPMIRHIKDQRPLEEGDGPIALILAPTR 448 (997)
T ss_pred CCcchhhhhcchhccC---cceEEeeccCCccchhhhcchhhhhhcCCChhhCCCceEEEEcCCH
Confidence 6788999999999987 689999999999999886554432 233 68899986
No 230
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=95.48 E-value=0.0022 Score=41.43 Aligned_cols=44 Identities=16% Similarity=0.212 Sum_probs=29.9
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~ 60 (67)
+.+|+.+..+ .+...+|.+|+|+|||..+..++. ..+.+++++.
T Consensus 7 ~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is 55 (229)
T TIGR03881 7 EGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT 55 (229)
T ss_pred hhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence 4567776532 246788889999999998876543 2355666664
No 231
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=95.46 E-value=0.0014 Score=41.65 Aligned_cols=32 Identities=9% Similarity=0.048 Sum_probs=25.9
Q ss_pred eeEEEeCCCCceeEeeeeEEEEeeeeEEEeec
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVRKRALVLCNS 62 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p~ 62 (67)
.+|.+++|||||..+..++...+.+.++++-.
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~ 33 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAELGGPVTYIATA 33 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHhcCCCeEEEEcc
Confidence 36789999999999988877766788887543
No 232
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0072 Score=44.49 Aligned_cols=39 Identities=21% Similarity=0.247 Sum_probs=27.1
Q ss_pred eecc--chhhHHHHHhc-CCcceeeeEEEeCCCCceeEeeee
Q psy11637 10 VLRP--YQEKSLRKMFG-NGRARSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 10 ~lR~--yQ~~av~~~~~-~~~~~~~~i~~pTGsGKT~i~~~~ 48 (67)
.|+| .|+.|-+...- ...+++.++.+|+|||||.++.-+
T Consensus 177 D~~DV~GQ~~AKrAleiAAAGgHnLl~~GpPGtGKTmla~Rl 218 (490)
T COG0606 177 DFKDVKGQEQAKRALEIAAAGGHNLLLVGPPGTGKTMLASRL 218 (490)
T ss_pred chhhhcCcHHHHHHHHHHHhcCCcEEEecCCCCchHHhhhhh
Confidence 4555 48887776432 111278899999999999888544
No 233
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=95.43 E-value=0.0011 Score=46.21 Aligned_cols=26 Identities=19% Similarity=0.229 Sum_probs=21.8
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
-.+|.+||++|||-+++.++.+.++.
T Consensus 5 ~i~I~GPTAsGKT~lai~LAk~~~~e 30 (308)
T COG0324 5 LIVIAGPTASGKTALAIALAKRLGGE 30 (308)
T ss_pred EEEEECCCCcCHHHHHHHHHHHcCCc
Confidence 46788999999999998888877664
No 234
>PRK07952 DNA replication protein DnaC; Validated
Probab=95.43 E-value=0.0012 Score=44.33 Aligned_cols=46 Identities=22% Similarity=0.240 Sum_probs=29.4
Q ss_pred chhhHHHHHhc---C-Cc-ceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 14 YQEKSLRKMFG---N-GR-ARSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 14 yQ~~av~~~~~---~-~~-~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
.|+.++..+.+ . .. ....++.+++|+|||+++.+++..+ +.+++++
T Consensus 80 ~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~i 133 (244)
T PRK07952 80 GQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLII 133 (244)
T ss_pred hHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 45556654332 2 11 1356788999999999998877654 4455554
No 235
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=95.42 E-value=0.0016 Score=50.43 Aligned_cols=53 Identities=17% Similarity=0.218 Sum_probs=34.5
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~lil~p~~~ 64 (67)
..+|||=.+.+-.+.-+ ..-+..|.||+|||+++...+. ..+..+.|++||..
T Consensus 78 lg~~~~dvQlig~l~L~---~G~Iaem~TGeGKTLva~lpa~l~aL~G~~V~IvTpn~y 133 (830)
T PRK12904 78 LGMRHFDVQLIGGMVLH---EGKIAEMKTGEGKTLVATLPAYLNALTGKGVHVVTVNDY 133 (830)
T ss_pred hCCCCCccHHHhhHHhc---CCchhhhhcCCCcHHHHHHHHHHHHHcCCCEEEEecCHH
Confidence 34566655455443322 2346789999999999876553 23566888998864
No 236
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.41 E-value=0.0014 Score=44.47 Aligned_cols=23 Identities=22% Similarity=0.213 Sum_probs=19.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+..++++|||+|||+++..++..
T Consensus 195 ~vi~~vGptGvGKTTt~~kLa~~ 217 (282)
T TIGR03499 195 GVIALVGPTGVGKTTTLAKLAAR 217 (282)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 46778899999999999877654
No 237
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=95.41 E-value=0.0014 Score=40.00 Aligned_cols=22 Identities=27% Similarity=0.235 Sum_probs=17.7
Q ss_pred eEEEeCCCCceeEeeeeEEEEe
Q psy11637 32 VIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+|++|+|+|||.++..+.....
T Consensus 3 ~i~GpsGsGKstl~~~L~~~~~ 24 (137)
T cd00071 3 VLSGPSGVGKSTLLKRLLEEFD 24 (137)
T ss_pred EEECCCCCCHHHHHHHHHhcCC
Confidence 5789999999998877766543
No 238
>KOG0745|consensus
Probab=95.41 E-value=0.0016 Score=48.03 Aligned_cols=30 Identities=20% Similarity=0.317 Sum_probs=24.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
-+.++.+|||||||+++..++.-++-|+.|
T Consensus 227 SNvLllGPtGsGKTllaqTLAr~ldVPfaI 256 (564)
T KOG0745|consen 227 SNVLLLGPTGSGKTLLAQTLARVLDVPFAI 256 (564)
T ss_pred ccEEEECCCCCchhHHHHHHHHHhCCCeEE
Confidence 578899999999999998777766666543
No 239
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=95.41 E-value=0.0036 Score=43.91 Aligned_cols=45 Identities=24% Similarity=0.358 Sum_probs=32.9
Q ss_pred chhhHHHH------HhcC----C--cceeeeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 14 YQEKSLRK------MFGN----G--RARSGVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 14 yQ~~av~~------~~~~----~--~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
.|++|-.+ ++++ + ..++.+..+|+|+|||.++-+++.+.+-+.+.
T Consensus 125 GqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~ 181 (368)
T COG1223 125 GQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLL 181 (368)
T ss_pred chHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEE
Confidence 47777643 4543 1 25799999999999999998888776666543
No 240
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=95.40 E-value=0.003 Score=40.72 Aligned_cols=44 Identities=25% Similarity=0.353 Sum_probs=30.5
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEEE---------eeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCTV---------RKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~~---------~~~~lil~ 60 (67)
..+|+++..+ .+....|.+|+|+|||..++.++... +++++++.
T Consensus 6 ~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~ 60 (235)
T cd01123 6 KALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID 60 (235)
T ss_pred hhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence 3567777643 24667889999999999997765321 25677665
No 241
>PRK05973 replicative DNA helicase; Provisional
Probab=95.40 E-value=0.0015 Score=43.80 Aligned_cols=32 Identities=16% Similarity=0.264 Sum_probs=24.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
...+|.+++|+|||+.++.++.. .+++++|+.
T Consensus 65 sl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS 99 (237)
T PRK05973 65 DLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT 99 (237)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 45678899999999999877653 366777774
No 242
>KOG1002|consensus
Probab=95.39 E-value=0.0013 Score=49.24 Aligned_cols=57 Identities=19% Similarity=0.285 Sum_probs=43.1
Q ss_pred ceeeccchhhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEE--EEeeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACC--TVRKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~--~~~~~~lil~p~~~ 64 (67)
.+.|-|||.|.+.+..... .-..|++.-..|-|||+-+.++.. .-+.++|+++|+.+
T Consensus 182 ii~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLllae~~ra~tLVvaP~VA 242 (791)
T KOG1002|consen 182 IIPLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLAEVDRAPTLVVAPTVA 242 (791)
T ss_pred eecchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHhccccCCeeEEccHHH
Confidence 3678999999998866532 235688899999999987765443 34678999999854
No 243
>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=95.38 E-value=0.0095 Score=40.41 Aligned_cols=33 Identities=27% Similarity=0.371 Sum_probs=24.3
Q ss_pred hHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 17 KSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 17 ~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..++-+++.+ +..++++|+|+|||.+.......
T Consensus 24 ~ll~~l~~~~--~pvLl~G~~GtGKT~li~~~l~~ 56 (272)
T PF12775_consen 24 YLLDLLLSNG--RPVLLVGPSGTGKTSLIQNFLSS 56 (272)
T ss_dssp HHHHHHHHCT--EEEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHHHHcC--CcEEEECCCCCchhHHHHhhhcc
Confidence 3445566655 78999999999999988665543
No 244
>PRK00131 aroK shikimate kinase; Reviewed
Probab=95.36 E-value=0.0012 Score=40.26 Aligned_cols=25 Identities=28% Similarity=0.254 Sum_probs=20.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
...++++|+|||||+++-.++..++
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l~ 29 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRLG 29 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHhC
Confidence 4678889999999999977766553
No 245
>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=95.35 E-value=0.0063 Score=40.03 Aligned_cols=40 Identities=20% Similarity=0.193 Sum_probs=29.1
Q ss_pred ccchhhHHHHHhcC--CcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 12 RPYQEKSLRKMFGN--GRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 12 R~yQ~~av~~~~~~--~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
|+...+.+.+++.. +..+...|+++.|.|||.++..++..
T Consensus 1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccc
Confidence 55666777666654 33466788899999999999877755
No 246
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=95.34 E-value=0.0017 Score=46.89 Aligned_cols=43 Identities=26% Similarity=0.335 Sum_probs=31.0
Q ss_pred chhhHHHH------HhcCC--cceeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 14 YQEKSLRK------MFGNG--RARSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 14 yQ~~av~~------~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
.|.+|-++ ..+.+ .++-.++++|+|+|||-++++++.+++.-+
T Consensus 43 GQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dv 93 (450)
T COG1224 43 GQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDV 93 (450)
T ss_pred chHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCC
Confidence 48888776 22333 235567789999999999999888876433
No 247
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=95.33 E-value=0.0012 Score=50.17 Aligned_cols=32 Identities=22% Similarity=0.324 Sum_probs=25.1
Q ss_pred eEEEeCCCCceeEeeeeEEEE----eeeeEEEeecc
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV----RKRALVLCNSG 63 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~----~~~~lil~p~~ 63 (67)
+..|+||||||.+++++|.+. -+..|+.|+..
T Consensus 1 lf~matgsgkt~~ma~lil~~y~kgyr~flffvnq~ 36 (812)
T COG3421 1 LFEMATGSGKTLVMAGLILECYKKGYRNFLFFVNQA 36 (812)
T ss_pred CcccccCCChhhHHHHHHHHHHHhchhhEEEEecch
Confidence 357999999999999998763 35678887753
No 248
>PRK08118 topology modulation protein; Reviewed
Probab=95.33 E-value=0.001 Score=41.87 Aligned_cols=23 Identities=17% Similarity=0.190 Sum_probs=18.2
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.+|++|+|||||+++-.+....
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l 25 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKL 25 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46788999999999886665543
No 249
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=95.29 E-value=0.0037 Score=40.37 Aligned_cols=44 Identities=20% Similarity=0.345 Sum_probs=31.1
Q ss_pred HHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEee
Q psy11637 18 SLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCN 61 (67)
Q Consensus 18 av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p 61 (67)
.+++.+..+ .+...+|.+++|+|||..++.++.. .+++++++.-
T Consensus 4 ~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~ 52 (224)
T TIGR03880 4 GLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISL 52 (224)
T ss_pred hhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEC
Confidence 466777543 2456788899999999998877643 3667777653
No 250
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=95.28 E-value=0.0014 Score=49.41 Aligned_cols=51 Identities=14% Similarity=0.079 Sum_probs=36.7
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----E---eeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----V---RKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~---~~~~lil~p~~~~ 65 (67)
.|-|.|++|+... . +..+|.+.+|||||.+...=+.. . ..++|+++-|+-|
T Consensus 9 ~Ln~~Q~~av~~~--~---g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kA 66 (721)
T PRK11773 9 SLNDKQREAVAAP--L---GNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKA 66 (721)
T ss_pred hcCHHHHHHHhCC--C---CCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHH
Confidence 5788999998732 2 57889999999999887543332 1 3568888877644
No 251
>PRK07261 topology modulation protein; Provisional
Probab=95.26 E-value=0.0015 Score=41.21 Aligned_cols=22 Identities=23% Similarity=0.160 Sum_probs=17.7
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+.+|++++|||||+.+-.+...
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~ 23 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQH 23 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHH
Confidence 4578999999999999766544
No 252
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=95.26 E-value=0.0034 Score=42.61 Aligned_cols=43 Identities=16% Similarity=0.285 Sum_probs=29.0
Q ss_pred HHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---------EeeeeEEEe
Q psy11637 18 SLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---------VRKRALVLC 60 (67)
Q Consensus 18 av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---------~~~~~lil~ 60 (67)
.+++++..+ .+....|.+|+|+|||..++.++.. .++++++|.
T Consensus 83 ~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~ 136 (310)
T TIGR02236 83 ELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYID 136 (310)
T ss_pred HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEE
Confidence 355666543 2345678899999999998776543 234777765
No 253
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.25 E-value=0.0077 Score=41.65 Aligned_cols=44 Identities=20% Similarity=0.114 Sum_probs=30.1
Q ss_pred eeeccchhhHHHHHhc----CCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 9 AVLRPYQEKSLRKMFG----NGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~----~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.-|+-|.+.+..++. .+...+.+|.+|+|+|||.+.-.+....
T Consensus 32 l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l 79 (394)
T PRK00411 32 LPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEEL 79 (394)
T ss_pred CCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 3346666666666552 2234678999999999999887766543
No 254
>KOG4439|consensus
Probab=95.24 E-value=0.0031 Score=48.62 Aligned_cols=58 Identities=21% Similarity=0.344 Sum_probs=44.0
Q ss_pred ccceeeccchhhHHHHHhc--CCcceeeeEEEeCCCCceeEeeeeEEEE-------------eeeeEEEeecc
Q psy11637 6 KPSAVLRPYQEKSLRKMFG--NGRARSGVIVLPCGAGKSLVGVTACCTV-------------RKRALVLCNSG 63 (67)
Q Consensus 6 ~~~~~lR~yQ~~av~~~~~--~~~~~~~~i~~pTGsGKT~i~~~~~~~~-------------~~~~lil~p~~ 63 (67)
.....|-|+|+.++.+..- ...+..|++-...|-|||.++.+++... ..+||||||-+
T Consensus 321 g~~v~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~PaS 393 (901)
T KOG4439|consen 321 GLKVELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPAS 393 (901)
T ss_pred cceeecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcHH
Confidence 3467889999999988553 3335679999999999999887776531 12699999954
No 255
>KOG0989|consensus
Probab=95.24 E-value=0.002 Score=45.49 Aligned_cols=40 Identities=15% Similarity=0.117 Sum_probs=29.3
Q ss_pred chhhHHHHHhc---CCcceeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 14 YQEKSLRKMFG---NGRARSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 14 yQ~~av~~~~~---~~~~~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+|+..+....+ ++..-+-++.+|+|+|||.++.+++..+.
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhc
Confidence 68888876543 22234678899999999999987776543
No 256
>PRK14729 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Provisional
Probab=95.23 E-value=0.0017 Score=45.01 Aligned_cols=22 Identities=23% Similarity=0.012 Sum_probs=19.0
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
-.+|.+|||||||-+++.++.+
T Consensus 6 ii~I~GpTasGKS~LAl~LA~~ 27 (300)
T PRK14729 6 IVFIFGPTAVGKSNILFHFPKG 27 (300)
T ss_pred EEEEECCCccCHHHHHHHHHHh
Confidence 4678899999999999888776
No 257
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=95.21 E-value=0.0021 Score=52.95 Aligned_cols=56 Identities=20% Similarity=0.109 Sum_probs=42.0
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE-------EeeeeEEEeeccee
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT-------VRKRALVLCNSGVV 65 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~-------~~~~~lil~p~~~~ 65 (67)
..|-+-|++|++.++... ++..+|.+..|+|||++.-.++.. .+.+++.++||.-|
T Consensus 966 ~~Lt~~Q~~Av~~il~s~-dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrA 1028 (1747)
T PRK13709 966 EGLTSGQRAATRMILEST-DRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRA 1028 (1747)
T ss_pred CCCCHHHHHHHHHHHhCC-CcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHH
Confidence 457788999999999753 267889999999999987544332 13467888998654
No 258
>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=95.21 E-value=0.0043 Score=41.25 Aligned_cols=21 Identities=19% Similarity=0.056 Sum_probs=17.4
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
.+.++.+|+|+|||.++-.++
T Consensus 43 ~~vll~GppGtGKTtlA~~ia 63 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILG 63 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHH
Confidence 467899999999999985554
No 259
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=95.20 E-value=0.0013 Score=49.41 Aligned_cols=51 Identities=12% Similarity=0.068 Sum_probs=36.3
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----E---eeeeEEEeeccee
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----V---RKRALVLCNSGVV 65 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~---~~~~lil~p~~~~ 65 (67)
.|-|.|++++... . +..+|.+.+|||||.+...=+.. . ..++|+++-|+-|
T Consensus 4 ~Ln~~Q~~av~~~--~---g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkA 61 (715)
T TIGR01075 4 GLNDKQREAVAAP--P---GNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKA 61 (715)
T ss_pred ccCHHHHHHHcCC--C---CCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHH
Confidence 4788899998641 2 57899999999999887543322 1 3568888877643
No 260
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=95.19 E-value=0.0047 Score=33.78 Aligned_cols=18 Identities=33% Similarity=0.329 Sum_probs=15.3
Q ss_pred eeeeEEEeCCCCceeEee
Q psy11637 29 RSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~ 46 (67)
...+|.+|+|||||++.=
T Consensus 24 ~~tli~G~nGsGKSTllD 41 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLD 41 (62)
T ss_pred cEEEEECCCCCCHHHHHH
Confidence 368899999999998763
No 261
>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=95.16 E-value=0.0021 Score=46.21 Aligned_cols=41 Identities=27% Similarity=0.385 Sum_probs=27.5
Q ss_pred chhhHHHH------HhcCCc--ceeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 14 YQEKSLRK------MFGNGR--ARSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 14 yQ~~av~~------~~~~~~--~~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.|.+|-++ ..+.++ ++..++.+|+|+|||-++++++.+++.
T Consensus 28 GQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~ 76 (398)
T PF06068_consen 28 GQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGE 76 (398)
T ss_dssp S-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTT
T ss_pred ChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCC
Confidence 37777765 223332 466778899999999999998888764
No 262
>PRK13764 ATPase; Provisional
Probab=95.14 E-value=0.0035 Score=47.05 Aligned_cols=24 Identities=25% Similarity=0.105 Sum_probs=19.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
++.++++|||||||+++.+++...
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i 281 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFY 281 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHH
Confidence 578899999999999887766543
No 263
>PRK08233 hypothetical protein; Provisional
Probab=95.12 E-value=0.002 Score=39.81 Aligned_cols=24 Identities=17% Similarity=0.171 Sum_probs=18.7
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
-..|.+++|||||+.+..++..+.
T Consensus 5 iI~I~G~~GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLTHKLK 28 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhhCC
Confidence 345679999999999977776553
No 264
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=95.10 E-value=0.0031 Score=44.50 Aligned_cols=29 Identities=17% Similarity=0.306 Sum_probs=21.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
...++.+|+|+|||.++-+++...+.+.+
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~~~~~~i 194 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHETNATFI 194 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHHhCCCEE
Confidence 56788899999999998776665544433
No 265
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=95.10 E-value=0.0019 Score=40.08 Aligned_cols=24 Identities=29% Similarity=0.099 Sum_probs=18.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...++.+|+|+|||.++-.++...
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~~ 25 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEED 25 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHccC
Confidence 356788999999999887766643
No 266
>PRK14532 adenylate kinase; Provisional
Probab=95.09 E-value=0.0019 Score=40.61 Aligned_cols=24 Identities=17% Similarity=0.061 Sum_probs=19.0
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+.++.+|+|||||+++..++...+
T Consensus 2 ~i~~~G~pGsGKsT~a~~la~~~g 25 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRLVEERG 25 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcC
Confidence 357889999999999977765543
No 267
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=95.04 E-value=0.0018 Score=49.71 Aligned_cols=51 Identities=27% Similarity=0.427 Sum_probs=34.8
Q ss_pred eeeccc--hhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPY--QEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~y--Q~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..+||| |.-.....+.+ -+.-|.||.|||+++..++.. .++.+.|++|+..
T Consensus 75 lg~r~ydvQlig~l~Ll~G-----~VaEM~TGEGKTLvA~l~a~l~AL~G~~VhvvT~Ndy 130 (764)
T PRK12326 75 LGLRPFDVQLLGALRLLAG-----DVIEMATGEGKTLAGAIAAAGYALQGRRVHVITVNDY 130 (764)
T ss_pred cCCCcchHHHHHHHHHhCC-----CcccccCCCCHHHHHHHHHHHHHHcCCCeEEEcCCHH
Confidence 345666 54444444432 356899999999999766553 4778888888754
No 268
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=95.03 E-value=0.011 Score=47.67 Aligned_cols=29 Identities=14% Similarity=0.166 Sum_probs=19.9
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEe
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVG 45 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~ 45 (67)
+..+.++.+.++ +..+|+++||||||+..
T Consensus 78 ~r~~Il~ai~~~---~VviI~GeTGSGKTTql 106 (1294)
T PRK11131 78 KKQDILEAIRDH---QVVIVAGETGSGKTTQL 106 (1294)
T ss_pred HHHHHHHHHHhC---CeEEEECCCCCCHHHHH
Confidence 444445554443 56778899999999854
No 269
>KOG4284|consensus
Probab=94.98 E-value=0.047 Score=42.34 Aligned_cols=47 Identities=15% Similarity=0.254 Sum_probs=36.6
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE------EeeeeEEEeecc
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT------VRKRALVLCNSG 63 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~------~~~~~lil~p~~ 63 (67)
-|..||-.++.. -..+|.+-.|+|||.++.-++.. ..-..||++||.
T Consensus 51 iQaaAIP~~~~k---mDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTR 103 (980)
T KOG4284|consen 51 IQAAAIPAIFSK---MDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTR 103 (980)
T ss_pred hhhhhhhhhhcc---cceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecch
Confidence 477777777765 57888899999999999766654 245689999986
No 270
>PRK14530 adenylate kinase; Provisional
Probab=94.97 E-value=0.0018 Score=41.85 Aligned_cols=24 Identities=17% Similarity=0.088 Sum_probs=19.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.+|.+|+|||||+++-.++...
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHh
Confidence 467788999999999987665544
No 271
>PRK04296 thymidine kinase; Provisional
Probab=94.95 E-value=0.002 Score=41.26 Aligned_cols=33 Identities=18% Similarity=0.107 Sum_probs=25.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVLCN 61 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~p 61 (67)
...++.+|+|+|||+.++.++.+. +.+++++-|
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~ 38 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKP 38 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEec
Confidence 346788999999999888776653 567777755
No 272
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=94.95 E-value=0.002 Score=44.39 Aligned_cols=23 Identities=22% Similarity=0.336 Sum_probs=19.0
Q ss_pred eEEEeCCCCceeEeeeeEEEEee
Q psy11637 32 VIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
+|++|||+|||.++..++...+.
T Consensus 3 ~i~G~t~~GKs~la~~l~~~~~~ 25 (287)
T TIGR00174 3 FIMGPTAVGKSQLAIQLAKKLNA 25 (287)
T ss_pred EEECCCCCCHHHHHHHHHHhCCC
Confidence 67899999999999888766543
No 273
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=94.95 E-value=0.0019 Score=40.31 Aligned_cols=22 Identities=18% Similarity=0.169 Sum_probs=17.8
Q ss_pred eeEEEeCCCCceeEeeeeEEEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+|.+|+|||||+++..++...
T Consensus 2 I~i~G~pGsGKst~a~~La~~~ 23 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKY 23 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 4788999999999987766554
No 274
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=94.94 E-value=0.0037 Score=39.52 Aligned_cols=25 Identities=16% Similarity=0.119 Sum_probs=19.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
...+|++|+|+|||+++-.+.....
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~~~~ 27 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQREQ 27 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhccCC
Confidence 4678899999999999876655443
No 275
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=94.90 E-value=0.013 Score=47.23 Aligned_cols=36 Identities=14% Similarity=0.059 Sum_probs=22.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE----eeeeEEEeecce
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV----RKRALVLCNSGV 64 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~----~~~~lil~p~~~ 64 (67)
...+|.++||||||+..=.++... .+++++.-|+..
T Consensus 83 ~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRl 122 (1283)
T TIGR01967 83 QVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRL 122 (1283)
T ss_pred ceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHH
Confidence 578888999999998653333222 234444555544
No 276
>KOG1131|consensus
Probab=94.88 E-value=0.0092 Score=45.03 Aligned_cols=39 Identities=18% Similarity=0.296 Sum_probs=26.8
Q ss_pred ccchhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 12 RPYQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 12 R~yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.|.|.+-..++-+. +..+++++-||+|+|||+..++++-
T Consensus 18 YPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~ 57 (755)
T KOG1131|consen 18 YPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLII 57 (755)
T ss_pred CHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHH
Confidence 44577666554332 2237999999999999987766553
No 277
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=94.83 E-value=0.002 Score=40.15 Aligned_cols=21 Identities=14% Similarity=0.097 Sum_probs=17.2
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
++.+|+|||||+++..++.+.
T Consensus 3 ~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 3 FVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred EEECCCCCCHHHHHHHHHHHc
Confidence 678999999999987766554
No 278
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=94.82 E-value=0.0016 Score=41.43 Aligned_cols=32 Identities=13% Similarity=0.057 Sum_probs=25.3
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEeeeeEEEee
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVRKRALVLCN 61 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~~~~lil~p 61 (67)
..+|.+|+|||||..+..++...+.+.++++.
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat 34 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQSGLQVLYIAT 34 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHcCCCcEeCcC
Confidence 46788999999999998887776666666654
No 279
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=94.78 E-value=0.011 Score=36.66 Aligned_cols=19 Identities=21% Similarity=0.106 Sum_probs=15.4
Q ss_pred EEEeCCCCceeEeeeeEEE
Q psy11637 33 IVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 33 i~~pTGsGKT~i~~~~~~~ 51 (67)
+++|||+|||.++-.++..
T Consensus 58 fHG~tGtGKn~v~~liA~~ 76 (127)
T PF06309_consen 58 FHGWTGTGKNFVSRLIAEH 76 (127)
T ss_pred eecCCCCcHHHHHHHHHHH
Confidence 4599999999998766654
No 280
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.77 E-value=0.0049 Score=47.03 Aligned_cols=41 Identities=24% Similarity=0.289 Sum_probs=27.3
Q ss_pred chhhHH------HHHhcCCcceeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 14 YQEKSL------RKMFGNGRARSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 14 yQ~~av------~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.|+..+ .++++.+...+.++.+|+|+|||+++..+....+.
T Consensus 32 GQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~ 78 (725)
T PRK13341 32 GQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRA 78 (725)
T ss_pred CcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 366554 33444443457899999999999988766554433
No 281
>KOG0331|consensus
Probab=94.76 E-value=0.0035 Score=46.39 Aligned_cols=49 Identities=22% Similarity=0.216 Sum_probs=33.3
Q ss_pred cchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE-E----------E-eeeeEEEeecce
Q psy11637 13 PYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC-T----------V-RKRALVLCNSGV 64 (67)
Q Consensus 13 ~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~-~----------~-~~~~lil~p~~~ 64 (67)
|-|...+--.+.. ++.+..+-||||||+-++-.+- + . ...+||++||.-
T Consensus 116 pIQaq~wp~~l~G---rD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRE 176 (519)
T KOG0331|consen 116 PIQAQGWPIALSG---RDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRE 176 (519)
T ss_pred hhhhcccceeccC---CceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHH
Confidence 3455555555554 6889999999999998863221 1 1 235999999964
No 282
>CHL00095 clpC Clp protease ATP binding subunit
Probab=94.76 E-value=0.01 Score=45.55 Aligned_cols=40 Identities=13% Similarity=0.231 Sum_probs=30.0
Q ss_pred ccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 12 RPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 12 R~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
|+.+.+.+.+++......+.++++|+|.|||.++-.++..
T Consensus 184 r~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 184 REKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred cHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHH
Confidence 5556666666776544568999999999999998766554
No 283
>PF13479 AAA_24: AAA domain
Probab=94.76 E-value=0.0085 Score=38.89 Aligned_cols=20 Identities=25% Similarity=0.308 Sum_probs=17.3
Q ss_pred eeeeEEEeCCCCceeEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~ 48 (67)
-+.+|.+|+|+|||..+..+
T Consensus 4 ~~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 4 IKILIYGPPGSGKTTLAASL 23 (213)
T ss_pred eEEEEECCCCCCHHHHHHhC
Confidence 57889999999999988766
No 284
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.75 E-value=0.0035 Score=44.62 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=20.1
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
++..++++|||+|||+++..++..
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~ 160 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAAR 160 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 467889999999999999877654
No 285
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.74 E-value=0.0041 Score=42.93 Aligned_cols=24 Identities=17% Similarity=0.138 Sum_probs=19.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...++.+|+|+|||+++.+++..+
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l 180 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANEL 180 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 456788999999999998876653
No 286
>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=94.73 E-value=0.0032 Score=45.83 Aligned_cols=29 Identities=14% Similarity=0.239 Sum_probs=22.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
++.++.+|||+|||.++-.++...+.+.+
T Consensus 48 ~~ILLiGppG~GKT~lAraLA~~l~~~fi 76 (441)
T TIGR00390 48 KNILMIGPTGVGKTEIARRLAKLANAPFI 76 (441)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence 57889999999999998777665554433
No 287
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=94.72 E-value=0.0035 Score=45.13 Aligned_cols=28 Identities=21% Similarity=0.318 Sum_probs=21.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
.+.++.+|||+|||.++-.++..++.+.
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~~l~~pf 144 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLARILNVPF 144 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHHhcCCCe
Confidence 4688899999999999977665554443
No 288
>PRK13947 shikimate kinase; Provisional
Probab=94.72 E-value=0.0022 Score=39.49 Aligned_cols=25 Identities=28% Similarity=0.305 Sum_probs=19.8
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
+.++.+++|+|||+++-.++..++-
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~lg~ 27 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATTLSF 27 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence 4678899999999999777665543
No 289
>PRK03839 putative kinase; Provisional
Probab=94.69 E-value=0.0022 Score=40.13 Aligned_cols=23 Identities=22% Similarity=0.091 Sum_probs=17.9
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
..++.+++|||||+++-.++...
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 35678999999999987665543
No 290
>KOG2373|consensus
Probab=94.69 E-value=0.031 Score=40.61 Aligned_cols=31 Identities=23% Similarity=0.238 Sum_probs=21.8
Q ss_pred HHHHHhcCC-cceeeeEEEeCCCCceeEeeee
Q psy11637 18 SLRKMFGNG-RARSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 18 av~~~~~~~-~~~~~~i~~pTGsGKT~i~~~~ 48 (67)
.+.+++++. .+.-.++.+|||||||+.....
T Consensus 262 vLNk~LkGhR~GElTvlTGpTGsGKTTFlsEY 293 (514)
T KOG2373|consen 262 VLNKYLKGHRPGELTVLTGPTGSGKTTFLSEY 293 (514)
T ss_pred HHHHHhccCCCCceEEEecCCCCCceeEehHh
Confidence 345566653 3456888999999999876543
No 291
>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=94.68 E-value=0.01 Score=39.36 Aligned_cols=33 Identities=24% Similarity=0.337 Sum_probs=20.4
Q ss_pred chhhHHHHHhc--CCcceeeeEEEeCCCCceeEeee
Q psy11637 14 YQEKSLRKMFG--NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 14 yQ~~av~~~~~--~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
.|+++..++.- .+ .++.++.+|+|+|||.++-.
T Consensus 7 GQe~aKrAL~iAAaG-~h~lLl~GppGtGKTmlA~~ 41 (206)
T PF01078_consen 7 GQEEAKRALEIAAAG-GHHLLLIGPPGTGKTMLARR 41 (206)
T ss_dssp STHHHHHHHHHHHHC-C--EEEES-CCCTHHHHHHH
T ss_pred CcHHHHHHHHHHHcC-CCCeEEECCCCCCHHHHHHH
Confidence 36666665332 12 26899999999999988743
No 292
>PRK06217 hypothetical protein; Validated
Probab=94.66 E-value=0.0026 Score=40.10 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=19.0
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+.+|.+++|||||+++-.+...++
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~l~ 26 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAERLD 26 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcC
Confidence 467889999999999977766543
No 293
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=94.64 E-value=0.0026 Score=45.63 Aligned_cols=28 Identities=21% Similarity=0.311 Sum_probs=21.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
.+.++.+|||+|||.++-.++...+.+.
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~~l~~pf 136 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLARILDVPF 136 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHhCCCc
Confidence 5688999999999999876665544443
No 294
>KOG0346|consensus
Probab=94.62 E-value=0.0057 Score=45.16 Aligned_cols=47 Identities=15% Similarity=0.148 Sum_probs=33.1
Q ss_pred hhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE------------EEeeeeEEEeecce
Q psy11637 15 QEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC------------TVRKRALVLCNSGV 64 (67)
Q Consensus 15 Q~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~------------~~~~~~lil~p~~~ 64 (67)
|+.||--++++ .+.+.-+.||||||..++-.+. +.+-..+|++||.-
T Consensus 46 Qs~aIplaLEg---KDvvarArTGSGKT~AYliPllqkll~~k~t~~~e~~~sa~iLvPTkE 104 (569)
T KOG0346|consen 46 QSSAIPLALEG---KDVVARARTGSGKTAAYLIPLLQKLLAEKKTNDGEQGPSAVILVPTKE 104 (569)
T ss_pred hhcccchhhcC---cceeeeeccCCCchHHHHHHHHHHHHHhhhcccccccceeEEEechHH
Confidence 66666656655 5788889999999988754322 12457899999863
No 295
>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=94.60 E-value=0.005 Score=43.03 Aligned_cols=44 Identities=27% Similarity=0.308 Sum_probs=31.1
Q ss_pred hhHHHHHhc-CC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 16 EKSLRKMFG-NG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 16 ~~av~~~~~-~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
...+|..+. .+ .+....|.+|+|+|||..++.++.. .+++++++
T Consensus 40 i~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yI 89 (321)
T TIGR02012 40 SLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFI 89 (321)
T ss_pred CHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 346677776 43 2456778899999999998876654 35666665
No 296
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.58 E-value=0.0032 Score=44.90 Aligned_cols=22 Identities=27% Similarity=0.345 Sum_probs=18.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
...++++|||+|||+++..++.
T Consensus 175 ~vi~lvGptGvGKTTT~aKLA~ 196 (388)
T PRK12723 175 RVFILVGPTGVGKTTTIAKLAA 196 (388)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 5677889999999999976654
No 297
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=94.57 E-value=0.0072 Score=41.38 Aligned_cols=43 Identities=19% Similarity=0.286 Sum_probs=28.4
Q ss_pred HHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEEE---------eeeeEEEe
Q psy11637 18 SLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCTV---------RKRALVLC 60 (67)
Q Consensus 18 av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~~---------~~~~lil~ 60 (67)
.++.++..+ .+....|.+|+|+|||..++.++... +++++++.
T Consensus 90 ~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~ 143 (317)
T PRK04301 90 ELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID 143 (317)
T ss_pred HHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence 345555542 23557788999999999988766431 34677664
No 298
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=94.56 E-value=0.0032 Score=38.08 Aligned_cols=20 Identities=35% Similarity=0.424 Sum_probs=16.3
Q ss_pred eEEEeCCCCceeEeeeeEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~ 51 (67)
++.+++|||||+++-.+...
T Consensus 3 ~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 3 VVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred EEEcCCCCCHHHHHHHHHhh
Confidence 67899999999998765554
No 299
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=94.51 E-value=0.005 Score=46.83 Aligned_cols=36 Identities=25% Similarity=0.294 Sum_probs=26.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEE----E-----EeeeeEEEeecce
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC----T-----VRKRALVLCNSGV 64 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~----~-----~~~~~lil~p~~~ 64 (67)
.-.++.+..|||||.+++.=+. . ..+++||+.|+.+
T Consensus 227 ~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~v 271 (747)
T COG3973 227 KILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRV 271 (747)
T ss_pred CeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHH
Confidence 4566779999999999975222 1 1456999999753
No 300
>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=94.50 E-value=0.0037 Score=42.41 Aligned_cols=32 Identities=19% Similarity=0.093 Sum_probs=22.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
+..++++|+|+|||+++..++.. .+.+++++.
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~ 107 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA 107 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence 45667799999999998776643 245666554
No 301
>KOG0731|consensus
Probab=94.49 E-value=0.0061 Score=46.98 Aligned_cols=31 Identities=19% Similarity=0.267 Sum_probs=24.9
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
.+..++++|+|+|||+.|-+++-+.+-|++-
T Consensus 344 PkGvLL~GPPGTGKTLLAKAiAGEAgVPF~s 374 (774)
T KOG0731|consen 344 PKGVLLVGPPGTGKTLLAKAIAGEAGVPFFS 374 (774)
T ss_pred cCceEEECCCCCcHHHHHHHHhcccCCceee
Confidence 5678999999999999998888776555443
No 302
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.46 E-value=0.031 Score=36.50 Aligned_cols=25 Identities=24% Similarity=0.333 Sum_probs=19.8
Q ss_pred eeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
-++-+|.|||||++.+..-....+-
T Consensus 5 ~IvaG~NGsGKstv~~~~~~~~~~~ 29 (187)
T COG4185 5 DIVAGPNGSGKSTVYASTLAPLLPG 29 (187)
T ss_pred EEEecCCCCCceeeeeccchhhcCC
Confidence 4667999999999998877766553
No 303
>PHA00729 NTP-binding motif containing protein
Probab=94.46 E-value=0.0076 Score=40.37 Aligned_cols=23 Identities=26% Similarity=0.265 Sum_probs=19.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+.+|.+++|+|||+++..++..
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 57888999999999999876554
No 304
>KOG0338|consensus
Probab=94.46 E-value=0.0063 Score=45.68 Aligned_cols=50 Identities=18% Similarity=0.170 Sum_probs=33.2
Q ss_pred ccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---------EeeeeEEEeecce
Q psy11637 12 RPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---------VRKRALVLCNSGV 64 (67)
Q Consensus 12 R~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---------~~~~~lil~p~~~ 64 (67)
-|-|...|=-.+-+ +...-++.||||||-.++..+.+ .-.|+||++||.-
T Consensus 205 TpIQ~a~IPvallg---kDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRE 263 (691)
T KOG0338|consen 205 TPIQVATIPVALLG---KDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRE 263 (691)
T ss_pred CchhhhcccHHhhc---chhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHH
Confidence 34566666544443 45667899999998766544432 1358999999963
No 305
>PRK00300 gmk guanylate kinase; Provisional
Probab=94.44 E-value=0.0037 Score=39.62 Aligned_cols=24 Identities=29% Similarity=0.113 Sum_probs=18.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...+|++|+|||||.++-.++...
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~~~ 29 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLERD 29 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhC
Confidence 567788999999999876665543
No 306
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.44 E-value=0.0038 Score=43.33 Aligned_cols=32 Identities=19% Similarity=0.078 Sum_probs=23.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
...++++|+|+|||+++..++.. .+++++++.
T Consensus 115 ~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~ 149 (318)
T PRK10416 115 FVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAA 149 (318)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEe
Confidence 45677899999999998766554 245666654
No 307
>KOG0922|consensus
Probab=94.43 E-value=0.0091 Score=45.35 Aligned_cols=49 Identities=16% Similarity=0.128 Sum_probs=31.4
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeeccee
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGVV 65 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~~ 65 (67)
|-.+.++.+-++ ...+|++.||||||+-.-....+ ..+++-+--|+.+|
T Consensus 55 ~r~~il~~ve~n---qvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVA 107 (674)
T KOG0922|consen 55 YRDQILYAVEDN---QVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVA 107 (674)
T ss_pred HHHHHHHHHHHC---CEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHH
Confidence 333444444444 68889999999999887554433 24456666666655
No 308
>PRK06762 hypothetical protein; Provisional
Probab=94.43 E-value=0.0028 Score=39.00 Aligned_cols=23 Identities=17% Similarity=0.117 Sum_probs=17.8
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
-.++.+++|||||+++-.+....
T Consensus 4 li~i~G~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQERL 26 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 35678999999999887665544
No 309
>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=94.43 E-value=0.0053 Score=40.51 Aligned_cols=33 Identities=12% Similarity=0.029 Sum_probs=25.0
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEe
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLC 60 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~ 60 (67)
+...+|.+|+|+|||..+..++.. .+.+++++.
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS 66 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS 66 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence 356788999999999988766554 256777775
No 310
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.41 E-value=0.008 Score=43.51 Aligned_cols=46 Identities=13% Similarity=0.267 Sum_probs=32.6
Q ss_pred hhhHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---E-eeeeEEEe
Q psy11637 15 QEKSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---V-RKRALVLC 60 (67)
Q Consensus 15 Q~~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~-~~~~lil~ 60 (67)
=.+.+++++..+ .+...+|.+++|+|||+.++.++.. . +.+++++.
T Consensus 16 GI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis 67 (509)
T PRK09302 16 GIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVT 67 (509)
T ss_pred CchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEE
Confidence 455678888643 2356788899999999999876543 2 56777764
No 311
>PRK09354 recA recombinase A; Provisional
Probab=94.38 E-value=0.0073 Score=42.72 Aligned_cols=45 Identities=24% Similarity=0.279 Sum_probs=32.0
Q ss_pred hhHHHHHhc-CC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 16 EKSLRKMFG-NG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 16 ~~av~~~~~-~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
...+|.++. .+ .++...|.+|+|+|||.+++.++.. .+++++|+-
T Consensus 45 i~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId 95 (349)
T PRK09354 45 SLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID 95 (349)
T ss_pred cHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 346677777 43 2456778899999999999877653 356666654
No 312
>PLN02748 tRNA dimethylallyltransferase
Probab=94.38 E-value=0.0041 Score=45.47 Aligned_cols=26 Identities=27% Similarity=0.374 Sum_probs=20.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
...+|.+|||+|||.++..++...+.
T Consensus 23 ~~i~i~GptgsGKs~la~~la~~~~~ 48 (468)
T PLN02748 23 KVVVVMGPTGSGKSKLAVDLASHFPV 48 (468)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcCe
Confidence 34677799999999999887766543
No 313
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=94.37 E-value=0.0029 Score=40.09 Aligned_cols=21 Identities=24% Similarity=0.183 Sum_probs=16.3
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.|.+|+|||||+++-.+....
T Consensus 3 gi~G~~GsGKSTl~~~l~~~l 23 (198)
T cd02023 3 GIAGGSGSGKTTVAEEIIEQL 23 (198)
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 478999999999986655443
No 314
>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=94.37 E-value=0.0028 Score=39.36 Aligned_cols=29 Identities=21% Similarity=0.256 Sum_probs=20.9
Q ss_pred eeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
.++.+|+|+|||.++..++... +.+++++
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i 34 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLV 34 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 4678999999999987766543 3455544
No 315
>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=94.36 E-value=0.0062 Score=42.66 Aligned_cols=46 Identities=22% Similarity=0.251 Sum_probs=32.9
Q ss_pred hhHHHHHhc-CC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEee
Q psy11637 16 EKSLRKMFG-NG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCN 61 (67)
Q Consensus 16 ~~av~~~~~-~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p 61 (67)
...+|..+. .+ .++...|.+|+|+|||..++.++.. .+++++++-.
T Consensus 40 i~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~ 91 (325)
T cd00983 40 SLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDA 91 (325)
T ss_pred CHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECc
Confidence 456777877 43 2456778899999999999887654 3567776643
No 316
>PRK14531 adenylate kinase; Provisional
Probab=94.31 E-value=0.0028 Score=40.05 Aligned_cols=24 Identities=25% Similarity=0.387 Sum_probs=18.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.++.+|+|||||+.+..++...
T Consensus 3 ~~i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHh
Confidence 357889999999999987665543
No 317
>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=94.31 E-value=0.0043 Score=40.10 Aligned_cols=31 Identities=19% Similarity=0.178 Sum_probs=22.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE----eeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV----RKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~----~~~~lil 59 (67)
++..|.+-||||||..+..++.++ +.+++|+
T Consensus 24 ~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~ii~ 58 (229)
T PF01935_consen 24 RHIAIFGTTGSGKSNTVKVLLEELLKKKGAKVIIF 58 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEE
Confidence 477799999999998887666543 3455554
No 318
>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]
Probab=94.30 E-value=0.068 Score=36.15 Aligned_cols=21 Identities=29% Similarity=0.226 Sum_probs=17.0
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
=+.+|.|+|||+++.+++-..
T Consensus 34 GLLGPNGAGKTT~Fymi~Glv 54 (243)
T COG1137 34 GLLGPNGAGKTTTFYMIVGLV 54 (243)
T ss_pred EEECCCCCCceeEEEEEEEEE
Confidence 356999999999998876543
No 319
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=94.30 E-value=0.061 Score=37.45 Aligned_cols=34 Identities=12% Similarity=-0.038 Sum_probs=22.1
Q ss_pred chhhHHHHHhc-------CCcceeeeEEEeCCCCceeEeee
Q psy11637 14 YQEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 14 yQ~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
-|++..+.... .|.+...+..++||||||+++..
T Consensus 68 tq~~vy~~~~~p~v~~~l~G~n~ti~aYGqtGSGKTyTm~G 108 (345)
T cd01368 68 TQKEFFEGTALPLVQDLLKGKNSLLFTYGVTNSGKTYTMQG 108 (345)
T ss_pred CHHHHHHHHHHHHHHHHhCCCceEEEEeCCCCCCCeEEecC
Confidence 46666655321 23334555669999999999864
No 320
>PRK14737 gmk guanylate kinase; Provisional
Probab=94.28 E-value=0.0032 Score=40.43 Aligned_cols=24 Identities=21% Similarity=0.083 Sum_probs=19.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.-.+|++|+|+|||.++-.++...
T Consensus 5 ~~ivl~GpsG~GK~tl~~~l~~~~ 28 (186)
T PRK14737 5 KLFIISSVAGGGKSTIIQALLEEH 28 (186)
T ss_pred eEEEEECCCCCCHHHHHHHHHhcC
Confidence 456788999999999998777654
No 321
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=94.28 E-value=0.0034 Score=40.38 Aligned_cols=22 Identities=23% Similarity=0.200 Sum_probs=17.7
Q ss_pred eeEEEeCCCCceeEeeeeEEEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+|.+|+|||||+++..++.+.
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~ 23 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKY 23 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 4688999999999987766543
No 322
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=94.28 E-value=0.015 Score=44.05 Aligned_cols=37 Identities=16% Similarity=0.278 Sum_probs=25.8
Q ss_pred hhhHHHH---HhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 15 QEKSLRK---MFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 15 Q~~av~~---~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
|++-+++ ++.+....+.++++|+|.|||.++-.++.+
T Consensus 187 r~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~ 226 (731)
T TIGR02639 187 REDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALR 226 (731)
T ss_pred cHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHH
Confidence 4444444 444444468999999999999998666554
No 323
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=94.27 E-value=0.0041 Score=47.64 Aligned_cols=43 Identities=21% Similarity=0.207 Sum_probs=28.7
Q ss_pred chhhHHHHHhcC-----------Cc-ceeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 14 YQEKSLRKMFGN-----------GR-ARSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 14 yQ~~av~~~~~~-----------~~-~~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
.|.+|++.+.+. ++ ..+.++.+|||+|||.++-.++..++.+.
T Consensus 462 GQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~ 516 (758)
T PRK11034 462 GQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIEL 516 (758)
T ss_pred CcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence 388888764321 11 23578899999999999876666554443
No 324
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=94.26 E-value=0.0057 Score=41.26 Aligned_cols=42 Identities=17% Similarity=0.133 Sum_probs=25.8
Q ss_pred chhhHHHH---Hhc----CC-cceeeeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 14 YQEKSLRK---MFG----NG-RARSGVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 14 yQ~~av~~---~~~----~~-~~~~~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
.|+..++. +++ .+ .-.+.++.+|+|.|||+.+.-++.+.+..
T Consensus 28 GQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~ 77 (233)
T PF05496_consen 28 GQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN 77 (233)
T ss_dssp S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--
T ss_pred CcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC
Confidence 38888765 221 21 23578999999999999887666555443
No 325
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=94.26 E-value=0.0069 Score=43.21 Aligned_cols=29 Identities=17% Similarity=0.279 Sum_probs=21.9
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
.+..++.+|+|+|||+++-+++...+.+.
T Consensus 179 pkgvLL~GppGTGKT~LAkalA~~l~~~f 207 (398)
T PTZ00454 179 PRGVLLYGPPGTGKTMLAKAVAHHTTATF 207 (398)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhcCCCE
Confidence 46688889999999999876665544433
No 326
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=94.20 E-value=0.0064 Score=37.51 Aligned_cols=20 Identities=35% Similarity=0.335 Sum_probs=16.9
Q ss_pred eeeeEEEeCCCCceeEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~ 48 (67)
+-.+|.+|+|+|||.++-++
T Consensus 20 g~~vi~G~Ng~GKStil~ai 39 (202)
T PF13476_consen 20 GLNVIYGPNGSGKSTILEAI 39 (202)
T ss_dssp EEEEEEESTTSSHHHHHHHH
T ss_pred CcEEEECCCCCCHHHHHHHH
Confidence 57889999999999988554
No 327
>PRK06921 hypothetical protein; Provisional
Probab=94.19 E-value=0.0053 Score=41.49 Aligned_cols=32 Identities=19% Similarity=0.119 Sum_probs=23.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE----eeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV----RKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~----~~~~lil~ 60 (67)
.+.++.+|+|+|||+.+.+++..+ +..++++.
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~ 153 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP 153 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence 578889999999999998776653 34455543
No 328
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=94.19 E-value=0.0035 Score=45.62 Aligned_cols=28 Identities=14% Similarity=0.214 Sum_probs=21.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
++.++.+|||+|||.++-.++...+.++
T Consensus 51 ~~ILliGp~G~GKT~LAr~LAk~l~~~f 78 (443)
T PRK05201 51 KNILMIGPTGVGKTEIARRLAKLANAPF 78 (443)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCChh
Confidence 6788999999999998876666554443
No 329
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=94.18 E-value=0.019 Score=36.05 Aligned_cols=41 Identities=17% Similarity=0.263 Sum_probs=26.0
Q ss_pred ccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 12 RPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 12 R~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
|....+.+.+++..+.....+|.+|-|+|||.....++...
T Consensus 4 R~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 4 REKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp -HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 33444555666654434678888999999998776555443
No 330
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=94.13 E-value=0.023 Score=41.06 Aligned_cols=23 Identities=26% Similarity=0.293 Sum_probs=18.6
Q ss_pred ceeeeEEEeCCCCceeEeeeeEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
++...+++|||.|||++.+-++.
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAa 225 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAA 225 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHH
Confidence 47788999999999998765543
No 331
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=94.12 E-value=0.01 Score=36.86 Aligned_cols=21 Identities=33% Similarity=0.214 Sum_probs=16.8
Q ss_pred eeeEEEeCCCCceeEeeeeEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~ 50 (67)
..+|.+|+|||||+++-.++.
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~ 23 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARA 23 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 467889999999999855444
No 332
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=94.12 E-value=0.011 Score=40.10 Aligned_cols=19 Identities=21% Similarity=0.176 Sum_probs=15.8
Q ss_pred eeeEEEeCCCCceeEeeee
Q psy11637 30 SGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~ 48 (67)
+.++.+|+|+|||+++-.+
T Consensus 60 ~vll~G~pGTGKT~lA~~i 78 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRM 78 (284)
T ss_pred eEEEEcCCCCCHHHHHHHH
Confidence 5778899999999998444
No 333
>KOG0388|consensus
Probab=94.10 E-value=0.0022 Score=49.82 Aligned_cols=57 Identities=19% Similarity=0.321 Sum_probs=45.7
Q ss_pred ceeeccchhhHHHHHhc-CCcceeeeEEEeCCCCceeEeeeeEEEE------eeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFG-NGRARSGVIVLPCGAGKSLVGVTACCTV------RKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~-~~~~~~~~i~~pTGsGKT~i~~~~~~~~------~~~~lil~p~~~ 64 (67)
..+|..||-..+.+..+ .+++-+|++.-..|-|||+-++++...+ -+|+||++|.++
T Consensus 565 ~ctLKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaSt 628 (1185)
T KOG0388|consen 565 KCTLKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPAST 628 (1185)
T ss_pred hhhhHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHHH
Confidence 36789999999987654 2445899999999999999998776543 579999999765
No 334
>PLN02840 tRNA dimethylallyltransferase
Probab=94.09 E-value=0.0039 Score=45.08 Aligned_cols=26 Identities=31% Similarity=0.340 Sum_probs=20.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.-.+|.+|||+|||.++..++...+.
T Consensus 22 ~vi~I~GptgsGKTtla~~La~~~~~ 47 (421)
T PLN02840 22 KVIVISGPTGAGKSRLALELAKRLNG 47 (421)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHCCC
Confidence 34667799999999999887776544
No 335
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=94.08 E-value=0.013 Score=40.57 Aligned_cols=44 Identities=18% Similarity=0.271 Sum_probs=29.8
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---------EeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---------VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---------~~~~~lil~ 60 (67)
+.+|+++..+ .+....|.+|+|+|||.+++.++.. .+++++++-
T Consensus 83 ~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYId 137 (313)
T TIGR02238 83 QALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYID 137 (313)
T ss_pred HHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEE
Confidence 3467777653 2456778899999999998765421 245777764
No 336
>KOG2228|consensus
Probab=94.07 E-value=0.042 Score=39.55 Aligned_cols=52 Identities=25% Similarity=0.358 Sum_probs=33.1
Q ss_pred cceeeccchhh--HHHHHhc----CCcceeeeEEEeCCCCceeEeeeeEE---EEeeeeEE
Q psy11637 7 PSAVLRPYQEK--SLRKMFG----NGRARSGVIVLPCGAGKSLVGVTACC---TVRKRALV 58 (67)
Q Consensus 7 ~~~~lR~yQ~~--av~~~~~----~~~~~~~~i~~pTGsGKT~i~~~~~~---~~~~~~li 58 (67)
+...|+-+|.+ -+++|++ .++.++.++++|-|||||...-.... +.++.+++
T Consensus 22 ~~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~ 82 (408)
T KOG2228|consen 22 PHINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLL 82 (408)
T ss_pred CCcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEE
Confidence 34566666544 3455665 35567899999999999987643322 34555554
No 337
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=94.06 E-value=0.0029 Score=37.66 Aligned_cols=21 Identities=33% Similarity=0.360 Sum_probs=16.7
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+|.+++|||||.++-.+....
T Consensus 3 ~i~G~~GsGKst~a~~la~~~ 23 (147)
T cd02020 3 AIDGPAGSGKSTVAKLLAKKL 23 (147)
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 578999999999887665543
No 338
>PRK06696 uridine kinase; Validated
Probab=94.05 E-value=0.0066 Score=39.51 Aligned_cols=24 Identities=13% Similarity=-0.046 Sum_probs=19.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
....|.+++|||||+++-.++..+
T Consensus 23 ~iI~I~G~sgsGKSTlA~~L~~~l 46 (223)
T PRK06696 23 LRVAIDGITASGKTTFADELAEEI 46 (223)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 345567999999999998777665
No 339
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=94.05 E-value=0.02 Score=42.54 Aligned_cols=48 Identities=15% Similarity=0.210 Sum_probs=32.9
Q ss_pred eccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----E---eeeeEEEeecc
Q psy11637 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----V---RKRALVLCNSG 63 (67)
Q Consensus 11 lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~---~~~~lil~p~~ 63 (67)
|.|-|++++.. .. +..+|.+.+|||||.+...-+.. . .+++|+++-|+
T Consensus 2 Ln~~Q~~av~~--~~---~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~ 56 (664)
T TIGR01074 2 LNPQQQEAVEY--VT---GPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTN 56 (664)
T ss_pred CCHHHHHHHhC--CC---CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccH
Confidence 66788888764 12 57899999999999888643332 1 24567776554
No 340
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=94.04 E-value=0.0044 Score=39.07 Aligned_cols=24 Identities=38% Similarity=0.498 Sum_probs=19.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.++++|+|+|||+++-.++...
T Consensus 5 ~~I~liG~~GaGKStl~~~La~~l 28 (172)
T PRK05057 5 RNIFLVGPMGAGKSTIGRQLAQQL 28 (172)
T ss_pred CEEEEECCCCcCHHHHHHHHHHHc
Confidence 467788999999999997766544
No 341
>PRK06547 hypothetical protein; Provisional
Probab=94.03 E-value=0.0069 Score=38.52 Aligned_cols=23 Identities=17% Similarity=0.153 Sum_probs=17.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
...+|.+++|||||+++-.+...
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 44556689999999998666544
No 342
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=94.02 E-value=0.0053 Score=42.65 Aligned_cols=27 Identities=19% Similarity=0.322 Sum_probs=20.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
...++.+|+|+|||+++-+++...+.+
T Consensus 157 ~gvLL~GppGtGKT~lakaia~~l~~~ 183 (364)
T TIGR01242 157 KGVLLYGPPGTGKTLLAKAVAHETNAT 183 (364)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhCCCC
Confidence 457889999999999987776655443
No 343
>PRK05480 uridine/cytidine kinase; Provisional
Probab=93.99 E-value=0.006 Score=39.04 Aligned_cols=24 Identities=25% Similarity=0.095 Sum_probs=18.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
....|.+|+|||||+++-.+....
T Consensus 7 ~iI~I~G~sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 7 IIIGIAGGSGSGKTTVASTIYEEL 30 (209)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 456688999999999986665554
No 344
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=93.99 E-value=0.011 Score=42.84 Aligned_cols=29 Identities=21% Similarity=0.323 Sum_probs=21.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
...++.+|+|+|||+++-+++.....+.+
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~el~~~fi 246 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVANETSATFL 246 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhhCCCEE
Confidence 56788899999999998777665544433
No 345
>CHL00181 cbbX CbbX; Provisional
Probab=93.98 E-value=0.011 Score=40.28 Aligned_cols=22 Identities=18% Similarity=0.102 Sum_probs=17.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.+.++.+|+|+|||.++-.++.
T Consensus 60 ~~ill~G~pGtGKT~lAr~la~ 81 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVALKMAD 81 (287)
T ss_pred ceEEEECCCCCCHHHHHHHHHH
Confidence 3468889999999999976644
No 346
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=93.98 E-value=0.0036 Score=37.63 Aligned_cols=22 Identities=32% Similarity=0.330 Sum_probs=17.5
Q ss_pred eeEEEeCCCCceeEeeeeEEEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.++++++|+|||+++-.+...+
T Consensus 2 i~l~G~~GsGKstla~~la~~l 23 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKAL 23 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHh
Confidence 4688999999999987665543
No 347
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=93.94 E-value=0.011 Score=36.67 Aligned_cols=21 Identities=24% Similarity=-0.004 Sum_probs=16.7
Q ss_pred eeeEEEeCCCCceeEeeeeEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~ 50 (67)
..++.+|+|||||+++..++.
T Consensus 5 ii~i~G~~GsGKsTl~~~l~~ 25 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIVE 25 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 466789999999998865553
No 348
>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=93.92 E-value=0.0061 Score=39.93 Aligned_cols=22 Identities=27% Similarity=0.341 Sum_probs=18.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.-+++.+|.|+|||..++.++.
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~ 23 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLAL 23 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHH
Confidence 3578999999999999976653
No 349
>cd01126 TraG_VirD4 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.
Probab=93.89 E-value=0.043 Score=38.28 Aligned_cols=17 Identities=24% Similarity=0.284 Sum_probs=13.9
Q ss_pred eeeEEEeCCCCceeEee
Q psy11637 30 SGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~ 46 (67)
+.++++|||||||....
T Consensus 1 H~lv~g~tGsGKt~~~v 17 (384)
T cd01126 1 HVLVFAPTRSGKGVGFV 17 (384)
T ss_pred CeeEecCCCCCCccEEE
Confidence 35789999999997654
No 350
>PRK11823 DNA repair protein RadA; Provisional
Probab=93.88 E-value=0.0099 Score=42.88 Aligned_cols=45 Identities=20% Similarity=0.271 Sum_probs=31.8
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEee
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCTV---RKRALVLCN 61 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~p 61 (67)
+-+|+.+..+ .+...+|.+++|+|||+.++.++... +++++++.-
T Consensus 67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~ 116 (446)
T PRK11823 67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSG 116 (446)
T ss_pred HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEc
Confidence 3456677643 23567888999999999988776542 567887753
No 351
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.88 E-value=0.022 Score=39.77 Aligned_cols=38 Identities=16% Similarity=0.154 Sum_probs=25.8
Q ss_pred chhhHHHHHh---cCCc-ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRKMF---GNGR-ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~~~---~~~~-~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.|+.+++.+. ..+. .+.-++.+|.|+|||+++..++..
T Consensus 20 Gq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 20 GQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHH
Confidence 5888776543 3332 233489999999999988665544
No 352
>KOG0090|consensus
Probab=93.87 E-value=0.056 Score=36.58 Aligned_cols=25 Identities=12% Similarity=0.021 Sum_probs=21.6
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+...++++|++||||.++..++...
T Consensus 38 ~~~Vll~Gl~dSGKT~LF~qL~~gs 62 (238)
T KOG0090|consen 38 QNAVLLVGLSDSGKTSLFTQLITGS 62 (238)
T ss_pred CCcEEEEecCCCCceeeeeehhcCC
Confidence 3678999999999999999888764
No 353
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=93.86 E-value=0.013 Score=38.30 Aligned_cols=25 Identities=20% Similarity=0.045 Sum_probs=20.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+..++.+|+|+|||+++..+.....
T Consensus 44 ~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 44 GFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 4678899999999999876665543
No 354
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=93.84 E-value=0.0097 Score=45.09 Aligned_cols=41 Identities=17% Similarity=0.242 Sum_probs=27.0
Q ss_pred chhhHHHHHhcC------C------cceeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 14 YQEKSLRKMFGN------G------RARSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 14 yQ~~av~~~~~~------~------~~~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.|.++++.+.+. + ...+.++.+|||+|||.++-.++..+..
T Consensus 458 GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~ 510 (731)
T TIGR02639 458 GQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGV 510 (731)
T ss_pred CcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcC
Confidence 488888764321 1 1134688999999999888666555443
No 355
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=93.83 E-value=0.014 Score=37.49 Aligned_cols=22 Identities=32% Similarity=0.304 Sum_probs=17.6
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+.+|.+|+|||||+.+-.++.+
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4678999999999988665543
No 356
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=93.79 E-value=0.09 Score=36.63 Aligned_cols=33 Identities=21% Similarity=0.145 Sum_probs=21.6
Q ss_pred hhhHHHHHhc-------CCcceeeeEEEeCCCCceeEeee
Q psy11637 15 QEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 15 Q~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
|++..+++.. .|.+...+..++||||||++...
T Consensus 69 q~~vf~~~~~p~v~~~l~G~n~~i~ayGqtGSGKT~Tm~G 108 (356)
T cd01365 69 QEDVFEDLGRELLDHAFEGYNVCLFAYGQTGSGKSYTMMG 108 (356)
T ss_pred HHHHHHHHHHHHHHHHhCCCceEEEEecCCCCCCeEEecC
Confidence 7777655321 23334455569999999998863
No 357
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=93.78 E-value=0.011 Score=35.93 Aligned_cols=19 Identities=26% Similarity=0.281 Sum_probs=15.5
Q ss_pred EEEeCCCCceeEeeeeEEE
Q psy11637 33 IVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 33 i~~pTGsGKT~i~~~~~~~ 51 (67)
|.+|+|||||+++..++.+
T Consensus 1 i~G~PgsGK~t~~~~la~~ 19 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKR 19 (151)
T ss_dssp EEESTTSSHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHh
Confidence 5799999999988766554
No 358
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=93.77 E-value=0.0049 Score=39.85 Aligned_cols=25 Identities=28% Similarity=0.296 Sum_probs=20.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
.+.+++++.|+|||+++-.++..++
T Consensus 3 ~~IvLiG~mGaGKSTIGr~LAk~L~ 27 (172)
T COG0703 3 MNIVLIGFMGAGKSTIGRALAKALN 27 (172)
T ss_pred ccEEEEcCCCCCHhHHHHHHHHHcC
Confidence 4678999999999999977765543
No 359
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.74 E-value=0.0047 Score=40.15 Aligned_cols=23 Identities=22% Similarity=0.075 Sum_probs=18.1
Q ss_pred eeEEEeCCCCceeEeeeeEEEEe
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
..|.+|+|||||+++-.++...+
T Consensus 3 ItIsG~pGsG~TTva~~lAe~~g 25 (179)
T COG1102 3 ITISGLPGSGKTTVARELAEHLG 25 (179)
T ss_pred EEeccCCCCChhHHHHHHHHHhC
Confidence 35789999999999977666543
No 360
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=93.73 E-value=0.084 Score=36.62 Aligned_cols=34 Identities=21% Similarity=0.144 Sum_probs=22.2
Q ss_pred chhhHHHHHhc-------CCcceeeeEEEeCCCCceeEeee
Q psy11637 14 YQEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 14 yQ~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
-|++..+.+.. .+.+...+..+.||||||.++..
T Consensus 54 ~q~~vy~~~~~p~v~~~~~G~n~ti~aYGqTGSGKTyTm~G 94 (337)
T cd01373 54 NQEDVFQSVGKPLVEDCLSGYNGSIFAYGQTGSGKTYTMMG 94 (337)
T ss_pred CHHHHHHHHHHHHHHHHhCCCceeEEEeCCCCCCceEEecC
Confidence 47776665432 23233455559999999999865
No 361
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=93.73 E-value=0.076 Score=36.86 Aligned_cols=34 Identities=24% Similarity=0.169 Sum_probs=21.6
Q ss_pred chhhHHHHHhc-------CCcceeeeEEEeCCCCceeEeee
Q psy11637 14 YQEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 14 yQ~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
-|++..+.... .|.+...+..++||||||.++..
T Consensus 67 ~q~~vf~~~~~plv~~~~~G~n~~i~ayGqtGSGKTyTm~G 107 (338)
T cd01370 67 TQEEVYENTTKPLVDGVLNGYNATVFAYGATGAGKTHTMLG 107 (338)
T ss_pred CHHHHHHHHHHHHHHHHHCCCCceEEeeCCCCCCCeEEEcC
Confidence 36666654331 13234455569999999999855
No 362
>KOG0341|consensus
Probab=93.72 E-value=0.034 Score=40.93 Aligned_cols=51 Identities=25% Similarity=0.307 Sum_probs=33.8
Q ss_pred eccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeee----EE---------EE-eeeeEEEeecce
Q psy11637 11 LRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTA----CC---------TV-RKRALVLCNSGV 64 (67)
Q Consensus 11 lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~----~~---------~~-~~~~lil~p~~~ 64 (67)
+-|-|.+.+--+++. +..+-.+-||||||+++... +. +. +.--||+||+.-
T Consensus 193 PTpIQvQGlPvvLsG---RDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRE 257 (610)
T KOG0341|consen 193 PTPIQVQGLPVVLSG---RDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRE 257 (610)
T ss_pred CCceeecCcceEeec---CceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHH
Confidence 344566666556654 67777899999999998532 11 11 335799999863
No 363
>PRK10865 protein disaggregation chaperone; Provisional
Probab=93.72 E-value=0.011 Score=45.68 Aligned_cols=38 Identities=13% Similarity=0.249 Sum_probs=27.9
Q ss_pred hhhHHHHHh---cCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 15 QEKSLRKMF---GNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 15 Q~~av~~~~---~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
|+.-+++++ .+....+.++++|+|.|||.++-.++...
T Consensus 183 r~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i 223 (857)
T PRK10865 183 RDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI 223 (857)
T ss_pred CHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence 555566644 34445789999999999999987666543
No 364
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=93.72 E-value=0.093 Score=36.05 Aligned_cols=34 Identities=21% Similarity=0.241 Sum_probs=22.4
Q ss_pred cchhhHHHH--------HhcCCcceeeeEEEeCCCCceeEeee
Q psy11637 13 PYQEKSLRK--------MFGNGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 13 ~yQ~~av~~--------~~~~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
.-|++..++ +++ +.+...+..++||||||.+...
T Consensus 59 ~~q~~vy~~~~~plv~~~~~-G~n~~i~ayG~tgSGKTyTm~G 100 (319)
T cd01376 59 CTQEDIFSREVKPIVPHLLS-GQNATVFAYGSTGAGKTHTMLG 100 (319)
T ss_pred CCHHHHHHHHHHHHHHHHhC-CCceEEEEECCCCCCCcEEEeC
Confidence 347776665 333 3334455569999999999864
No 365
>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=93.72 E-value=0.013 Score=41.50 Aligned_cols=44 Identities=20% Similarity=0.254 Sum_probs=30.7
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
.-+|+.+..+ .+.-.++.+++|+|||++++.++.. .+++++++.
T Consensus 69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs 117 (372)
T cd01121 69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS 117 (372)
T ss_pred HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 4456666543 2356778899999999998877654 245777764
No 366
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=93.70 E-value=0.0064 Score=45.86 Aligned_cols=31 Identities=23% Similarity=0.165 Sum_probs=22.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
.+.+|.++||||||+....++.. .+.+++|+
T Consensus 431 ~n~~I~G~tGsGKS~~~~~l~~~~~~~g~~v~ii 464 (797)
T TIGR02746 431 YNIAVVGGSGAGKSFFMQELIVDNLSRGGKVWVI 464 (797)
T ss_pred cceEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEE
Confidence 57999999999999988655433 24455554
No 367
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=93.70 E-value=0.026 Score=42.56 Aligned_cols=49 Identities=18% Similarity=0.231 Sum_probs=34.5
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE-------eeeeEEEeecc
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV-------RKRALVLCNSG 63 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~-------~~~~lil~p~~ 63 (67)
.|.|.|++++... . +..+|.+..|||||.+...-+..+ ..++|+++=|+
T Consensus 4 ~Ln~~Q~~av~~~--~---g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~ 59 (726)
T TIGR01073 4 HLNPEQREAVKTT--E---GPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTN 59 (726)
T ss_pred ccCHHHHHHHhCC--C---CCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccH
Confidence 5788999998742 2 578999999999998886433321 24677776553
No 368
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=93.68 E-value=0.015 Score=36.37 Aligned_cols=24 Identities=21% Similarity=0.133 Sum_probs=19.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+..++++|+|||||+++-.+....
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSVL 26 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhh
Confidence 456788999999999997665543
No 369
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=93.67 E-value=0.0076 Score=46.10 Aligned_cols=23 Identities=30% Similarity=0.378 Sum_probs=19.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
++.+|.+|||||||+....++..
T Consensus 442 gn~~I~G~tGsGKS~l~~~l~~~ 464 (811)
T PRK13873 442 GHTLVVGPTGAGKSVLLALMALQ 464 (811)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 48999999999999988665543
No 370
>PRK08116 hypothetical protein; Validated
Probab=93.65 E-value=0.0049 Score=41.63 Aligned_cols=30 Identities=10% Similarity=0.171 Sum_probs=22.5
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
..++.+++|+|||+.+.+++..+ +.+++++
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~ 148 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFV 148 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 36788999999999998877653 4455554
No 371
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=93.65 E-value=0.012 Score=42.69 Aligned_cols=44 Identities=25% Similarity=0.411 Sum_probs=31.0
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
+.+|+.+..+ .+...+|.+|+|+|||..++.++.. .+.+++++.
T Consensus 260 ~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis 308 (509)
T PRK09302 260 PDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFA 308 (509)
T ss_pred HHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence 3456666532 2356778899999999999877653 367777775
No 372
>PHA02624 large T antigen; Provisional
Probab=93.62 E-value=0.014 Score=44.22 Aligned_cols=41 Identities=17% Similarity=0.173 Sum_probs=30.6
Q ss_pred HHHHhcCCc-ceeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 19 LRKMFGNGR-ARSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 19 v~~~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
++.++++-. .+-.++.+|.|+|||..+.+++..++++++-+
T Consensus 421 lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsV 462 (647)
T PHA02624 421 LKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNV 462 (647)
T ss_pred HHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEe
Confidence 444555422 34567779999999999999999998877663
No 373
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=93.62 E-value=0.0093 Score=40.28 Aligned_cols=33 Identities=18% Similarity=0.208 Sum_probs=23.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe---eeeEEEee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR---KRALVLCN 61 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~---~~~lil~p 61 (67)
-+.+|++++|||||...+.++.... ..+.+++|
T Consensus 14 fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 5788999999999998877766432 34444444
No 374
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=93.61 E-value=0.0046 Score=40.60 Aligned_cols=20 Identities=20% Similarity=0.124 Sum_probs=15.7
Q ss_pred EEEeCCCCceeEeeeeEEEE
Q psy11637 33 IVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 33 i~~pTGsGKT~i~~~~~~~~ 52 (67)
|.+|+|||||+++-.+...+
T Consensus 4 I~G~sGSGKTTla~~L~~~l 23 (220)
T cd02025 4 IAGSVAVGKSTTARVLQALL 23 (220)
T ss_pred eeCCCCCCHHHHHHHHHHHH
Confidence 67999999999986555443
No 375
>PRK13949 shikimate kinase; Provisional
Probab=93.60 E-value=0.0052 Score=38.73 Aligned_cols=23 Identities=26% Similarity=0.267 Sum_probs=18.2
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.+|++|+|+|||+++-.++...
T Consensus 3 ~I~liG~~GsGKstl~~~La~~l 25 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALAREL 25 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHHc
Confidence 56788999999999987665544
No 376
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=93.60 E-value=0.015 Score=41.32 Aligned_cols=47 Identities=19% Similarity=0.199 Sum_probs=30.7
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE--eeeeEEEeec
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV--RKRALVLCNS 62 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~--~~~~lil~p~ 62 (67)
-|-+.+..+.+.. .+.++++-||||||+..-++.... .+|++.+-.|
T Consensus 161 ~~a~~L~~av~~r--~NILisGGTGSGKTTlLNal~~~i~~~eRvItiEDt 209 (355)
T COG4962 161 RAAKFLRRAVGIR--CNILISGGTGSGKTTLLNALSGFIDSDERVITIEDT 209 (355)
T ss_pred HHHHHHHHHHhhc--eeEEEeCCCCCCHHHHHHHHHhcCCCcccEEEEeeh
Confidence 3444445555543 589999999999999886665543 3466555443
No 377
>PF05729 NACHT: NACHT domain
Probab=93.59 E-value=0.0073 Score=36.17 Aligned_cols=22 Identities=23% Similarity=-0.031 Sum_probs=18.0
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
-.+|.+++|+|||.++..++..
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~ 23 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQ 23 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHH
Confidence 3578899999999998777654
No 378
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.59 E-value=0.0082 Score=43.12 Aligned_cols=22 Identities=23% Similarity=0.244 Sum_probs=18.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
+..++++|||+|||+++..++.
T Consensus 222 ~~i~~vGptGvGKTTt~~kLA~ 243 (424)
T PRK05703 222 GVVALVGPTGVGKTTTLAKLAA 243 (424)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4678889999999998876654
No 379
>TIGR03744 traC_PFL_4706 conjugative transfer ATPase, PFL_4706 family. Members of this protein family are predicted ATP-binding proteins apparently associated with DNA conjugal transfer. Members are found both in plasmids and in bacterial chromosomal regions that appear to derive from integrative elements such as conjugative transposons. More distant homologs, outside the scope of this family, include type IV secretion/conjugal transfer proteins such as TraC, VirB4 and TrsE. The granularity of this protein family definition is chosen so as to represent one distinctive clade and act as a marker through which to define and recognize the class of mobile element it serves.
Probab=93.58 E-value=0.0067 Score=46.97 Aligned_cols=24 Identities=29% Similarity=0.239 Sum_probs=19.8
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..+++|.+|||||||+....++..
T Consensus 475 n~n~~I~G~TGSGKS~l~~~li~q 498 (893)
T TIGR03744 475 NAHLLILGPTGAGKSATLTNLLMQ 498 (893)
T ss_pred cccEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999988666544
No 380
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=93.57 E-value=0.026 Score=40.21 Aligned_cols=23 Identities=22% Similarity=0.115 Sum_probs=18.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.-.++.+|+|+|||+++-.++..
T Consensus 79 ~il~L~GPPGsGKStla~~La~~ 101 (361)
T smart00763 79 QILYLLGPVGGGKSSLVECLKRG 101 (361)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 34578899999999999776554
No 381
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=93.56 E-value=0.0048 Score=45.92 Aligned_cols=57 Identities=23% Similarity=0.332 Sum_probs=41.4
Q ss_pred ceeeccchhhHHHHHhc--CCcceeeeEEEeCCCCceeEeeeeEEE---E----eeeeEEEeecce
Q psy11637 8 SAVLRPYQEKSLRKMFG--NGRARSGVIVLPCGAGKSLVGVTACCT---V----RKRALVLCNSGV 64 (67)
Q Consensus 8 ~~~lR~yQ~~av~~~~~--~~~~~~~~i~~pTGsGKT~i~~~~~~~---~----~~~~lil~p~~~ 64 (67)
...+||||.+.+.+... ......+++.-..|.|||+..++++.. . .++.++++|+..
T Consensus 336 ~~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~ 401 (866)
T COG0553 336 SAELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASL 401 (866)
T ss_pred hhhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHH
Confidence 46799999999955331 112367888899999999888766532 1 358999999754
No 382
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=93.55 E-value=0.014 Score=37.17 Aligned_cols=21 Identities=24% Similarity=0.324 Sum_probs=16.8
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
-|.+|+|||||+++-.+...+
T Consensus 3 gI~G~sgSGKTTla~~L~~~L 23 (194)
T PF00485_consen 3 GIAGPSGSGKTTLAKRLAQIL 23 (194)
T ss_dssp EEEESTTSSHHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 378999999999997666544
No 383
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.54 E-value=0.026 Score=39.89 Aligned_cols=38 Identities=21% Similarity=0.161 Sum_probs=25.4
Q ss_pred chhhHHHH---HhcCCc-ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRK---MFGNGR-ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~---~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.|+.+++. +++.+. .+.-++.+|.|.|||.++..++..
T Consensus 20 Gq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~ 61 (397)
T PRK14955 20 AQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKA 61 (397)
T ss_pred ChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHH
Confidence 47776654 444433 234678899999999998665543
No 384
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=93.51 E-value=0.014 Score=41.13 Aligned_cols=44 Identities=18% Similarity=0.245 Sum_probs=29.7
Q ss_pred HHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEE---------EeeeeEEEee
Q psy11637 18 SLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCT---------VRKRALVLCN 61 (67)
Q Consensus 18 av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~---------~~~~~lil~p 61 (67)
.+|+++..+ .+....|.+|+|+|||.+++.++.. .+++++|+--
T Consensus 114 ~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdT 168 (344)
T PLN03187 114 ALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDT 168 (344)
T ss_pred hHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEc
Confidence 466777653 2456778899999999988765421 1357777653
No 385
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=93.51 E-value=0.004 Score=39.23 Aligned_cols=25 Identities=32% Similarity=0.357 Sum_probs=20.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+-.+|++|.|+|||.++-.++....
T Consensus 3 r~ivl~Gpsg~GK~~l~~~L~~~~~ 27 (183)
T PF00625_consen 3 RPIVLVGPSGSGKSTLAKRLIQEFP 27 (183)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHST
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcc
Confidence 4678899999999999987777654
No 386
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=93.51 E-value=0.012 Score=40.94 Aligned_cols=40 Identities=18% Similarity=0.273 Sum_probs=30.4
Q ss_pred eccchhhHHHHHhcC-Cc-ceeeeEEEeCCCCceeEeeeeEE
Q psy11637 11 LRPYQEKSLRKMFGN-GR-ARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 11 lR~yQ~~av~~~~~~-~~-~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
+.|+|++..+++... +. .+.-++.+|.|.|||..+..++.
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~ 43 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQ 43 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHH
Confidence 479999999998753 22 35677899999999988865543
No 387
>PTZ00088 adenylate kinase 1; Provisional
Probab=93.50 E-value=0.0056 Score=40.68 Aligned_cols=24 Identities=17% Similarity=0.009 Sum_probs=19.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+.++.+|+|||||+++..++...
T Consensus 7 mrIvl~G~PGsGK~T~a~~La~~~ 30 (229)
T PTZ00088 7 LKIVLFGAPGVGKGTFAEILSKKE 30 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 357888999999999987665543
No 388
>PRK00279 adk adenylate kinase; Reviewed
Probab=93.50 E-value=0.0057 Score=39.48 Aligned_cols=23 Identities=22% Similarity=0.174 Sum_probs=18.1
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.+|.+|+|||||+++..++...
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~~~ 24 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAEKY 24 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 35788999999999887666543
No 389
>PRK14528 adenylate kinase; Provisional
Probab=93.49 E-value=0.0052 Score=39.14 Aligned_cols=23 Identities=26% Similarity=0.374 Sum_probs=18.2
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.++.+|+|||||+++..++...
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~ 25 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERL 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 56788999999999987665443
No 390
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=93.49 E-value=0.091 Score=36.19 Aligned_cols=31 Identities=23% Similarity=0.347 Sum_probs=20.7
Q ss_pred hhhHHHH--------HhcCCcceeeeEEEeCCCCceeEee
Q psy11637 15 QEKSLRK--------MFGNGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 15 Q~~av~~--------~~~~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
|++..++ +++ +.+...+..++||||||.++.
T Consensus 65 q~~vf~~~~~plv~~~~~-G~n~~i~ayGqtGSGKTyTm~ 103 (322)
T cd01367 65 NEEVYRSTVKPLIPHVFE-GGVATCFAYGQTGSGKTYTML 103 (322)
T ss_pred HHHHHHHHHHHHHHHHhC-CCceEEEeccCCCCCCceEec
Confidence 6666655 333 333445555999999999987
No 391
>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=93.48 E-value=0.0066 Score=43.92 Aligned_cols=30 Identities=20% Similarity=0.297 Sum_probs=22.2
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
.+..++.+|+|+|||.++-+++...+.+.+
T Consensus 88 ~~giLL~GppGtGKT~la~alA~~~~~~~~ 117 (495)
T TIGR01241 88 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFF 117 (495)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHcCCCee
Confidence 346888999999999998766655544443
No 392
>PRK06620 hypothetical protein; Validated
Probab=93.43 E-value=0.017 Score=37.85 Aligned_cols=21 Identities=19% Similarity=0.105 Sum_probs=16.9
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
...++.+|+|+|||+.+.++.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~ 65 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQ 65 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 457889999999999886543
No 393
>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=93.42 E-value=0.015 Score=42.11 Aligned_cols=44 Identities=23% Similarity=0.358 Sum_probs=30.2
Q ss_pred hHHHHHhcCC--cceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEe
Q psy11637 17 KSLRKMFGNG--RARSGVIVLPCGAGKSLVGVTACCTV---RKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~~--~~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~ 60 (67)
+-+|+++..+ .+.-.+|.+++|+|||+.++.++... +++++++.
T Consensus 81 ~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs 129 (454)
T TIGR00416 81 GELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS 129 (454)
T ss_pred HHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence 3456666543 23557788999999999998775542 45777765
No 394
>KOG1533|consensus
Probab=93.34 E-value=0.037 Score=38.16 Aligned_cols=16 Identities=38% Similarity=0.455 Sum_probs=13.1
Q ss_pred eeEEEeCCCCceeEee
Q psy11637 31 GVIVLPCGAGKSLVGV 46 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~ 46 (67)
.+|++|+|||||+--.
T Consensus 5 qvVIGPPgSGKsTYc~ 20 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCN 20 (290)
T ss_pred eEEEcCCCCCccchhh
Confidence 5789999999997544
No 395
>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=93.34 E-value=0.0099 Score=43.90 Aligned_cols=25 Identities=20% Similarity=0.410 Sum_probs=19.6
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.+..++.+|+|+|||.++-+++..+
T Consensus 216 p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CcceEEECCCCCcHHHHHHHHHHhh
Confidence 3568889999999999886665554
No 396
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=93.34 E-value=0.037 Score=40.91 Aligned_cols=22 Identities=27% Similarity=0.351 Sum_probs=18.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
++|+|.+.||+|||++-..+++
T Consensus 20 RHGLIaGATGTGKTvTLqvlAE 41 (502)
T PF05872_consen 20 RHGLIAGATGTGKTVTLQVLAE 41 (502)
T ss_pred ccceeeccCCCCceehHHHHHH
Confidence 7999999999999987654443
No 397
>CHL00195 ycf46 Ycf46; Provisional
Probab=93.32 E-value=0.008 Score=44.02 Aligned_cols=32 Identities=28% Similarity=0.219 Sum_probs=23.4
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
.+..++.+|+|+|||.++-+++...+-+.+.+
T Consensus 259 pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l 290 (489)
T CHL00195 259 PRGLLLVGIQGTGKSLTAKAIANDWQLPLLRL 290 (489)
T ss_pred CceEEEECCCCCcHHHHHHHHHHHhCCCEEEE
Confidence 35678889999999999877766655554443
No 398
>PRK14738 gmk guanylate kinase; Provisional
Probab=93.32 E-value=0.0094 Score=38.50 Aligned_cols=23 Identities=30% Similarity=0.157 Sum_probs=18.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
...+|++|.|+|||.++-.+...
T Consensus 14 ~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 14 LLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred eEEEEECcCCCCHHHHHHHHHhc
Confidence 56778899999999988666543
No 399
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.32 E-value=0.013 Score=42.11 Aligned_cols=26 Identities=19% Similarity=0.333 Sum_probs=20.4
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
.+..++.+|+|+|||+++=+++.+.+
T Consensus 185 PKGVLLYGPPGTGKTLLAkAVA~~T~ 210 (406)
T COG1222 185 PKGVLLYGPPGTGKTLLAKAVANQTD 210 (406)
T ss_pred CCceEeeCCCCCcHHHHHHHHHhccC
Confidence 46678889999999999876665543
No 400
>PRK02496 adk adenylate kinase; Provisional
Probab=93.31 E-value=0.0062 Score=38.18 Aligned_cols=23 Identities=26% Similarity=0.284 Sum_probs=17.9
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.++.+|+|||||+++-.++...
T Consensus 3 ~i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 3 RLIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46788999999999886665443
No 401
>PRK04841 transcriptional regulator MalT; Provisional
Probab=93.29 E-value=0.017 Score=43.50 Aligned_cols=30 Identities=17% Similarity=0.090 Sum_probs=21.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
.-.+|.+|.|+|||+.........+ ++.++
T Consensus 33 ~~~~v~apaG~GKTtl~~~~~~~~~-~~~w~ 62 (903)
T PRK04841 33 RLVLVTSPAGYGKTTLISQWAAGKN-NLGWY 62 (903)
T ss_pred CeEEEECCCCCCHHHHHHHHHHhCC-CeEEE
Confidence 5688999999999998876554433 44444
No 402
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=93.29 E-value=0.015 Score=42.07 Aligned_cols=43 Identities=21% Similarity=0.217 Sum_probs=31.2
Q ss_pred ceeecc---chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 8 SAVLRP---YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 8 ~~~lR~---yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
-|.+|| +|.-|++..+..+- +-..+.++.|||||..++++..+
T Consensus 223 vwGi~prn~eQ~~ALdlLld~dI-~lV~L~G~AGtGKTlLALaAgle 268 (436)
T COG1875 223 VWGIRPRNAEQRVALDLLLDDDI-DLVSLGGKAGTGKTLLALAAGLE 268 (436)
T ss_pred hhccCcccHHHHHHHHHhcCCCC-CeEEeeccCCccHhHHHHHHHHH
Confidence 355555 68888888887531 34556699999999999876554
No 403
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.28 E-value=0.015 Score=40.92 Aligned_cols=23 Identities=26% Similarity=0.138 Sum_probs=18.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+-.+++++||||||+..++.+..
T Consensus 128 GLviiVGaTGSGKSTtmAaMi~y 150 (375)
T COG5008 128 GLVIIVGATGSGKSTTMAAMIGY 150 (375)
T ss_pred ceEEEECCCCCCchhhHHHHhcc
Confidence 35677899999999988776654
No 404
>PRK04182 cytidylate kinase; Provisional
Probab=93.27 E-value=0.0055 Score=37.65 Aligned_cols=23 Identities=26% Similarity=0.206 Sum_probs=18.5
Q ss_pred eeEEEeCCCCceeEeeeeEEEEe
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
.+|.+++|||||+++-.++..++
T Consensus 3 I~i~G~~GsGKstia~~la~~lg 25 (180)
T PRK04182 3 ITISGPPGSGKTTVARLLAEKLG 25 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHcC
Confidence 46789999999999977766544
No 405
>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=93.26 E-value=0.012 Score=41.46 Aligned_cols=22 Identities=18% Similarity=-0.011 Sum_probs=18.1
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..++.+|+|+|||+++.++..+
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~ 159 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNE 159 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHH
Confidence 3578999999999998776654
No 406
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=93.24 E-value=0.051 Score=42.42 Aligned_cols=36 Identities=14% Similarity=0.019 Sum_probs=23.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeecce
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGV 64 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~ 64 (67)
...+|++|||||||+-.=..+.+ ..+.+.+.-|+..
T Consensus 66 ~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRl 105 (845)
T COG1643 66 QVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRL 105 (845)
T ss_pred CEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHH
Confidence 68889999999999866333322 2345555555543
No 407
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=93.21 E-value=0.013 Score=40.70 Aligned_cols=29 Identities=17% Similarity=0.154 Sum_probs=22.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
-..++.+++|+|||.++..++.+++.+.+
T Consensus 93 ~iIlI~G~sgsGKStlA~~La~~l~~~~v 121 (301)
T PRK04220 93 IIILIGGASGVGTSTIAFELASRLGIRSV 121 (301)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence 45677899999999999888877665543
No 408
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=93.21 E-value=0.099 Score=33.22 Aligned_cols=29 Identities=14% Similarity=0.036 Sum_probs=20.7
Q ss_pred hHHHHHhcCCcceeeeEEEeCCCCceeEee
Q psy11637 17 KSLRKMFGNGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 17 ~av~~~~~~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
.+++.+++. .+...+..++||||||.+..
T Consensus 14 ~~v~~~~~G-~n~~i~~yG~tGsGKT~Tm~ 42 (186)
T cd01363 14 PLLQSALDG-YNVCIFAYGQTGSGKTYTME 42 (186)
T ss_pred HHHHHHhCC-cceeEEEECCCCCcceEecC
Confidence 556666654 33456667999999998875
No 409
>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=93.18 E-value=0.011 Score=36.53 Aligned_cols=24 Identities=17% Similarity=0.034 Sum_probs=19.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...++.++.|+|||+..-.++..+
T Consensus 23 ~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 23 TVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHc
Confidence 567788999999999886666554
No 410
>PRK01184 hypothetical protein; Provisional
Probab=93.16 E-value=0.016 Score=36.18 Aligned_cols=16 Identities=25% Similarity=0.059 Sum_probs=13.4
Q ss_pred eeEEEeCCCCceeEee
Q psy11637 31 GVIVLPCGAGKSLVGV 46 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~ 46 (67)
.++++|+|||||+++-
T Consensus 4 i~l~G~~GsGKsT~a~ 19 (184)
T PRK01184 4 IGVVGMPGSGKGEFSK 19 (184)
T ss_pred EEEECCCCCCHHHHHH
Confidence 4678999999999764
No 411
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=93.15 E-value=0.095 Score=36.28 Aligned_cols=35 Identities=20% Similarity=0.165 Sum_probs=22.9
Q ss_pred cchhhHHHHHhc-------CCcceeeeEEEeCCCCceeEeee
Q psy11637 13 PYQEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 13 ~yQ~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
.-|++..+.+.. .|.+...+..++||||||.+...
T Consensus 59 ~~q~~vy~~~~~p~v~~~~~G~n~~i~ayG~tgSGKTyTm~G 100 (334)
T cd01375 59 ASQEEVYETVAKPVVDSALDGYNGTIFAYGQTGAGKTFTMTG 100 (334)
T ss_pred CCHHHHHHHHHHHHHHHHhCCCccceeeecCCCCCCeEEccC
Confidence 457776665332 23334555669999999999865
No 412
>PF02534 T4SS-DNA_transf: Type IV secretory system Conjugative DNA transfer; InterPro: IPR003688 This entry represents TraG proteins and their homologues. These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems [, ].; GO: 0009291 unidirectional conjugation, 0016020 membrane
Probab=93.14 E-value=0.053 Score=38.54 Aligned_cols=18 Identities=28% Similarity=0.407 Sum_probs=15.1
Q ss_pred eeeeEEEeCCCCceeEee
Q psy11637 29 RSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~ 46 (67)
.+.++++|||||||.-..
T Consensus 45 ~h~lvig~tgSGKt~~~v 62 (469)
T PF02534_consen 45 THVLVIGPTGSGKTTSFV 62 (469)
T ss_pred eEEEEEeCCCCCccceee
Confidence 468999999999997653
No 413
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=93.13 E-value=0.0082 Score=43.67 Aligned_cols=31 Identities=16% Similarity=0.248 Sum_probs=22.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
+...+++|||+|||+++..++..+ +.++.++
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI 275 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFI 275 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEE
Confidence 466789999999999987776543 3345444
No 414
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=93.11 E-value=0.033 Score=40.56 Aligned_cols=31 Identities=19% Similarity=0.218 Sum_probs=23.1
Q ss_pred hhHHHHHhcCCcceeeeEEEeCCCCceeEee
Q psy11637 16 EKSLRKMFGNGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 16 ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
.+.++.|+....+-..+|.+|-||||+-+.+
T Consensus 5 ~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~ 35 (431)
T PF10443_consen 5 IEQLKSWLNENPNTFIVVQGPRGSGKRELVM 35 (431)
T ss_pred HHHHHHHHhcCCCeEEEEECCCCCCccHHHH
Confidence 4556778876544567777999999987664
No 415
>PRK08356 hypothetical protein; Provisional
Probab=93.11 E-value=0.017 Score=36.79 Aligned_cols=19 Identities=26% Similarity=0.048 Sum_probs=15.8
Q ss_pred eeeEEEeCCCCceeEeeee
Q psy11637 30 SGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~ 48 (67)
..++++|+|||||+++-.+
T Consensus 7 ~i~~~G~~gsGK~t~a~~l 25 (195)
T PRK08356 7 IVGVVGKIAAGKTTVAKFF 25 (195)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 4567899999999998666
No 416
>KOG0923|consensus
Probab=93.11 E-value=0.059 Score=41.73 Aligned_cols=38 Identities=21% Similarity=0.248 Sum_probs=27.6
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeE
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~ 49 (67)
....+|-.+.++++-++ .-.+|++.||||||+-.=...
T Consensus 264 LPVy~ykdell~av~e~---QVLiI~GeTGSGKTTQiPQyL 301 (902)
T KOG0923|consen 264 LPVYPYKDELLKAVKEH---QVLIIVGETGSGKTTQIPQYL 301 (902)
T ss_pred CCchhhHHHHHHHHHhC---cEEEEEcCCCCCccccccHHH
Confidence 34456667777776665 578889999999998764433
No 417
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.09 E-value=0.0094 Score=39.31 Aligned_cols=33 Identities=12% Similarity=-0.030 Sum_probs=24.4
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEe
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLC 60 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~ 60 (67)
+...++.+|+|+|||+.++.++.. .+.+++++.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~ 59 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS 59 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 357888899999999998665543 245667665
No 418
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=93.06 E-value=0.009 Score=43.26 Aligned_cols=32 Identities=13% Similarity=0.109 Sum_probs=23.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~ 60 (67)
...++++++|+|||+++..++..+ +.+++++.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~ 130 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA 130 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence 457888999999999997776543 34555544
No 419
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=93.05 E-value=0.0064 Score=37.13 Aligned_cols=23 Identities=26% Similarity=0.232 Sum_probs=18.1
Q ss_pred eeEEEeCCCCceeEeeeeEEEEe
Q psy11637 31 GVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
.+|.+++|||||.++-.+...++
T Consensus 3 I~i~G~~GSGKstia~~la~~lg 25 (171)
T TIGR02173 3 ITISGPPGSGKTTVAKILAEKLS 25 (171)
T ss_pred EEEECCCCCCHHHHHHHHHHHcC
Confidence 46789999999999877765544
No 420
>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=93.03 E-value=0.036 Score=42.84 Aligned_cols=37 Identities=14% Similarity=0.240 Sum_probs=26.6
Q ss_pred hhhHHHHHh---cCCcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 15 QEKSLRKMF---GNGRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 15 Q~~av~~~~---~~~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
|++-++++. .+....+.++++|+|.|||.++-.++.+
T Consensus 178 r~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~ 217 (852)
T TIGR03346 178 RDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQR 217 (852)
T ss_pred cHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHH
Confidence 555565544 3444478999999999999988766554
No 421
>PRK13880 conjugal transfer coupling protein TraG; Provisional
Probab=93.02 E-value=0.074 Score=40.13 Aligned_cols=25 Identities=16% Similarity=0.167 Sum_probs=18.5
Q ss_pred HhcCCcceeeeEEEeCCCCceeEee
Q psy11637 22 MFGNGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 22 ~~~~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
++.++...+.++++|||||||+-..
T Consensus 169 ~L~~~g~~HvlviapTgSGKgvg~V 193 (636)
T PRK13880 169 YLRHNGPEHVLTYAPTRSGKGVGLV 193 (636)
T ss_pred eEEeCCCceEEEEecCCCCCceEEE
Confidence 3444334789999999999998553
No 422
>PRK10867 signal recognition particle protein; Provisional
Probab=93.01 E-value=0.0079 Score=43.53 Aligned_cols=32 Identities=22% Similarity=0.233 Sum_probs=22.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE----eeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV----RKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~----~~~~lil~ 60 (67)
...++++|+|+|||+++..++..+ +.+++++.
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~ 136 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVA 136 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 346788999999999987776542 44555543
No 423
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=92.98 E-value=0.014 Score=39.31 Aligned_cols=35 Identities=23% Similarity=0.323 Sum_probs=25.0
Q ss_pred HHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 18 SLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 18 av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
++|.++--+++.+.+|.+|.|+|||+++-.+....
T Consensus 6 ~id~~~~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l 40 (249)
T cd01128 6 VVDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAI 40 (249)
T ss_pred heeeecccCCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence 45555544455899999999999998776655443
No 424
>PRK09087 hypothetical protein; Validated
Probab=92.98 E-value=0.046 Score=36.02 Aligned_cols=20 Identities=25% Similarity=0.288 Sum_probs=16.4
Q ss_pred eeeEEEeCCCCceeEeeeeE
Q psy11637 30 SGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~ 49 (67)
...|.+|+|+|||+....+.
T Consensus 46 ~l~l~G~~GsGKThLl~~~~ 65 (226)
T PRK09087 46 VVVLAGPVGSGKTHLASIWR 65 (226)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 47899999999999886544
No 425
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.98 E-value=0.035 Score=40.88 Aligned_cols=39 Identities=15% Similarity=0.285 Sum_probs=26.5
Q ss_pred chhhHHHH---HhcCCc-ceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 14 YQEKSLRK---MFGNGR-ARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 14 yQ~~av~~---~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.|+.++.. +++.+. .+.-++.+|.|+|||.++-.++..+
T Consensus 22 GQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L 64 (484)
T PRK14956 22 HQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL 64 (484)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence 57777654 444432 2335899999999999986665543
No 426
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=92.94 E-value=0.011 Score=44.34 Aligned_cols=34 Identities=15% Similarity=0.111 Sum_probs=23.9
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE---Eee-eeEEEee
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT---VRK-RALVLCN 61 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~---~~~-~~lil~p 61 (67)
..+.+|.++||+|||+....++.. .+. +++++=|
T Consensus 434 ~~n~~I~G~tGsGKS~~~~~l~~~~~~~~~~~v~iiD~ 471 (785)
T TIGR00929 434 LGHTLIFGPTGSGKTTLLNFLLAQMQKYGGMTIFAFDK 471 (785)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhhccCCCeEEEEeC
Confidence 368999999999999888655443 234 5555543
No 427
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.94 E-value=0.0098 Score=43.23 Aligned_cols=22 Identities=23% Similarity=0.232 Sum_probs=18.2
Q ss_pred eeeEEEeCCCCceeEeeeeEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..++++|+|+|||+++..++..
T Consensus 225 vi~lvGptGvGKTTtaaKLA~~ 246 (432)
T PRK12724 225 VVFFVGPTGSGKTTSIAKLAAK 246 (432)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4678899999999999877653
No 428
>PRK13531 regulatory ATPase RavA; Provisional
Probab=92.85 E-value=0.028 Score=41.59 Aligned_cols=36 Identities=19% Similarity=0.164 Sum_probs=25.1
Q ss_pred hhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 15 QEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 15 Q~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
|++.++.++.. ..+++.++.+|+|+|||.++-.+..
T Consensus 25 re~vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~ 61 (498)
T PRK13531 25 RSHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKF 61 (498)
T ss_pred cHHHHHHHHHHHccCCCEEEECCCChhHHHHHHHHHH
Confidence 55666654431 1237999999999999999865554
No 429
>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=92.83 E-value=0.02 Score=43.28 Aligned_cols=31 Identities=16% Similarity=0.309 Sum_probs=22.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~lil 59 (67)
+..++.+|+|+|||.++-+++...+.+.+.+
T Consensus 488 ~giLL~GppGtGKT~lakalA~e~~~~fi~v 518 (733)
T TIGR01243 488 KGVLLFGPPGTGKTLLAKAVATESGANFIAV 518 (733)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhcCCCEEEE
Confidence 4568889999999999877776655544433
No 430
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=92.81 E-value=0.012 Score=36.67 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=18.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.-.++.+|+|+|||.+++.++.
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~ 54 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAA 54 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHH
T ss_pred eEEEEEeCCCCCHHHHHHHHHH
Confidence 5789999999999998876554
No 431
>PRK13850 type IV secretion system protein VirD4; Provisional
Probab=92.80 E-value=0.085 Score=40.18 Aligned_cols=24 Identities=33% Similarity=0.490 Sum_probs=17.9
Q ss_pred hcCCcceeeeEEEeCCCCceeEee
Q psy11637 23 FGNGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 23 ~~~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
+.++...+.++++|||||||+-..
T Consensus 134 lr~~~~~hvlviApTgSGKgvg~V 157 (670)
T PRK13850 134 LTNGEQPHSLVVAPTRAGKGVGVV 157 (670)
T ss_pred cccCCCceEEEEecCCCCceeeeh
Confidence 333334688999999999998663
No 432
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.77 E-value=0.017 Score=39.59 Aligned_cols=40 Identities=15% Similarity=0.131 Sum_probs=27.8
Q ss_pred hhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 15 QEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 15 Q~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
+++.+...+.. ..+++.++.+|+|.|||..+-.++...+.
T Consensus 29 ~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~~ 69 (329)
T COG0714 29 DEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARALGL 69 (329)
T ss_pred cHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhCC
Confidence 55555554321 11278999999999999998777766553
No 433
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=92.76 E-value=0.013 Score=37.04 Aligned_cols=24 Identities=25% Similarity=0.285 Sum_probs=19.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+-.++++|.|+||+.++-.++...
T Consensus 3 r~ivl~Gpsg~GK~tl~~~L~~~~ 26 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAELIQEI 26 (184)
T ss_pred cEEEEECCCCCCHHHHHHHHHhcC
Confidence 456788999999999887776664
No 434
>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=92.76 E-value=0.067 Score=39.70 Aligned_cols=54 Identities=13% Similarity=0.070 Sum_probs=43.2
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEeecce
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLCNSGV 64 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~p~~~ 64 (67)
..-|||.+.++.+-..+ -+...+..+.-+|||.+++..+.. ...++|++.||.-
T Consensus 16 ~~~Py~~eimd~~~~~~-v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P~~~l~v~Pt~~ 73 (557)
T PF05876_consen 16 DRTPYLREIMDALSDPS-VREVVVMKSAQVGKTELLLNWIGYSIDQDPGPMLYVQPTDD 73 (557)
T ss_pred CCChhHHHHHHhcCCcC-ccEEEEEEcchhhHhHHHHhhceEEEEeCCCCEEEEEEcHH
Confidence 66799999999988754 357778899999999988766554 3578999999853
No 435
>PTZ00301 uridine kinase; Provisional
Probab=92.68 E-value=0.019 Score=37.67 Aligned_cols=21 Identities=24% Similarity=0.172 Sum_probs=16.2
Q ss_pred eeEEEeCCCCceeEeeeeEEE
Q psy11637 31 GVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.-|.+|+|||||+++..+..+
T Consensus 6 IgIaG~SgSGKTTla~~l~~~ 26 (210)
T PTZ00301 6 IGISGASGSGKSSLSTNIVSE 26 (210)
T ss_pred EEEECCCcCCHHHHHHHHHHH
Confidence 346799999999999665543
No 436
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.63 E-value=0.031 Score=43.79 Aligned_cols=21 Identities=24% Similarity=0.085 Sum_probs=17.2
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
+-.+|++|||+|||++.-+++
T Consensus 27 gl~~I~G~nGaGKSTildAI~ 47 (1042)
T TIGR00618 27 PIFLICGKTGAGKTTLLDAIT 47 (1042)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 477899999999999875544
No 437
>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=92.61 E-value=0.011 Score=42.64 Aligned_cols=32 Identities=19% Similarity=0.147 Sum_probs=23.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT----VRKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~ 60 (67)
...++++|+|+|||+++..++.. .+.+++++.
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~ 135 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVA 135 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEe
Confidence 45778899999999998776654 244565553
No 438
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.60 E-value=0.044 Score=39.96 Aligned_cols=38 Identities=16% Similarity=0.188 Sum_probs=24.5
Q ss_pred chhhHHHH---HhcCCc-ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRK---MFGNGR-ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~---~~~~~~-~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.|+.+... ++..+. .+.-++.+|+|+|||+++..++..
T Consensus 18 Gq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 18 GQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 36665443 334332 233588999999999998665443
No 439
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=92.49 E-value=0.16 Score=34.81 Aligned_cols=33 Identities=18% Similarity=0.113 Sum_probs=21.5
Q ss_pred chhhHHHHH--------hcCCcceeeeEEEeCCCCceeEeee
Q psy11637 14 YQEKSLRKM--------FGNGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 14 yQ~~av~~~--------~~~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
-|++..+.. +. +.+...+..++||||||.+...
T Consensus 56 ~q~~vy~~~~~~~v~~~~~-G~n~~i~ayG~tgSGKT~Tm~G 96 (325)
T cd01369 56 TQEDVYNFVAKPIVDDVLN-GYNGTIFAYGQTGSGKTYTMEG 96 (325)
T ss_pred CHHHHHHHHHHHHHHHHHc-CccceEEEeCCCCCCceEEecC
Confidence 366666553 33 3334455669999999999754
No 440
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=92.48 E-value=0.023 Score=36.11 Aligned_cols=25 Identities=16% Similarity=0.182 Sum_probs=19.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
.+.++.+|||+|||.++-.++..+.
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~~l~ 28 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAELLF 28 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4678999999999988866665543
No 441
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=92.48 E-value=0.028 Score=36.01 Aligned_cols=23 Identities=22% Similarity=-0.023 Sum_probs=17.2
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
....|++|+|||||+.+-.+...
T Consensus 7 ~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 7 IIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 45567899999999988655443
No 442
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=92.48 E-value=0.15 Score=34.91 Aligned_cols=33 Identities=9% Similarity=0.067 Sum_probs=21.3
Q ss_pred chhhHHHHHhc-------CCcceeeeEEEeCCCCceeEee
Q psy11637 14 YQEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGV 46 (67)
Q Consensus 14 yQ~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~ 46 (67)
-|++..++... .+.+...+..++||||||.+..
T Consensus 53 ~q~~vy~~~~~p~v~~~l~G~n~~i~ayG~tgSGKT~T~~ 92 (321)
T cd01374 53 TNREVYERIAKPVVRSALEGYNGTIFAYGQTSSGKTFTMS 92 (321)
T ss_pred CHHHHHHHHHHHHHHHHHCCCceeEEeecCCCCCCceecc
Confidence 36666654321 1333445566999999999886
No 443
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=92.47 E-value=0.011 Score=42.78 Aligned_cols=32 Identities=16% Similarity=0.164 Sum_probs=22.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVLC 60 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil~ 60 (67)
...++++|+|+|||+++..++..+ +.++++++
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~ 135 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVC 135 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEc
Confidence 456788999999999997766543 44555554
No 444
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=92.46 E-value=0.037 Score=33.93 Aligned_cols=19 Identities=37% Similarity=0.441 Sum_probs=0.0
Q ss_pred eeEEEeCCCCceeEeeeeE
Q psy11637 31 GVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 31 ~~i~~pTGsGKT~i~~~~~ 49 (67)
.++++|.|||||.+.-++.
T Consensus 2 ~viiG~N~sGKS~il~ai~ 20 (303)
T PF13304_consen 2 NVIIGPNGSGKSNILEAIY 20 (303)
T ss_dssp -------------------
T ss_pred Ccccccccccccccccccc
Confidence 3689999999999886553
No 445
>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=92.42 E-value=0.045 Score=37.87 Aligned_cols=23 Identities=17% Similarity=0.007 Sum_probs=19.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
++.+++++||||||....+++..
T Consensus 144 ~siii~G~t~sGKTt~lnall~~ 166 (312)
T COG0630 144 KSIIICGGTASGKTTLLNALLDF 166 (312)
T ss_pred CcEEEECCCCCCHHHHHHHHHHh
Confidence 78999999999999888666544
No 446
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=92.42 E-value=0.02 Score=41.89 Aligned_cols=20 Identities=25% Similarity=0.213 Sum_probs=17.6
Q ss_pred eeeeEEEeCCCCceeEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~ 48 (67)
.|.++.+|+|+|||+++.++
T Consensus 210 ~Nli~lGp~GTGKThla~~l 229 (449)
T TIGR02688 210 YNLIELGPKGTGKSYIYNNL 229 (449)
T ss_pred CcEEEECCCCCCHHHHHHHH
Confidence 68999999999999888654
No 447
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=92.40 E-value=0.013 Score=43.58 Aligned_cols=32 Identities=22% Similarity=0.145 Sum_probs=21.1
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT---VRKRALVL 59 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil 59 (67)
.++.++.++||||||.+.-.++.. .+.+++|+
T Consensus 176 ~~h~li~G~tGsGKs~~i~~ll~~~~~~g~~~ii~ 210 (566)
T TIGR02759 176 TQHILIHGTTGSGKSVAIRKLLRWIRQRGDRAIIY 210 (566)
T ss_pred ccceEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 357899999999999766443332 23454444
No 448
>PRK13946 shikimate kinase; Provisional
Probab=92.39 E-value=0.0098 Score=37.63 Aligned_cols=26 Identities=38% Similarity=0.377 Sum_probs=20.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRK 54 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~ 54 (67)
.+.++.++.|||||.++-.++..++-
T Consensus 11 ~~I~l~G~~GsGKsti~~~LA~~Lg~ 36 (184)
T PRK13946 11 RTVVLVGLMGAGKSTVGRRLATMLGL 36 (184)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHcCC
Confidence 57788899999999999777665543
No 449
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.38 E-value=0.041 Score=40.35 Aligned_cols=23 Identities=22% Similarity=0.332 Sum_probs=19.1
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
++.++.+|+|+|||.++-.++..
T Consensus 195 ~~iil~GppGtGKT~lA~~la~~ 217 (459)
T PRK11331 195 KNIILQGPPGVGKTFVARRLAYL 217 (459)
T ss_pred CCEEEECCCCCCHHHHHHHHHHH
Confidence 68999999999999988655443
No 450
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.36 E-value=0.013 Score=42.30 Aligned_cols=32 Identities=16% Similarity=0.129 Sum_probs=22.7
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
++..++++|+|+|||+++..++... +.++.++
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lI 240 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFI 240 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 3567788999999999987766532 3455444
No 451
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=92.35 E-value=0.018 Score=44.94 Aligned_cols=52 Identities=17% Similarity=0.238 Sum_probs=32.9
Q ss_pred eeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 10 VLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 10 ~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
.+|||=.+.+-.+.-+ +..+.-|.||.|||+++...+.. .+..+.|++++..
T Consensus 74 G~r~ydvQlig~l~L~---~G~IaEm~TGEGKTL~a~l~ayl~aL~G~~VhVvT~Ndy 128 (870)
T CHL00122 74 GLRHFDVQLIGGLVLN---DGKIAEMKTGEGKTLVATLPAYLNALTGKGVHIVTVNDY 128 (870)
T ss_pred CCCCCchHhhhhHhhc---CCccccccCCCCchHHHHHHHHHHHhcCCceEEEeCCHH
Confidence 4455544444333332 34567799999999988765532 4677888877653
No 452
>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=92.34 E-value=0.016 Score=43.79 Aligned_cols=30 Identities=17% Similarity=0.248 Sum_probs=21.9
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
+..++.+|+|+|||+++-+++...+.+.+.
T Consensus 213 ~giLL~GppGtGKT~laraia~~~~~~~i~ 242 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANEAGAYFIS 242 (733)
T ss_pred ceEEEECCCCCChHHHHHHHHHHhCCeEEE
Confidence 567888999999999886666555544443
No 453
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=92.34 E-value=0.047 Score=43.56 Aligned_cols=45 Identities=13% Similarity=0.008 Sum_probs=31.4
Q ss_pred cceeeccchhhHHHHHhcC----Ccceee-eEEEeCCCCceeEeeeeEEE
Q psy11637 7 PSAVLRPYQEKSLRKMFGN----GRARSG-VIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 7 ~~~~lR~yQ~~av~~~~~~----~~~~~~-~i~~pTGsGKT~i~~~~~~~ 51 (67)
....-|+-|.+.+..++.. ....+. .|.++||+|||.+.-.++.+
T Consensus 755 D~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrE 804 (1164)
T PTZ00112 755 KYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQL 804 (1164)
T ss_pred CcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 3455688888888776642 222234 48999999999998776544
No 454
>PRK13948 shikimate kinase; Provisional
Probab=92.32 E-value=0.011 Score=38.09 Aligned_cols=25 Identities=20% Similarity=0.115 Sum_probs=20.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
.+.+++++.|+|||+++-.+...++
T Consensus 11 ~~I~LiG~~GsGKSTvg~~La~~lg 35 (182)
T PRK13948 11 TWVALAGFMGTGKSRIGWELSRALM 35 (182)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHcC
Confidence 6788899999999999977665544
No 455
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=92.29 E-value=0.051 Score=41.81 Aligned_cols=30 Identities=17% Similarity=0.282 Sum_probs=22.0
Q ss_pred HHhcCCcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 21 KMFGNGRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 21 ~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
+++......+.++++|+|+|||.++-.++.
T Consensus 200 ~iL~r~~~~n~LLvGppGvGKT~lae~la~ 229 (758)
T PRK11034 200 QVLCRRRKNNPLLVGESGVGKTAIAEGLAW 229 (758)
T ss_pred HHHhccCCCCeEEECCCCCCHHHHHHHHHH
Confidence 344443346889999999999999866554
No 456
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=92.29 E-value=0.011 Score=42.81 Aligned_cols=26 Identities=31% Similarity=0.494 Sum_probs=20.7
Q ss_pred CcceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 26 GRARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 26 ~~~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+.+.+++|++|+|+|||+++..+...
T Consensus 166 g~Gq~~~IvG~~g~GKTtL~~~i~~~ 191 (415)
T TIGR00767 166 GKGQRGLIVAPPKAGKTVLLQKIAQA 191 (415)
T ss_pred CCCCEEEEECCCCCChhHHHHHHHHh
Confidence 44578999999999999887665554
No 457
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=92.29 E-value=0.015 Score=39.90 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=30.2
Q ss_pred eccchhhHHHHHhc----C----CcceeeeEEEeCCCCceeEeeeeEEEEeee
Q psy11637 11 LRPYQEKSLRKMFG----N----GRARSGVIVLPCGAGKSLVGVTACCTVRKR 55 (67)
Q Consensus 11 lR~yQ~~av~~~~~----~----~~~~~~~i~~pTGsGKT~i~~~~~~~~~~~ 55 (67)
+-|-|++.+.++++ . ..+...+++++.|+|||+++-.++..++.+
T Consensus 108 l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~ 160 (309)
T PRK08154 108 ASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTLGRMLAARLGVP 160 (309)
T ss_pred CCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence 34456666655443 1 234678888999999999997776655443
No 458
>PRK12608 transcription termination factor Rho; Provisional
Probab=92.28 E-value=0.038 Score=39.65 Aligned_cols=33 Identities=24% Similarity=0.346 Sum_probs=23.9
Q ss_pred HHHHHhcCCcceeeeEEEeCCCCceeEeeeeEE
Q psy11637 18 SLRKMFGNGRARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 18 av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
+++.++--+++.+++|.+|.|+|||++...++.
T Consensus 123 vID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~ 155 (380)
T PRK12608 123 VVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAA 155 (380)
T ss_pred hhhheeecCCCceEEEECCCCCCHHHHHHHHHH
Confidence 444444334557999999999999998866444
No 459
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=92.26 E-value=0.021 Score=44.93 Aligned_cols=53 Identities=17% Similarity=0.216 Sum_probs=35.2
Q ss_pred eeeccchhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEE---EeeeeEEEeecce
Q psy11637 9 AVLRPYQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCT---VRKRALVLCNSGV 64 (67)
Q Consensus 9 ~~lR~yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~---~~~~~lil~p~~~ 64 (67)
..+|||=.+.+-.+.-+ ...+.-|.||-|||+++...+.. .++.+.|++.+..
T Consensus 82 lG~r~ydVQliGgl~Lh---~G~IAEM~TGEGKTL~atlpaylnAL~GkgVhVVTvNdY 137 (939)
T PRK12902 82 LGMRHFDVQLIGGMVLH---EGQIAEMKTGEGKTLVATLPSYLNALTGKGVHVVTVNDY 137 (939)
T ss_pred hCCCcchhHHHhhhhhc---CCceeeecCCCChhHHHHHHHHHHhhcCCCeEEEeCCHH
Confidence 34566655555554333 34567899999999998755543 4677888877653
No 460
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=92.25 E-value=0.029 Score=37.50 Aligned_cols=23 Identities=22% Similarity=-0.000 Sum_probs=17.4
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
-.++.+|+|||||+++-.+..+.
T Consensus 4 liil~G~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHC
Confidence 35677999999999986655443
No 461
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=92.22 E-value=0.0093 Score=36.84 Aligned_cols=24 Identities=25% Similarity=0.329 Sum_probs=18.7
Q ss_pred eeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+.++++++|+|||+++-.++..++
T Consensus 4 ~i~~~G~~GsGKst~~~~la~~lg 27 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALAQALG 27 (171)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhC
Confidence 456789999999999976665543
No 462
>PRK00625 shikimate kinase; Provisional
Probab=92.18 E-value=0.011 Score=37.71 Aligned_cols=23 Identities=13% Similarity=-0.016 Sum_probs=18.1
Q ss_pred eeeEEEeCCCCceeEeeeeEEEE
Q psy11637 30 SGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 30 ~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+.++++.+|+|||+++-.++.++
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~l 24 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKFL 24 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 46788999999999886665543
No 463
>PRK14527 adenylate kinase; Provisional
Probab=92.16 E-value=0.033 Score=35.21 Aligned_cols=23 Identities=22% Similarity=0.234 Sum_probs=18.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
...++.+|+|||||+.+..++.+
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 46778899999999988665543
No 464
>KOG0951|consensus
Probab=92.16 E-value=0.016 Score=47.20 Aligned_cols=35 Identities=20% Similarity=0.212 Sum_probs=27.9
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE--EeeeeEEEeec
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT--VRKRALVLCNS 62 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~--~~~~~lil~p~ 62 (67)
.++.++..|+|||||.|+..++.+ -..++++++|.
T Consensus 1159 nd~v~vga~~gsgkt~~ae~a~l~~~~~~~~vyi~p~ 1195 (1674)
T KOG0951|consen 1159 NDNVLVGAPNGSGKTACAELALLRPDTIGRAVYIAPL 1195 (1674)
T ss_pred cceEEEecCCCCchhHHHHHHhcCCccceEEEEecch
Confidence 378889999999999999766655 24678888875
No 465
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=92.16 E-value=0.22 Score=34.00 Aligned_cols=19 Identities=16% Similarity=0.065 Sum_probs=15.0
Q ss_pred eeeeEEEeCCCCceeEeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~ 47 (67)
...+..++||||||.+...
T Consensus 80 ~~i~~yG~tgSGKT~tl~G 98 (328)
T cd00106 80 GTIFAYGQTGSGKTYTMFG 98 (328)
T ss_pred eeEEEecCCCCCCeEEecC
Confidence 4455569999999998766
No 466
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=92.15 E-value=0.058 Score=32.49 Aligned_cols=20 Identities=30% Similarity=0.295 Sum_probs=16.1
Q ss_pred eeeeEEEeCCCCceeEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~ 48 (67)
...+|.+++|+||+.++-.+
T Consensus 22 ~pvli~GE~GtGK~~~A~~l 41 (138)
T PF14532_consen 22 SPVLITGEPGTGKSLLARAL 41 (138)
T ss_dssp S-EEEECCTTSSHHHHHHCC
T ss_pred CcEEEEcCCCCCHHHHHHHH
Confidence 67899999999999987544
No 467
>PRK05541 adenylylsulfate kinase; Provisional
Probab=92.13 E-value=0.029 Score=34.85 Aligned_cols=24 Identities=17% Similarity=0.072 Sum_probs=18.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...++.+++|||||+++-.+...+
T Consensus 8 ~~I~i~G~~GsGKst~a~~l~~~l 31 (176)
T PRK05541 8 YVIWITGLAGSGKTTIAKALYERL 31 (176)
T ss_pred CEEEEEcCCCCCHHHHHHHHHHHH
Confidence 466788999999999986665443
No 468
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=92.13 E-value=0.03 Score=44.02 Aligned_cols=36 Identities=19% Similarity=0.306 Sum_probs=26.6
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEE-----eeeeEEEeecc
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTV-----RKRALVLCNSG 63 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~-----~~~~lil~p~~ 63 (67)
.+.|+|---+|||||+++..++..+ ...++||+.+.
T Consensus 273 ~~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~ 313 (962)
T COG0610 273 GKGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRK 313 (962)
T ss_pred CCceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechH
Confidence 4679999999999999997665542 34566666653
No 469
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=92.07 E-value=0.15 Score=35.23 Aligned_cols=34 Identities=18% Similarity=0.100 Sum_probs=21.8
Q ss_pred chhhHHHHHhc-------CCcceeeeEEEeCCCCceeEeee
Q psy11637 14 YQEKSLRKMFG-------NGRARSGVIVLPCGAGKSLVGVT 47 (67)
Q Consensus 14 yQ~~av~~~~~-------~~~~~~~~i~~pTGsGKT~i~~~ 47 (67)
-|++..++... .|.+...+..++||||||.+...
T Consensus 61 ~q~~vy~~~~~plv~~~~~G~n~~i~ayG~tgSGKTyTm~G 101 (333)
T cd01371 61 TQEDVYNETARPLVDSVLEGYNGTIFAYGQTGTGKTFTMEG 101 (333)
T ss_pred cHHHHHHHHHHHHHHHHhCCCceeEEecCCCCCCCcEeecC
Confidence 47776665332 23234455559999999998765
No 470
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=92.04 E-value=0.013 Score=43.27 Aligned_cols=24 Identities=21% Similarity=0.234 Sum_probs=18.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
+-.++.+|+|+|||.+.-.++.++
T Consensus 46 ~iLlLtGP~G~GKtttv~~La~el 69 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTVKVLAKEL 69 (519)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 346778999999998876555543
No 471
>KOG0343|consensus
Probab=92.04 E-value=0.038 Score=42.01 Aligned_cols=48 Identities=15% Similarity=0.162 Sum_probs=34.0
Q ss_pred chhhHHHHHhcCCcceeeeEEEeCCCCceeEeeeeEEEE----------eeeeEEEeecce
Q psy11637 14 YQEKSLRKMFGNGRARSGVIVLPCGAGKSLVGVTACCTV----------RKRALVLCNSGV 64 (67)
Q Consensus 14 yQ~~av~~~~~~~~~~~~~i~~pTGsGKT~i~~~~~~~~----------~~~~lil~p~~~ 64 (67)
-|++.|--.+.+ +..+-.+-||||||+.++-.+.+. +-=+|||.||.-
T Consensus 95 iQ~~~Ip~aL~G---~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRE 152 (758)
T KOG0343|consen 95 IQRDTIPMALQG---HDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRE 152 (758)
T ss_pred HHHhhcchhccC---cccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHH
Confidence 477776666665 577778999999999887554331 235799999863
No 472
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.099 Score=40.62 Aligned_cols=39 Identities=15% Similarity=0.171 Sum_probs=28.3
Q ss_pred chhhHHHHHhcC------------CcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 14 YQEKSLRKMFGN------------GRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 14 yQ~~av~~~~~~------------~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.|.+|++.+.+. ..-++.++.+|||.|||-.+-+++..+
T Consensus 495 GQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L 545 (786)
T COG0542 495 GQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL 545 (786)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh
Confidence 499999875531 123578889999999999887665543
No 473
>PLN02200 adenylate kinase family protein
Probab=92.03 E-value=0.012 Score=39.12 Aligned_cols=24 Identities=17% Similarity=0.001 Sum_probs=18.4
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...+|.+|+|||||+++..++.+.
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~~~ 67 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVETF 67 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHh
Confidence 456778999999999987665543
No 474
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=92.02 E-value=0.02 Score=41.19 Aligned_cols=29 Identities=24% Similarity=0.405 Sum_probs=22.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRAL 57 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~l 57 (67)
...++.+|+|+|||.++-+++...+.+++
T Consensus 277 ~giLl~GpPGtGKT~lAkava~~~~~~fi 305 (494)
T COG0464 277 KGVLLYGPPGTGKTLLAKAVALESRSRFI 305 (494)
T ss_pred CeeEEECCCCCCHHHHHHHHHhhCCCeEE
Confidence 46788899999999999888776554443
No 475
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.97 E-value=0.053 Score=40.66 Aligned_cols=38 Identities=21% Similarity=0.201 Sum_probs=25.8
Q ss_pred chhhHHHH---HhcCCccee-eeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRK---MFGNGRARS-GVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~---~~~~~~~~~-~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.|+.+++. +++.+.-.+ -++.+|.|+|||.++..++..
T Consensus 17 Gq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 17 GQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred CcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 47776654 444433234 478999999999998666543
No 476
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=91.97 E-value=0.027 Score=43.05 Aligned_cols=28 Identities=21% Similarity=0.311 Sum_probs=21.5
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRA 56 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~ 56 (67)
...++++|+|+|||.++-+++..++.+.
T Consensus 348 ~~lll~GppG~GKT~lAk~iA~~l~~~~ 375 (775)
T TIGR00763 348 PILCLVGPPGVGKTSLGKSIAKALNRKF 375 (775)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence 4578899999999999977776654433
No 477
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=91.94 E-value=0.078 Score=33.92 Aligned_cols=20 Identities=40% Similarity=0.381 Sum_probs=16.6
Q ss_pred eeeeEEEeCCCCceeEeeee
Q psy11637 29 RSGVIVLPCGAGKSLVGVTA 48 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~ 48 (67)
+..++++|+|+|||.+.-++
T Consensus 25 ~~~~i~G~NGsGKS~ileAi 44 (220)
T PF02463_consen 25 GLNVIVGPNGSGKSNILEAI 44 (220)
T ss_dssp SEEEEEESTTSSHHHHHHHH
T ss_pred CCEEEEcCCCCCHHHHHHHH
Confidence 57889999999999877544
No 478
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=91.93 E-value=0.028 Score=33.69 Aligned_cols=21 Identities=19% Similarity=0.191 Sum_probs=17.1
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
+...+.+|.|+|||+.+..+.
T Consensus 16 e~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 16 VGVLITGDSGIGKTELALELI 36 (107)
T ss_pred EEEEEEcCCCCCHHHHHHHhh
Confidence 567889999999999776543
No 479
>CHL00176 ftsH cell division protein; Validated
Probab=91.92 E-value=0.014 Score=43.97 Aligned_cols=30 Identities=20% Similarity=0.288 Sum_probs=22.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVRKRALV 58 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~~~~li 58 (67)
+..++.+|+|+|||.++-+++.+.+.+.+.
T Consensus 217 ~gVLL~GPpGTGKT~LAralA~e~~~p~i~ 246 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLAKAIAGEAEVPFFS 246 (638)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCCCeee
Confidence 467889999999999987776655555443
No 480
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=91.91 E-value=0.027 Score=39.61 Aligned_cols=45 Identities=22% Similarity=0.254 Sum_probs=30.3
Q ss_pred ceeecc-------chhhHHHH---Hhc----C-CcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 8 SAVLRP-------YQEKSLRK---MFG----N-GRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 8 ~~~lR~-------yQ~~av~~---~~~----~-~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
...+|| .|++..++ +++ + ..-++.++.+|+|.|||+.+.-++.++
T Consensus 17 e~~lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 17 ERSLRPKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred hcccCcccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence 456666 27777665 222 2 225789999999999999886555543
No 481
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=91.91 E-value=0.018 Score=42.28 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=18.6
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
+...+++|||+|||+++..++..
T Consensus 257 ~Vi~LvGpnGvGKTTTiaKLA~~ 279 (484)
T PRK06995 257 GVFALMGPTGVGKTTTTAKLAAR 279 (484)
T ss_pred cEEEEECCCCccHHHHHHHHHHH
Confidence 45678899999999999777643
No 482
>PF13173 AAA_14: AAA domain
Probab=91.90 E-value=0.013 Score=34.96 Aligned_cols=31 Identities=16% Similarity=0.198 Sum_probs=22.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEEe--eeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTVR--KRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~~--~~~lil 59 (67)
+..+|.+|.|+|||+++..++.... ++++++
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi 35 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYI 35 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhcccccceee
Confidence 4577889999999999877765543 444443
No 483
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=91.90 E-value=0.038 Score=35.61 Aligned_cols=21 Identities=33% Similarity=0.240 Sum_probs=17.3
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
....+++|+|+|||++.-++.
T Consensus 29 ~~~~i~G~NGsGKSTll~~i~ 49 (213)
T cd03279 29 GLFLICGPTGAGKSTILDAIT 49 (213)
T ss_pred CEEEEECCCCCCHHHHHHHhe
Confidence 467789999999999886654
No 484
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.89 E-value=0.019 Score=42.97 Aligned_cols=22 Identities=27% Similarity=0.216 Sum_probs=18.3
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
+...+++|+|+|||+++..++.
T Consensus 351 ~vIaLVGPtGvGKTTtaakLAa 372 (559)
T PRK12727 351 GVIALVGPTGAGKTTTIAKLAQ 372 (559)
T ss_pred CEEEEECCCCCCHHHHHHHHHH
Confidence 6777889999999999866654
No 485
>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=91.86 E-value=0.03 Score=30.33 Aligned_cols=20 Identities=30% Similarity=0.255 Sum_probs=15.7
Q ss_pred eEEEeCCCCceeEeeeeEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~ 51 (67)
.+.++.|+|||.++-.+...
T Consensus 3 ~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 3 AITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 46799999999988655544
No 486
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=91.86 E-value=0.018 Score=43.70 Aligned_cols=23 Identities=9% Similarity=0.063 Sum_probs=18.9
Q ss_pred ceeeeEEEeCCCCceeEeeeeEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.++.+|.++||+|||.....++.
T Consensus 180 ~gHtlV~GtTGsGKT~l~~~li~ 202 (643)
T TIGR03754 180 VGHTLVLGTTRVGKTRLAELLIT 202 (643)
T ss_pred cCceEEECCCCCCHHHHHHHHHH
Confidence 36899999999999998865543
No 487
>PLN02199 shikimate kinase
Probab=91.84 E-value=0.021 Score=39.86 Aligned_cols=26 Identities=31% Similarity=0.301 Sum_probs=20.5
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEEEe
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCTVR 53 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~~~ 53 (67)
+.+.++++.+|+|||.++-.++..++
T Consensus 102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg 127 (303)
T PLN02199 102 GRSMYLVGMMGSGKTTVGKLMSKVLG 127 (303)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence 36788999999999999876665443
No 488
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=91.83 E-value=0.023 Score=43.73 Aligned_cols=24 Identities=17% Similarity=0.045 Sum_probs=19.5
Q ss_pred ceeeeEEEeCCCCceeEeeeeEEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
..+++|.++||||||+....++..
T Consensus 449 N~N~~I~G~sGsGKS~l~k~l~~~ 472 (844)
T PRK13721 449 NYNMAVCGTSGAGKTGLIQPLIRS 472 (844)
T ss_pred cccEEEEcCCCCCHHHHHHHHHHh
Confidence 358999999999999988665543
No 489
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=91.83 E-value=0.067 Score=31.55 Aligned_cols=21 Identities=33% Similarity=0.290 Sum_probs=16.8
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
....|++|.|+|||+..-.+.
T Consensus 12 ~~~~i~G~nGsGKStLl~~l~ 32 (137)
T PF00005_consen 12 EIVAIVGPNGSGKSTLLKALA 32 (137)
T ss_dssp SEEEEEESTTSSHHHHHHHHT
T ss_pred CEEEEEccCCCccccceeeec
Confidence 577899999999998775443
No 490
>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=91.82 E-value=0.033 Score=39.44 Aligned_cols=44 Identities=11% Similarity=0.096 Sum_probs=28.5
Q ss_pred hHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEE----EeeeeEEEe
Q psy11637 17 KSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCT----VRKRALVLC 60 (67)
Q Consensus 17 ~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~----~~~~~lil~ 60 (67)
..+++++.+ ..+.-.+|.++||+|||..++.++.. .+.+++++.
T Consensus 183 ~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~S 231 (434)
T TIGR00665 183 TDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFS 231 (434)
T ss_pred hhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEe
Confidence 344555432 12345677899999999998877654 245677764
No 491
>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=91.81 E-value=0.02 Score=40.43 Aligned_cols=23 Identities=22% Similarity=0.130 Sum_probs=16.2
Q ss_pred ceeeeEEEeCCCCceeEeeeeEE
Q psy11637 28 ARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
.++.++.+.||||||.+...++.
T Consensus 15 ~~~~li~G~~GsGKT~~i~~ll~ 37 (386)
T PF10412_consen 15 NRHILIIGATGSGKTQAIRHLLD 37 (386)
T ss_dssp GG-EEEEE-TTSSHHHHHHHHHH
T ss_pred hCcEEEECCCCCCHHHHHHHHHH
Confidence 36899999999999986654443
No 492
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=91.81 E-value=0.072 Score=34.56 Aligned_cols=22 Identities=23% Similarity=0.289 Sum_probs=15.8
Q ss_pred eeeeEEEeCCCCceeEeeeeEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
...+|++|+|||||..+..+..
T Consensus 4 ~~vlL~Gps~SGKTaLf~~L~~ 25 (181)
T PF09439_consen 4 PTVLLVGPSGSGKTALFSQLVN 25 (181)
T ss_dssp -EEEEE-STTSSHHHHHHHHHH
T ss_pred ceEEEEcCCCCCHHHHHHHHhc
Confidence 5688999999999987755443
No 493
>PRK14974 cell division protein FtsY; Provisional
Probab=91.79 E-value=0.023 Score=39.93 Aligned_cols=31 Identities=16% Similarity=0.037 Sum_probs=21.7
Q ss_pred eeeeEEEeCCCCceeEeeeeEEEE---eeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCTV---RKRALVL 59 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~~---~~~~lil 59 (67)
...++++|+|+|||++...++..+ +.+++++
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li 174 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIA 174 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence 457778999999999876665442 3455554
No 494
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.78 E-value=0.062 Score=39.51 Aligned_cols=38 Identities=21% Similarity=0.212 Sum_probs=25.2
Q ss_pred chhhHHHHH---hcCCccee-eeEEEeCCCCceeEeeeeEEE
Q psy11637 14 YQEKSLRKM---FGNGRARS-GVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 14 yQ~~av~~~---~~~~~~~~-~~i~~pTGsGKT~i~~~~~~~ 51 (67)
.|+.+++.+ +..+.-.+ -++.+|+|+|||+++..++..
T Consensus 18 Gq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~ 59 (504)
T PRK14963 18 GQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMA 59 (504)
T ss_pred ChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 477766553 34332223 389999999999998666544
No 495
>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=91.78 E-value=0.15 Score=34.78 Aligned_cols=21 Identities=24% Similarity=0.162 Sum_probs=17.0
Q ss_pred eeeeEEEeCCCCceeEeeeeE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTAC 49 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~ 49 (67)
...-+++|.|+|||+++-.+.
T Consensus 31 ei~~LIGPNGAGKTTlfNlit 51 (250)
T COG0411 31 EIVGLIGPNGAGKTTLFNLIT 51 (250)
T ss_pred eEEEEECCCCCCceeeeeeec
Confidence 566789999999999885544
No 496
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=91.78 E-value=0.029 Score=39.44 Aligned_cols=40 Identities=18% Similarity=0.202 Sum_probs=30.1
Q ss_pred eccchhhHHHHHhcC-Cc-ceeeeEEEeCCCCceeEeeeeEE
Q psy11637 11 LRPYQEKSLRKMFGN-GR-ARSGVIVLPCGAGKSLVGVTACC 50 (67)
Q Consensus 11 lR~yQ~~av~~~~~~-~~-~~~~~i~~pTGsGKT~i~~~~~~ 50 (67)
+.|+|++..+++... +. .+.-++++|.|.||+.++..++.
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~ 43 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQ 43 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHH
Confidence 579999999887753 22 35677899999999988865543
No 497
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=91.78 E-value=0.05 Score=41.16 Aligned_cols=39 Identities=18% Similarity=0.206 Sum_probs=26.6
Q ss_pred chhhHHHHHhcC-CcceeeeEEEeCCCCceeEeeeeEEEE
Q psy11637 14 YQEKSLRKMFGN-GRARSGVIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 14 yQ~~av~~~~~~-~~~~~~~i~~pTGsGKT~i~~~~~~~~ 52 (67)
.|+++++.+... ...++.++.+|+|+|||.++-.+...+
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 377777654431 112578999999999999886655443
No 498
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=91.70 E-value=0.036 Score=36.49 Aligned_cols=21 Identities=19% Similarity=0.170 Sum_probs=17.1
Q ss_pred eEEEeCCCCceeEeeeeEEEE
Q psy11637 32 VIVLPCGAGKSLVGVTACCTV 52 (67)
Q Consensus 32 ~i~~pTGsGKT~i~~~~~~~~ 52 (67)
++.+++|||||+++-.+....
T Consensus 3 vl~G~pGSGKST~a~~La~~l 23 (249)
T TIGR03574 3 ILTGLPGVGKSTFSKELAKKL 23 (249)
T ss_pred EEEcCCCCCHHHHHHHHHHHH
Confidence 678999999999997766543
No 499
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=91.67 E-value=0.062 Score=36.05 Aligned_cols=18 Identities=39% Similarity=0.397 Sum_probs=15.3
Q ss_pred ceeeeEEEeCCCCceeEe
Q psy11637 28 ARSGVIVLPCGAGKSLVG 45 (67)
Q Consensus 28 ~~~~~i~~pTGsGKT~i~ 45 (67)
++...|++|.|||||+..
T Consensus 31 Ge~vaI~GpSGSGKSTLL 48 (226)
T COG1136 31 GEFVAIVGPSGSGKSTLL 48 (226)
T ss_pred CCEEEEECCCCCCHHHHH
Confidence 368889999999999765
No 500
>KOG0991|consensus
Probab=91.63 E-value=0.022 Score=39.56 Aligned_cols=23 Identities=22% Similarity=0.173 Sum_probs=19.0
Q ss_pred eeeeEEEeCCCCceeEeeeeEEE
Q psy11637 29 RSGVIVLPCGAGKSLVGVTACCT 51 (67)
Q Consensus 29 ~~~~i~~pTGsGKT~i~~~~~~~ 51 (67)
-+.++.+|+|.|||+..+.++.+
T Consensus 49 P~liisGpPG~GKTTsi~~LAr~ 71 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLARE 71 (333)
T ss_pred CceEeeCCCCCchhhHHHHHHHH
Confidence 46889999999999988766654
Done!