Query 042849
Match_columns 1019
No_of_seqs 297 out of 2004
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 10:11:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042849.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042849hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802 RNA helicase nonsense 100.0 4.1E-40 8.8E-45 377.2 27.2 386 431-1019 228-620 (935)
2 TIGR00376 DNA helicase, putati 100.0 3.2E-36 6.9E-41 363.4 37.0 301 594-1017 103-410 (637)
3 KOG1803 DNA helicase [Replicat 100.0 3.9E-37 8.4E-42 353.9 25.2 280 594-1019 124-409 (649)
4 PF13086 AAA_11: AAA domain; P 100.0 1.4E-37 3E-42 324.9 13.7 234 660-1011 1-236 (236)
5 KOG1805 DNA replication helica 99.9 1.2E-27 2.5E-32 285.4 16.6 181 657-1019 666-847 (1100)
6 KOG1801 tRNA-splicing endonucl 99.9 1.1E-24 2.4E-29 269.4 7.7 82 937-1018 502-588 (827)
7 KOG1807 Helicases [Replication 99.9 6.3E-22 1.4E-26 231.3 17.4 81 931-1011 684-764 (1025)
8 PF13604 AAA_30: AAA domain; P 99.6 3.3E-16 7.2E-21 164.4 7.1 66 660-791 1-66 (196)
9 COG1112 Superfamily I DNA and 99.6 9E-15 1.9E-19 180.7 18.4 76 933-1011 456-531 (767)
10 PRK10875 recD exonuclease V su 99.4 2.5E-13 5.5E-18 164.0 10.1 67 662-792 154-220 (615)
11 TIGR01447 recD exodeoxyribonuc 99.4 4.3E-13 9.4E-18 161.6 11.4 67 663-792 148-214 (586)
12 KOG1806 DEAD box containing he 99.4 5.3E-13 1.1E-17 161.0 11.3 71 942-1012 964-1044(1320)
13 KOG1804 RNA helicase [RNA proc 99.3 9.6E-13 2.1E-17 159.8 5.3 76 944-1019 418-496 (775)
14 TIGR01448 recD_rel helicase, p 99.3 7.1E-12 1.5E-16 154.7 12.3 41 658-712 321-361 (720)
15 TIGR02768 TraA_Ti Ti-type conj 99.2 3.5E-11 7.6E-16 149.1 10.0 41 659-712 351-391 (744)
16 PRK13889 conjugal transfer rel 99.1 3.6E-11 7.8E-16 151.2 6.4 40 659-711 345-384 (988)
17 PRK13826 Dtr system oriT relax 99.1 1.9E-10 4E-15 145.6 9.6 41 659-712 380-420 (1102)
18 PRK14712 conjugal transfer nic 99.1 3.1E-10 6.7E-15 147.2 10.0 44 658-713 833-876 (1623)
19 PF13245 AAA_19: Part of AAA d 99.1 3.1E-10 6.7E-15 102.2 6.9 53 689-791 10-62 (76)
20 PRK13709 conjugal transfer nic 99.0 7.9E-10 1.7E-14 145.2 11.7 44 658-713 965-1008(1747)
21 TIGR02760 TraI_TIGR conjugativ 98.9 2E-09 4.4E-14 144.5 10.3 67 659-791 428-494 (1960)
22 TIGR02760 TraI_TIGR conjugativ 98.9 3.2E-09 6.9E-14 142.6 8.6 43 659-713 1018-1060(1960)
23 PF00580 UvrD-helicase: UvrD/R 98.8 3.8E-08 8.3E-13 108.1 14.3 67 661-793 1-67 (315)
24 PF05970 PIF1: PIF1-like helic 98.8 1.2E-08 2.6E-13 117.1 8.0 44 660-711 1-44 (364)
25 TIGR01075 uvrD DNA helicase II 98.5 3.8E-06 8.2E-11 104.7 20.3 69 659-793 3-71 (715)
26 TIGR01074 rep ATP-dependent DN 98.4 5.3E-06 1.1E-10 102.4 18.9 68 660-793 1-68 (664)
27 PRK10919 ATP-dependent DNA hel 98.4 5.7E-06 1.2E-10 102.4 18.7 68 660-793 2-69 (672)
28 PRK11773 uvrD DNA-dependent he 98.4 8.2E-06 1.8E-10 101.8 19.9 69 659-793 8-76 (721)
29 TIGR01073 pcrA ATP-dependent D 98.4 1.1E-05 2.4E-10 100.7 20.2 69 659-793 3-71 (726)
30 PRK11054 helD DNA helicase IV; 98.4 3.7E-06 8.1E-11 103.9 15.7 69 659-793 195-263 (684)
31 PRK10536 hypothetical protein; 98.2 2.5E-05 5.4E-10 85.7 15.1 39 659-711 58-96 (262)
32 cd00046 DEXDc DEAD-like helica 98.2 1.7E-05 3.6E-10 75.1 12.1 50 692-793 3-52 (144)
33 PF01443 Viral_helicase1: Vira 97.9 7.1E-06 1.5E-10 87.3 3.7 41 967-1007 62-103 (234)
34 PF02562 PhoH: PhoH-like prote 97.7 0.00021 4.6E-09 76.2 9.9 60 943-1007 100-161 (205)
35 smart00487 DEXDc DEAD-like hel 97.6 0.00029 6.2E-09 70.9 8.9 70 659-793 7-76 (201)
36 PRK11448 hsdR type I restricti 97.4 0.00059 1.3E-08 88.7 11.4 73 660-793 413-485 (1123)
37 PF04851 ResIII: Type III rest 97.4 0.00037 8.1E-09 70.4 7.2 68 660-791 3-70 (184)
38 PHA02558 uvsW UvsW helicase; P 97.3 0.0014 3.1E-08 78.7 12.5 67 660-793 114-180 (501)
39 COG1061 SSL2 DNA or RNA helica 97.3 0.0017 3.7E-08 77.0 12.2 68 659-793 35-102 (442)
40 PRK10917 ATP-dependent DNA hel 97.2 0.0029 6.3E-08 78.9 13.6 81 651-793 252-332 (681)
41 TIGR00643 recG ATP-dependent D 97.2 0.0024 5.3E-08 78.9 12.8 80 652-793 227-306 (630)
42 PTZ00424 helicase 45; Provisio 97.2 0.0039 8.4E-08 72.1 13.6 33 660-706 50-82 (401)
43 PRK05580 primosome assembly pr 97.1 0.0056 1.2E-07 76.4 14.0 70 659-793 143-212 (679)
44 PRK11192 ATP-dependent RNA hel 97.0 0.0063 1.4E-07 71.5 13.7 33 660-706 23-55 (434)
45 TIGR00580 mfd transcription-re 96.9 0.0086 1.9E-07 76.8 13.8 80 652-793 443-522 (926)
46 COG0507 RecD ATP-dependent exo 96.8 0.0035 7.7E-08 78.2 9.2 41 659-713 318-358 (696)
47 TIGR00603 rad25 DNA repair hel 96.8 0.0086 1.9E-07 74.7 12.3 67 659-793 254-320 (732)
48 PRK09401 reverse gyrase; Revie 96.8 0.013 2.9E-07 76.9 14.3 24 771-794 123-146 (1176)
49 TIGR00348 hsdR type I site-spe 96.8 0.011 2.3E-07 73.8 12.9 76 662-793 240-315 (667)
50 PF09848 DUF2075: Uncharacteri 96.7 0.0026 5.6E-08 73.1 6.7 38 966-1003 82-129 (352)
51 KOG0989 Replication factor C, 96.7 0.002 4.4E-08 72.0 5.2 43 664-714 40-82 (346)
52 PRK11634 ATP-dependent RNA hel 96.6 0.017 3.7E-07 71.5 13.4 32 660-705 28-59 (629)
53 TIGR01054 rgy reverse gyrase. 96.6 0.021 4.5E-07 75.1 14.6 36 945-981 178-213 (1171)
54 PRK02362 ski2-like helicase; P 96.6 0.012 2.6E-07 74.1 11.6 67 659-793 22-89 (737)
55 cd00009 AAA The AAA+ (ATPases 96.5 0.0045 9.8E-08 59.1 5.7 23 689-711 19-41 (151)
56 PF00270 DEAD: DEAD/DEAH box h 96.5 0.013 2.9E-07 58.7 9.3 23 771-793 44-66 (169)
57 TIGR00614 recQ_fam ATP-depende 96.5 0.031 6.7E-07 66.8 13.6 32 659-704 10-41 (470)
58 PRK10689 transcription-repair 96.4 0.018 3.9E-07 75.5 12.5 81 651-793 591-671 (1147)
59 PRK10590 ATP-dependent RNA hel 96.4 0.038 8.2E-07 65.8 13.9 34 659-706 22-55 (456)
60 PRK04537 ATP-dependent RNA hel 96.3 0.033 7.2E-07 68.3 13.1 34 659-706 30-63 (572)
61 PRK14701 reverse gyrase; Provi 96.2 0.049 1.1E-06 73.6 15.0 68 658-793 77-144 (1638)
62 PRK04837 ATP-dependent RNA hel 96.2 0.057 1.2E-06 63.5 13.8 33 660-706 30-62 (423)
63 smart00382 AAA ATPases associa 96.2 0.004 8.7E-08 58.6 3.3 22 690-711 3-24 (148)
64 PF00004 AAA: ATPase family as 96.1 0.0034 7.3E-08 60.3 2.7 19 693-711 2-20 (132)
65 TIGR02928 orc1/cdc6 family rep 96.0 0.0094 2E-07 68.1 6.2 45 662-713 20-64 (365)
66 PRK06851 hypothetical protein; 96.0 0.011 2.3E-07 68.6 6.6 59 690-800 31-89 (367)
67 cd00268 DEADc DEAD-box helicas 96.0 0.026 5.7E-07 58.8 9.0 71 659-793 20-91 (203)
68 TIGR00595 priA primosomal prot 96.0 0.03 6.4E-07 67.7 10.6 23 771-793 25-47 (505)
69 cd01124 KaiC KaiC is a circadi 96.0 0.014 3E-07 60.0 6.6 20 692-711 2-21 (187)
70 PRK13766 Hef nuclease; Provisi 96.0 0.059 1.3E-06 68.2 13.2 40 944-983 106-147 (773)
71 COG0210 UvrD Superfamily I DNA 95.9 0.01 2.3E-07 73.5 6.2 68 660-793 2-69 (655)
72 PTZ00110 helicase; Provisional 95.8 0.091 2E-06 64.1 13.5 32 660-705 152-183 (545)
73 TIGR01967 DEAH_box_HrpA ATP-de 95.6 0.036 7.7E-07 73.0 9.6 23 771-793 111-133 (1283)
74 KOG0991 Replication factor C, 95.6 0.0079 1.7E-07 65.1 2.9 25 690-714 49-73 (333)
75 PF00176 SNF2_N: SNF2 family N 95.6 0.081 1.7E-06 58.0 10.9 58 944-1004 106-175 (299)
76 PLN03025 replication factor C 95.6 0.018 3.9E-07 65.3 5.9 24 690-713 35-58 (319)
77 PRK08181 transposase; Validate 95.5 0.02 4.4E-07 63.8 6.1 44 659-712 86-129 (269)
78 TIGR03817 DECH_helic helicase/ 95.5 0.18 3.8E-06 63.9 14.8 69 660-794 36-104 (742)
79 PRK06893 DNA replication initi 95.4 0.012 2.7E-07 63.5 3.8 25 689-713 39-63 (229)
80 TIGR01389 recQ ATP-dependent D 95.4 0.2 4.4E-06 61.6 14.5 33 659-705 12-44 (591)
81 KOG0744 AAA+-type ATPase [Post 95.4 0.0094 2E-07 67.1 2.6 24 689-712 177-200 (423)
82 PRK11131 ATP-dependent RNA hel 95.3 0.07 1.5E-06 70.3 10.5 43 945-987 163-207 (1294)
83 PF07728 AAA_5: AAA domain (dy 95.3 0.013 2.8E-07 57.7 3.1 21 692-712 2-22 (139)
84 PRK08084 DNA replication initi 95.3 0.029 6.4E-07 61.0 6.1 24 690-713 46-69 (235)
85 TIGR02881 spore_V_K stage V sp 95.3 0.013 2.8E-07 64.6 3.2 23 691-713 44-66 (261)
86 PF05496 RuvB_N: Holliday junc 95.1 0.017 3.6E-07 62.8 3.4 20 690-709 51-70 (233)
87 TIGR02785 addA_Gpos recombinat 95.1 0.046 1E-06 72.6 8.1 44 960-1003 381-429 (1232)
88 PF13191 AAA_16: AAA ATPase do 95.0 0.023 4.9E-07 57.9 4.0 42 663-712 6-47 (185)
89 PRK00411 cdc6 cell division co 94.9 0.04 8.6E-07 63.8 6.3 44 663-713 36-79 (394)
90 TIGR00609 recB exodeoxyribonuc 94.9 0.036 7.7E-07 72.8 6.4 55 690-793 10-64 (1087)
91 PRK12377 putative replication 94.9 0.019 4.1E-07 63.3 3.3 23 691-713 103-125 (248)
92 PF01695 IstB_IS21: IstB-like 94.9 0.018 4E-07 60.1 3.1 23 691-713 49-71 (178)
93 TIGR02880 cbbX_cfxQ probable R 94.9 0.019 4.1E-07 64.3 3.4 23 692-714 61-83 (284)
94 PRK06526 transposase; Provisio 94.7 0.023 4.9E-07 62.8 3.1 24 690-713 99-122 (254)
95 PRK11664 ATP-dependent RNA hel 94.6 0.068 1.5E-06 68.1 7.7 23 771-793 48-70 (812)
96 PF13401 AAA_22: AAA domain; P 94.6 0.025 5.5E-07 54.5 3.0 25 689-713 4-28 (131)
97 cd01129 PulE-GspE PulE/GspE Th 94.6 0.048 1E-06 60.5 5.5 41 660-712 63-103 (264)
98 KOG0743 AAA+-type ATPase [Post 94.6 0.019 4.1E-07 67.3 2.4 21 692-712 238-258 (457)
99 PTZ00112 origin recognition co 94.6 0.053 1.1E-06 68.3 6.3 46 662-713 760-805 (1164)
100 PF01078 Mg_chelatase: Magnesi 94.5 0.038 8.2E-07 59.3 4.3 20 692-711 25-44 (206)
101 PRK07952 DNA replication prote 94.5 0.056 1.2E-06 59.5 5.7 45 662-712 78-122 (244)
102 PRK12402 replication factor C 94.4 0.06 1.3E-06 60.7 5.8 24 690-713 37-60 (337)
103 TIGR01970 DEAH_box_HrpB ATP-de 94.4 0.08 1.7E-06 67.5 7.4 23 771-793 45-67 (819)
104 cd01120 RecA-like_NTPases RecA 94.3 0.035 7.7E-07 54.6 3.2 20 692-711 2-21 (165)
105 COG2256 MGS1 ATPase related to 94.3 0.025 5.5E-07 65.5 2.4 18 692-709 51-68 (436)
106 PF06745 KaiC: KaiC; InterPro 94.2 0.093 2E-06 56.2 6.6 24 688-711 18-41 (226)
107 TIGR01650 PD_CobS cobaltochela 94.2 0.065 1.4E-06 61.3 5.6 41 659-712 47-87 (327)
108 PRK13531 regulatory ATPase Rav 94.1 0.047 1E-06 65.3 4.4 21 692-712 42-62 (498)
109 TIGR02640 gas_vesic_GvpN gas v 94.1 0.076 1.6E-06 58.7 5.8 20 692-711 24-43 (262)
110 PRK09183 transposase/IS protei 94.1 0.053 1.1E-06 60.0 4.5 43 658-711 82-124 (259)
111 PRK08903 DnaA regulatory inact 94.0 0.081 1.8E-06 56.7 5.5 23 690-712 43-65 (227)
112 PLN03142 Probable chromatin-re 94.0 0.81 1.8E-05 59.7 15.2 58 946-1003 270-331 (1033)
113 TIGR03420 DnaA_homol_Hda DnaA 93.9 0.089 1.9E-06 55.9 5.7 24 689-712 38-61 (226)
114 PHA00729 NTP-binding motif con 93.9 0.042 9.1E-07 59.8 3.1 23 691-713 19-41 (226)
115 TIGR02533 type_II_gspE general 93.9 0.066 1.4E-06 64.5 5.1 41 660-712 225-265 (486)
116 CHL00181 cbbX CbbX; Provisiona 93.8 0.044 9.5E-07 61.6 3.3 22 692-713 62-83 (287)
117 PRK11776 ATP-dependent RNA hel 93.8 0.2 4.3E-06 59.6 8.9 33 659-705 25-57 (460)
118 PF13671 AAA_33: AAA domain; P 93.7 0.044 9.5E-07 53.8 2.7 21 691-711 1-21 (143)
119 PRK10876 recB exonuclease V su 93.7 0.084 1.8E-06 69.9 6.1 62 690-793 18-79 (1181)
120 KOG0651 26S proteasome regulat 93.7 0.049 1.1E-06 61.4 3.3 24 688-711 165-188 (388)
121 TIGR00635 ruvB Holliday juncti 93.7 0.056 1.2E-06 60.4 3.8 22 691-712 32-53 (305)
122 PF07726 AAA_3: ATPase family 93.7 0.03 6.4E-07 55.9 1.4 21 692-712 2-22 (131)
123 PF05729 NACHT: NACHT domain 93.6 0.062 1.3E-06 53.4 3.6 23 691-713 2-24 (166)
124 KOG2028 ATPase related to the 93.6 0.043 9.3E-07 62.8 2.6 21 690-710 163-183 (554)
125 PRK04195 replication factor C 93.6 0.11 2.3E-06 62.6 6.1 45 661-712 18-62 (482)
126 TIGR03877 thermo_KaiC_1 KaiC d 93.6 0.15 3.2E-06 55.4 6.8 24 688-711 20-43 (237)
127 PRK08116 hypothetical protein; 93.5 0.054 1.2E-06 60.3 3.3 23 691-713 116-138 (268)
128 PRK00080 ruvB Holliday junctio 93.5 0.06 1.3E-06 61.3 3.7 23 690-712 52-74 (328)
129 PRK05973 replicative DNA helic 93.5 0.16 3.4E-06 55.8 6.8 24 688-711 63-86 (237)
130 PF00910 RNA_helicase: RNA hel 93.5 0.063 1.4E-06 51.3 3.3 21 693-713 2-22 (107)
131 PRK06620 hypothetical protein; 93.5 0.052 1.1E-06 58.4 3.0 21 690-710 45-65 (214)
132 cd01131 PilT Pilus retraction 93.4 0.065 1.4E-06 56.7 3.6 23 690-712 2-24 (198)
133 PF03215 Rad17: Rad17 cell cyc 93.4 0.16 3.4E-06 61.7 7.3 46 661-712 23-68 (519)
134 PRK13342 recombination factor 93.4 0.11 2.4E-06 61.1 5.8 21 691-711 38-58 (413)
135 PRK06921 hypothetical protein; 93.4 0.065 1.4E-06 59.6 3.7 24 690-713 118-141 (266)
136 PRK00440 rfc replication facto 93.4 0.12 2.7E-06 57.6 5.9 24 690-713 39-62 (319)
137 PF13207 AAA_17: AAA domain; P 93.3 0.071 1.5E-06 50.9 3.2 20 692-711 2-21 (121)
138 PRK06835 DNA replication prote 93.2 0.065 1.4E-06 61.5 3.3 24 690-713 184-207 (329)
139 PF05673 DUF815: Protein of un 93.2 0.16 3.5E-06 55.9 6.1 44 663-713 33-76 (249)
140 PRK14962 DNA polymerase III su 93.2 0.059 1.3E-06 64.7 3.1 22 692-713 39-60 (472)
141 PRK01172 ski2-like helicase; P 93.1 0.3 6.5E-06 61.1 9.3 34 659-706 21-54 (674)
142 smart00763 AAA_PrkA PrkA AAA d 93.1 0.16 3.5E-06 58.7 6.4 26 688-713 77-102 (361)
143 TIGR03880 KaiC_arch_3 KaiC dom 93.1 0.21 4.7E-06 53.4 6.9 23 689-711 16-38 (224)
144 PLN00020 ribulose bisphosphate 93.1 0.072 1.6E-06 61.8 3.4 25 688-712 147-171 (413)
145 PRK06067 flagellar accessory p 93.0 0.23 4.9E-06 53.6 7.1 24 688-711 24-47 (234)
146 TIGR01242 26Sp45 26S proteasom 93.0 0.076 1.6E-06 61.4 3.6 20 692-711 159-178 (364)
147 COG1222 RPT1 ATP-dependent 26S 93.0 0.072 1.6E-06 61.1 3.2 24 687-711 184-207 (406)
148 PRK11331 5-methylcytosine-spec 93.0 0.13 2.8E-06 61.1 5.5 39 661-712 179-217 (459)
149 COG1474 CDC6 Cdc6-related prot 93.0 0.16 3.5E-06 59.1 6.1 46 661-713 21-66 (366)
150 cd01130 VirB11-like_ATPase Typ 93.0 0.14 3.1E-06 53.5 5.2 39 660-711 9-47 (186)
151 PRK13407 bchI magnesium chelat 93.0 0.12 2.7E-06 59.3 5.1 21 692-712 32-52 (334)
152 PRK08533 flagellar accessory p 92.9 0.25 5.3E-06 53.8 7.2 23 689-711 24-46 (230)
153 PRK14974 cell division protein 92.9 0.22 4.8E-06 57.3 7.1 23 689-711 140-162 (336)
154 TIGR03015 pepcterm_ATPase puta 92.9 0.084 1.8E-06 57.6 3.5 23 689-711 43-65 (269)
155 PRK10436 hypothetical protein; 92.8 0.14 3E-06 61.4 5.4 41 660-712 201-241 (462)
156 TIGR03878 thermo_KaiC_2 KaiC d 92.8 0.083 1.8E-06 58.4 3.4 24 688-711 35-58 (259)
157 cd00984 DnaB_C DnaB helicase C 92.8 0.22 4.8E-06 53.6 6.5 24 688-711 12-35 (242)
158 PTZ00361 26 proteosome regulat 92.7 0.087 1.9E-06 62.6 3.5 22 690-711 218-239 (438)
159 PRK08727 hypothetical protein; 92.7 0.095 2.1E-06 56.9 3.6 24 690-713 42-65 (233)
160 COG0714 MoxR-like ATPases [Gen 92.6 0.15 3.2E-06 58.2 5.2 23 691-713 45-67 (329)
161 TIGR03689 pup_AAA proteasome A 92.6 0.086 1.9E-06 63.7 3.4 23 691-713 218-240 (512)
162 PF00448 SRP54: SRP54-type pro 92.6 0.22 4.7E-06 53.0 6.0 21 691-711 3-23 (196)
163 PRK08939 primosomal protein Dn 92.5 0.089 1.9E-06 59.7 3.1 22 692-713 159-180 (306)
164 PRK03992 proteasome-activating 92.5 0.096 2.1E-06 61.3 3.4 21 691-711 167-187 (389)
165 KOG0733 Nuclear AAA ATPase (VC 92.5 0.088 1.9E-06 63.7 3.1 26 686-712 221-246 (802)
166 TIGR02538 type_IV_pilB type IV 92.4 0.15 3.3E-06 62.6 5.2 41 660-712 299-339 (564)
167 PRK13833 conjugal transfer pro 92.3 0.19 4.2E-06 57.5 5.6 41 660-713 128-168 (323)
168 PRK04328 hypothetical protein; 92.3 0.3 6.4E-06 53.7 6.8 24 688-711 22-45 (249)
169 PRK05642 DNA replication initi 92.3 0.12 2.6E-06 56.2 3.8 24 690-713 46-69 (234)
170 cd01122 GP4d_helicase GP4d_hel 92.3 0.29 6.2E-06 53.8 6.7 24 688-711 29-52 (271)
171 COG1111 MPH1 ERCC4-like helica 92.2 0.48 1E-05 56.5 8.7 42 944-985 106-149 (542)
172 COG5192 BMS1 GTP-binding prote 92.2 0.11 2.3E-06 62.0 3.3 26 687-712 66-92 (1077)
173 TIGR00604 rad3 DNA repair heli 92.2 0.39 8.6E-06 60.5 8.6 23 771-793 60-82 (705)
174 TIGR02655 circ_KaiC circadian 92.1 0.27 5.8E-06 59.3 6.7 24 688-711 262-285 (484)
175 PTZ00454 26S protease regulato 92.1 0.12 2.5E-06 60.9 3.5 21 691-711 181-201 (398)
176 PHA02544 44 clamp loader, smal 92.1 0.21 4.6E-06 56.1 5.5 42 660-711 24-65 (316)
177 PF07652 Flavi_DEAD: Flaviviru 92.1 0.24 5.3E-06 50.5 5.3 22 771-792 33-54 (148)
178 TIGR01241 FtsH_fam ATP-depende 92.1 0.099 2.1E-06 63.0 3.0 21 692-712 91-111 (495)
179 PRK00254 ski2-like helicase; P 92.0 0.41 8.9E-06 60.4 8.5 68 659-793 22-90 (720)
180 PF13238 AAA_18: AAA domain; P 92.0 0.12 2.5E-06 49.4 2.9 20 693-712 2-21 (129)
181 TIGR01587 cas3_core CRISPR-ass 91.9 0.29 6.2E-06 56.0 6.4 23 771-793 29-51 (358)
182 PF13555 AAA_29: P-loop contai 91.9 0.17 3.6E-06 44.4 3.4 24 690-713 24-47 (62)
183 COG0467 RAD55 RecA-superfamily 91.9 0.36 7.9E-06 53.0 6.9 24 688-711 22-45 (260)
184 PF06309 Torsin: Torsin; Inte 91.8 0.18 3.9E-06 50.2 4.0 26 688-713 51-77 (127)
185 PRK09361 radB DNA repair and r 91.8 0.14 3E-06 54.8 3.5 23 689-711 23-45 (225)
186 COG1484 DnaC DNA replication p 91.8 0.13 2.8E-06 56.9 3.3 23 691-713 107-129 (254)
187 PRK13894 conjugal transfer ATP 91.7 0.25 5.3E-06 56.5 5.6 40 660-712 132-171 (319)
188 PHA02624 large T antigen; Prov 91.6 0.23 5E-06 60.8 5.3 24 689-712 431-454 (647)
189 PF03266 NTPase_1: NTPase; In 91.5 0.14 3.1E-06 53.1 3.1 22 692-713 2-23 (168)
190 COG1199 DinG Rad3-related DNA 91.5 0.42 9.1E-06 59.5 7.7 23 771-793 63-85 (654)
191 COG1110 Reverse gyrase [DNA re 91.4 2.3 5E-05 54.7 13.6 33 945-977 181-213 (1187)
192 TIGR02397 dnaX_nterm DNA polym 91.4 0.29 6.3E-06 55.7 5.7 42 662-713 19-60 (355)
193 PRK14961 DNA polymerase III su 91.3 0.14 3E-06 59.4 3.0 23 691-713 40-62 (363)
194 PRK14722 flhF flagellar biosyn 91.2 0.17 3.6E-06 59.1 3.6 25 688-712 136-160 (374)
195 TIGR02782 TrbB_P P-type conjug 91.2 0.33 7.1E-06 55.0 5.8 40 660-712 116-155 (299)
196 cd01394 radB RadB. The archaea 91.2 0.16 3.4E-06 54.1 3.1 24 688-711 18-41 (218)
197 TIGR03881 KaiC_arch_4 KaiC dom 91.1 0.55 1.2E-05 50.4 7.2 24 688-711 19-42 (229)
198 PRK04296 thymidine kinase; Pro 91.1 0.17 3.7E-06 53.3 3.2 23 690-712 3-25 (190)
199 TIGR02237 recomb_radB DNA repa 91.1 0.17 3.7E-06 53.4 3.3 24 688-711 11-34 (209)
200 TIGR02773 addB_Gpos ATP-depend 91.0 5.5 0.00012 53.3 17.7 37 968-1004 197-235 (1158)
201 PF00308 Bac_DnaA: Bacterial d 91.0 0.32 7E-06 52.5 5.3 23 691-713 36-58 (219)
202 PRK14963 DNA polymerase III su 91.0 0.16 3.4E-06 61.5 3.2 23 692-714 39-61 (504)
203 PHA02244 ATPase-like protein 91.0 0.17 3.7E-06 58.8 3.3 21 692-712 122-142 (383)
204 CHL00195 ycf46 Ycf46; Provisio 90.9 0.16 3.4E-06 61.3 3.0 24 688-712 259-282 (489)
205 COG0606 Predicted ATPase with 90.8 0.21 4.5E-06 59.3 3.9 38 664-711 183-220 (490)
206 TIGR03158 cas3_cyano CRISPR-as 90.8 0.64 1.4E-05 53.8 7.9 22 772-793 40-61 (357)
207 PRK13341 recombination factor 90.8 0.14 3E-06 64.6 2.5 21 691-711 54-74 (725)
208 TIGR00150 HI0065_YjeE ATPase, 90.8 0.46 1E-05 47.8 5.7 25 688-712 21-45 (133)
209 PF13476 AAA_23: AAA domain; P 90.7 0.19 4.1E-06 51.6 3.1 25 689-713 19-43 (202)
210 COG3973 Superfamily I DNA and 90.7 0.5 1.1E-05 57.4 6.9 37 659-710 211-247 (747)
211 PRK14956 DNA polymerase III su 90.7 0.16 3.4E-06 61.0 2.7 23 691-713 42-64 (484)
212 COG1223 Predicted ATPase (AAA+ 90.7 0.16 3.4E-06 56.2 2.5 20 692-711 154-173 (368)
213 TIGR01360 aden_kin_iso1 adenyl 90.7 0.19 4E-06 51.7 3.0 22 690-711 4-25 (188)
214 COG2805 PilT Tfp pilus assembl 90.7 0.23 5E-06 56.0 3.8 26 688-713 124-149 (353)
215 TIGR01420 pilT_fam pilus retra 90.6 0.21 4.6E-06 57.5 3.7 25 688-712 121-145 (343)
216 PF13481 AAA_25: AAA domain; P 90.6 0.23 5E-06 51.4 3.7 25 689-713 32-56 (193)
217 TIGR00362 DnaA chromosomal rep 90.6 0.18 3.9E-06 59.1 3.1 23 691-713 138-160 (405)
218 TIGR02784 addA_alphas double-s 90.6 0.44 9.5E-06 63.2 7.0 23 771-793 41-63 (1141)
219 TIGR00602 rad24 checkpoint pro 90.4 0.39 8.5E-06 59.6 6.0 47 661-713 88-134 (637)
220 smart00488 DEXDc2 DEAD-like he 90.4 1.1 2.5E-05 50.4 9.2 41 941-981 207-250 (289)
221 smart00489 DEXDc3 DEAD-like he 90.4 1.1 2.5E-05 50.4 9.2 41 941-981 207-250 (289)
222 TIGR01618 phage_P_loop phage n 90.3 0.19 4.2E-06 54.5 2.8 21 689-709 12-32 (220)
223 PRK05703 flhF flagellar biosyn 90.3 0.48 1E-05 56.2 6.4 24 689-712 221-244 (424)
224 PRK13709 conjugal transfer nic 90.3 0.98 2.1E-05 61.8 9.9 36 969-1004 502-540 (1747)
225 TIGR01359 UMP_CMP_kin_fam UMP- 90.3 0.21 4.6E-06 51.4 3.0 20 692-711 2-21 (183)
226 PRK06645 DNA polymerase III su 90.2 0.2 4.3E-06 60.7 3.1 24 690-713 44-67 (507)
227 cd03115 SRP The signal recogni 90.2 0.26 5.6E-06 50.5 3.5 22 691-712 2-23 (173)
228 PRK00149 dnaA chromosomal repl 90.1 0.21 4.6E-06 59.5 3.1 23 691-713 150-172 (450)
229 COG0470 HolB ATPase involved i 90.0 0.22 4.8E-06 55.6 3.0 24 691-714 26-49 (325)
230 PRK11823 DNA repair protein Ra 89.9 0.61 1.3E-05 55.7 6.8 25 688-712 79-103 (446)
231 PRK13767 ATP-dependent helicas 89.9 0.91 2E-05 58.7 8.8 34 659-706 31-64 (876)
232 PRK14955 DNA polymerase III su 89.9 0.22 4.7E-06 58.5 3.0 22 692-713 41-62 (397)
233 PF13173 AAA_14: AAA domain 89.9 0.3 6.4E-06 47.9 3.5 23 689-711 2-24 (128)
234 COG2804 PulE Type II secretory 89.7 0.49 1.1E-05 56.7 5.7 42 660-713 241-282 (500)
235 cd01121 Sms Sms (bacterial rad 89.6 0.69 1.5E-05 54.1 6.8 24 688-711 81-104 (372)
236 CHL00176 ftsH cell division pr 89.5 0.23 5E-06 61.8 3.0 20 692-711 219-238 (638)
237 PF13521 AAA_28: AAA domain; P 89.5 0.19 4E-06 51.1 1.8 19 693-711 3-21 (163)
238 TIGR02524 dot_icm_DotB Dot/Icm 89.5 0.3 6.6E-06 56.7 3.8 26 688-713 133-158 (358)
239 cd01393 recA_like RecA is a b 89.5 0.3 6.4E-06 52.1 3.4 24 688-711 18-41 (226)
240 PRK09087 hypothetical protein; 89.4 0.29 6.3E-06 53.1 3.3 22 689-710 44-65 (226)
241 PRK11057 ATP-dependent DNA hel 89.4 0.98 2.1E-05 56.0 8.3 32 659-704 24-55 (607)
242 COG1936 Predicted nucleotide k 89.4 0.26 5.7E-06 51.5 2.8 19 692-711 3-21 (180)
243 PF00931 NB-ARC: NB-ARC domain 89.3 0.46 1E-05 52.2 4.9 40 663-711 2-41 (287)
244 PRK14088 dnaA chromosomal repl 89.2 0.27 5.8E-06 58.6 3.1 22 692-713 133-154 (440)
245 PF12774 AAA_6: Hydrolytic ATP 89.2 0.8 1.7E-05 50.1 6.5 22 690-711 33-54 (231)
246 PRK10867 signal recognition pa 89.1 0.89 1.9E-05 54.2 7.3 24 689-712 100-123 (433)
247 TIGR02030 BchI-ChlI magnesium 89.0 0.52 1.1E-05 54.4 5.2 22 691-712 27-48 (337)
248 PHA02774 E1; Provisional 89.0 0.27 5.9E-06 60.0 3.0 23 690-712 435-457 (613)
249 PRK12422 chromosomal replicati 89.0 0.29 6.2E-06 58.5 3.1 23 692-714 144-166 (445)
250 COG0464 SpoVK ATPases of the A 88.9 0.29 6.3E-06 58.8 3.2 23 689-711 276-298 (494)
251 PRK08233 hypothetical protein; 88.9 0.3 6.5E-06 49.9 2.8 22 690-711 4-25 (182)
252 cd02019 NK Nucleoside/nucleoti 88.9 0.41 8.9E-06 42.2 3.3 20 692-711 2-21 (69)
253 PRK14970 DNA polymerase III su 88.9 0.6 1.3E-05 53.9 5.6 23 690-712 40-62 (367)
254 PRK14957 DNA polymerase III su 88.9 0.56 1.2E-05 57.4 5.5 24 690-713 39-62 (546)
255 cd01123 Rad51_DMC1_radA Rad51_ 88.6 0.35 7.6E-06 51.8 3.3 24 688-711 18-41 (235)
256 PRK14949 DNA polymerase III su 88.6 0.27 5.9E-06 62.6 2.8 24 691-714 40-63 (944)
257 TIGR03499 FlhF flagellar biosy 88.6 0.4 8.6E-06 53.8 3.8 24 689-712 194-217 (282)
258 TIGR02525 plasmid_TraJ plasmid 88.6 0.39 8.4E-06 56.1 3.7 25 689-713 149-173 (372)
259 COG1224 TIP49 DNA helicase TIP 88.5 0.28 6E-06 56.4 2.4 23 690-712 66-88 (450)
260 PRK00131 aroK shikimate kinase 88.5 0.45 9.8E-06 48.0 3.8 22 690-711 5-26 (175)
261 TIGR00678 holB DNA polymerase 88.4 0.34 7.4E-06 50.4 2.9 24 690-713 15-38 (188)
262 TIGR01313 therm_gnt_kin carboh 88.3 0.33 7.1E-06 49.2 2.7 19 693-711 2-20 (163)
263 cd02021 GntK Gluconate kinase 88.3 0.33 7.2E-06 48.4 2.6 20 692-711 2-21 (150)
264 TIGR00763 lon ATP-dependent pr 88.3 0.37 8E-06 61.4 3.6 25 689-713 347-371 (775)
265 PHA02653 RNA helicase NPH-II; 88.3 0.97 2.1E-05 56.7 7.2 23 771-793 222-244 (675)
266 PRK15455 PrkA family serine pr 88.2 0.67 1.4E-05 56.8 5.5 26 688-713 102-127 (644)
267 TIGR03714 secA2 accessory Sec 88.2 1.7 3.7E-05 55.0 9.2 47 944-990 163-218 (762)
268 PF02492 cobW: CobW/HypB/UreG, 88.1 0.35 7.5E-06 50.3 2.7 22 690-711 1-22 (178)
269 PLN00206 DEAD-box ATP-dependen 88.1 1.7 3.6E-05 52.9 8.9 33 659-705 142-174 (518)
270 PRK06851 hypothetical protein; 88.0 0.96 2.1E-05 52.8 6.5 23 690-712 215-237 (367)
271 PRK14958 DNA polymerase III su 88.0 0.35 7.6E-06 58.7 3.0 24 691-714 40-63 (509)
272 PRK14964 DNA polymerase III su 88.0 0.36 7.8E-06 58.3 3.1 23 691-713 37-59 (491)
273 TIGR01425 SRP54_euk signal rec 87.9 0.71 1.5E-05 54.9 5.4 23 689-711 100-122 (429)
274 PF14532 Sigma54_activ_2: Sigm 87.9 0.52 1.1E-05 46.8 3.7 15 692-706 24-38 (138)
275 TIGR02655 circ_KaiC circadian 87.9 0.39 8.4E-06 57.9 3.3 24 688-711 20-43 (484)
276 COG4096 HsdR Type I site-speci 87.9 1 2.2E-05 56.7 6.8 73 660-793 165-237 (875)
277 TIGR00235 udk uridine kinase. 87.8 0.48 1E-05 50.3 3.7 25 687-711 4-28 (207)
278 CHL00095 clpC Clp protease ATP 87.8 0.52 1.1E-05 60.4 4.6 49 664-713 513-563 (821)
279 PRK04040 adenylate kinase; Pro 87.8 0.44 9.6E-06 50.3 3.3 23 690-712 3-25 (188)
280 PF13479 AAA_24: AAA domain 87.7 0.3 6.5E-06 52.3 2.0 18 692-709 6-23 (213)
281 TIGR03345 VI_ClpV1 type VI sec 87.6 0.63 1.4E-05 59.9 5.1 49 664-713 570-620 (852)
282 PRK04301 radA DNA repair and r 87.5 0.42 9.1E-06 54.3 3.2 24 688-711 101-124 (317)
283 KOG0734 AAA+-type ATPase conta 87.5 0.39 8.4E-06 57.6 2.9 24 686-710 335-358 (752)
284 TIGR01243 CDC48 AAA family ATP 87.4 0.47 1E-05 60.1 3.8 23 690-712 213-235 (733)
285 PRK14087 dnaA chromosomal repl 87.4 0.41 8.9E-06 57.2 3.1 22 692-713 144-165 (450)
286 KOG0738 AAA+-type ATPase [Post 87.4 0.38 8.2E-06 55.9 2.7 23 688-710 244-266 (491)
287 KOG0731 AAA+-type ATPase conta 87.4 0.34 7.4E-06 60.7 2.5 44 652-710 322-365 (774)
288 PRK10865 protein disaggregatio 87.4 0.78 1.7E-05 59.1 5.7 24 690-713 599-622 (857)
289 PF00437 T2SE: Type II/IV secr 87.3 0.4 8.6E-06 52.9 2.8 23 689-711 127-149 (270)
290 PRK14527 adenylate kinase; Pro 87.3 0.56 1.2E-05 49.1 3.7 23 689-711 6-28 (191)
291 TIGR02236 recomb_radA DNA repa 87.2 0.47 1E-05 53.6 3.3 24 688-711 94-117 (310)
292 PRK13851 type IV secretion sys 87.2 0.67 1.5E-05 53.6 4.6 22 690-711 163-184 (344)
293 cd01125 repA Hexameric Replica 87.1 0.5 1.1E-05 51.3 3.3 22 691-712 3-24 (239)
294 PF12775 AAA_7: P-loop contain 87.1 0.46 1E-05 53.1 3.1 20 692-711 36-55 (272)
295 COG2255 RuvB Holliday junction 87.1 0.48 1E-05 53.2 3.1 20 690-709 53-72 (332)
296 KOG0727 26S proteasome regulat 87.0 0.49 1.1E-05 52.1 3.1 24 688-711 188-211 (408)
297 PF06068 TIP49: TIP49 C-termin 87.0 0.35 7.6E-06 56.1 2.1 23 690-712 51-73 (398)
298 cd01428 ADK Adenylate kinase ( 87.0 0.41 8.9E-06 49.5 2.5 20 692-711 2-21 (194)
299 KOG1132 Helicase of the DEAD s 86.9 5.5 0.00012 50.6 12.3 39 770-816 109-147 (945)
300 PRK05896 DNA polymerase III su 86.9 0.45 9.7E-06 58.6 3.1 23 692-714 41-63 (605)
301 TIGR02322 phosphon_PhnN phosph 86.9 0.54 1.2E-05 48.3 3.3 22 690-711 2-23 (179)
302 PRK14531 adenylate kinase; Pro 86.7 0.52 1.1E-05 49.1 3.1 20 692-711 5-24 (183)
303 PRK14952 DNA polymerase III su 86.7 0.44 9.6E-06 58.7 3.0 24 691-714 37-60 (584)
304 TIGR02012 tigrfam_recA protein 86.7 0.5 1.1E-05 54.1 3.2 24 688-711 54-77 (321)
305 PRK13909 putative recombinatio 86.7 0.98 2.1E-05 58.6 6.2 22 772-793 30-51 (910)
306 PRK01297 ATP-dependent RNA hel 86.7 2.3 5E-05 51.0 8.9 23 771-793 162-184 (475)
307 PRK05541 adenylylsulfate kinas 86.6 0.69 1.5E-05 47.6 3.9 24 689-712 7-30 (176)
308 TIGR02903 spore_lon_C ATP-depe 86.6 0.74 1.6E-05 57.2 4.8 22 690-711 176-197 (615)
309 PRK05480 uridine/cytidine kina 86.6 0.61 1.3E-05 49.4 3.6 23 689-711 6-28 (209)
310 TIGR00416 sms DNA repair prote 86.6 1.3 2.9E-05 53.0 6.8 24 688-711 93-116 (454)
311 PRK06762 hypothetical protein; 86.6 0.61 1.3E-05 47.4 3.4 22 690-711 3-24 (166)
312 PF01637 Arch_ATPase: Archaeal 86.5 0.82 1.8E-05 47.9 4.5 23 689-711 20-42 (234)
313 PRK08118 topology modulation p 86.5 0.45 9.9E-06 49.2 2.5 20 692-711 4-23 (167)
314 CHL00206 ycf2 Ycf2; Provisiona 86.5 0.5 1.1E-05 64.1 3.4 24 688-712 1630-1653(2281)
315 PRK09302 circadian clock prote 86.4 1.4 3E-05 53.4 6.9 23 689-711 31-53 (509)
316 PRK03839 putative kinase; Prov 86.4 0.55 1.2E-05 48.5 3.0 20 692-711 3-22 (180)
317 PRK13765 ATP-dependent proteas 86.4 0.82 1.8E-05 56.9 5.0 24 690-713 51-74 (637)
318 PRK13947 shikimate kinase; Pro 86.4 0.55 1.2E-05 47.8 3.0 20 692-711 4-23 (171)
319 PRK14960 DNA polymerase III su 86.4 0.49 1.1E-05 58.8 3.0 24 690-713 38-61 (702)
320 TIGR00764 lon_rel lon-related 86.3 0.89 1.9E-05 56.4 5.3 24 690-713 38-61 (608)
321 KOG0354 DEAD-box like helicase 86.3 3 6.6E-05 52.3 9.7 66 660-792 62-127 (746)
322 PRK08074 bifunctional ATP-depe 86.3 1.6 3.4E-05 56.9 7.6 32 660-704 257-291 (928)
323 PRK05342 clpX ATP-dependent pr 86.2 0.62 1.3E-05 55.2 3.7 22 690-711 109-130 (412)
324 KOG0652 26S proteasome regulat 86.2 0.54 1.2E-05 52.0 2.9 22 687-709 204-225 (424)
325 PRK14954 DNA polymerase III su 86.2 0.51 1.1E-05 58.6 3.1 23 692-714 41-63 (620)
326 KOG1804 RNA helicase [RNA proc 86.1 0.4 8.7E-06 60.3 2.2 72 942-1014 240-314 (775)
327 PRK14969 DNA polymerase III su 86.1 0.51 1.1E-05 57.6 3.0 23 691-713 40-62 (527)
328 KOG3347 Predicted nucleotide k 86.0 0.49 1.1E-05 48.6 2.3 22 690-711 8-29 (176)
329 PRK10416 signal recognition pa 86.0 0.68 1.5E-05 53.0 3.7 24 689-712 114-137 (318)
330 PRK12899 secA preprotein trans 86.0 3.5 7.6E-05 53.1 10.2 46 945-990 183-238 (970)
331 PRK14532 adenylate kinase; Pro 85.9 0.56 1.2E-05 48.7 2.8 20 692-711 3-22 (188)
332 PRK00771 signal recognition pa 85.9 0.67 1.5E-05 55.3 3.8 25 689-713 95-119 (437)
333 PRK09302 circadian clock prote 85.8 1.6 3.4E-05 52.9 7.0 23 689-711 273-295 (509)
334 TIGR01243 CDC48 AAA family ATP 85.6 0.51 1.1E-05 59.7 2.8 21 692-712 490-510 (733)
335 PRK13768 GTPase; Provisional 85.5 0.68 1.5E-05 51.1 3.4 23 691-713 4-26 (253)
336 TIGR00064 ftsY signal recognit 85.5 0.75 1.6E-05 51.5 3.7 22 690-711 73-94 (272)
337 TIGR00750 lao LAO/AO transport 85.5 0.76 1.7E-05 51.9 3.8 25 688-712 33-57 (300)
338 cd00983 recA RecA is a bacter 85.3 0.65 1.4E-05 53.3 3.2 24 688-711 54-77 (325)
339 PRK12723 flagellar biosynthesi 85.2 0.75 1.6E-05 54.1 3.7 24 689-712 174-197 (388)
340 KOG1942 DNA helicase, TBP-inte 85.2 0.57 1.2E-05 52.6 2.5 22 690-711 65-86 (456)
341 cd02023 UMPK Uridine monophosp 85.2 0.72 1.6E-05 48.4 3.2 20 692-711 2-21 (198)
342 PF00005 ABC_tran: ABC transpo 85.2 0.7 1.5E-05 45.1 2.9 24 688-711 10-33 (137)
343 PRK00889 adenylylsulfate kinas 85.1 0.9 1.9E-05 46.7 3.9 23 689-711 4-26 (175)
344 PF06414 Zeta_toxin: Zeta toxi 85.1 0.65 1.4E-05 49.0 2.9 24 688-711 14-37 (199)
345 PRK13900 type IV secretion sys 85.0 1.1 2.3E-05 51.7 4.8 22 690-711 161-182 (332)
346 PRK14530 adenylate kinase; Pro 85.0 0.81 1.8E-05 48.9 3.6 22 690-711 4-25 (215)
347 PRK07261 topology modulation p 85.0 0.59 1.3E-05 48.4 2.4 20 692-711 3-22 (171)
348 cd00227 CPT Chloramphenicol (C 85.0 0.82 1.8E-05 47.2 3.5 22 690-711 3-24 (175)
349 PRK11034 clpA ATP-dependent Cl 85.0 0.98 2.1E-05 57.4 4.8 23 690-712 489-511 (758)
350 cd00544 CobU Adenosylcobinamid 84.9 1.4 3.1E-05 45.8 5.2 20 691-710 1-20 (169)
351 PRK14951 DNA polymerase III su 84.9 0.64 1.4E-05 57.7 3.0 25 690-714 39-63 (618)
352 TIGR02639 ClpA ATP-dependent C 84.8 0.64 1.4E-05 58.9 3.1 22 692-713 206-227 (731)
353 cd02027 APSK Adenosine 5'-phos 84.8 0.82 1.8E-05 46.2 3.3 20 692-711 2-21 (149)
354 cd03112 CobW_like The function 84.7 0.74 1.6E-05 47.1 3.0 22 690-711 1-22 (158)
355 PLN02200 adenylate kinase fami 84.7 0.78 1.7E-05 50.1 3.3 22 690-711 44-65 (234)
356 PRK12724 flagellar biosynthesi 84.7 0.81 1.8E-05 54.2 3.7 22 690-711 224-245 (432)
357 PRK06305 DNA polymerase III su 84.7 0.66 1.4E-05 55.5 3.0 25 690-714 40-64 (451)
358 PRK14528 adenylate kinase; Pro 84.7 0.63 1.4E-05 48.8 2.5 20 692-711 4-23 (186)
359 PRK07940 DNA polymerase III su 84.6 0.63 1.4E-05 54.8 2.7 23 692-714 39-61 (394)
360 PRK13764 ATPase; Provisional 84.6 0.8 1.7E-05 56.6 3.7 24 690-713 258-281 (602)
361 CHL00081 chlI Mg-protoporyphyr 84.6 1.3 2.9E-05 51.3 5.3 21 692-712 41-61 (350)
362 PF08477 Miro: Miro-like prote 84.6 0.77 1.7E-05 43.4 2.9 20 692-711 2-21 (119)
363 cd02020 CMPK Cytidine monophos 84.5 0.71 1.5E-05 45.3 2.7 20 692-711 2-21 (147)
364 cd01983 Fer4_NifH The Fer4_Nif 84.5 0.98 2.1E-05 40.3 3.4 22 692-713 2-23 (99)
365 PRK02496 adk adenylate kinase; 84.5 0.78 1.7E-05 47.5 3.1 20 692-711 4-23 (184)
366 PLN02459 probable adenylate ki 84.5 1 2.2E-05 50.2 4.2 20 692-711 32-51 (261)
367 TIGR03263 guanyl_kin guanylate 84.4 0.81 1.8E-05 47.0 3.2 22 690-711 2-23 (180)
368 PTZ00202 tuzin; Provisional 84.4 2.6 5.7E-05 50.4 7.5 23 690-712 287-309 (550)
369 PF01745 IPT: Isopentenyl tran 84.4 0.71 1.5E-05 50.1 2.7 22 690-711 2-23 (233)
370 PRK01184 hypothetical protein; 84.4 0.77 1.7E-05 47.5 3.0 19 691-710 3-21 (184)
371 PRK05800 cobU adenosylcobinami 84.3 1.4 3E-05 45.9 4.8 21 691-711 3-23 (170)
372 COG1102 Cmk Cytidylate kinase 84.3 0.58 1.3E-05 48.7 1.9 19 692-710 3-21 (179)
373 PRK09111 DNA polymerase III su 84.3 0.67 1.5E-05 57.3 2.9 24 691-714 48-71 (598)
374 PRK12323 DNA polymerase III su 84.2 0.71 1.5E-05 57.3 3.0 25 690-714 39-63 (700)
375 PRK14948 DNA polymerase III su 84.2 0.66 1.4E-05 57.6 2.8 24 691-714 40-63 (620)
376 PRK10865 protein disaggregatio 84.2 0.78 1.7E-05 59.1 3.6 25 689-713 199-223 (857)
377 PF07088 GvpD: GvpD gas vesicl 84.1 0.44 9.6E-06 55.5 1.2 23 691-713 12-34 (484)
378 TIGR02238 recomb_DMC1 meiotic 84.1 0.76 1.6E-05 52.5 3.0 23 688-710 95-117 (313)
379 PLN03187 meiotic recombination 84.1 0.78 1.7E-05 53.1 3.1 23 688-710 125-147 (344)
380 KOG0739 AAA+-type ATPase [Post 84.0 0.75 1.6E-05 51.9 2.8 23 688-710 165-187 (439)
381 PRK09354 recA recombinase A; P 84.0 0.81 1.8E-05 53.0 3.2 23 689-711 60-82 (349)
382 COG4098 comFA Superfamily II D 83.9 8.7 0.00019 44.4 11.0 71 659-793 96-166 (441)
383 PRK14950 DNA polymerase III su 83.9 0.75 1.6E-05 56.8 3.1 23 692-714 41-63 (585)
384 PRK00300 gmk guanylate kinase; 83.8 1 2.2E-05 47.3 3.7 24 688-711 4-27 (205)
385 COG1074 RecB ATP-dependent exo 83.8 1.6 3.4E-05 58.1 6.1 56 689-793 16-71 (1139)
386 TIGR03346 chaperone_ClpB ATP-d 83.8 1.6 3.4E-05 56.4 6.0 24 690-713 596-619 (852)
387 PRK07994 DNA polymerase III su 83.8 0.77 1.7E-05 57.2 3.1 24 692-715 41-64 (647)
388 PF00485 PRK: Phosphoribulokin 83.7 0.91 2E-05 47.7 3.2 21 692-712 2-22 (194)
389 PRK08691 DNA polymerase III su 83.7 0.75 1.6E-05 57.5 3.0 24 691-714 40-63 (709)
390 TIGR00176 mobB molybdopterin-g 83.6 0.99 2.1E-05 46.3 3.4 22 692-713 2-23 (155)
391 COG3854 SpoIIIAA ncharacterize 83.5 0.93 2E-05 49.7 3.1 20 692-711 140-159 (308)
392 TIGR02688 conserved hypothetic 83.3 0.72 1.6E-05 54.6 2.5 20 692-711 212-231 (449)
393 COG1618 Predicted nucleotide k 83.2 0.96 2.1E-05 47.1 3.0 22 692-713 8-29 (179)
394 PRK05563 DNA polymerase III su 83.2 0.83 1.8E-05 56.2 3.1 25 690-714 39-63 (559)
395 KOG1970 Checkpoint RAD17-RFC c 83.2 0.97 2.1E-05 54.6 3.5 24 688-711 109-132 (634)
396 KOG0735 AAA+-type ATPase [Post 83.2 0.75 1.6E-05 56.9 2.6 21 692-712 704-724 (952)
397 PRK06647 DNA polymerase III su 83.1 0.81 1.8E-05 56.3 2.9 25 690-714 39-63 (563)
398 PRK07003 DNA polymerase III su 83.1 0.84 1.8E-05 57.5 3.0 25 690-714 39-63 (830)
399 PRK06547 hypothetical protein; 82.9 1.1 2.4E-05 46.7 3.5 24 688-711 14-37 (172)
400 TIGR03117 cas_csf4 CRISPR-asso 82.8 3.3 7.1E-05 51.7 8.0 21 771-791 46-66 (636)
401 PRK10751 molybdopterin-guanine 82.8 1.3 2.8E-05 46.5 3.9 25 689-713 6-30 (173)
402 TIGR00390 hslU ATP-dependent p 82.7 0.93 2E-05 53.7 3.1 22 691-712 49-70 (441)
403 PRK12608 transcription termina 82.7 1 2.2E-05 52.7 3.3 22 692-713 136-157 (380)
404 TIGR00382 clpX endopeptidase C 82.7 1 2.2E-05 53.4 3.4 22 690-711 117-138 (413)
405 TIGR02902 spore_lonB ATP-depen 82.7 1.6 3.5E-05 53.3 5.2 19 692-710 89-107 (531)
406 PRK14965 DNA polymerase III su 82.6 0.88 1.9E-05 56.2 2.9 25 690-714 39-63 (576)
407 PTZ00035 Rad51 protein; Provis 82.6 0.99 2.1E-05 52.1 3.2 23 688-710 117-139 (337)
408 PRK12727 flagellar biosynthesi 82.6 3 6.5E-05 51.0 7.3 24 688-711 349-372 (559)
409 KOG0733 Nuclear AAA ATPase (VC 82.4 0.83 1.8E-05 55.7 2.6 23 688-711 545-567 (802)
410 TIGR00665 DnaB replicative DNA 82.4 2.6 5.5E-05 50.0 6.7 24 688-711 194-217 (434)
411 PF07724 AAA_2: AAA domain (Cd 82.4 1.2 2.5E-05 46.5 3.4 23 690-712 4-26 (171)
412 PRK10078 ribose 1,5-bisphospho 82.4 1 2.3E-05 46.9 3.0 22 690-711 3-24 (186)
413 PRK12726 flagellar biosynthesi 82.3 3 6.5E-05 49.1 6.9 24 688-711 205-228 (407)
414 KOG0736 Peroxisome assembly fa 82.3 0.8 1.7E-05 57.1 2.4 17 693-709 709-725 (953)
415 PRK06696 uridine kinase; Valid 82.3 2 4.2E-05 46.3 5.2 25 689-713 22-46 (223)
416 PF00406 ADK: Adenylate kinase 82.3 0.87 1.9E-05 45.7 2.3 18 694-711 1-18 (151)
417 PF00158 Sigma54_activat: Sigm 82.2 2.1 4.6E-05 44.5 5.2 18 692-709 25-42 (168)
418 TIGR03600 phage_DnaB phage rep 82.2 2.8 6.1E-05 49.5 6.9 24 688-711 193-216 (421)
419 KOG0741 AAA+-type ATPase [Post 82.1 0.82 1.8E-05 54.9 2.3 19 690-709 258-276 (744)
420 PF01580 FtsK_SpoIIIE: FtsK/Sp 82.1 1.1 2.4E-05 47.2 3.2 22 692-713 41-62 (205)
421 PRK14086 dnaA chromosomal repl 82.0 1 2.2E-05 55.8 3.1 22 692-713 317-338 (617)
422 TIGR01407 dinG_rel DnaQ family 82.0 3.7 8E-05 53.0 8.3 20 771-790 292-311 (850)
423 cd00876 Ras Ras family. The R 82.0 1 2.2E-05 44.2 2.6 20 692-711 2-21 (160)
424 COG0556 UvrB Helicase subunit 81.9 2.7 5.8E-05 50.8 6.4 64 664-793 16-79 (663)
425 TIGR03345 VI_ClpV1 type VI sec 81.9 0.96 2.1E-05 58.3 3.0 22 692-713 211-232 (852)
426 PRK11747 dinG ATP-dependent DN 81.8 3.4 7.4E-05 52.2 7.8 44 660-713 25-71 (697)
427 cd00464 SK Shikimate kinase (S 81.8 1.2 2.6E-05 44.2 3.1 20 692-711 2-21 (154)
428 PHA02530 pseT polynucleotide k 81.8 1.1 2.4E-05 50.0 3.1 22 690-711 3-24 (300)
429 TIGR01351 adk adenylate kinase 81.7 0.95 2.1E-05 48.1 2.5 20 692-711 2-21 (210)
430 PRK08451 DNA polymerase III su 81.5 1 2.3E-05 54.9 3.0 24 691-714 38-61 (535)
431 TIGR03346 chaperone_ClpB ATP-d 81.4 1.2 2.5E-05 57.5 3.6 24 690-713 195-218 (852)
432 TIGR02639 ClpA ATP-dependent C 81.3 2.3 4.9E-05 54.0 6.0 23 690-712 485-507 (731)
433 cd02028 UMPK_like Uridine mono 81.3 1.3 2.9E-05 46.2 3.3 21 692-712 2-22 (179)
434 PRK10787 DNA-binding ATP-depen 81.3 1.3 2.7E-05 56.7 3.7 25 688-712 348-372 (784)
435 PRK14953 DNA polymerase III su 81.3 1.1 2.3E-05 54.3 3.0 24 690-713 39-62 (486)
436 PRK07133 DNA polymerase III su 81.3 1.1 2.3E-05 56.6 3.0 25 690-714 41-65 (725)
437 CHL00095 clpC Clp protease ATP 81.3 1.1 2.3E-05 57.7 3.1 41 662-713 184-224 (821)
438 PRK14959 DNA polymerase III su 81.3 1 2.2E-05 55.8 2.8 25 690-714 39-63 (624)
439 PRK06995 flhF flagellar biosyn 81.2 1.4 2.9E-05 53.3 3.8 24 689-712 256-279 (484)
440 PRK14737 gmk guanylate kinase; 81.2 1.4 3E-05 46.5 3.4 23 689-711 4-26 (186)
441 PRK14738 gmk guanylate kinase; 81.1 1.3 2.8E-05 47.2 3.2 22 689-710 13-34 (206)
442 TIGR00959 ffh signal recogniti 81.0 1.4 3.1E-05 52.5 3.8 24 690-713 100-123 (428)
443 PRK09435 membrane ATPase/prote 81.0 1.3 2.9E-05 51.0 3.5 24 690-713 57-80 (332)
444 PRK00279 adk adenylate kinase; 81.0 1 2.3E-05 48.0 2.5 20 692-711 3-22 (215)
445 PRK07667 uridine kinase; Provi 81.0 1.4 3.1E-05 46.4 3.5 24 689-712 17-40 (193)
446 PRK05201 hslU ATP-dependent pr 80.8 2.2 4.7E-05 50.8 5.1 22 691-712 52-73 (443)
447 KOG0990 Replication factor C, 80.7 0.65 1.4E-05 52.8 0.8 24 690-713 63-86 (360)
448 KOG1969 DNA replication checkp 80.6 3 6.6E-05 52.0 6.4 23 687-710 324-346 (877)
449 TIGR00041 DTMP_kinase thymidyl 80.5 1.5 3.3E-05 45.5 3.5 22 690-711 4-25 (195)
450 PF03205 MobB: Molybdopterin g 80.5 1.5 3.2E-05 44.2 3.2 24 690-713 1-24 (140)
451 cd02025 PanK Pantothenate kina 80.5 1.4 3E-05 47.7 3.2 21 692-712 2-22 (220)
452 COG0552 FtsY Signal recognitio 80.4 2 4.2E-05 49.4 4.4 22 690-711 140-161 (340)
453 PF00519 PPV_E1_C: Papillomavi 80.3 1.4 3E-05 51.6 3.3 24 689-712 262-285 (432)
454 PRK09112 DNA polymerase III su 80.3 2.5 5.3E-05 49.1 5.4 26 690-715 46-71 (351)
455 PRK09825 idnK D-gluconate kina 80.2 1.6 3.5E-05 45.5 3.5 22 690-711 4-25 (176)
456 TIGR03574 selen_PSTK L-seryl-t 80.2 1.4 3.1E-05 48.0 3.3 20 692-711 2-21 (249)
457 PRK09694 helicase Cas3; Provis 80.0 4.1 8.8E-05 52.7 7.6 23 771-793 331-353 (878)
458 PRK13695 putative NTPase; Prov 79.8 1.5 3.3E-05 45.1 3.2 20 692-711 3-22 (174)
459 PRK13949 shikimate kinase; Pro 79.7 1.4 3E-05 45.7 2.8 20 692-711 4-23 (169)
460 PRK05748 replicative DNA helic 79.7 3.7 8E-05 49.0 6.8 24 688-711 202-225 (448)
461 TIGR00368 Mg chelatase-related 79.7 1.6 3.6E-05 52.9 3.8 22 690-711 212-233 (499)
462 cd00820 PEPCK_HprK Phosphoenol 79.6 1.6 3.4E-05 42.4 2.9 22 689-710 15-36 (107)
463 PRK14526 adenylate kinase; Pro 79.5 1.3 2.7E-05 47.9 2.5 19 692-710 3-21 (211)
464 KOG1533 Predicted GTPase [Gene 79.5 1.2 2.6E-05 48.9 2.2 21 692-712 5-25 (290)
465 PF12846 AAA_10: AAA-like doma 79.4 1.8 3.9E-05 47.3 3.7 22 692-713 4-25 (304)
466 PF03029 ATP_bind_1: Conserved 79.4 1 2.2E-05 49.5 1.7 18 694-711 1-18 (238)
467 KOG0729 26S proteasome regulat 79.2 1.4 3.1E-05 48.9 2.8 19 691-709 213-231 (435)
468 PRK11034 clpA ATP-dependent Cl 79.2 1.4 3E-05 56.1 3.1 22 692-713 210-231 (758)
469 KOG0962 DNA repair protein RAD 79.1 1.2 2.7E-05 58.3 2.7 24 688-711 26-49 (1294)
470 TIGR02621 cas3_GSU0051 CRISPR- 79.0 4.7 0.0001 51.7 7.7 36 658-706 13-48 (844)
471 PRK12339 2-phosphoglycerate ki 79.0 1.6 3.5E-05 46.5 3.1 22 690-711 4-25 (197)
472 PRK13975 thymidylate kinase; P 78.9 1.8 3.9E-05 45.0 3.4 22 690-711 3-24 (196)
473 PRK10733 hflB ATP-dependent me 78.8 1.4 2.9E-05 55.2 2.8 21 692-712 188-208 (644)
474 COG0563 Adk Adenylate kinase a 78.8 1.5 3.3E-05 46.0 2.8 21 692-712 3-23 (178)
475 COG4088 Predicted nucleotide k 78.7 1.8 4E-05 46.8 3.3 24 690-713 2-25 (261)
476 PRK06761 hypothetical protein; 78.7 1.7 3.6E-05 49.1 3.2 22 690-711 4-25 (282)
477 smart00173 RAS Ras subfamily o 78.6 1.6 3.4E-05 43.5 2.7 20 692-711 3-22 (164)
478 KOG0737 AAA+-type ATPase [Post 78.5 1.2 2.6E-05 51.6 2.0 20 692-711 130-149 (386)
479 PF05127 Helicase_RecD: Helica 78.4 0.9 1.9E-05 47.9 0.9 22 771-792 26-47 (177)
480 KOG0740 AAA+-type ATPase [Post 78.3 1.9 4.2E-05 51.1 3.7 20 692-711 189-208 (428)
481 cd00071 GMPK Guanosine monopho 78.2 1.7 3.7E-05 43.4 2.8 19 692-710 2-20 (137)
482 cd03114 ArgK-like The function 78.2 1.9 4.2E-05 43.7 3.3 21 692-712 2-22 (148)
483 cd04155 Arl3 Arl3 subfamily. 78.1 1.6 3.5E-05 43.9 2.7 21 691-711 16-36 (173)
484 PRK07471 DNA polymerase III su 78.0 1.7 3.7E-05 50.7 3.2 24 692-715 44-67 (365)
485 PRK12898 secA preprotein trans 77.7 9 0.00019 48.1 9.4 25 966-990 241-265 (656)
486 cd01918 HprK_C HprK/P, the bif 77.6 1.9 4.1E-05 44.3 3.0 20 692-711 17-36 (149)
487 KOG0742 AAA+-type ATPase [Post 77.6 2.8 6.1E-05 49.2 4.6 20 691-710 386-405 (630)
488 PF04665 Pox_A32: Poxvirus A32 77.5 2 4.2E-05 47.5 3.3 22 690-711 13-35 (241)
489 cd04163 Era Era subfamily. Er 77.5 1.7 3.7E-05 42.4 2.6 22 690-711 4-25 (168)
490 PRK05298 excinuclease ABC subu 77.5 7.1 0.00015 49.1 8.5 69 659-793 11-79 (652)
491 COG0419 SbcC ATPase involved i 77.4 1.9 4.1E-05 56.0 3.7 27 688-714 24-50 (908)
492 PRK11889 flhF flagellar biosyn 77.2 2.1 4.6E-05 50.5 3.6 22 690-711 242-263 (436)
493 PRK14712 conjugal transfer nic 77.1 5.2 0.00011 54.6 7.5 65 660-790 281-346 (1623)
494 PRK08356 hypothetical protein; 77.1 1.8 3.9E-05 45.5 2.8 20 690-709 6-25 (195)
495 TIGR00455 apsK adenylylsulfate 77.1 2.5 5.4E-05 43.9 3.8 23 689-711 18-40 (184)
496 cd04164 trmE TrmE (MnmE, ThdF, 77.1 1.8 3.9E-05 42.2 2.6 20 692-711 4-23 (157)
497 PRK00625 shikimate kinase; Pro 77.0 2 4.3E-05 44.9 3.0 20 692-711 3-22 (173)
498 cd00154 Rab Rab family. Rab G 76.8 1.9 4.1E-05 41.7 2.7 20 692-711 3-22 (159)
499 TIGR00101 ureG urease accessor 76.8 2.2 4.7E-05 45.5 3.3 21 692-712 4-24 (199)
500 PF02463 SMC_N: RecF/RecN/SMC 76.7 2 4.4E-05 45.6 3.1 23 689-711 24-46 (220)
No 1
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=100.00 E-value=4.1e-40 Score=377.19 Aligned_cols=386 Identities=25% Similarity=0.309 Sum_probs=236.9
Q ss_pred cccccCcccCCHHHHHHhhhHHHHHHHHHHHHHhHHHhhccCCCCceeEEE--EEEeeeccCCeEEEEEcccCccccCCC
Q 042849 431 ELQCVPGRFESVEEYVRVFEPLLFEECRAQLYSTWEELTETGSRDTHVMVR--IRNIERRERGWYDVIVLPVNECKWSFK 508 (1019)
Q Consensus 431 ~lk~IP~tF~S~~eY~~sFePLLLEE~rAqL~ss~ee~~~~~sr~~~~~v~--I~sve~~~~~fydV~v~~~~~~~~~~~ 508 (1019)
+...|-.+|.+..+|.++|-||.-.||.-+= .+.|... ...+.|+ +--.++ ..-||. .+.-.......
T Consensus 228 ~~~hv~~ry~da~~y~~vf~pliklea~ydk--~~Kes~~----q~~~tvRW~~gLnkk-~~a~f~---~~k~~~e~kl~ 297 (935)
T KOG1802|consen 228 EPPHVQLRYEDAYEYQNVFSPLIKLEADYDK--RLKESQT----QENGTVRWDIGLNKK-RLAYFT---LPKLDSELKLA 297 (935)
T ss_pred CCCcccccccchHHHhhhcchhhhhhhhhhh--hhhhhcc----cccceEEeeeccccc-eEEEEe---cCCCcchhccc
Confidence 5678889999999999999999999997653 2333221 1122222 111111 111221 11112234567
Q ss_pred CCCEEEEecCCCCCCCCcCCCCccccccccccccceEeeeeeeccccCCCCCCceEEEEEecccCCCCCCCCchhHHHhh
Q 042849 509 EGDVAVLSTPRPGSVRGKRNHSLAAEDDEEAEVSGRVAGTVRRHFPVDARDPPGAILHFYVGDSYDPSSSMDDDDHILRK 588 (1019)
Q Consensus 509 egDLVLLS~~kP~~~~~~~~~~~~~~d~~~~~~~g~v~g~v~~~~~v~~~~~~~~~vr~~v~~s~d~~~k~~~~~~~l~~ 588 (1019)
.||-+.|....-... .=..+|+|+.....+ .+...+.+++.. ++.
T Consensus 298 ~GdE~~L~y~~~~~~--------------~w~~~g~v~~~pd~~-----~dE~~lEl~~~~----~~p------------ 342 (935)
T KOG1802|consen 298 IGDEIRLTYSGGLVL--------------PWNGIGSVLKIPDNN-----GDEVKLELEFSQ----DPP------------ 342 (935)
T ss_pred cCCeeEEEecCCcCC--------------cccccceEEecCCCC-----cceeEEEeecCC----CCC------------
Confidence 788888876421100 001133444322211 122223333321 111
Q ss_pred cCCCceEEEEEecChhhHHHHHHHHhhcccCChHHHHhh-----cCCCCCCCCCcCCCCCCCCcccchhhHhhhccCCCh
Q 042849 589 LQPKGIWYLTVLGSLATTQREYVALHAFCRLNSQMQTAI-----LKPSPEHFPKYEHQTPTMPECFTQNFIDHLHRTFNG 663 (1019)
Q Consensus 589 L~~~s~w~l~kL~nLtT~~RE~~AL~~l~~~~~~l~~~I-----L~ps~~~~~~~~~~~~~~~~~~~~~l~~~L~~~LNe 663 (1019)
+....-+.+-++.+-+++.|++.||..|..-...+-.++ ..|....+ .....|. .|...--.+||.
T Consensus 343 ~e~~~~Ftvd~vwk~ts~drm~~alk~la~D~~~vs~y~y~klLgh~~~~~~-----~k~~LP~----~~s~~~lpkLN~ 413 (935)
T KOG1802|consen 343 IEVTHGFTVDFVWKSTSFDRMQLALKLLAVDEKKVSGYLYHKLLGHPVEDSS-----LKKLLPR----RFSVPNLPKLNA 413 (935)
T ss_pred cccccceEEEEEEcCccHHHHHHHHHHhhhccccchhhhhhHHhcCcchhhh-----hcccCch----hhcCCCchhhch
Confidence 123345777889999999999999998764332222222 22221110 0111222 111111257999
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCC
Q 042849 664 PQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSD 743 (1019)
Q Consensus 664 SQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~ 743 (1019)
||..||..+| +++++|||||||||||-|++.||..+ + +
T Consensus 414 SQ~~AV~~VL--------------~rplsLIQGPPGTGKTvtsa~IVyhl--~----------~---------------- 451 (935)
T KOG1802|consen 414 SQSNAVKHVL--------------QRPLSLIQGPPGTGKTVTSATIVYHL--A----------R---------------- 451 (935)
T ss_pred HHHHHHHHHH--------------cCCceeeecCCCCCceehhHHHHHHH--H----------H----------------
Confidence 9999999887 46999999999999999999998632 1 0
Q ss_pred cccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHhcCcccCcccccCCcEEEEcCchhhhHHhhh
Q 042849 744 NVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLDRGFIDGEMKVYRPDVARVGVDSQTRAAQAV 823 (1019)
Q Consensus 744 ~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~g~~y~p~VVRiG~~s~~~~v~~v 823 (1019)
....+||||||||.|||+|+++|.+.|+ +|||+-..++...-.++
T Consensus 452 -------------------------~~~~~VLvcApSNiAVDqLaeKIh~tgL----------KVvRl~aksRE~~~S~v 496 (935)
T KOG1802|consen 452 -------------------------QHAGPVLVCAPSNIAVDQLAEKIHKTGL----------KVVRLCAKSREDIESDV 496 (935)
T ss_pred -------------------------hcCCceEEEcccchhHHHHHHHHHhcCc----------eEeeeehhhhhhccCCc
Confidence 0256899999999999999999998876 89999877654322222
Q ss_pred cHHHHHHHHHHhhHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCChhhhhhhhhhHHHHHHHHHHHH
Q 042849 824 SVERRTEQLLVKSREEVIGWMHNLKGREAVLSQQIANLQRELNAAAFAVRSQGSVGVDPDVLMARDQNRDTLLQNLAAAV 903 (1019)
Q Consensus 824 sLd~rv~~lL~k~~~~~~~~~~~L~~~~~~l~~~i~~L~~~L~~~~~a~rs~~s~~~d~~~l~~~d~~r~~Llq~L~~~~ 903 (1019)
+.-..... ++....---+.+..++++-.+ +...
T Consensus 497 s~L~lh~~---------------~~~~~~pELq~l~klkde~ge-----------------lS~s--------------- 529 (935)
T KOG1802|consen 497 SFLSLHEQ---------------LRNMDKPELQKLLKLKDEGGE-----------------LSSS--------------- 529 (935)
T ss_pred cHHHHHHH---------------HhccCcHHHHHHHhhhhhccc-----------------ccch---------------
Confidence 21111000 000000000111111111000 0000
Q ss_pred HhHHHHHHHHhhhhhhccccCCCCCchhHHHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCccc
Q 042849 904 ENRDKVLVEMSRFHILEGRFRPGSNFNLEEARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVG 983 (1019)
Q Consensus 904 ~~r~k~L~elsrl~~l~~r~r~~~~~~l~~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~s 983 (1019)
....+.+..+..+..+|+.|+||||||.++|...+... .|.+|+||||.|++||+
T Consensus 530 -----------------------D~~k~~~lk~~~e~ell~~AdVIccTcv~Agd~rl~~~--kfr~VLiDEaTQatEpe 584 (935)
T KOG1802|consen 530 -----------------------DEKKYRKLKRAAEKELLNQADVICCTCVGAGDRRLSKF--KFRTVLIDEATQATEPE 584 (935)
T ss_pred -----------------------hhHHHHHHHHHHHHHHHhhcCEEEEecccccchhhccc--cccEEEEecccccCCcc
Confidence 00112344566788899999999999999998888774 89999999999999999
Q ss_pred cccccccCCCeEEEecCCCCCCCcccCccccccCCC
Q 042849 984 VLPPLSLGAARCVLGGGSSAAPCNSYQQGSRHLDVQ 1019 (1019)
Q Consensus 984 tLIPL~~g~kr~ILVGDpkQLPPtV~S~~Ak~lg~~ 1019 (1019)
+||||.+|+|++||||||+||-|+|+.+.|...||+
T Consensus 585 ~LiPlvlG~kq~VlVGDh~QLgpvi~~kK~a~Agl~ 620 (935)
T KOG1802|consen 585 CLIPLVLGAKQLVLVGDHKQLGPVIMCKKAATAGLS 620 (935)
T ss_pred hhhhhhhcceeEEEeccccccCceeeeHHHHHhHHH
Confidence 999999999999999999999999999999888863
No 2
>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=100.00 E-value=3.2e-36 Score=363.38 Aligned_cols=301 Identities=25% Similarity=0.278 Sum_probs=187.0
Q ss_pred eEEEEEecChhhHHHHHHHHhhcccCChHHHHhhcCCCCCCCCCcCCCCCCCCcccchhhHhhhccCCChHHHHHHHHHH
Q 042849 594 IWYLTVLGSLATTQREYVALHAFCRLNSQMQTAILKPSPEHFPKYEHQTPTMPECFTQNFIDHLHRTFNGPQLAAIQWAA 673 (1019)
Q Consensus 594 ~w~l~kL~nLtT~~RE~~AL~~l~~~~~~l~~~IL~ps~~~~~~~~~~~~~~~~~~~~~l~~~L~~~LNeSQ~eAI~~Al 673 (1019)
.|.+.++.|-+|+.|++.||..+......+.+.||......+ .. .. .-..++...||++|..||..++
T Consensus 103 ~~~i~~~~~~~t~~rm~~aL~~l~~~~~~l~~~llg~~~p~~---~~---~~------~~~~~~~~~ln~~Q~~Av~~~l 170 (637)
T TIGR00376 103 RVRIDLYANDVTFKRMKEALRALTENHSRLLEFILGREAPSK---AS---EI------HDFQFFDPNLNESQKEAVSFAL 170 (637)
T ss_pred eEEEEEecCccHHHHHHHHHHHHHhchhhHHHHHhCCCCCCc---cc---cc------ccccccCCCCCHHHHHHHHHHh
Confidence 499999999999999999999998766678888886432111 00 00 0012334689999999999876
Q ss_pred HHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHH
Q 042849 674 IHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEV 753 (1019)
Q Consensus 674 ~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~ 753 (1019)
. ..++.|||||||||||+|++.++..++ +
T Consensus 171 ~-------------~~~~~lI~GpPGTGKT~t~~~ii~~~~------------~-------------------------- 199 (637)
T TIGR00376 171 S-------------SKDLFLIHGPPGTGKTRTLVELIRQLV------------K-------------------------- 199 (637)
T ss_pred c-------------CCCeEEEEcCCCCCHHHHHHHHHHHHH------------H--------------------------
Confidence 2 237899999999999999999986431 0
Q ss_pred hhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHhcCcccCcccccCCcEEEEcCchhhh-HHhhhcHHHHHHHH
Q 042849 754 LQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLDRGFIDGEMKVYRPDVARVGVDSQTR-AAQAVSVERRTEQL 832 (1019)
Q Consensus 754 ~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~g~~y~p~VVRiG~~s~~~-~v~~vsLd~rv~~l 832 (1019)
.+.+||||||||.|||++++||.+.+ ..+||+|...+.. .+...+|++.+...
T Consensus 200 ----------------~g~~VLv~a~sn~Avd~l~e~l~~~~----------~~vvRlg~~~r~~~~~~~~sl~~~~~~~ 253 (637)
T TIGR00376 200 ----------------RGLRVLVTAPSNIAVDNLLERLALCD----------QKIVRLGHPARLLKSNKQHSLDYLIENH 253 (637)
T ss_pred ----------------cCCCEEEEcCcHHHHHHHHHHHHhCC----------CcEEEeCCchhcchhHHhccHHHHHhcC
Confidence 15699999999999999999997643 4899999987643 34556666654421
Q ss_pred HHhhHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCChhhhhhhhhhHHHHHHHHHHHHHhHH-----
Q 042849 833 LVKSREEVIGWMHNLKGREAVLSQQIANLQRELNAAAFAVRSQGSVGVDPDVLMARDQNRDTLLQNLAAAVENRD----- 907 (1019)
Q Consensus 833 L~k~~~~~~~~~~~L~~~~~~l~~~i~~L~~~L~~~~~a~rs~~s~~~d~~~l~~~d~~r~~Llq~L~~~~~~r~----- 907 (1019)
+... ....+..++..+..+.......... ...+.... +.+.+..+.|.
T Consensus 254 ------~~~~-------~~~~~~~~i~~~~~~~~~~~~~~~~-~~~~~~~~-------------~~l~~~~~~~~~~~i~ 306 (637)
T TIGR00376 254 ------PKYQ-------IVADIREKIDELIEERNKKLKPSPQ-KRRGLSDI-------------KILRKALKKREARGIE 306 (637)
T ss_pred ------hhHH-------HHHHHHHHHHHHHHHHHhhccchHh-HhhccchH-------------HHHHHHHhhhhhcccc
Confidence 0000 0111122222222221110000000 00000000 00000000010
Q ss_pred -HHHHHHhhhhhhccccCCCCCchhHHHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCcccccc
Q 042849 908 -KVLVEMSRFHILEGRFRPGSNFNLEEARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLP 986 (1019)
Q Consensus 908 -k~L~elsrl~~l~~r~r~~~~~~l~~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLI 986 (1019)
..+..+..+..+...+. .....+...+..+...||++|+|||||++ +..+.. ..||+||||||+|++||++||
T Consensus 307 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~il~~a~v~~st~~---~~~l~~--~~Fd~vIIDEAsQ~~ep~~li 380 (637)
T TIGR00376 307 SLKIASMAEWIETNKSID-RLLKLLPEIEERIENEILAESDVVQSTNS---SAGLKG--WEFDVAVIDEASQAMEPSCLI 380 (637)
T ss_pred hhhhHHHHHHHHhhhhhH-HHHHHHHHHHHHHHHHHHhhCCEEEeccC---cHhhcc--CCCCEEEEECccccchHHHHH
Confidence 00111111111000000 00113445566788899999999988854 344543 489999999999999999999
Q ss_pred ccccCCCeEEEecCCCCCCCcccCccccccC
Q 042849 987 PLSLGAARCVLGGGSSAAPCNSYQQGSRHLD 1017 (1019)
Q Consensus 987 PL~~g~kr~ILVGDpkQLPPtV~S~~Ak~lg 1017 (1019)
||.. ++|+||||||+||||+|+|..+..++
T Consensus 381 pl~~-~~~~vLvGD~~QLpP~v~s~~~~~l~ 410 (637)
T TIGR00376 381 PLLK-ARKLILAGDHKQLPPTILSHDAEELE 410 (637)
T ss_pred HHhh-CCeEEEecChhhcCCccccccccccc
Confidence 9965 57999999999999999998765444
No 3
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-37 Score=353.88 Aligned_cols=280 Identities=23% Similarity=0.374 Sum_probs=176.3
Q ss_pred eEEEEEecChhhHHHHHHHHhhcccCC-----hHHHHhhcCCCCCCCCCcCCCCCCCCcccchhhHhhhccCCChHHHHH
Q 042849 594 IWYLTVLGSLATTQREYVALHAFCRLN-----SQMQTAILKPSPEHFPKYEHQTPTMPECFTQNFIDHLHRTFNGPQLAA 668 (1019)
Q Consensus 594 ~w~l~kL~nLtT~~RE~~AL~~l~~~~-----~~l~~~IL~ps~~~~~~~~~~~~~~~~~~~~~l~~~L~~~LNeSQ~eA 668 (1019)
...+.++.|-.|++|+..+|..+.... ..++..++.... ..+. +.. ......++...||.||..|
T Consensus 124 ~l~l~kl~n~vty~R~~~~~i~l~~~~~~~~~~~vv~~l~~~~~-~~~~--------~~~-~~~~~~~~~~~ln~SQk~A 193 (649)
T KOG1803|consen 124 SLRLLKLENKVTYRRMKDTMICLSKFSNPGPSSDVVETLFGDRK-PIPS--------PNI-EIKKITFFNKNLNSSQKAA 193 (649)
T ss_pred HHHHHHhhhhhhheecHHHHhhHhhhcCccchhhhHHHHhcccc-CCCC--------chh-hhcccccCCccccHHHHHH
Confidence 445668899999999999998875411 112222221110 0000 000 0012346778999999999
Q ss_pred HHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCC
Q 042849 669 IQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMG 748 (1019)
Q Consensus 669 I~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g 748 (1019)
|..++. ...+.+||||||||||+|++.||..++ +
T Consensus 194 v~~~~~-------------~k~l~~I~GPPGTGKT~TlvEiI~qlv------------k--------------------- 227 (649)
T KOG1803|consen 194 VSFAIN-------------NKDLLIIHGPPGTGKTRTLVEIISQLV------------K--------------------- 227 (649)
T ss_pred HHHHhc-------------cCCceEeeCCCCCCceeeHHHHHHHHH------------H---------------------
Confidence 997751 237899999999999999999997531 1
Q ss_pred chhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHhcCcccCcccccCCcEEEEcCchhhhH-HhhhcHHH
Q 042849 749 SIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLDRGFIDGEMKVYRPDVARVGVDSQTRA-AQAVSVER 827 (1019)
Q Consensus 749 ~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~g~~y~p~VVRiG~~s~~~~-v~~vsLd~ 827 (1019)
.++|||||||||.|||+|++||.-.+ ..++|+|.+.+.-. +..-+|+.
T Consensus 228 ---------------------~~k~VLVcaPSn~AVdNiverl~~~~----------~~l~R~g~paRl~~~~~~~sld~ 276 (649)
T KOG1803|consen 228 ---------------------QKKRVLVCAPSNVAVDNIVERLTHLK----------LNLVRVGHPARLLESVADHSLDL 276 (649)
T ss_pred ---------------------cCCeEEEEcCchHHHHHHHHHhcccc----------cchhhcCchhhhhhhhhhhHHHH
Confidence 27899999999999999999996433 38999999876421 22222222
Q ss_pred HHHHHHHhhHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCChhhhhhhhhhHHHHHHHHHHHHHhHH
Q 042849 828 RTEQLLVKSREEVIGWMHNLKGREAVLSQQIANLQRELNAAAFAVRSQGSVGVDPDVLMARDQNRDTLLQNLAAAVENRD 907 (1019)
Q Consensus 828 rv~~lL~k~~~~~~~~~~~L~~~~~~l~~~i~~L~~~L~~~~~a~rs~~s~~~d~~~l~~~d~~r~~Llq~L~~~~~~r~ 907 (1019)
.+. ..+.. . ......++++...... .....+..+..+...+
T Consensus 277 ~~~-----t~d~~------------~---~~~~~sk~~d~~~~~~-----------~~tk~~~~~~~~~~~i-------- 317 (649)
T KOG1803|consen 277 LSN-----TKDNS------------Q---NAKDISKDIDILFQKN-----------TKTKNDKLRKGIRKEI-------- 317 (649)
T ss_pred HHh-----cCchh------------h---hhhhhHHHHHHHhhhh-----------hcccchHHHHHHHHHH--------
Confidence 111 00000 0 0000011111100000 0000000011111000
Q ss_pred HHHHHHhhhhhhccccCCCCCchhHHHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCccccccc
Q 042849 908 KVLVEMSRFHILEGRFRPGSNFNLEEARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLPP 987 (1019)
Q Consensus 908 k~L~elsrl~~l~~r~r~~~~~~l~~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLIP 987 (1019)
..+.+ ++.+.++..-..++.++.|||||+.++...++.. ..||+|||||||||.||+|+||
T Consensus 318 ---~~lrk--------------dl~kre~~~v~eii~n~~VVfaTl~ga~~~~~~~--~~fD~vIIDEaaQamE~~cWip 378 (649)
T KOG1803|consen 318 ---KLLRK--------------DLRKRERKTVKEIISNSRVVFATLGGALDRLLRK--RTFDLVIIDEAAQAMEPQCWIP 378 (649)
T ss_pred ---HHHHH--------------HHHHHHHHHHHHhhcccceEEEeccchhhhhhcc--cCCCEEEEehhhhhccchhhhH
Confidence 00000 1222334455678999999999999998866654 4899999999999999999999
Q ss_pred cccCCCeEEEecCCCCCCCcccCccccccCCC
Q 042849 988 LSLGAARCVLGGGSSAAPCNSYQQGSRHLDVQ 1019 (1019)
Q Consensus 988 L~~g~kr~ILVGDpkQLPPtV~S~~Ak~lg~~ 1019 (1019)
+ +..++|||+|||+||||+|+|..|..+|+|
T Consensus 379 v-lk~kk~ILaGDp~QLpP~v~S~~a~~~gl~ 409 (649)
T KOG1803|consen 379 V-LKGKKFILAGDPKQLPPTVLSDKAKRGGLQ 409 (649)
T ss_pred H-hcCCceEEeCCcccCCcccccchhhhccch
Confidence 9 556899999999999999999999988875
No 4
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=100.00 E-value=1.4e-37 Score=324.92 Aligned_cols=234 Identities=32% Similarity=0.455 Sum_probs=126.0
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
+||++|.+||..++. ...++|||||||||||+|++.++..++.... .
T Consensus 1 ~ln~~Q~~Ai~~~~~-------------~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~-----~--------------- 47 (236)
T PF13086_consen 1 KLNESQREAIQSALS-------------SNGITLIQGPPGTGKTTTLASIIAQLLQRFK-----S--------------- 47 (236)
T ss_dssp ---HHHHHHHHHHCT-------------SSE-EEEE-STTSSHHHHHHHHHHHH--------------------------
T ss_pred CCCHHHHHHHHHHHc-------------CCCCEEEECCCCCChHHHHHHHHHHhccchh-----h---------------
Confidence 589999999998761 1236999999999999999999874411000 0
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHhcCcccCcccccCCcEEEEcCch--hh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLDRGFIDGEMKVYRPDVARVGVDS--QT 817 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~g~~y~p~VVRiG~~s--~~ 817 (1019)
.....+.+||||+|||.|||+++.||.+ +.+..+..+.+.++|+|... ..
T Consensus 48 --------------------------~~~~~~~~il~~~~sN~avd~~~~~l~~--~~~~~~~~~~~~~ir~~~~~~~~~ 99 (236)
T PF13086_consen 48 --------------------------RSADRGKKILVVSPSNAAVDNILERLKK--LLDEDGKVYKPKIIRLGSEEEKIH 99 (236)
T ss_dssp ---------------------------HCCCSS-EEEEESSHHHHHHHHHHHHC----------TT--EEE---GGTTS-
T ss_pred --------------------------hhhhccccceeecCCchhHHHHHHHHHh--hccccccccccchhhhcccccccc
Confidence 0012478999999999999999999986 45666778889999999987 23
Q ss_pred hHHhhhcHHHHHHHHHHhhHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCChhhhhhhhhhHHHHHH
Q 042849 818 RAAQAVSVERRTEQLLVKSREEVIGWMHNLKGREAVLSQQIANLQRELNAAAFAVRSQGSVGVDPDVLMARDQNRDTLLQ 897 (1019)
Q Consensus 818 ~~v~~vsLd~rv~~lL~k~~~~~~~~~~~L~~~~~~l~~~i~~L~~~L~~~~~a~rs~~s~~~d~~~l~~~d~~r~~Llq 897 (1019)
..+..++++..+..... ...+.++. .+..+++.+......... ... ......+
T Consensus 100 ~~~~~~~~~~~~~~~~~-------~~~~~~~~-------~~~~~~~~~~~~~~~~~~-~~~----------~~~~~~~-- 152 (236)
T PF13086_consen 100 EDLQKFSLESKLEQRFE-------SKLKRLRE-------QLEELQQKIRLSELKEEK-KKL----------KKSIKRL-- 152 (236)
T ss_dssp -TTGGGBHHHHHHTTT-------------------------THHHCHHHHHHHHHHH-CCS----------SCHHHHH--
T ss_pred ccccccccccccccccc-------ccchhhhH-------HHHHHHHhhhhhhhhhhh-hhc----------chhcccc--
Confidence 34566666654433211 00111111 111111111000000000 000 0000000
Q ss_pred HHHHHHHhHHHHHHHHhhhhhhccccCCCCCchhHHHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcCCC
Q 042849 898 NLAAAVENRDKVLVEMSRFHILEGRFRPGSNFNLEEARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAA 977 (1019)
Q Consensus 898 ~L~~~~~~r~k~L~elsrl~~l~~r~r~~~~~~l~~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAA 977 (1019)
...++..++.+...+++.++||+||++++.+..+......||+||||||+
T Consensus 153 ------------------------------~~~~~~~~~~~~~~~l~~~~vi~~T~~~~~~~~~~~~~~~~d~vIvDEAs 202 (236)
T PF13086_consen 153 ------------------------------RKELEKIREELRRFILKEADVIFTTLSSAASPFLSNFKEKFDVVIVDEAS 202 (236)
T ss_dssp ------------------------------HHHHHHHHHHHHHHHHHT-SEEEEETCGGG-CCGTT-----SEEEETTGG
T ss_pred ------------------------------cccccccccchhhhhcccccccccccccchhhHhhhhcccCCEEEEeCCC
Confidence 01123445667788999999999999999777776655589999999999
Q ss_pred CCCccccccccccCCCeEEEecCCCCCCCcccCc
Q 042849 978 QASEVGVLPPLSLGAARCVLGGGSSAAPCNSYQQ 1011 (1019)
Q Consensus 978 Qa~E~stLIPL~~g~kr~ILVGDpkQLPPtV~S~ 1011 (1019)
|+.|+++|+||.++++|+||||||+||||+|+|.
T Consensus 203 q~~e~~~l~~l~~~~~~~vlvGD~~QLpP~v~s~ 236 (236)
T PF13086_consen 203 QITEPEALIPLSRAPKRIVLVGDPKQLPPVVKSE 236 (236)
T ss_dssp GS-HHHHHHHHTTTBSEEEEEE-TTS-----S--
T ss_pred CcchHHHHHHHHHhCCEEEEECChhhcCCeeCCC
Confidence 9999999999988889999999999999999984
No 5
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=99.95 E-value=1.2e-27 Score=285.42 Aligned_cols=181 Identities=24% Similarity=0.339 Sum_probs=144.5
Q ss_pred hccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccC
Q 042849 657 LHRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQ 736 (1019)
Q Consensus 657 L~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq 736 (1019)
....||..|++|+..|+. ...+.||-|-||||||+||+.+|.+|+.
T Consensus 666 ~~~~LN~dQr~A~~k~L~-------------aedy~LI~GMPGTGKTTtI~~LIkiL~~--------------------- 711 (1100)
T KOG1805|consen 666 ILLRLNNDQRQALLKALA-------------AEDYALILGMPGTGKTTTISLLIKILVA--------------------- 711 (1100)
T ss_pred HHhhcCHHHHHHHHHHHh-------------ccchheeecCCCCCchhhHHHHHHHHHH---------------------
Confidence 446899999999999983 2478999999999999999999986642
Q ss_pred CCCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHhcCcccCcccccCCcEEEEcCchh
Q 042849 737 PNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLDRGFIDGEMKVYRPDVARVGVDSQ 816 (1019)
Q Consensus 737 ~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~g~~y~p~VVRiG~~s~ 816 (1019)
.+++||+++.||.|||+|+.||...|+ .++|+|..+.
T Consensus 712 ---------------------------------~gkkVLLtsyThsAVDNILiKL~~~~i----------~~lRLG~~~k 748 (1100)
T KOG1805|consen 712 ---------------------------------LGKKVLLTSYTHSAVDNILIKLKGFGI----------YILRLGSEEK 748 (1100)
T ss_pred ---------------------------------cCCeEEEEehhhHHHHHHHHHHhccCc----------ceeecCCccc
Confidence 278999999999999999999975544 6999999875
Q ss_pred hh-HHhhhcHHHHHHHHHHhhHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCChhhhhhhhhhHHHH
Q 042849 817 TR-AAQAVSVERRTEQLLVKSREEVIGWMHNLKGREAVLSQQIANLQRELNAAAFAVRSQGSVGVDPDVLMARDQNRDTL 895 (1019)
Q Consensus 817 ~~-~v~~vsLd~rv~~lL~k~~~~~~~~~~~L~~~~~~l~~~i~~L~~~L~~~~~a~rs~~s~~~d~~~l~~~d~~r~~L 895 (1019)
.+ .++++++.. ...
T Consensus 749 ih~~v~e~~~~~---------------------------------------------------~~s-------------- 763 (1100)
T KOG1805|consen 749 IHPDVEEFTLTN---------------------------------------------------ETS-------------- 763 (1100)
T ss_pred cchHHHHHhccc---------------------------------------------------ccc--------------
Confidence 43 222222100 000
Q ss_pred HHHHHHHHHhHHHHHHHHhhhhhhccccCCCCCchhHHHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcC
Q 042849 896 LQNLAAAVENRDKVLVEMSRFHILEGRFRPGSNFNLEEARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDE 975 (1019)
Q Consensus 896 lq~L~~~~~~r~k~L~elsrl~~l~~r~r~~~~~~l~~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDE 975 (1019)
.+-+.+ -..+++...||.|||-|.++.+|.. ..||+|||||
T Consensus 764 -----------~ks~~~--------------------------l~~~~~~~~IVa~TClgi~~plf~~--R~FD~cIiDE 804 (1100)
T KOG1805|consen 764 -----------EKSYAD--------------------------LKKFLDQTSIVACTCLGINHPLFVN--RQFDYCIIDE 804 (1100)
T ss_pred -----------hhhHHH--------------------------HHHHhCCCcEEEEEccCCCchhhhc--cccCEEEEcc
Confidence 000000 1124578899999999999999876 4799999999
Q ss_pred CCCCCccccccccccCCCeEEEecCCCCCCCcccCccccccCCC
Q 042849 976 AAQASEVGVLPPLSLGAARCVLGGGSSAAPCNSYQQGSRHLDVQ 1019 (1019)
Q Consensus 976 AAQa~E~stLIPL~~g~kr~ILVGDpkQLPPtV~S~~Ak~lg~~ 1019 (1019)
|+|...|=+|.||.+ ++++||||||.||||.|.|.+|++.|++
T Consensus 805 ASQI~lP~~LgPL~~-s~kFVLVGDh~QLpPLV~s~ear~~Gl~ 847 (1100)
T KOG1805|consen 805 ASQILLPLCLGPLSF-SNKFVLVGDHYQLPPLVRSSEARQEGLS 847 (1100)
T ss_pred ccccccchhhhhhhh-cceEEEecccccCCccccchhhhhcCcc
Confidence 999999999999988 7999999999999999999999999974
No 6
>KOG1801 consensus tRNA-splicing endonuclease positive effector (SEN1) [RNA processing and modification]
Probab=99.90 E-value=1.1e-24 Score=269.40 Aligned_cols=82 Identities=29% Similarity=0.308 Sum_probs=72.6
Q ss_pred HHHHHHhc----cCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCcccccccccc-CCCeEEEecCCCCCCCcccCc
Q 042849 937 SLEASFAN----EAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLPPLSL-GAARCVLGGGSSAAPCNSYQQ 1011 (1019)
Q Consensus 937 ~l~~~iL~----eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLIPL~~-g~kr~ILVGDpkQLPPtV~S~ 1011 (1019)
.++..++. +|++||||++++++.+......+||+||||||+|+.||++++||++ |++|||||||+.|||++|.|+
T Consensus 502 ~~~~~~~~~~~~~a~~i~~t~~~~~~~~~~~~~~p~~~vviDeaaq~~e~~s~~PL~l~g~~~~~lvgd~~qlP~~V~s~ 581 (827)
T KOG1801|consen 502 EVRILDLGQGREEAALIVPTTRGSRIVLTLYGGPPLDTVVIDEAAQKYEPSSLEPLQLAGYQHCILVGDLAQLPATVHSS 581 (827)
T ss_pred hhhcchhhhccccceeEeecccccceEeecccCCCceEEEEehhhhhcCccchhhhhhcCCceEEEecccccCChhhccc
Confidence 34444555 9999999999999877766677999999999999999999999999 999999999999999999999
Q ss_pred cccccCC
Q 042849 1012 GSRHLDV 1018 (1019)
Q Consensus 1012 ~Ak~lg~ 1018 (1019)
.|..+++
T Consensus 582 ~~~~~k~ 588 (827)
T KOG1801|consen 582 PAGCFKY 588 (827)
T ss_pred hhccccc
Confidence 8877654
No 7
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=99.88 E-value=6.3e-22 Score=231.29 Aligned_cols=81 Identities=21% Similarity=0.223 Sum_probs=68.6
Q ss_pred hHHHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCccccccccccCCCeEEEecCCCCCCCcccC
Q 042849 931 LEEARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLPPLSLGAARCVLGGGSSAAPCNSYQ 1010 (1019)
Q Consensus 931 l~~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLIPL~~g~kr~ILVGDpkQLPPtV~S 1010 (1019)
++.+|.....+|+++|+||.+|..|+++..+..-...+.+|||+|||.+.|.+++.+|...|+|+||||||+||.|.--+
T Consensus 684 ~~~lrn~~da~llR~a~vigmTTTgaaryr~ilekv~pkivivEEAAEVlEahiIaal~p~~EhviLIGDHKQLrP~~~v 763 (1025)
T KOG1807|consen 684 IETLRNVFDAFLLREADVIGMTTTGAARYRFILEKVQPKIVIVEEAAEVLEAHIIAALTPHTEHVILIGDHKQLRPFSGV 763 (1025)
T ss_pred HHHHHHHHHHHHhhccceeeeechhHHHHHHHHHHhCCcEEEEhhHhHHhhcchhhhhcccceeEEEecchhhcCCCcch
Confidence 44556677888999999999999999876443333489999999999999999999999999999999999999998543
Q ss_pred c
Q 042849 1011 Q 1011 (1019)
Q Consensus 1011 ~ 1011 (1019)
.
T Consensus 764 y 764 (1025)
T KOG1807|consen 764 Y 764 (1025)
T ss_pred h
Confidence 3
No 8
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.63 E-value=3.3e-16 Score=164.38 Aligned_cols=66 Identities=30% Similarity=0.394 Sum_probs=50.8
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
+||+.|.+||..++. ....+.+|+||||||||+++..++..+..
T Consensus 1 ~L~~~Q~~a~~~~l~------------~~~~~~~l~G~aGtGKT~~l~~~~~~~~~------------------------ 44 (196)
T PF13604_consen 1 TLNEEQREAVRAILT------------SGDRVSVLQGPAGTGKTTLLKALAEALEA------------------------ 44 (196)
T ss_dssp -S-HHHHHHHHHHHH------------CTCSEEEEEESTTSTHHHHHHHHHHHHHH------------------------
T ss_pred CCCHHHHHHHHHHHh------------cCCeEEEEEECCCCCHHHHHHHHHHHHHh------------------------
Confidence 589999999998763 13479999999999999998887764310
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHH
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRV 791 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RL 791 (1019)
.+.+|++|||||.|++++..++
T Consensus 45 ------------------------------~g~~v~~~apT~~Aa~~L~~~~ 66 (196)
T PF13604_consen 45 ------------------------------AGKRVIGLAPTNKAAKELREKT 66 (196)
T ss_dssp ------------------------------TT--EEEEESSHHHHHHHHHHH
T ss_pred ------------------------------CCCeEEEECCcHHHHHHHHHhh
Confidence 1579999999999999988774
No 9
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=99.61 E-value=9e-15 Score=180.74 Aligned_cols=76 Identities=29% Similarity=0.445 Sum_probs=67.2
Q ss_pred HHHHHHHHHHhccCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCccccccccccCCCeEEEecCCCCCCCcccCc
Q 042849 933 EARASLEASFANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLPPLSLGAARCVLGGGSSAAPCNSYQQ 1011 (1019)
Q Consensus 933 ~~r~~l~~~iL~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLIPL~~g~kr~ILVGDpkQLPPtV~S~ 1011 (1019)
..+......+...+++||||++.++...+... .||+||||||+|+.|+.+++|+.. ++++||+|||+||||++.+.
T Consensus 456 ~~~~~~~~~i~~~~~~~~~~~~~a~~~~~~~~--~fd~viiDEAsQ~~~~~~~~~l~~-~~~~il~GD~kQL~p~~~~~ 531 (767)
T COG1112 456 RLKKKAVTKILEAADVVLSTLSIAGFSILKKY--EFDYVIIDEASQATEPSALIALSR-AKKVILVGDHKQLPPTVFFK 531 (767)
T ss_pred HhHHHHHHHHHHhcCeEEEeccchhHHHhccc--ccCEEEEcchhcccchhHHHhHhh-cCeEEEecCCccCCCeecch
Confidence 34445666677788899999999998888765 799999999999999999999977 99999999999999999875
No 10
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.43 E-value=2.5e-13 Score=164.04 Aligned_cols=67 Identities=27% Similarity=0.278 Sum_probs=53.3
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCC
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESN 741 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~ 741 (1019)
.+.|+.|+..++ ..+|++|.||||||||+|+..++..+...
T Consensus 154 ~d~Qk~Av~~a~--------------~~~~~vItGgpGTGKTt~v~~ll~~l~~~------------------------- 194 (615)
T PRK10875 154 VDWQKVAAAVAL--------------TRRISVISGGPGTGKTTTVAKLLAALIQL------------------------- 194 (615)
T ss_pred CHHHHHHHHHHh--------------cCCeEEEEeCCCCCHHHHHHHHHHHHHHh-------------------------
Confidence 378999999876 24799999999999999999998754210
Q ss_pred CCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHH
Q 042849 742 SDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVL 792 (1019)
Q Consensus 742 s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl 792 (1019)
......+|++||||+.|...+.+++-
T Consensus 195 -------------------------~~~~~~~i~l~APTgkAA~rL~e~~~ 220 (615)
T PRK10875 195 -------------------------ADGERCRIRLAAPTGKAAARLTESLG 220 (615)
T ss_pred -------------------------cCCCCcEEEEECCcHHHHHHHHHHHH
Confidence 00124689999999999999999873
No 11
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=99.42 E-value=4.3e-13 Score=161.57 Aligned_cols=67 Identities=31% Similarity=0.322 Sum_probs=52.4
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCC
Q 042849 663 GPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNS 742 (1019)
Q Consensus 663 eSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s 742 (1019)
+.|+.|+..++. +.|++|+|+||||||+|+..|+..+... .
T Consensus 148 ~~Qk~A~~~al~--------------~~~~vitGgpGTGKTt~v~~ll~~l~~~---------~---------------- 188 (586)
T TIGR01447 148 NWQKVAVALALK--------------SNFSLITGGPGTGKTTTVARLLLALVKQ---------S---------------- 188 (586)
T ss_pred HHHHHHHHHHhh--------------CCeEEEEcCCCCCHHHHHHHHHHHHHHh---------c----------------
Confidence 689999998872 4799999999999999999998754210 0
Q ss_pred CcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHH
Q 042849 743 DNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVL 792 (1019)
Q Consensus 743 ~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl 792 (1019)
+...+.+|++||||+.|+..+.+.+.
T Consensus 189 ------------------------~~~~~~~I~l~APTGkAA~rL~e~~~ 214 (586)
T TIGR01447 189 ------------------------PKQGKLRIALAAPTGKAAARLAESLR 214 (586)
T ss_pred ------------------------cccCCCcEEEECCcHHHHHHHHHHHH
Confidence 00013689999999999999988873
No 12
>KOG1806 consensus DEAD box containing helicases [Replication, recombination and repair]
Probab=99.42 E-value=5.3e-13 Score=160.95 Aligned_cols=71 Identities=25% Similarity=0.382 Sum_probs=60.4
Q ss_pred HhccCcEEEEecccchhH--HHhhhcCCCCEEEEcCCCCCCcccccccccc-----C---CCeEEEecCCCCCCCcccCc
Q 042849 942 FANEAEIVFTTVSSSGRK--LFSRLTHGFDMVVIDEAAQASEVGVLPPLSL-----G---AARCVLGGGSSAAPCNSYQQ 1011 (1019)
Q Consensus 942 iL~eA~IV~sTlSssg~~--ll~~l~~~FDvVIIDEAAQa~E~stLIPL~~-----g---~kr~ILVGDpkQLPPtV~S~ 1011 (1019)
+.++|.||.|||..+.-. -+..++..||-++++|+||..|.++.|||.. | .+|+||+|||.||||.|..+
T Consensus 964 l~kqakiiamtcthaalkr~el~~lgf~ydnl~mEesaqile~etfiplLlq~p~dg~~rlkr~iligdhhqlPPv~~n~ 1043 (1320)
T KOG1806|consen 964 LVKQAKIIAMTCTHAALRRGDLVKLGFKYDNLLMEESAQILEIETFIPLLLQNPQDGHNRLKRWILIGDHHQLPPVVKNQ 1043 (1320)
T ss_pred CcccceeeecccCChhhChhhHhhhceeechhhhhhccCCcccccccHHHhcCCcchhhHhhheeecccccccCCcccch
Confidence 458999999999987633 3455677899999999999999999999965 3 68999999999999999665
Q ss_pred c
Q 042849 1012 G 1012 (1019)
Q Consensus 1012 ~ 1012 (1019)
.
T Consensus 1044 a 1044 (1320)
T KOG1806|consen 1044 A 1044 (1320)
T ss_pred H
Confidence 4
No 13
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=99.32 E-value=9.6e-13 Score=159.82 Aligned_cols=76 Identities=21% Similarity=0.181 Sum_probs=62.0
Q ss_pred ccCcEEEEecccchhHHHhhh-cCCCCEEEEcCCCCCCcccccccccc--CCCeEEEecCCCCCCCcccCccccccCCC
Q 042849 944 NEAEIVFTTVSSSGRKLFSRL-THGFDMVVIDEAAQASEVGVLPPLSL--GAARCVLGGGSSAAPCNSYQQGSRHLDVQ 1019 (1019)
Q Consensus 944 ~eA~IV~sTlSssg~~ll~~l-~~~FDvVIIDEAAQa~E~stLIPL~~--g~kr~ILVGDpkQLPPtV~S~~Ak~lg~~ 1019 (1019)
....|+.||++++|.-.-... -..|..++||||++++|++++||+.. ...++||.|||+||.|.+.|..|.++|+.
T Consensus 418 ~~~~i~i~t~~sag~~~~~g~~v~~f~hil~DeAg~stEpe~lv~i~~~~~~~~vvLsgdh~Qlgpv~~s~~A~~~gl~ 496 (775)
T KOG1804|consen 418 WPYRWGITTCTSAGCVTSYGFQVGHFRHILVDEAGVSTEPELLVPGKQFRQPFQVVLSGDHTQLGPVSKSARAEELGLD 496 (775)
T ss_pred cceEEEEeeccceeeeecccccccceeeeeecccccccCcccccccccccceeEEEEccCcccccccccchhhhhhccc
Confidence 356888999998885321111 23688899999999999999999965 34489999999999999999999999974
No 14
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=99.31 E-value=7.1e-12 Score=154.71 Aligned_cols=41 Identities=24% Similarity=0.420 Sum_probs=35.3
Q ss_pred ccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 658 HRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 658 ~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
...||+.|.+||..++ ..+|++|+|+||||||+++.+++.+
T Consensus 321 ~~~l~~~Q~~Ai~~~~--------------~~~~~iitGgpGTGKTt~l~~i~~~ 361 (720)
T TIGR01448 321 RKGLSEEQKQALDTAI--------------QHKVVILTGGPGTGKTTITRAIIEL 361 (720)
T ss_pred CCCCCHHHHHHHHHHH--------------hCCeEEEECCCCCCHHHHHHHHHHH
Confidence 4579999999999775 2379999999999999999888864
No 15
>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=99.20 E-value=3.5e-11 Score=149.13 Aligned_cols=41 Identities=20% Similarity=0.230 Sum_probs=34.4
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..||+.|.+||..++. ..+|++|+||||||||+++.+++.+
T Consensus 351 ~~Ls~~Q~~Av~~i~~-------------s~~~~il~G~aGTGKTtll~~i~~~ 391 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTG-------------SGDIAVVVGRAGTGKSTMLKAAREA 391 (744)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCEEEEEecCCCCHHHHHHHHHHH
Confidence 4699999999987651 2369999999999999999888763
No 16
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.14 E-value=3.6e-11 Score=151.24 Aligned_cols=40 Identities=23% Similarity=0.211 Sum_probs=32.6
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..||+.|.+||..++. ..++.+|+|+||||||+++..++.
T Consensus 345 ~~Ls~eQr~Av~~il~-------------s~~v~vv~G~AGTGKTT~l~~~~~ 384 (988)
T PRK13889 345 LVLSGEQADALAHVTD-------------GRDLGVVVGYAGTGKSAMLGVARE 384 (988)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCeEEEEeCCCCCHHHHHHHHHH
Confidence 3699999999997761 236899999999999998766654
No 17
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.09 E-value=1.9e-10 Score=145.64 Aligned_cols=41 Identities=27% Similarity=0.325 Sum_probs=33.9
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..||+.|.+||...+ ....|.+|+|+||||||+++..++.+
T Consensus 380 ~~Ls~eQ~~Av~~i~-------------~~~r~~~v~G~AGTGKTt~l~~~~~~ 420 (1102)
T PRK13826 380 ARLSDEQKTAIEHVA-------------GPARIAAVVGRAGAGKTTMMKAAREA 420 (1102)
T ss_pred CCCCHHHHHHHHHHh-------------ccCCeEEEEeCCCCCHHHHHHHHHHH
Confidence 379999999998653 13479999999999999998887764
No 18
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.06 E-value=3.1e-10 Score=147.23 Aligned_cols=44 Identities=27% Similarity=0.336 Sum_probs=36.8
Q ss_pred ccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 658 HRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 658 ~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...||+.|++||..++. .+..|++|||+||||||+++..++.++
T Consensus 833 ~~~Lt~~Qr~Av~~iLt------------s~dr~~~IqG~AGTGKTT~l~~i~~~~ 876 (1623)
T PRK14712 833 MEKLTSGQRAATRMILE------------TSDRFTVVQGYAGVGKTTQFRAVMSAV 876 (1623)
T ss_pred hcccCHHHHHHHHHHHh------------CCCceEEEEeCCCCCHHHHHHHHHHHH
Confidence 34799999999998872 135799999999999999998888753
No 19
>PF13245 AAA_19: Part of AAA domain
Probab=99.05 E-value=3.1e-10 Score=102.21 Aligned_cols=53 Identities=45% Similarity=0.660 Sum_probs=42.9
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCC
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKL 768 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~ 768 (1019)
.++.+|+||||||||+|++.++..++.. + .
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~----------~----------------------------------------~ 39 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAA----------R----------------------------------------A 39 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHH----------h----------------------------------------c
Confidence 4789999999999999999988743210 0 0
Q ss_pred CCCCcEEEEecCchhHHHHHHHH
Q 042849 769 CPKPRMLVCAPSNAATDELLTRV 791 (1019)
Q Consensus 769 ~~k~RILVCAPSNaAVDEll~RL 791 (1019)
..+.+|||++|||.|+|++.+|+
T Consensus 40 ~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 40 DPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred CCCCeEEEECCCHHHHHHHHHHH
Confidence 12679999999999999999998
No 20
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.02 E-value=7.9e-10 Score=145.22 Aligned_cols=44 Identities=30% Similarity=0.330 Sum_probs=36.7
Q ss_pred ccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 658 HRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 658 ~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...||+.|.+||..++. .+..|++|||+||||||+++..++.++
T Consensus 965 ~~~Lt~~Q~~Av~~il~------------s~dr~~~I~G~AGTGKTT~l~~v~~~~ 1008 (1747)
T PRK13709 965 MEGLTSGQRAATRMILE------------STDRFTVVQGYAGVGKTTQFRAVMSAV 1008 (1747)
T ss_pred cCCCCHHHHHHHHHHHh------------CCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence 45699999999998872 134799999999999999998888743
No 21
>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=98.93 E-value=2e-09 Score=144.49 Aligned_cols=67 Identities=16% Similarity=0.193 Sum_probs=54.3
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..||+.|.+||..++. ....|.+|+|+||||||+++..++.++ +
T Consensus 428 ~~Ls~~Q~~Av~~il~------------s~~~v~ii~G~aGTGKTt~l~~l~~~~-------------~----------- 471 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFT------------STKRFIIINGFGGTGSTEIAQLLLHLA-------------S----------- 471 (1960)
T ss_pred CCCCHHHHHHHHHHHh------------CCCCeEEEEECCCCCHHHHHHHHHHHH-------------H-----------
Confidence 3799999999998773 135899999999999999999988642 0
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHH
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRV 791 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RL 791 (1019)
..+.+|++||||+.|...+.+.+
T Consensus 472 ------------------------------~~G~~V~~lAPTgrAA~~L~e~~ 494 (1960)
T TIGR02760 472 ------------------------------EQGYEIQIITAGSLSAQELRQKI 494 (1960)
T ss_pred ------------------------------hcCCeEEEEeCCHHHHHHHHHHh
Confidence 12679999999999998876653
No 22
>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=98.86 E-value=3.2e-09 Score=142.65 Aligned_cols=43 Identities=26% Similarity=0.244 Sum_probs=35.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..||+.|++||..++. .+..|.+|||+||||||+++..++..+
T Consensus 1018 ~~Lt~~Q~~Ai~~il~------------~~~~~~~i~G~AGtGKTt~l~~~~~~i 1060 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIIS------------TKDRFVAVQGLAGVGKTTMLESRYKPV 1060 (1960)
T ss_pred CCCCHHHHHHHHHHHh------------CCCcEEEEEeCCCCCHHHhHHHHHHHH
Confidence 4699999999998762 134799999999999999997776643
No 23
>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=98.83 E-value=3.8e-08 Score=108.13 Aligned_cols=67 Identities=27% Similarity=0.289 Sum_probs=49.4
Q ss_pred CChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCC
Q 042849 661 FNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNES 740 (1019)
Q Consensus 661 LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~ 740 (1019)
||+.|.++|.. . .+..||.|+||||||+|++.-+.-++ ..
T Consensus 1 l~~eQ~~~i~~-~---------------~~~~lV~a~AGSGKT~~l~~ri~~ll------------~~------------ 40 (315)
T PF00580_consen 1 LTDEQRRIIRS-T---------------EGPLLVNAGAGSGKTTTLLERIAYLL------------YE------------ 40 (315)
T ss_dssp S-HHHHHHHHS-----------------SSEEEEEE-TTSSHHHHHHHHHHHHH------------HT------------
T ss_pred CCHHHHHHHhC-C---------------CCCEEEEeCCCCCchHHHHHHHHHhh------------cc------------
Confidence 68999999974 2 35689999999999999987654221 10
Q ss_pred CCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 741 NSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 741 ~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
......+||+.++||+|+.++..||..
T Consensus 41 --------------------------~~~~~~~Il~lTft~~aa~e~~~ri~~ 67 (315)
T PF00580_consen 41 --------------------------GGVPPERILVLTFTNAAAQEMRERIRE 67 (315)
T ss_dssp --------------------------SSSTGGGEEEEESSHHHHHHHHHHHHH
T ss_pred --------------------------ccCChHHheecccCHHHHHHHHHHHHH
Confidence 001256899999999999999999965
No 24
>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=98.77 E-value=1.2e-08 Score=117.14 Aligned_cols=44 Identities=20% Similarity=0.248 Sum_probs=33.9
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||+.|++++...+.+... .......|.||.|||||++|-.|..
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~--------~~~~~~fv~G~~GtGKs~l~~~i~~ 44 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIEN--------EEGLNFFVTGPAGTGKSFLIKAIID 44 (364)
T ss_pred CCCHHHHHHHHHHHHHHHc--------cCCcEEEEEcCCCCChhHHHHHHHH
Confidence 4899999998877543211 1335679999999999999988876
No 25
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=98.51 E-value=3.8e-06 Score=104.66 Aligned_cols=69 Identities=20% Similarity=0.174 Sum_probs=52.1
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..||+.|++||... .+-.||-|.||||||+|++.-+.-| +..
T Consensus 3 ~~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~~L~~Ria~L------------i~~---------- 44 (715)
T TIGR01075 3 DGLNDKQREAVAAP----------------PGNLLVLAGAGSGKTRVLTHRIAWL------------LSV---------- 44 (715)
T ss_pred cccCHHHHHHHcCC----------------CCCEEEEecCCCCHHHHHHHHHHHH------------HHc----------
Confidence 47999999998621 1336999999999999998866422 110
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
...+..+||+++.||.|.+|+.+||.+
T Consensus 45 ----------------------------~~v~p~~IL~lTFTnkAA~em~~Rl~~ 71 (715)
T TIGR01075 45 ----------------------------ENASPHSIMAVTFTNKAAAEMRHRIGA 71 (715)
T ss_pred ----------------------------CCCCHHHeEeeeccHHHHHHHHHHHHH
Confidence 001356999999999999999999965
No 26
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=98.44 E-value=5.3e-06 Score=102.41 Aligned_cols=68 Identities=21% Similarity=0.243 Sum_probs=51.6
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.||+.|++||... .+-.+|-|.||||||+|++.-+.-+ +..
T Consensus 1 ~Ln~~Q~~av~~~----------------~~~~~V~Ag~GSGKT~~L~~ri~~l------------l~~----------- 41 (664)
T TIGR01074 1 KLNPQQQEAVEYV----------------TGPCLVLAGAGSGKTRVITNKIAYL------------IQN----------- 41 (664)
T ss_pred CCCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHH------------HHh-----------
Confidence 4899999998631 1336999999999999998876522 110
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
......+||+++.||.|..|+-.||.+
T Consensus 42 ---------------------------~~~~p~~IL~vTFt~~Aa~em~~Rl~~ 68 (664)
T TIGR01074 42 ---------------------------CGYKARNIAAVTFTNKAAREMKERVAK 68 (664)
T ss_pred ---------------------------cCCCHHHeEEEeccHHHHHHHHHHHHH
Confidence 001256899999999999999999975
No 27
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=98.43 E-value=5.7e-06 Score=102.41 Aligned_cols=68 Identities=21% Similarity=0.204 Sum_probs=51.2
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.||+.|.+||... .+-.||-++||||||+|++.-+.-|+ ..
T Consensus 2 ~Ln~~Q~~av~~~----------------~g~~lV~AgpGSGKT~vL~~Ria~Li------------~~----------- 42 (672)
T PRK10919 2 RLNPGQQQAVEFV----------------TGPCLVLAGAGSGKTRVITNKIAHLI------------RG----------- 42 (672)
T ss_pred CCCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHHH------------Hh-----------
Confidence 5899999998631 13358889999999999988765321 10
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
...+..+||+.+.||.|.+|+..||..
T Consensus 43 ---------------------------~~v~p~~IL~lTFT~kAA~em~~Rl~~ 69 (672)
T PRK10919 43 ---------------------------CGYQARHIAAVTFTNKAAREMKERVAQ 69 (672)
T ss_pred ---------------------------cCCCHHHeeeEechHHHHHHHHHHHHH
Confidence 001246899999999999999999964
No 28
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=98.42 E-value=8.2e-06 Score=101.82 Aligned_cols=69 Identities=19% Similarity=0.220 Sum_probs=52.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..||+.|++||... .+-.||-|.||||||+|+..-+.-| +..
T Consensus 8 ~~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~vl~~Ria~L------------i~~---------- 49 (721)
T PRK11773 8 DSLNDKQREAVAAP----------------LGNMLVLAGAGSGKTRVLVHRIAWL------------MQV---------- 49 (721)
T ss_pred HhcCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHH------------HHc----------
Confidence 57999999998621 1336899999999999998866422 110
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
...+..+||+.+.||.|.+|+.+||.+
T Consensus 50 ----------------------------~~v~p~~IL~lTFT~kAA~Em~~Rl~~ 76 (721)
T PRK11773 50 ----------------------------ENASPYSIMAVTFTNKAAAEMRHRIEQ 76 (721)
T ss_pred ----------------------------CCCChhHeEeeeccHHHHHHHHHHHHH
Confidence 001356899999999999999999965
No 29
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=98.39 E-value=1.1e-05 Score=100.73 Aligned_cols=69 Identities=22% Similarity=0.195 Sum_probs=51.8
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..||+.|++||... .+=.||-|.||||||+|+..-+.-| +..
T Consensus 3 ~~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~~l~~ria~L------------i~~---------- 44 (726)
T TIGR01073 3 AHLNPEQREAVKTT----------------EGPLLIMAGAGSGKTRVLTHRIAHL------------IAE---------- 44 (726)
T ss_pred cccCHHHHHHHhCC----------------CCCEEEEeCCCCCHHHHHHHHHHHH------------HHc----------
Confidence 47999999999721 1236999999999999998866522 110
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
...+..+||+.+.||.|..|+..||.+
T Consensus 45 ----------------------------~~i~P~~IL~lTFT~kAA~em~~Rl~~ 71 (726)
T TIGR01073 45 ----------------------------KNVAPWNILAITFTNKAAREMKERVEK 71 (726)
T ss_pred ----------------------------CCCCHHHeeeeeccHHHHHHHHHHHHH
Confidence 001246899999999999999999964
No 30
>PRK11054 helD DNA helicase IV; Provisional
Probab=98.39 E-value=3.7e-06 Score=103.90 Aligned_cols=69 Identities=20% Similarity=0.193 Sum_probs=52.6
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..||+.|.+||... .+-.||.|.||||||+|+++-+.-|+. .
T Consensus 195 ~~L~~~Q~~av~~~----------------~~~~lV~agaGSGKT~vl~~r~ayLl~-----------~----------- 236 (684)
T PRK11054 195 SPLNPSQARAVVNG----------------EDSLLVLAGAGSGKTSVLVARAGWLLA-----------R----------- 236 (684)
T ss_pred CCCCHHHHHHHhCC----------------CCCeEEEEeCCCCHHHHHHHHHHHHHH-----------h-----------
Confidence 56999999999732 123699999999999999887753211 0
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
......+||+.|.||.|.+|+.+||.+
T Consensus 237 ----------------------------~~~~~~~IL~ltft~~AA~em~eRL~~ 263 (684)
T PRK11054 237 ----------------------------GQAQPEQILLLAFGRQAAEEMDERIRE 263 (684)
T ss_pred ----------------------------CCCCHHHeEEEeccHHHHHHHHHHHHH
Confidence 001256999999999999999999964
No 31
>PRK10536 hypothetical protein; Provisional
Probab=98.21 E-value=2.5e-05 Score=85.75 Aligned_cols=39 Identities=21% Similarity=0.146 Sum_probs=31.3
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...|..|..++. ++. ..+|.+|.||+|||||++..++..
T Consensus 58 ~p~n~~Q~~~l~-al~-------------~~~lV~i~G~aGTGKT~La~a~a~ 96 (262)
T PRK10536 58 LARNEAQAHYLK-AIE-------------SKQLIFATGEAGCGKTWISAAKAA 96 (262)
T ss_pred cCCCHHHHHHHH-HHh-------------cCCeEEEECCCCCCHHHHHHHHHH
Confidence 568999999887 342 236999999999999998877654
No 32
>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=98.20 E-value=1.7e-05 Score=75.12 Aligned_cols=50 Identities=22% Similarity=0.302 Sum_probs=39.9
Q ss_pred eEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCCCC
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPK 771 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k 771 (1019)
.+|+||||||||.++..++..++. ....
T Consensus 3 ~~i~~~~G~GKT~~~~~~~~~~~~----------------------------------------------------~~~~ 30 (144)
T cd00046 3 VLLAAPTGSGKTLAALLPILELLD----------------------------------------------------SLKG 30 (144)
T ss_pred EEEECCCCCchhHHHHHHHHHHHh----------------------------------------------------cccC
Confidence 699999999999999887753210 0125
Q ss_pred CcEEEEecCchhHHHHHHHHHh
Q 042849 772 PRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 772 ~RILVCAPSNaAVDEll~RLl~ 793 (1019)
+++|+++|++..++++..++..
T Consensus 31 ~~~lv~~p~~~l~~~~~~~~~~ 52 (144)
T cd00046 31 GQVLVLAPTRELANQVAERLKE 52 (144)
T ss_pred CCEEEEcCcHHHHHHHHHHHHH
Confidence 7999999999999999988854
No 33
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=97.91 E-value=7.1e-06 Score=87.29 Aligned_cols=41 Identities=24% Similarity=0.202 Sum_probs=31.0
Q ss_pred CCCEEEEcCCCCCCcccccc-ccccCCCeEEEecCCCCCCCc
Q 042849 967 GFDMVVIDEAAQASEVGVLP-PLSLGAARCVLGGGSSAAPCN 1007 (1019)
Q Consensus 967 ~FDvVIIDEAAQa~E~stLI-PL~~g~kr~ILVGDpkQLPPt 1007 (1019)
.++++|||||..+.-...+. .....++.++|+|||+|.+..
T Consensus 62 ~~~~liiDE~~~~~~g~l~~l~~~~~~~~~~l~GDp~Q~~~~ 103 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGYLLLLLSLSPAKNVILFGDPLQIPYI 103 (234)
T ss_pred cCCEEEEeccccCChHHHHHHHhhccCcceEEEECchhccCC
Confidence 58999999999876433332 222467899999999999865
No 34
>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=97.65 E-value=0.00021 Score=76.25 Aligned_cols=60 Identities=13% Similarity=0.164 Sum_probs=28.3
Q ss_pred hccCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCcccccccccc--CCCeEEEecCCCCCCCc
Q 042849 943 ANEAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLPPLSL--GAARCVLGGGSSAAPCN 1007 (1019)
Q Consensus 943 L~eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLIPL~~--g~kr~ILVGDpkQLPPt 1007 (1019)
+.+-.|.+..++.. +..+..-.+||||||=-++-.+.-.-|.- .-.++|+.||+.|---.
T Consensus 100 ~~~~~Ie~~~~~~i-----RGrt~~~~~iIvDEaQN~t~~~~k~ilTR~g~~skii~~GD~~Q~D~~ 161 (205)
T PF02562_consen 100 IQNGKIEIEPLAFI-----RGRTFDNAFIIVDEAQNLTPEELKMILTRIGEGSKIIITGDPSQIDLP 161 (205)
T ss_dssp HHTTSEEEEEGGGG-----TT--B-SEEEEE-SGGG--HHHHHHHHTTB-TT-EEEEEE--------
T ss_pred hhcCeEEEEehhhh-----cCccccceEEEEecccCCCHHHHHHHHcccCCCcEEEEecCceeecCC
Confidence 34556777777543 22222347999999987775444333433 24699999999996433
No 35
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=97.56 E-value=0.00029 Score=70.93 Aligned_cols=70 Identities=17% Similarity=0.108 Sum_probs=52.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..+++.|.+++...+. .....+|.||+|||||.++..++...+ .
T Consensus 7 ~~~~~~Q~~~~~~~~~-------------~~~~~~i~~~~GsGKT~~~~~~~~~~~-----------~------------ 50 (201)
T smart00487 7 EPLRPYQKEAIEALLS-------------GLRDVILAAPTGSGKTLAALLPALEAL-----------K------------ 50 (201)
T ss_pred CCCCHHHHHHHHHHHc-------------CCCcEEEECCCCCchhHHHHHHHHHHh-----------c------------
Confidence 4689999999987651 104689999999999997766654210 0
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.....++|+++|++.++.++..++..
T Consensus 51 -----------------------------~~~~~~~l~~~p~~~~~~~~~~~~~~ 76 (201)
T smart00487 51 -----------------------------RGKGKRVLVLVPTRELAEQWAEELKK 76 (201)
T ss_pred -----------------------------ccCCCcEEEEeCCHHHHHHHHHHHHH
Confidence 01246899999999999999999865
No 36
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=97.42 E-value=0.00059 Score=88.70 Aligned_cols=73 Identities=23% Similarity=0.151 Sum_probs=52.6
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.+-..|.+||.....+...|. .=.||+.|.|||||.|.+.++..++ +
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~---------r~~Ll~maTGSGKT~tai~li~~L~------------~------------ 459 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQ---------REILLAMATGTGKTRTAIALMYRLL------------K------------ 459 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhcc---------CCeEEEeCCCCCHHHHHHHHHHHHH------------h------------
Confidence 467799999986653321121 2279999999999999888775331 1
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
....+|||++++++.-+++....+..
T Consensus 460 ----------------------------~~~~~rVLfLvDR~~L~~Qa~~~F~~ 485 (1123)
T PRK11448 460 ----------------------------AKRFRRILFLVDRSALGEQAEDAFKD 485 (1123)
T ss_pred ----------------------------cCccCeEEEEecHHHHHHHHHHHHHh
Confidence 01246999999999999999888754
No 37
>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=97.38 E-value=0.00037 Score=70.40 Aligned_cols=68 Identities=18% Similarity=0.233 Sum_probs=51.4
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
+|.+.|.+||..++.+.... ...+..||++|+|||||.+++.++..++
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~-------~~~~~~ll~~~tGsGKT~~~~~~~~~l~------------------------- 50 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENK-------KEERRVLLNAPTGSGKTIIALALILELA------------------------- 50 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTT-------SGCSEEEEEESTTSSHHHHHHHHHHHHH-------------------------
T ss_pred CCCHHHHHHHHHHHHHHHhc-------CCCCCEEEEECCCCCcChhhhhhhhccc-------------------------
Confidence 67889999999876432110 0136789999999999999887665220
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHH
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRV 791 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RL 791 (1019)
. ++|+++|+..-+++....+
T Consensus 51 -------------------------------~-~~l~~~p~~~l~~Q~~~~~ 70 (184)
T PF04851_consen 51 -------------------------------R-KVLIVAPNISLLEQWYDEF 70 (184)
T ss_dssp -------------------------------C-EEEEEESSHHHHHHHHHHH
T ss_pred -------------------------------c-ceeEecCHHHHHHHHHHHH
Confidence 2 8999999999999999888
No 38
>PHA02558 uvsW UvsW helicase; Provisional
Probab=97.33 E-value=0.0014 Score=78.71 Aligned_cols=67 Identities=15% Similarity=0.184 Sum_probs=49.8
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.+.+-|.+||..++.+ .-.+++.|.|+|||.++..++..+ +.
T Consensus 114 ~~r~~Q~~av~~~l~~--------------~~~il~apTGsGKT~i~~~l~~~~------------~~------------ 155 (501)
T PHA02558 114 EPHWYQYDAVYEGLKN--------------NRRLLNLPTSAGKSLIQYLLSRYY------------LE------------ 155 (501)
T ss_pred CCCHHHHHHHHHHHhc--------------CceEEEeCCCCCHHHHHHHHHHHH------------Hh------------
Confidence 6788999999877631 225999999999998765543211 00
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.++||++||..-++++..++.+
T Consensus 156 -----------------------------~~~~~vLilvpt~eL~~Q~~~~l~~ 180 (501)
T PHA02558 156 -----------------------------NYEGKVLIIVPTTSLVTQMIDDFVD 180 (501)
T ss_pred -----------------------------cCCCeEEEEECcHHHHHHHHHHHHH
Confidence 0134899999999999999999854
No 39
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=97.29 E-value=0.0017 Score=76.99 Aligned_cols=68 Identities=18% Similarity=0.136 Sum_probs=52.4
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..|++-|.+|+.....+- . . ....+|.-|+|+|||.+.+.++.-+
T Consensus 35 ~~lr~yQ~~al~a~~~~~-~--------~-~~~gvivlpTGaGKT~va~~~~~~~------------------------- 79 (442)
T COG1061 35 FELRPYQEEALDALVKNR-R--------T-ERRGVIVLPTGAGKTVVAAEAIAEL------------------------- 79 (442)
T ss_pred CCCcHHHHHHHHHHHhhc-c--------c-CCceEEEeCCCCCHHHHHHHHHHHh-------------------------
Confidence 478999999998665311 0 1 3557999999999999888877521
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
+.++||++|+...+++-..++..
T Consensus 80 --------------------------------~~~~Lvlv~~~~L~~Qw~~~~~~ 102 (442)
T COG1061 80 --------------------------------KRSTLVLVPTKELLDQWAEALKK 102 (442)
T ss_pred --------------------------------cCCEEEEECcHHHHHHHHHHHHH
Confidence 34599999999999999988754
No 40
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.20 E-value=0.0029 Score=78.88 Aligned_cols=81 Identities=17% Similarity=0.160 Sum_probs=55.5
Q ss_pred hhhHhhhccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcC
Q 042849 651 QNFIDHLHRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLA 730 (1019)
Q Consensus 651 ~~l~~~L~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~ 730 (1019)
..+...|...|++.|.+||...+.. ..++ ..--.|||||.|||||-+....+ +.. +
T Consensus 252 ~~~~~~l~f~lt~~Q~~ai~~I~~d----~~~~----~~~~~Ll~~~TGSGKT~va~~~i--l~~---------~----- 307 (681)
T PRK10917 252 KKFLASLPFELTGAQKRVVAEILAD----LASP----KPMNRLLQGDVGSGKTVVAALAA--LAA---------I----- 307 (681)
T ss_pred HHHHHhCCCCCCHHHHHHHHHHHHh----hhcc----CCceEEEECCCCCcHHHHHHHHH--HHH---------H-----
Confidence 3455667778999999999976531 1110 11236999999999996543322 110 0
Q ss_pred cccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 731 PESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 731 ~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.++|+.|||-.-+.++..++.+
T Consensus 308 --------------------------------------~~g~q~lilaPT~~LA~Q~~~~l~~ 332 (681)
T PRK10917 308 --------------------------------------EAGYQAALMAPTEILAEQHYENLKK 332 (681)
T ss_pred --------------------------------------HcCCeEEEEeccHHHHHHHHHHHHH
Confidence 0267899999999999999988854
No 41
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.20 E-value=0.0024 Score=78.89 Aligned_cols=80 Identities=16% Similarity=0.160 Sum_probs=54.2
Q ss_pred hhHhhhccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCc
Q 042849 652 NFIDHLHRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAP 731 (1019)
Q Consensus 652 ~l~~~L~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~ 731 (1019)
.+...|...|++.|.+||...+... .+ ...--.|||||.|||||.+....+ +.. +
T Consensus 227 ~~~~~lpf~lt~~Q~~ai~~I~~~~----~~----~~~~~~Ll~g~TGSGKT~va~l~i--l~~----------~----- 281 (630)
T TIGR00643 227 KFLASLPFKLTRAQKRVVKEILQDL----KS----DVPMNRLLQGDVGSGKTLVAALAM--LAA----------I----- 281 (630)
T ss_pred HHHHhCCCCCCHHHHHHHHHHHHHh----cc----CCCccEEEECCCCCcHHHHHHHHH--HHH----------H-----
Confidence 4556677789999999999766321 10 011136999999999997543221 110 0
Q ss_pred ccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 732 ESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 732 ~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.++|+.|||..-+.++..++.+
T Consensus 282 -------------------------------------~~g~qvlilaPT~~LA~Q~~~~~~~ 306 (630)
T TIGR00643 282 -------------------------------------EAGYQVALMAPTEILAEQHYNSLRN 306 (630)
T ss_pred -------------------------------------HcCCcEEEECCHHHHHHHHHHHHHH
Confidence 0156899999999999999888754
No 42
>PTZ00424 helicase 45; Provisional
Probab=97.19 E-value=0.0039 Score=72.11 Aligned_cols=33 Identities=33% Similarity=0.299 Sum_probs=25.7
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
.+++-|.+||..++. | .. .+|++|+|||||.+.
T Consensus 50 ~~~~~Q~~ai~~i~~----~---------~d-~ii~apTGsGKT~~~ 82 (401)
T PTZ00424 50 KPSAIQQRGIKPILD----G---------YD-TIGQAQSGTGKTATF 82 (401)
T ss_pred CCCHHHHHHHHHHhC----C---------CC-EEEECCCCChHHHHH
Confidence 579999999997651 1 12 689999999999643
No 43
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.06 E-value=0.0056 Score=76.38 Aligned_cols=70 Identities=27% Similarity=0.322 Sum_probs=51.8
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..|++.|.+|+...+.. . .....||+||+|+|||.+...++... +.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~----~-------~~~~~Ll~~~TGSGKT~v~l~~i~~~------------l~----------- 188 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAA----A-------GFSPFLLDGVTGSGKTEVYLQAIAEV------------LA----------- 188 (679)
T ss_pred CCCCHHHHHHHHHHHhc----c-------CCCcEEEECCCCChHHHHHHHHHHHH------------HH-----------
Confidence 47999999999876521 0 12348999999999997765544311 00
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.++++||.+|+-+-++++..+|.+
T Consensus 189 -------------------------------~g~~vLvLvPt~~L~~Q~~~~l~~ 212 (679)
T PRK05580 189 -------------------------------QGKQALVLVPEIALTPQMLARFRA 212 (679)
T ss_pred -------------------------------cCCeEEEEeCcHHHHHHHHHHHHH
Confidence 156899999999999999999854
No 44
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=97.05 E-value=0.0063 Score=71.54 Aligned_cols=33 Identities=36% Similarity=0.265 Sum_probs=25.5
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
.+..-|.+||..++. | .=.|+++|+|||||.+.
T Consensus 23 ~p~~iQ~~ai~~~~~----g----------~d~l~~apTGsGKT~~~ 55 (434)
T PRK11192 23 RPTAIQAEAIPPALD----G----------RDVLGSAPTGTGKTAAF 55 (434)
T ss_pred CCCHHHHHHHHHHhC----C----------CCEEEECCCCChHHHHH
Confidence 467899999997761 1 12799999999999653
No 45
>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=96.89 E-value=0.0086 Score=76.84 Aligned_cols=80 Identities=23% Similarity=0.232 Sum_probs=53.7
Q ss_pred hhHhhhccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCc
Q 042849 652 NFIDHLHRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAP 731 (1019)
Q Consensus 652 ~l~~~L~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~ 731 (1019)
.|.+.+...+++.|.+||..++... .++ .+. =.|||||.|+|||-+....+ +. .+.
T Consensus 443 ~~~~~~~f~~T~~Q~~aI~~I~~d~----~~~---~~~-d~Ll~adTGsGKT~val~a~--l~---------al~----- 498 (926)
T TIGR00580 443 EFEDSFPFEETPDQLKAIEEIKADM----ESP---RPM-DRLVCGDVGFGKTEVAMRAA--FK---------AVL----- 498 (926)
T ss_pred HHHHhCCCCCCHHHHHHHHHHHhhh----ccc---CcC-CEEEECCCCccHHHHHHHHH--HH---------HHH-----
Confidence 4555566678999999999776321 110 011 25999999999996543322 10 010
Q ss_pred ccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 732 ESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 732 ~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.++++||++||..-+.++...+.+
T Consensus 499 --------------------------------------~g~qvlvLvPT~~LA~Q~~~~f~~ 522 (926)
T TIGR00580 499 --------------------------------------DGKQVAVLVPTTLLAQQHFETFKE 522 (926)
T ss_pred --------------------------------------hCCeEEEEeCcHHHHHHHHHHHHH
Confidence 157899999999999999888754
No 46
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=96.79 E-value=0.0035 Score=78.23 Aligned_cols=41 Identities=24% Similarity=0.319 Sum_probs=35.4
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..|++.|.+|+..++ -.++++|-||||||||+++.+++..+
T Consensus 318 ~~~~~~q~~a~~vl~--------------~de~smlt~~~~~~~~~~~~~~~~l~ 358 (696)
T COG0507 318 LRLSLEQKEALDVLV--------------VDEVSMLTGGPGTGKTTAIKAIARLI 358 (696)
T ss_pred CCcCcccHHHHHHHh--------------cCCeeEEeccCCcchHHHHHHHHHHH
Confidence 478999999999776 24789999999999999999998754
No 47
>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=96.78 E-value=0.0086 Score=74.66 Aligned_cols=67 Identities=15% Similarity=0.032 Sum_probs=50.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..|=+.|.+||...+.. |. ..-.+|.-|+|+|||.+.+.++..
T Consensus 254 ~~LRpYQ~eAl~~~~~~---gr--------~r~GIIvLPtGaGKTlvai~aa~~-------------------------- 296 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGN---GR--------ARSGIIVLPCGAGKSLVGVTAACT-------------------------- 296 (732)
T ss_pred CCcCHHHHHHHHHHHhc---CC--------CCCcEEEeCCCCChHHHHHHHHHH--------------------------
Confidence 35778999999876521 11 123699999999999887766531
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.+.++||.+|+...|++-...+.+
T Consensus 297 -------------------------------l~k~tLILvps~~Lv~QW~~ef~~ 320 (732)
T TIGR00603 297 -------------------------------VKKSCLVLCTSAVSVEQWKQQFKM 320 (732)
T ss_pred -------------------------------hCCCEEEEeCcHHHHHHHHHHHHH
Confidence 145799999999999999998864
No 48
>PRK09401 reverse gyrase; Reviewed
Probab=96.76 E-value=0.013 Score=76.94 Aligned_cols=24 Identities=4% Similarity=0.185 Sum_probs=21.4
Q ss_pred CCcEEEEecCchhHHHHHHHHHhc
Q 042849 771 KPRMLVCAPSNAATDELLTRVLDR 794 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~~ 794 (1019)
+.++||.+||..-+.++..++...
T Consensus 123 g~~alIL~PTreLa~Qi~~~l~~l 146 (1176)
T PRK09401 123 GKKSYIIFPTRLLVEQVVEKLEKF 146 (1176)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHH
Confidence 578999999999999999998653
No 49
>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=96.75 E-value=0.011 Score=73.78 Aligned_cols=76 Identities=16% Similarity=0.076 Sum_probs=53.8
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCC
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESN 741 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~ 741 (1019)
...|..||..++.+...+... ....-.|||-|.|||||.|++.++..|+ +
T Consensus 240 r~~Q~~av~~~~~~~~~~~~~----~~~~~gli~~~TGsGKT~t~~~la~~l~------------~-------------- 289 (667)
T TIGR00348 240 RYMQYRAVKKIVESITRKTWG----KDERGGLIWHTQGSGKTLTMLFAARKAL------------E-------------- 289 (667)
T ss_pred HHHHHHHHHHHHHHHHhcccC----CCCceeEEEEecCCCccHHHHHHHHHHH------------h--------------
Confidence 457999999877543321100 0124589999999999999988876331 0
Q ss_pred CCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 742 SDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 742 s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
....++||+++|...-++++...+..
T Consensus 290 --------------------------~~~~~~vl~lvdR~~L~~Q~~~~f~~ 315 (667)
T TIGR00348 290 --------------------------LLKNPKVFFVVDRRELDYQLMKEFQS 315 (667)
T ss_pred --------------------------hcCCCeEEEEECcHHHHHHHHHHHHh
Confidence 01257999999999999999988754
No 50
>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=96.72 E-value=0.0026 Score=73.08 Aligned_cols=38 Identities=18% Similarity=0.232 Sum_probs=27.2
Q ss_pred CCCCEEEEcCCCCCCc----------cccccccccCCCeEEEecCCCC
Q 042849 966 HGFDMVVIDEAAQASE----------VGVLPPLSLGAARCVLGGGSSA 1003 (1019)
Q Consensus 966 ~~FDvVIIDEAAQa~E----------~stLIPL~~g~kr~ILVGDpkQ 1003 (1019)
..||+||||||=.+.+ ...|.-+....+.+|++-|+.|
T Consensus 82 ~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q 129 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQ 129 (352)
T ss_pred CcCCEEEEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEcccc
Confidence 4899999999988777 2334444345678887777776
No 51
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.68 E-value=0.002 Score=71.97 Aligned_cols=43 Identities=30% Similarity=0.414 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 664 PQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 664 SQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.|...+. +|..++.+ . ..|.-|.+||||||||.|+.++..+|+
T Consensus 40 gQe~vV~-~L~~a~~~--~-----~lp~~LFyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 40 GQEHVVQ-VLKNALLR--R-----ILPHYLFYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred chHHHHH-HHHHHHhh--c-----CCceEEeeCCCCCcHhHHHHHHHHHhc
Confidence 6766665 45444433 1 247889999999999999998887663
No 52
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.63 E-value=0.017 Score=71.53 Aligned_cols=32 Identities=25% Similarity=0.151 Sum_probs=25.2
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHT 705 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkT 705 (1019)
.+++-|.+||...+. | .-.|+|+|+|||||.+
T Consensus 28 ~ptpiQ~~ai~~ll~----g----------~dvl~~ApTGsGKT~a 59 (629)
T PRK11634 28 KPSPIQAECIPHLLN----G----------RDVLGMAQTGSGKTAA 59 (629)
T ss_pred CCCHHHHHHHHHHHc----C----------CCEEEEcCCCCcHHHH
Confidence 578899999987651 1 2379999999999965
No 53
>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=96.61 E-value=0.021 Score=75.14 Aligned_cols=36 Identities=19% Similarity=0.371 Sum_probs=26.0
Q ss_pred cCcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCc
Q 042849 945 EAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASE 981 (1019)
Q Consensus 945 eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E 981 (1019)
..+||++|...... .+..+...|++||||||-...+
T Consensus 178 ~~dIlV~Tp~rL~~-~~~~l~~~~~~iVvDEaD~~L~ 213 (1171)
T TIGR01054 178 DFDILITTTMFLSK-NYDELGPKFDFIFVDDVDALLK 213 (1171)
T ss_pred CCCEEEECHHHHHH-HHHHhcCCCCEEEEeChHhhhh
Confidence 47999999865443 3333333799999999987765
No 54
>PRK02362 ski2-like helicase; Provisional
Probab=96.56 E-value=0.012 Score=74.11 Aligned_cols=67 Identities=21% Similarity=0.216 Sum_probs=48.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHH-HHHHHHHhhhhhhhhhhhhcCcccccCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGM-LNVIHLVQYQHYYNSLLKKLAPESYKQP 737 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~L-L~~Lll~~~q~~~~sLlk~l~~~~~kq~ 737 (1019)
..|++.|.+||...+.. | .=.||+.|.|+|||...... +.. +
T Consensus 22 ~~l~p~Q~~ai~~~~~~---g----------~nvlv~APTGSGKTlia~lail~~------------l------------ 64 (737)
T PRK02362 22 EELYPPQAEAVEAGLLD---G----------KNLLAAIPTASGKTLIAELAMLKA------------I------------ 64 (737)
T ss_pred CcCCHHHHHHHHHHHhC---C----------CcEEEECCCcchHHHHHHHHHHHH------------H------------
Confidence 46899999999864421 1 22799999999999654221 111 0
Q ss_pred CCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 738 NESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 738 ~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.++|+++|+-+-+.|...++.+
T Consensus 65 -------------------------------~~~~kal~i~P~raLa~q~~~~~~~ 89 (737)
T PRK02362 65 -------------------------------ARGGKALYIVPLRALASEKFEEFER 89 (737)
T ss_pred -------------------------------hcCCcEEEEeChHHHHHHHHHHHHH
Confidence 0256899999999999999998853
No 55
>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=96.48 E-value=0.0045 Score=59.07 Aligned_cols=23 Identities=43% Similarity=0.577 Sum_probs=19.6
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
....+|+||||||||+++..+..
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~ 41 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIAN 41 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 35789999999999988877765
No 56
>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=96.48 E-value=0.013 Score=58.69 Aligned_cols=23 Identities=22% Similarity=0.492 Sum_probs=20.4
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..++|+.+|+.+-++++..++..
T Consensus 44 ~~~~lii~P~~~l~~q~~~~~~~ 66 (169)
T PF00270_consen 44 DARVLIIVPTRALAEQQFERLRK 66 (169)
T ss_dssp SSEEEEEESSHHHHHHHHHHHHH
T ss_pred CceEEEEeecccccccccccccc
Confidence 35999999999999999999864
No 57
>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=96.45 E-value=0.031 Score=66.79 Aligned_cols=32 Identities=31% Similarity=0.402 Sum_probs=25.4
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTH 704 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTk 704 (1019)
..|.+-|.+||..++. | .-.||+.|.|+|||.
T Consensus 10 ~~~r~~Q~~ai~~~l~----g----------~dvlv~apTGsGKTl 41 (470)
T TIGR00614 10 SSFRPVQLEVINAVLL----G----------RDCFVVMPTGGGKSL 41 (470)
T ss_pred CCCCHHHHHHHHHHHc----C----------CCEEEEcCCCCcHhH
Confidence 4688999999997661 1 126999999999994
No 58
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.44 E-value=0.018 Score=75.51 Aligned_cols=81 Identities=20% Similarity=0.109 Sum_probs=55.3
Q ss_pred hhhHhhhccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcC
Q 042849 651 QNFIDHLHRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLA 730 (1019)
Q Consensus 651 ~~l~~~L~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~ 730 (1019)
..|...+...+++.|.+||..++... .+. .+. =.||+||.|+|||-+...++. .. +
T Consensus 591 ~~~~~~~~~~~T~~Q~~aI~~il~d~----~~~---~~~-d~Ll~a~TGsGKT~val~aa~--~~---------~----- 646 (1147)
T PRK10689 591 QLFCDSFPFETTPDQAQAINAVLSDM----CQP---LAM-DRLVCGDVGFGKTEVAMRAAF--LA---------V----- 646 (1147)
T ss_pred HHHHHhCCCCCCHHHHHHHHHHHHHh----hcC---CCC-CEEEEcCCCcCHHHHHHHHHH--HH---------H-----
Confidence 35556667789999999999766311 110 011 269999999999976533321 10 0
Q ss_pred cccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 731 PESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 731 ~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..++++||.+||..-+.++...+.+
T Consensus 647 --------------------------------------~~g~qvlvLvPT~eLA~Q~~~~f~~ 671 (1147)
T PRK10689 647 --------------------------------------ENHKQVAVLVPTTLLAQQHYDNFRD 671 (1147)
T ss_pred --------------------------------------HcCCeEEEEeCcHHHHHHHHHHHHH
Confidence 0267899999999999999888754
No 59
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=96.39 E-value=0.038 Score=65.75 Aligned_cols=34 Identities=29% Similarity=0.226 Sum_probs=26.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
..+++-|.+||..++. | .. .||++|.|||||.+.
T Consensus 22 ~~pt~iQ~~ai~~il~----g---------~d-vlv~apTGsGKTla~ 55 (456)
T PRK10590 22 REPTPIQQQAIPAVLE----G---------RD-LMASAQTGTGKTAGF 55 (456)
T ss_pred CCCCHHHHHHHHHHhC----C---------CC-EEEECCCCCcHHHHH
Confidence 4678999999986651 1 12 699999999999654
No 60
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.31 E-value=0.033 Score=68.26 Aligned_cols=34 Identities=26% Similarity=0.138 Sum_probs=26.3
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
..+++-|.+||-.++. | .=.+|++|.|||||.+.
T Consensus 30 ~~ptpiQ~~~ip~~l~----G----------~Dvi~~ApTGSGKTlaf 63 (572)
T PRK04537 30 TRCTPIQALTLPVALP----G----------GDVAGQAQTGTGKTLAF 63 (572)
T ss_pred CCCCHHHHHHHHHHhC----C----------CCEEEEcCCCCcHHHHH
Confidence 3578999999987661 1 12799999999999654
No 61
>PRK14701 reverse gyrase; Provisional
Probab=96.24 E-value=0.049 Score=73.62 Aligned_cols=68 Identities=13% Similarity=0.113 Sum_probs=48.8
Q ss_pred ccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCC
Q 042849 658 HRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQP 737 (1019)
Q Consensus 658 ~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~ 737 (1019)
...+.+-|..+|..++. | .. .++++|.|||||.+.. +.+++. .
T Consensus 77 G~~pt~iQ~~~i~~il~----G---------~d-~li~APTGsGKTl~~~--~~al~~----------~----------- 119 (1638)
T PRK14701 77 GFEFWSIQKTWAKRILR----G---------KS-FSIVAPTGMGKSTFGA--FIALFL----------A----------- 119 (1638)
T ss_pred CCCCCHHHHHHHHHHHc----C---------CC-EEEEEcCCCCHHHHHH--HHHHHH----------H-----------
Confidence 34688899999998762 2 12 5899999999998322 211110 0
Q ss_pred CCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 738 NESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 738 ~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.++||.+||-.-+.+++.+|..
T Consensus 120 -------------------------------~~g~~aLVl~PTreLa~Qi~~~l~~ 144 (1638)
T PRK14701 120 -------------------------------LKGKKCYIILPTTLLVKQTVEKIES 144 (1638)
T ss_pred -------------------------------hcCCeEEEEECHHHHHHHHHHHHHH
Confidence 0256899999999999999999864
No 62
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.20 E-value=0.057 Score=63.47 Aligned_cols=33 Identities=27% Similarity=0.233 Sum_probs=25.6
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
.+++-|.+||..++. | .. .++++|.|||||.+.
T Consensus 30 ~pt~iQ~~aip~il~----g---------~d-vi~~ApTGsGKTla~ 62 (423)
T PRK04837 30 NCTPIQALALPLTLA----G---------RD-VAGQAQTGTGKTMAF 62 (423)
T ss_pred CCCHHHHHHHHHHhC----C---------Cc-EEEECCCCchHHHHH
Confidence 578999999987651 2 12 699999999999754
No 63
>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=96.17 E-value=0.004 Score=58.59 Aligned_cols=22 Identities=36% Similarity=0.699 Sum_probs=19.3
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+|.||||||||+++..++.
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~ 24 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALAR 24 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHh
Confidence 5689999999999998888775
No 64
>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=96.14 E-value=0.0034 Score=60.27 Aligned_cols=19 Identities=47% Similarity=0.875 Sum_probs=17.2
Q ss_pred EEeCCCCCChhHHHHHHHH
Q 042849 693 LVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 693 LIQGPPGTGKTkTI~~LL~ 711 (1019)
||.||||||||+++..+..
T Consensus 2 ll~G~~G~GKT~l~~~la~ 20 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQ 20 (132)
T ss_dssp EEESSTTSSHHHHHHHHHH
T ss_pred EEECcCCCCeeHHHHHHHh
Confidence 8999999999998888776
No 65
>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=96.04 E-value=0.0094 Score=68.15 Aligned_cols=45 Identities=20% Similarity=0.209 Sum_probs=32.7
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-+.|.++|..++.....+. ..+..+|.||||||||+++..++..+
T Consensus 20 Re~e~~~l~~~l~~~~~~~-------~~~~i~I~G~~GtGKT~l~~~~~~~l 64 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGS-------RPSNVFIYGKTGTGKTAVTKYVMKEL 64 (365)
T ss_pred cHHHHHHHHHHHHHHHcCC-------CCCcEEEECCCCCCHHHHHHHHHHHH
Confidence 5678888887765332221 23568999999999999998888754
No 66
>PRK06851 hypothetical protein; Provisional
Probab=96.04 E-value=0.011 Score=68.58 Aligned_cols=59 Identities=22% Similarity=0.345 Sum_probs=45.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCC
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLC 769 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~ 769 (1019)
.+.+|.||||||||+++..|+..+.. ..
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~----------------------------------------------------~g 58 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLE----------------------------------------------------KG 58 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHH----------------------------------------------------cC
Confidence 67899999999999999988874310 01
Q ss_pred CCCcEEEEecCchhHHHHHHHHHhcCcccCc
Q 042849 770 PKPRMLVCAPSNAATDELLTRVLDRGFIDGE 800 (1019)
Q Consensus 770 ~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~ 800 (1019)
..-..+.|+..|.++|-|+-+=++.+++|+.
T Consensus 59 ~~Ve~~~~~~d~~slDgviip~l~~aivDgt 89 (367)
T PRK06851 59 YDVEFLHCSSDNDSLDGVIIPELKIAILDGT 89 (367)
T ss_pred CeEEEEEcCCCCCceeeEEecCCCEEEEcCC
Confidence 1335789999999999998887777777764
No 67
>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=96.04 E-value=0.026 Score=58.79 Aligned_cols=71 Identities=20% Similarity=0.131 Sum_probs=48.8
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHH-HHHHHHHHhhhhhhhhhhhhcCcccccCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWG-MLNVIHLVQYQHYYNSLLKKLAPESYKQP 737 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~-LL~~Lll~~~q~~~~sLlk~l~~~~~kq~ 737 (1019)
..+++-|.+|+...+. | .-.||.+|+|+|||.++.. ++..+ .+ .
T Consensus 20 ~~~~~~Q~~~~~~~~~----~----------~~~li~~~TG~GKT~~~~~~~l~~~------------~~--------~- 64 (203)
T cd00268 20 EKPTPIQARAIPPLLS----G----------RDVIGQAQTGSGKTAAFLIPILEKL------------DP--------S- 64 (203)
T ss_pred CCCCHHHHHHHHHHhc----C----------CcEEEECCCCCcHHHHHHHHHHHHH------------Hh--------h-
Confidence 3589999999986651 1 2279999999999977422 22211 00 0
Q ss_pred CCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 738 NESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 738 ~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
....++++||++|+.+-+.++...+.+
T Consensus 65 -----------------------------~~~~~~~viii~p~~~L~~q~~~~~~~ 91 (203)
T cd00268 65 -----------------------------PKKDGPQALILAPTRELALQIAEVARK 91 (203)
T ss_pred -----------------------------cccCCceEEEEcCCHHHHHHHHHHHHH
Confidence 001367999999999999998887743
No 68
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.04 E-value=0.03 Score=67.74 Aligned_cols=23 Identities=26% Similarity=0.304 Sum_probs=20.5
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
++++||.+|+.+-+.++..||.+
T Consensus 25 g~~vLvlvP~i~L~~Q~~~~l~~ 47 (505)
T TIGR00595 25 GKSVLVLVPEIALTPQMIQRFKY 47 (505)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHH
Confidence 56899999999999999999854
No 69
>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=96.00 E-value=0.014 Score=60.03 Aligned_cols=20 Identities=50% Similarity=0.710 Sum_probs=17.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||-||||||||.+...++.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~ 21 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLY 21 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 69999999999998888765
No 70
>PRK13766 Hef nuclease; Provisional
Probab=95.95 E-value=0.059 Score=68.21 Aligned_cols=40 Identities=18% Similarity=0.234 Sum_probs=26.7
Q ss_pred ccCcEEEEecccchhHHHhhh--cCCCCEEEEcCCCCCCccc
Q 042849 944 NEAEIVFTTVSSSGRKLFSRL--THGFDMVVIDEAAQASEVG 983 (1019)
Q Consensus 944 ~eA~IV~sTlSssg~~ll~~l--~~~FDvVIIDEAAQa~E~s 983 (1019)
..++||++|.......++... ...|++||||||-.+....
T Consensus 106 ~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~ 147 (773)
T PRK13766 106 EKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNY 147 (773)
T ss_pred hCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCccccccc
Confidence 357899999765544333221 2369999999998877543
No 71
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=95.92 E-value=0.01 Score=73.48 Aligned_cols=68 Identities=24% Similarity=0.252 Sum_probs=49.6
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.||+.|.+|+... .+-.||-..||||||+|+..=+.-+ + ..
T Consensus 2 ~Ln~~Q~~av~~~----------------~gp~lV~AGaGsGKT~vlt~Ria~l--i----------~~----------- 42 (655)
T COG0210 2 KLNPEQREAVLHP----------------DGPLLVLAGAGSGKTRVLTERIAYL--I----------AA----------- 42 (655)
T ss_pred CCCHHHHHHHhcC----------------CCCeEEEECCCCCchhhHHHHHHHH--H----------Hc-----------
Confidence 6999999999731 2335777779999999998865422 1 10
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
+ ......||+.+-||.|+.|+..|+..
T Consensus 43 --------~-------------------~v~p~~Il~vTFTnkAA~em~~Rl~~ 69 (655)
T COG0210 43 --------G-------------------GVDPEQILAITFTNKAAAEMRERLLK 69 (655)
T ss_pred --------C-------------------CcChHHeeeeechHHHHHHHHHHHHH
Confidence 0 01134699999999999999999965
No 72
>PTZ00110 helicase; Provisional
Probab=95.80 E-value=0.091 Score=64.14 Aligned_cols=32 Identities=22% Similarity=0.141 Sum_probs=24.8
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHT 705 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkT 705 (1019)
.+.+-|.+||-.++. | .. .|+++|.|+|||.+
T Consensus 152 ~pt~iQ~~aip~~l~----G---------~d-vI~~ApTGSGKTla 183 (545)
T PTZ00110 152 EPTPIQVQGWPIALS----G---------RD-MIGIAETGSGKTLA 183 (545)
T ss_pred CCCHHHHHHHHHHhc----C---------CC-EEEEeCCCChHHHH
Confidence 478999999987661 2 12 58999999999964
No 73
>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=95.65 E-value=0.036 Score=72.99 Aligned_cols=23 Identities=13% Similarity=0.164 Sum_probs=19.6
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+|+++-|--.|+-.++.|+-+
T Consensus 111 ~~~I~~tQPRRlAA~svA~RvA~ 133 (1283)
T TIGR01967 111 HGLIGHTQPRRLAARTVAQRIAE 133 (1283)
T ss_pred CceEecCCccHHHHHHHHHHHHH
Confidence 45788888999999999999865
No 74
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=95.60 E-value=0.0079 Score=65.05 Aligned_cols=25 Identities=36% Similarity=0.733 Sum_probs=21.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
|--+|-||||||||+.|..+...|+
T Consensus 49 P~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred CceEeeCCCCCchhhHHHHHHHHHh
Confidence 5579999999999999999987664
No 75
>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=95.58 E-value=0.081 Score=58.04 Aligned_cols=58 Identities=21% Similarity=0.273 Sum_probs=35.1
Q ss_pred ccCcEEEEecccch-----h--HHHhhhcCCCCEEEEcCCCCCCccccc-----cccccCCCeEEEecCCCCC
Q 042849 944 NEAEIVFTTVSSSG-----R--KLFSRLTHGFDMVVIDEAAQASEVGVL-----PPLSLGAARCVLGGGSSAA 1004 (1019)
Q Consensus 944 ~eA~IV~sTlSssg-----~--~ll~~l~~~FDvVIIDEAAQa~E~stL-----IPL~~g~kr~ILVGDpkQL 1004 (1019)
...+||++|..... . ..+.. ..|+.||||||-.+....+. .-|. +..+++|-|-|-+=
T Consensus 106 ~~~~vvi~ty~~~~~~~~~~~~~~l~~--~~~~~vIvDEaH~~k~~~s~~~~~l~~l~-~~~~~lLSgTP~~n 175 (299)
T PF00176_consen 106 PKYDVVITTYETLRKARKKKDKEDLKQ--IKWDRVIVDEAHRLKNKDSKRYKALRKLR-ARYRWLLSGTPIQN 175 (299)
T ss_dssp CCSSEEEEEHHHHH--TSTHTTHHHHT--SEEEEEEETTGGGGTTTTSHHHHHHHCCC-ECEEEEE-SS-SSS
T ss_pred ccceeeecccccccccccccccccccc--ccceeEEEecccccccccccccccccccc-cceEEeeccccccc
Confidence 45788888877655 1 12332 36999999999887443332 2222 45678888877653
No 76
>PLN03025 replication factor C subunit; Provisional
Probab=95.57 E-value=0.018 Score=65.26 Aligned_cols=24 Identities=38% Similarity=0.819 Sum_probs=20.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+..|++||||||||+++.++...+
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~l 58 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHEL 58 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHH
Confidence 447999999999999999888754
No 77
>PRK08181 transposase; Validated
Probab=95.55 E-value=0.02 Score=63.76 Aligned_cols=44 Identities=25% Similarity=0.248 Sum_probs=31.7
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+|..|..|+..+-.-. +...-.+|+||||||||+...+|...
T Consensus 86 ~~~~~~~~~~L~~~~~~~----------~~~~nlll~Gp~GtGKTHLa~Aia~~ 129 (269)
T PRK08181 86 PMVSKAQVMAIAAGDSWL----------AKGANLLLFGPPGGGKSHLAAAIGLA 129 (269)
T ss_pred CCCCHHHHHHHHHHHHHH----------hcCceEEEEecCCCcHHHHHHHHHHH
Confidence 568899999987551000 01233799999999999999988764
No 78
>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=95.50 E-value=0.18 Score=63.92 Aligned_cols=69 Identities=26% Similarity=0.266 Sum_probs=48.2
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.+.+-|.+||..++ .|. =.+|+-|.|||||-. .+|-+|. .+++
T Consensus 36 ~p~~~Q~~ai~~il----~G~----------nvvv~apTGSGKTla--~~LPiL~---------~l~~------------ 78 (742)
T TIGR03817 36 RPWQHQARAAELAH----AGR----------HVVVATGTASGKSLA--YQLPVLS---------ALAD------------ 78 (742)
T ss_pred cCCHHHHHHHHHHH----CCC----------CEEEECCCCCcHHHH--HHHHHHH---------HHhh------------
Confidence 58999999998765 121 179999999999943 2222211 0110
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHhc
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLDR 794 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~~ 794 (1019)
.++.++|+.+||.+-+.++..++.+.
T Consensus 79 -----------------------------~~~~~aL~l~PtraLa~q~~~~l~~l 104 (742)
T TIGR03817 79 -----------------------------DPRATALYLAPTKALAADQLRAVREL 104 (742)
T ss_pred -----------------------------CCCcEEEEEcChHHHHHHHHHHHHHh
Confidence 13578999999999999999998653
No 79
>PRK06893 DNA replication initiation factor; Validated
Probab=95.43 E-value=0.012 Score=63.55 Aligned_cols=25 Identities=28% Similarity=0.425 Sum_probs=21.6
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.++.+|+|||||||||++.++...+
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~~ 63 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNHY 63 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH
Confidence 4678999999999999999988654
No 80
>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=95.38 E-value=0.2 Score=61.61 Aligned_cols=33 Identities=30% Similarity=0.307 Sum_probs=25.7
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHT 705 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkT 705 (1019)
..|++-|.+||..++. | .. .||..|.|+|||.+
T Consensus 12 ~~fr~~Q~~~i~~il~----g---------~d-vlv~~PTG~GKTl~ 44 (591)
T TIGR01389 12 DDFRPGQEEIISHVLD----G---------RD-VLVVMPTGGGKSLC 44 (591)
T ss_pred CCCCHHHHHHHHHHHc----C---------CC-EEEEcCCCccHhHH
Confidence 3689999999987651 2 12 69999999999954
No 81
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.36 E-value=0.0094 Score=67.11 Aligned_cols=24 Identities=38% Similarity=0.601 Sum_probs=20.2
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.+-|++||||||||....++..-
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQk 200 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQK 200 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHh
Confidence 478999999999999988777653
No 82
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=95.31 E-value=0.07 Score=70.27 Aligned_cols=43 Identities=16% Similarity=0.219 Sum_probs=26.1
Q ss_pred cCcEEEEecccchhHHHhh-hcCCCCEEEEcCCC-CCCccccccc
Q 042849 945 EAEIVFTTVSSSGRKLFSR-LTHGFDMVVIDEAA-QASEVGVLPP 987 (1019)
Q Consensus 945 eA~IV~sTlSssg~~ll~~-l~~~FDvVIIDEAA-Qa~E~stLIP 987 (1019)
..+|+++|..-.-..+... .-..+++||||||= ...+...+..
T Consensus 163 ~t~I~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfLLg 207 (1294)
T PRK11131 163 NTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILG 207 (1294)
T ss_pred CCCEEEEChHHHHHHHhcCCccccCcEEEecCccccccccchHHH
Confidence 4678888864332222111 11478999999999 4677666543
No 83
>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=95.29 E-value=0.013 Score=57.75 Aligned_cols=21 Identities=43% Similarity=0.741 Sum_probs=18.2
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||+||||||||+++..+...
T Consensus 2 vlL~G~~G~GKt~l~~~la~~ 22 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAAL 22 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 489999999999998887764
No 84
>PRK08084 DNA replication initiation factor; Provisional
Probab=95.27 E-value=0.029 Score=60.95 Aligned_cols=24 Identities=13% Similarity=0.329 Sum_probs=20.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+..+|+|||||||||+..++...+
T Consensus 46 ~~l~l~Gp~G~GKThLl~a~~~~~ 69 (235)
T PRK08084 46 GYIYLWSREGAGRSHLLHAACAEL 69 (235)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 467999999999999988877643
No 85
>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=95.26 E-value=0.013 Score=64.57 Aligned_cols=23 Identities=30% Similarity=0.495 Sum_probs=18.8
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.|+.||||||||+++..+...+
T Consensus 44 ~vll~GppGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 44 HMIFKGNPGTGKTTVARILGKLF 66 (261)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHH
Confidence 35899999999999887776643
No 86
>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=95.10 E-value=0.017 Score=62.76 Aligned_cols=20 Identities=40% Similarity=0.589 Sum_probs=15.0
Q ss_pred CeeEEeCCCCCChhHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~L 709 (1019)
+-.|+|||||||||++...|
T Consensus 51 ~h~lf~GPPG~GKTTLA~II 70 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLARII 70 (233)
T ss_dssp -EEEEESSTTSSHHHHHHHH
T ss_pred ceEEEECCCccchhHHHHHH
Confidence 45799999999999654433
No 87
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=95.06 E-value=0.046 Score=72.64 Aligned_cols=44 Identities=14% Similarity=0.118 Sum_probs=30.3
Q ss_pred HHhhhcCCCCEEEEcCCCCCCccc-cccccccC----CCeEEEecCCCC
Q 042849 960 LFSRLTHGFDMVVIDEAAQASEVG-VLPPLSLG----AARCVLGGGSSA 1003 (1019)
Q Consensus 960 ll~~l~~~FDvVIIDEAAQa~E~s-tLIPL~~g----~kr~ILVGDpkQ 1003 (1019)
+...+...|+.|+|||.=-..... .|+.+..+ ...+++|||++|
T Consensus 381 v~~~l~~rf~~ILVDEfQDTn~lQ~~Il~~L~~~~~~~~nLf~VGD~KQ 429 (1232)
T TIGR02785 381 AAEFYREKFKEVLVDEYQDTNLLQESILQLLKRGEEDEGNLFMVGDVKQ 429 (1232)
T ss_pred HHHHHHhCCCEEEEECCcCCCHHHHHHHHHHhccCCCCCeEEEEcCCcc
Confidence 344445689999999997655544 23344333 258999999999
No 88
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.99 E-value=0.023 Score=57.88 Aligned_cols=42 Identities=21% Similarity=0.239 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 663 GPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 663 eSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.|.+.+...+. ... + ....+.+|.||||+|||+++..++..
T Consensus 6 ~~e~~~l~~~l~-~~~--~-----~~~~~~ll~G~~G~GKT~ll~~~~~~ 47 (185)
T PF13191_consen 6 EEEIERLRDLLD-AAQ--S-----GSPRNLLLTGESGSGKTSLLRALLDR 47 (185)
T ss_dssp HHHHHHHHHTTG-GTS--S----------EEE-B-TTSSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH-HHH--c-----CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 356677766552 111 1 13478999999999999998887764
No 89
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.95 E-value=0.04 Score=63.80 Aligned_cols=44 Identities=32% Similarity=0.446 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 663 GPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 663 eSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+.|.+.|..++.....+. ..+..+|.||||||||+++..++..+
T Consensus 36 e~e~~~l~~~l~~~~~~~-------~~~~~lI~G~~GtGKT~l~~~v~~~l 79 (394)
T PRK00411 36 EEQIEELAFALRPALRGS-------RPLNVLIYGPPGTGKTTTVKKVFEEL 79 (394)
T ss_pred HHHHHHHHHHHHHHhCCC-------CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 466677776653322121 22457999999999999998887643
No 90
>TIGR00609 recB exodeoxyribonuclease V, beta subunit. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.92 E-value=0.036 Score=72.80 Aligned_cols=55 Identities=35% Similarity=0.401 Sum_probs=42.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCC
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLC 769 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~ 769 (1019)
+..||-.-+|||||+||++++--+++ .. | ..
T Consensus 10 G~~lieAsAGtGKT~ti~~~~lrll~-----------~~-------------------~-------------------~~ 40 (1087)
T TIGR00609 10 GTFLIEASAGTGKTFTIAQLYLRLLL-----------EG-------------------G-------------------PL 40 (1087)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHh-----------cC-------------------C-------------------CC
Confidence 67899999999999999998753321 10 0 01
Q ss_pred CCCcEEEEecCchhHHHHHHHHHh
Q 042849 770 PKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 770 ~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
...+|||.+.||+|..|+-.||.+
T Consensus 41 ~~~~iLvvTFT~aAt~el~~RIr~ 64 (1087)
T TIGR00609 41 TVEEILVVTFTNAATEELKTRIRG 64 (1087)
T ss_pred ChhhEEEEehhHHHHHHHHHHHHH
Confidence 246899999999999999999864
No 91
>PRK12377 putative replication protein; Provisional
Probab=94.92 E-value=0.019 Score=63.30 Aligned_cols=23 Identities=35% Similarity=0.496 Sum_probs=20.1
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.+|+|||||||||+..+|...+
T Consensus 103 ~l~l~G~~GtGKThLa~AIa~~l 125 (248)
T PRK12377 103 NFVFSGKPGTGKNHLAAAIGNRL 125 (248)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 46999999999999999998754
No 92
>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=94.92 E-value=0.018 Score=60.15 Aligned_cols=23 Identities=43% Similarity=0.679 Sum_probs=20.1
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.+|+||||||||++.++|...+
T Consensus 49 ~l~l~G~~G~GKThLa~ai~~~~ 71 (178)
T PF01695_consen 49 NLILYGPPGTGKTHLAVAIANEA 71 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEEEhhHhHHHHHHHHHHHHHh
Confidence 36999999999999999998743
No 93
>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=94.92 E-value=0.019 Score=64.29 Aligned_cols=23 Identities=39% Similarity=0.666 Sum_probs=19.1
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.||+||||||||++...+...++
T Consensus 61 vll~G~pGTGKT~lA~~ia~~l~ 83 (284)
T TIGR02880 61 MSFTGNPGTGKTTVALRMAQILH 83 (284)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 69999999999998877766543
No 94
>PRK06526 transposase; Provisional
Probab=94.66 E-value=0.023 Score=62.84 Aligned_cols=24 Identities=42% Similarity=0.588 Sum_probs=20.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-.+|+||||||||++..+|...+
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a 122 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRA 122 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHH
Confidence 346999999999999999987643
No 95
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=94.64 E-value=0.068 Score=68.09 Aligned_cols=23 Identities=13% Similarity=0.378 Sum_probs=20.3
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+|||+.|+..|+-+++.|+.+
T Consensus 48 ~~~ilvlqPrR~aA~qia~rva~ 70 (812)
T PRK11664 48 NGKIIMLEPRRLAARNVAQRLAE 70 (812)
T ss_pred CCeEEEECChHHHHHHHHHHHHH
Confidence 35899999999999999999853
No 96
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=94.61 E-value=0.025 Score=54.50 Aligned_cols=25 Identities=28% Similarity=0.582 Sum_probs=18.8
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..+.+|.||||+|||+++..++..+
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~ 28 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQL 28 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHh
Confidence 3678999999999999999888743
No 97
>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=94.60 E-value=0.048 Score=60.54 Aligned_cols=41 Identities=29% Similarity=0.456 Sum_probs=33.7
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+.+.|.+++..++. ...++.||-||+|+|||+|+.+++..
T Consensus 63 g~~~~~~~~l~~~~~------------~~~GlilisG~tGSGKTT~l~all~~ 103 (264)
T cd01129 63 GLKPENLEIFRKLLE------------KPHGIILVTGPTGSGKTTTLYSALSE 103 (264)
T ss_pred CCCHHHHHHHHHHHh------------cCCCEEEEECCCCCcHHHHHHHHHhh
Confidence 578889999987762 13578999999999999999888763
No 98
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.59 E-value=0.019 Score=67.28 Aligned_cols=21 Identities=48% Similarity=0.759 Sum_probs=19.3
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
-|+-||||||||..|++|.+-
T Consensus 238 YLLYGPPGTGKSS~IaAmAn~ 258 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIAAMANY 258 (457)
T ss_pred ceeeCCCCCCHHHHHHHHHhh
Confidence 599999999999999999874
No 99
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.58 E-value=0.053 Score=68.34 Aligned_cols=46 Identities=20% Similarity=0.346 Sum_probs=33.6
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-+.|.+.|..+|.....+.. +..+.+|.||||||||.|+..++..|
T Consensus 760 REeEIeeLasfL~paIkgsg------pnnvLYIyG~PGTGKTATVK~VLrEL 805 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIKQSG------SNQILYISGMPGTGKTATVYSVIQLL 805 (1164)
T ss_pred hHHHHHHHHHHHHHHHhcCC------CCceEEEECCCCCCHHHHHHHHHHHH
Confidence 47899999888754443321 22455699999999999998887654
No 100
>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=94.51 E-value=0.038 Score=59.27 Aligned_cols=20 Identities=45% Similarity=0.702 Sum_probs=16.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||.||||||||.++..|-.
T Consensus 25 lLl~GppGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 25 LLLIGPPGTGKTMLARRLPS 44 (206)
T ss_dssp EEEES-CCCTHHHHHHHHHH
T ss_pred eEEECCCCCCHHHHHHHHHH
Confidence 69999999999987776654
No 101
>PRK07952 DNA replication protein DnaC; Validated
Probab=94.49 E-value=0.056 Score=59.48 Aligned_cols=45 Identities=24% Similarity=0.240 Sum_probs=29.6
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
++.|..|+..|.. -+..... .....+++||||||||+++.+|...
T Consensus 78 ~~~q~~al~~a~~-~~~~~~~-----~~~~~~l~G~~GtGKThLa~aia~~ 122 (244)
T PRK07952 78 CEGQMNALSKARQ-YVEEFDG-----NIASFIFSGKPGTGKNHLAAAICNE 122 (244)
T ss_pred CchHHHHHHHHHH-HHHhhcc-----CCceEEEECCCCCCHHHHHHHHHHH
Confidence 5667777776542 1111111 1134699999999999999999874
No 102
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.40 E-value=0.06 Score=60.66 Aligned_cols=24 Identities=50% Similarity=0.880 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+..||.||||||||+++..+...+
T Consensus 37 ~~lll~Gp~GtGKT~la~~~~~~l 60 (337)
T PRK12402 37 PHLLVQGPPGSGKTAAVRALAREL 60 (337)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 357999999999999998887654
No 103
>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=94.36 E-value=0.08 Score=67.49 Aligned_cols=23 Identities=13% Similarity=0.265 Sum_probs=20.6
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
+.+|+|+.|+-.|+.+++.|+.+
T Consensus 45 ~~~ilvlqPrR~aA~qiA~rva~ 67 (819)
T TIGR01970 45 GGKIIMLEPRRLAARSAAQRLAS 67 (819)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHH
Confidence 46899999999999999999853
No 104
>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=94.27 E-value=0.035 Score=54.61 Aligned_cols=20 Identities=40% Similarity=0.572 Sum_probs=18.2
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|.||||||||+++..++.
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~ 21 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLAL 21 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHH
Confidence 69999999999999988876
No 105
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=94.25 E-value=0.025 Score=65.48 Aligned_cols=18 Identities=44% Similarity=0.732 Sum_probs=14.3
Q ss_pred eEEeCCCCCChhHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~L 709 (1019)
.+.|||||||||++...|
T Consensus 51 mIl~GPPG~GKTTlA~li 68 (436)
T COG2256 51 MILWGPPGTGKTTLARLI 68 (436)
T ss_pred eEEECCCCCCHHHHHHHH
Confidence 689999999999654443
No 106
>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=94.23 E-value=0.093 Score=56.21 Aligned_cols=24 Identities=38% Similarity=0.645 Sum_probs=20.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.||-||||||||.....++.
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~ 41 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLY 41 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHH
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHH
Confidence 346899999999999998877764
No 107
>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=94.21 E-value=0.065 Score=61.28 Aligned_cols=41 Identities=24% Similarity=0.147 Sum_probs=31.5
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.|++.-..+|..++.. ..-.||.||||||||+++..+...
T Consensus 47 y~f~~~~~~~vl~~l~~-------------~~~ilL~G~pGtGKTtla~~lA~~ 87 (327)
T TIGR01650 47 YLFDKATTKAICAGFAY-------------DRRVMVQGYHGTGKSTHIEQIAAR 87 (327)
T ss_pred ccCCHHHHHHHHHHHhc-------------CCcEEEEeCCCChHHHHHHHHHHH
Confidence 46788888888877731 123699999999999988887764
No 108
>PRK13531 regulatory ATPase RavA; Provisional
Probab=94.14 E-value=0.047 Score=65.31 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=18.1
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||.||||||||+++.+|-..
T Consensus 42 VLL~GpPGTGKT~LAraLa~~ 62 (498)
T PRK13531 42 VFLLGPPGIAKSLIARRLKFA 62 (498)
T ss_pred EEEECCCChhHHHHHHHHHHH
Confidence 799999999999988777653
No 109
>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=94.12 E-value=0.076 Score=58.73 Aligned_cols=20 Identities=35% Similarity=0.569 Sum_probs=17.1
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||.||||||||+++..|..
T Consensus 24 vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 24 VHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 59999999999998877654
No 110
>PRK09183 transposase/IS protein; Provisional
Probab=94.12 E-value=0.053 Score=60.03 Aligned_cols=43 Identities=21% Similarity=0.230 Sum_probs=29.4
Q ss_pred ccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 658 HRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 658 ~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+|..|...+..+-. . ......+|.||||||||++..+|..
T Consensus 82 ~~~~~~~~i~~L~~~~~----------i-~~~~~v~l~Gp~GtGKThLa~al~~ 124 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSF----------I-ERNENIVLLGPSGVGKTHLAIALGY 124 (259)
T ss_pred CCCCCHHHHHHHhcCCc----------h-hcCCeEEEEeCCCCCHHHHHHHHHH
Confidence 35677777776653210 0 1234578999999999999988854
No 111
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=93.96 E-value=0.081 Score=56.70 Aligned_cols=23 Identities=22% Similarity=0.494 Sum_probs=19.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+..+|+||||||||+.+.++...
T Consensus 43 ~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 43 RFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 56799999999999988877653
No 112
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=93.96 E-value=0.81 Score=59.73 Aligned_cols=58 Identities=14% Similarity=0.167 Sum_probs=36.1
Q ss_pred CcEEEEecccchhHHHhhhcCCCCEEEEcCCCCCCccccccc--c--ccCCCeEEEecCCCC
Q 042849 946 AEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAAQASEVGVLPP--L--SLGAARCVLGGGSSA 1003 (1019)
Q Consensus 946 A~IV~sTlSssg~~ll~~l~~~FDvVIIDEAAQa~E~stLIP--L--~~g~kr~ILVGDpkQ 1003 (1019)
.+||++|...............|++||||||-.+.-..+.+. + .....|++|-|=|-|
T Consensus 270 ~dVvITSYe~l~~e~~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlq 331 (1033)
T PLN03142 270 FDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQ 331 (1033)
T ss_pred CCcceecHHHHHHHHHHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCC
Confidence 456666665544332222234799999999987666544321 1 124568999999987
No 113
>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=93.94 E-value=0.089 Score=55.88 Aligned_cols=24 Identities=25% Similarity=0.369 Sum_probs=20.1
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+..+|.||||||||+++..+...
T Consensus 38 ~~~lll~G~~G~GKT~la~~~~~~ 61 (226)
T TIGR03420 38 DRFLYLWGESGSGKSHLLQAACAA 61 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 356899999999999998887653
No 114
>PHA00729 NTP-binding motif containing protein
Probab=93.90 E-value=0.042 Score=59.75 Aligned_cols=23 Identities=22% Similarity=0.339 Sum_probs=20.0
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.+|.|||||||||+..+|...+
T Consensus 19 nIlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 19 SAVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 37999999999999999988754
No 115
>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=93.87 E-value=0.066 Score=64.46 Aligned_cols=41 Identities=29% Similarity=0.466 Sum_probs=34.3
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|.+.|.+.+..++. .+.++.||-||+|+|||+|+.+++..
T Consensus 225 g~~~~~~~~l~~~~~------------~~~GlilitGptGSGKTTtL~a~L~~ 265 (486)
T TIGR02533 225 GMSPELLSRFERLIR------------RPHGIILVTGPTGSGKTTTLYAALSR 265 (486)
T ss_pred CCCHHHHHHHHHHHh------------cCCCEEEEEcCCCCCHHHHHHHHHhc
Confidence 678999999987762 24589999999999999999888763
No 116
>CHL00181 cbbX CbbX; Provisional
Probab=93.84 E-value=0.044 Score=61.59 Aligned_cols=22 Identities=36% Similarity=0.646 Sum_probs=18.3
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.|+.||||||||++...+...+
T Consensus 62 ill~G~pGtGKT~lAr~la~~~ 83 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMADIL 83 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 6899999999998887776543
No 117
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=93.84 E-value=0.2 Score=59.65 Aligned_cols=33 Identities=21% Similarity=0.239 Sum_probs=25.6
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHT 705 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkT 705 (1019)
..+++-|.+||..++. | .-.||++|.|||||.+
T Consensus 25 ~~~t~iQ~~ai~~~l~----g----------~dvi~~a~TGsGKT~a 57 (460)
T PRK11776 25 TEMTPIQAQSLPAILA----G----------KDVIAQAKTGSGKTAA 57 (460)
T ss_pred CCCCHHHHHHHHHHhc----C----------CCEEEECCCCCcHHHH
Confidence 3588999999997651 1 2279999999999953
No 118
>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=93.75 E-value=0.044 Score=53.79 Aligned_cols=21 Identities=29% Similarity=0.654 Sum_probs=18.0
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+.++-||||+||||++..+..
T Consensus 1 lii~~G~pgsGKSt~a~~l~~ 21 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAK 21 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 368999999999999888764
No 119
>PRK10876 recB exonuclease V subunit beta; Provisional
Probab=93.73 E-value=0.084 Score=69.87 Aligned_cols=62 Identities=27% Similarity=0.330 Sum_probs=42.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCCC
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKLC 769 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~ 769 (1019)
+..||-.--|||||+||+.+.-.|++ .. |. .+-+. +.-
T Consensus 18 G~~LIEASAGTGKTyTIa~lyLrLlL-----------~~-------------------g~---------~~~~~---~~L 55 (1181)
T PRK10876 18 GERLIEASAGTGKTFTIAALYLRLLL-----------GL-------------------GG---------SAAFP---RPL 55 (1181)
T ss_pred CCEEEEeCCCCcHHHHHHHHHHHHHc-----------cC-------------------Cc---------ccccc---CCC
Confidence 67999999999999999998754321 10 00 00000 000
Q ss_pred CCCcEEEEecCchhHHHHHHHHHh
Q 042849 770 PKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 770 ~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.-..|||++.||+|+.|+-.||.+
T Consensus 56 ~~~~ILvvTFT~aAt~Elr~RIr~ 79 (1181)
T PRK10876 56 TVEEILVVTFTEAATEELRGRIRS 79 (1181)
T ss_pred ChhhEEEEechHHHHHHHHHHHHH
Confidence 135899999999999999999854
No 120
>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]
Probab=93.72 E-value=0.049 Score=61.35 Aligned_cols=24 Identities=42% Similarity=0.538 Sum_probs=18.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+.-..|||||||||||...-++..
T Consensus 165 ~Pkg~ll~GppGtGKTlla~~Vaa 188 (388)
T KOG0651|consen 165 PPKGLLLYGPPGTGKTLLARAVAA 188 (388)
T ss_pred CCceeEEeCCCCCchhHHHHHHHH
Confidence 345689999999999976555443
No 121
>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=93.72 E-value=0.056 Score=60.42 Aligned_cols=22 Identities=41% Similarity=0.584 Sum_probs=18.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
-.||+||||||||+++..+...
T Consensus 32 ~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 32 HLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4799999999999988877653
No 122
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=93.69 E-value=0.03 Score=55.92 Aligned_cols=21 Identities=33% Similarity=0.560 Sum_probs=15.1
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||+|+||+|||+++..+..+
T Consensus 2 vLleg~PG~GKT~la~~lA~~ 22 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS 22 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH
T ss_pred EeeECCCccHHHHHHHHHHHH
Confidence 599999999999988877654
No 123
>PF05729 NACHT: NACHT domain
Probab=93.62 E-value=0.062 Score=53.41 Aligned_cols=23 Identities=22% Similarity=0.517 Sum_probs=19.6
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+.+|.|+||+|||++...++..+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~ 24 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQL 24 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHH
Confidence 57999999999999988887643
No 124
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=93.60 E-value=0.043 Score=62.76 Aligned_cols=21 Identities=43% Similarity=0.684 Sum_probs=15.8
Q ss_pred CeeEEeCCCCCChhHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL 710 (1019)
+=-++|||||||||++...|.
T Consensus 163 pSmIlWGppG~GKTtlArlia 183 (554)
T KOG2028|consen 163 PSMILWGPPGTGKTTLARLIA 183 (554)
T ss_pred CceEEecCCCCchHHHHHHHH
Confidence 446899999999997554443
No 125
>PRK04195 replication factor C large subunit; Provisional
Probab=93.60 E-value=0.11 Score=62.60 Aligned_cols=45 Identities=27% Similarity=0.257 Sum_probs=30.2
Q ss_pred CChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 661 FNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 661 LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|+.+.+.+...+..-..| .+....||.||||||||+++.++...
T Consensus 18 g~~~~~~~l~~~l~~~~~g-------~~~~~lLL~GppG~GKTtla~ala~e 62 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKG-------KPKKALLLYGPPGVGKTSLAHALAND 62 (482)
T ss_pred CCHHHHHHHHHHHHHHhcC-------CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 5666666666555321111 12456899999999999998877653
No 126
>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=93.59 E-value=0.15 Score=55.44 Aligned_cols=24 Identities=33% Similarity=0.404 Sum_probs=20.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.||-||||||||.....++.
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~ 43 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLW 43 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHH
Confidence 356899999999999988777654
No 127
>PRK08116 hypothetical protein; Validated
Probab=93.55 E-value=0.054 Score=60.26 Aligned_cols=23 Identities=35% Similarity=0.294 Sum_probs=19.8
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.+|+||||||||+++.+|...+
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l 138 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANEL 138 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 36999999999999999988743
No 128
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=93.54 E-value=0.06 Score=61.29 Aligned_cols=23 Identities=39% Similarity=0.527 Sum_probs=19.3
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+-.||.||||||||+++..+...
T Consensus 52 ~~~ll~GppG~GKT~la~~ia~~ 74 (328)
T PRK00080 52 DHVLLYGPPGLGKTTLANIIANE 74 (328)
T ss_pred CcEEEECCCCccHHHHHHHHHHH
Confidence 45799999999999988877653
No 129
>PRK05973 replicative DNA helicase; Provisional
Probab=93.53 E-value=0.16 Score=55.82 Aligned_cols=24 Identities=29% Similarity=0.375 Sum_probs=20.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..++||.|+||+|||.....++.
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~ 86 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAV 86 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHH
Confidence 456899999999999998877764
No 130
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=93.52 E-value=0.063 Score=51.25 Aligned_cols=21 Identities=29% Similarity=0.577 Sum_probs=18.1
Q ss_pred EEeCCCCCChhHHHHHHHHHH
Q 042849 693 LVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 693 LIQGPPGTGKTkTI~~LL~~L 713 (1019)
.|+||||+|||+++..|+..|
T Consensus 2 ~i~G~~G~GKS~l~~~l~~~l 22 (107)
T PF00910_consen 2 WIYGPPGIGKSTLAKELAKDL 22 (107)
T ss_pred EEECCCCCCHHHHHHHHHHHH
Confidence 699999999999988877644
No 131
>PRK06620 hypothetical protein; Validated
Probab=93.49 E-value=0.052 Score=58.43 Aligned_cols=21 Identities=29% Similarity=0.256 Sum_probs=17.4
Q ss_pred CeeEEeCCCCCChhHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL 710 (1019)
+..+|+||||+||||+..++.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~ 65 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQ 65 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 457999999999999877643
No 132
>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=93.45 E-value=0.065 Score=56.75 Aligned_cols=23 Identities=39% Similarity=0.733 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
++.||-||+|+|||+|+..++..
T Consensus 2 GlilI~GptGSGKTTll~~ll~~ 24 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDY 24 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 67899999999999999888763
No 133
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=93.44 E-value=0.16 Score=61.72 Aligned_cols=46 Identities=26% Similarity=0.339 Sum_probs=29.5
Q ss_pred CChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 661 FNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 661 LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.++...+-|+..+.....+. ....+-|+.||||+|||+||..|...
T Consensus 23 vhkkKv~eV~~wl~~~~~~~------~~~~iLlLtGP~G~GKtttv~~La~e 68 (519)
T PF03215_consen 23 VHKKKVEEVRSWLEEMFSGS------SPKRILLLTGPSGCGKTTTVKVLAKE 68 (519)
T ss_pred ccHHHHHHHHHHHHHHhccC------CCcceEEEECCCCCCHHHHHHHHHHH
Confidence 34445555555543322221 13468999999999999999777653
No 134
>PRK13342 recombination factor protein RarA; Reviewed
Probab=93.40 E-value=0.11 Score=61.14 Aligned_cols=21 Identities=38% Similarity=0.569 Sum_probs=17.5
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.||+||||||||+++..|..
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 468899999999988877654
No 135
>PRK06921 hypothetical protein; Provisional
Probab=93.40 E-value=0.065 Score=59.58 Aligned_cols=24 Identities=33% Similarity=0.493 Sum_probs=20.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-.+|+|||||||||++.+|...+
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l 141 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANEL 141 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHH
Confidence 457999999999999999988743
No 136
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=93.39 E-value=0.12 Score=57.57 Aligned_cols=24 Identities=42% Similarity=0.782 Sum_probs=19.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+..||+||||||||+++..+...+
T Consensus 39 ~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 39 PHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 346999999999999988877643
No 137
>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=93.26 E-value=0.071 Score=50.92 Aligned_cols=20 Identities=30% Similarity=0.724 Sum_probs=17.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|.||||+||||+...|..
T Consensus 2 I~I~G~~gsGKST~a~~La~ 21 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAE 21 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999987777765
No 138
>PRK06835 DNA replication protein DnaC; Validated
Probab=93.19 E-value=0.065 Score=61.46 Aligned_cols=24 Identities=29% Similarity=0.275 Sum_probs=20.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-.+|+|||||||||++.+|...+
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l 207 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKEL 207 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHH
Confidence 447999999999999999888743
No 139
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=93.18 E-value=0.16 Score=55.91 Aligned_cols=44 Identities=27% Similarity=0.211 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 663 GPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 663 eSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+.|+++|..-..+-+.|.. ..=.|+||+.|||||.+|.+++..+
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~p-------annvLL~G~rGtGKSSlVkall~~y 76 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLP-------ANNVLLWGARGTGKSSLVKALLNEY 76 (249)
T ss_pred HHHHHHHHHHHHHHHcCCC-------CcceEEecCCCCCHHHHHHHHHHHH
Confidence 4677776654433333332 2337999999999999999988753
No 140
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.17 E-value=0.059 Score=64.66 Aligned_cols=22 Identities=32% Similarity=0.507 Sum_probs=18.9
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-|++||||||||+++..+...+
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l 60 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSL 60 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5999999999999888887654
No 141
>PRK01172 ski2-like helicase; Provisional
Probab=93.14 E-value=0.3 Score=61.10 Aligned_cols=34 Identities=24% Similarity=0.132 Sum_probs=26.0
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
..|++.|.+||.... ...-.||++|.|+|||...
T Consensus 21 ~~l~~~Q~~ai~~l~--------------~~~nvlv~apTGSGKTl~a 54 (674)
T PRK01172 21 FELYDHQRMAIEQLR--------------KGENVIVSVPTAAGKTLIA 54 (674)
T ss_pred CCCCHHHHHHHHHHh--------------cCCcEEEECCCCchHHHHH
Confidence 458999999998643 1123799999999999653
No 142
>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=93.13 E-value=0.16 Score=58.75 Aligned_cols=26 Identities=23% Similarity=0.266 Sum_probs=21.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+.+.+|.||||||||+++-.|...+
T Consensus 77 ~r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 77 RKQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 45789999999999999888877643
No 143
>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=93.07 E-value=0.21 Score=53.41 Aligned_cols=23 Identities=35% Similarity=0.307 Sum_probs=19.4
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.||-||||+|||.....++.
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~ 38 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLY 38 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHH
Confidence 46899999999999988777653
No 144
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=93.06 E-value=0.072 Score=61.76 Aligned_cols=25 Identities=16% Similarity=0.040 Sum_probs=20.2
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.-+.|||||||||||...-++...
T Consensus 147 ~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 147 VPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 3456899999999999987777654
No 145
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=93.02 E-value=0.23 Score=53.64 Aligned_cols=24 Identities=25% Similarity=0.293 Sum_probs=20.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.+|.||||||||+....++.
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~ 47 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVY 47 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHH
Confidence 357899999999999998877764
No 146
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=93.01 E-value=0.076 Score=61.38 Aligned_cols=20 Identities=45% Similarity=0.714 Sum_probs=17.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||+||||||||+++.++..
T Consensus 159 vLL~GppGtGKT~lakaia~ 178 (364)
T TIGR01242 159 VLLYGPPGTGKTLLAKAVAH 178 (364)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 69999999999999888765
No 147
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.01 E-value=0.072 Score=61.09 Aligned_cols=24 Identities=46% Similarity=0.671 Sum_probs=18.1
Q ss_pred CCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 687 SPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 687 ~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.|++ .|+.||||||||-...+..+
T Consensus 184 PPKG-VLLYGPPGTGKTLLAkAVA~ 207 (406)
T COG1222 184 PPKG-VLLYGPPGTGKTLLAKAVAN 207 (406)
T ss_pred CCCc-eEeeCCCCCcHHHHHHHHHh
Confidence 4555 59999999999976665543
No 148
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=92.98 E-value=0.13 Score=61.12 Aligned_cols=39 Identities=23% Similarity=0.312 Sum_probs=28.4
Q ss_pred CChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 661 FNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 661 LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.+...+.+..++. ..+..++.||||||||+++..+...
T Consensus 179 i~e~~le~l~~~L~-------------~~~~iil~GppGtGKT~lA~~la~~ 217 (459)
T PRK11331 179 IPETTIETILKRLT-------------IKKNIILQGPPGVGKTFVARRLAYL 217 (459)
T ss_pred CCHHHHHHHHHHHh-------------cCCCEEEECCCCCCHHHHHHHHHHH
Confidence 45667777776663 1245799999999999988776653
No 149
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=92.97 E-value=0.16 Score=59.09 Aligned_cols=46 Identities=24% Similarity=0.343 Sum_probs=32.8
Q ss_pred CChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 661 FNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 661 LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-+.|.+.+..++.....|.. +.. .+|-||||||||.|+..+...+
T Consensus 21 ~Re~ei~~l~~~l~~~~~~~~------p~n-~~iyG~~GTGKT~~~~~v~~~l 66 (366)
T COG1474 21 HREEEINQLASFLAPALRGER------PSN-IIIYGPTGTGKTATVKFVMEEL 66 (366)
T ss_pred ccHHHHHHHHHHHHHHhcCCC------Ccc-EEEECCCCCCHhHHHHHHHHHH
Confidence 356888888877654433321 222 7999999999999998887755
No 150
>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=92.96 E-value=0.14 Score=53.47 Aligned_cols=39 Identities=31% Similarity=0.328 Sum_probs=31.9
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+++.|.+.+..++. ...+.+|-||+|+|||+++..|+.
T Consensus 9 ~~~~~~~~~l~~~v~-------------~g~~i~I~G~tGSGKTTll~aL~~ 47 (186)
T cd01130 9 TFSPLQAAYLWLAVE-------------ARKNILISGGTGSGKTTLLNALLA 47 (186)
T ss_pred CCCHHHHHHHHHHHh-------------CCCEEEEECCCCCCHHHHHHHHHh
Confidence 567888888887762 246799999999999999988775
No 151
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=92.95 E-value=0.12 Score=59.32 Aligned_cols=21 Identities=38% Similarity=0.571 Sum_probs=18.2
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||.||||||||+++.++...
T Consensus 32 vLl~G~pG~gKT~lar~la~l 52 (334)
T PRK13407 32 VLVFGDRGTGKSTAVRALAAL 52 (334)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 799999999999988777653
No 152
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=92.94 E-value=0.25 Score=53.79 Aligned_cols=23 Identities=22% Similarity=0.265 Sum_probs=19.7
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.+|-||||||||++...++.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~ 46 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAY 46 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 46899999999999998777664
No 153
>PRK14974 cell division protein FtsY; Provisional
Probab=92.91 E-value=0.22 Score=57.31 Aligned_cols=23 Identities=30% Similarity=0.280 Sum_probs=20.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.++-||||+|||+|+..+..
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~ 162 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAY 162 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHH
Confidence 35889999999999999999876
No 154
>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=92.88 E-value=0.084 Score=57.60 Aligned_cols=23 Identities=35% Similarity=0.570 Sum_probs=20.1
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.++.+|+||||+|||+++..++.
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~ 65 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLK 65 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHH
Confidence 46899999999999998887765
No 155
>PRK10436 hypothetical protein; Provisional
Probab=92.81 E-value=0.14 Score=61.43 Aligned_cols=41 Identities=37% Similarity=0.533 Sum_probs=34.2
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|.+.|.+.+..++. .+.++.||-||.|+|||+|+.++|..
T Consensus 201 G~~~~~~~~l~~~~~------------~~~GliLvtGpTGSGKTTtL~a~l~~ 241 (462)
T PRK10436 201 GMTPAQLAQFRQALQ------------QPQGLILVTGPTGSGKTVTLYSALQT 241 (462)
T ss_pred CcCHHHHHHHHHHHH------------hcCCeEEEECCCCCChHHHHHHHHHh
Confidence 578888999987763 24689999999999999999888764
No 156
>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=92.80 E-value=0.083 Score=58.37 Aligned_cols=24 Identities=21% Similarity=0.242 Sum_probs=20.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...++||.||||||||+....++.
T Consensus 35 ~gs~~lI~G~pGtGKT~l~~qf~~ 58 (259)
T TIGR03878 35 AYSVINITGVSDTGKSLMVEQFAV 58 (259)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHH
Confidence 346899999999999998877654
No 157
>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=92.80 E-value=0.22 Score=53.62 Aligned_cols=24 Identities=21% Similarity=0.394 Sum_probs=20.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.+|-||||||||+++..++.
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~ 35 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAE 35 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHH
Confidence 346899999999999999888765
No 158
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=92.71 E-value=0.087 Score=62.64 Aligned_cols=22 Identities=41% Similarity=0.582 Sum_probs=18.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...||+||||||||+++.++..
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~ 239 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVAN 239 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4579999999999998877765
No 159
>PRK08727 hypothetical protein; Validated
Probab=92.68 E-value=0.095 Score=56.94 Aligned_cols=24 Identities=33% Similarity=0.617 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...+|+|||||||||...++...+
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~ 65 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAA 65 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 457999999999999999887643
No 160
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=92.65 E-value=0.15 Score=58.23 Aligned_cols=23 Identities=35% Similarity=0.706 Sum_probs=19.4
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.|+.||||||||..+-.+...+
T Consensus 45 ~vll~G~PG~gKT~la~~lA~~l 67 (329)
T COG0714 45 HVLLEGPPGVGKTLLARALARAL 67 (329)
T ss_pred CEEEECCCCccHHHHHHHHHHHh
Confidence 37999999999999888877643
No 161
>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=92.65 E-value=0.086 Score=63.74 Aligned_cols=23 Identities=39% Similarity=0.576 Sum_probs=19.5
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.||.||||||||.++.++...+
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhh
Confidence 36999999999999988887654
No 162
>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=92.58 E-value=0.22 Score=53.00 Aligned_cols=21 Identities=33% Similarity=0.536 Sum_probs=18.9
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+-++-||+|.|||+|++.|..
T Consensus 3 vi~lvGptGvGKTTt~aKLAa 23 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAA 23 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHH
Confidence 568999999999999999875
No 163
>PRK08939 primosomal protein DnaI; Reviewed
Probab=92.49 E-value=0.089 Score=59.72 Aligned_cols=22 Identities=23% Similarity=0.304 Sum_probs=19.6
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+|+||||||||+.+.+|...+
T Consensus 159 l~L~G~~G~GKThLa~Aia~~l 180 (306)
T PRK08939 159 LYLYGDFGVGKSYLLAAIANEL 180 (306)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5899999999999999998754
No 164
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=92.46 E-value=0.096 Score=61.32 Aligned_cols=21 Identities=43% Similarity=0.597 Sum_probs=17.9
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.||.||||||||+++.++..
T Consensus 167 gvLL~GppGtGKT~lAkaia~ 187 (389)
T PRK03992 167 GVLLYGPPGTGKTLLAKAVAH 187 (389)
T ss_pred ceEEECCCCCChHHHHHHHHH
Confidence 369999999999998877765
No 165
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=92.45 E-value=0.088 Score=63.67 Aligned_cols=26 Identities=35% Similarity=0.643 Sum_probs=20.3
Q ss_pred CCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 686 KSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 686 k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.+++| |++||||||||.+.-+|..-
T Consensus 221 ~PprGv-LlHGPPGCGKT~lA~AiAge 246 (802)
T KOG0733|consen 221 RPPRGV-LLHGPPGCGKTSLANAIAGE 246 (802)
T ss_pred CCCCce-eeeCCCCccHHHHHHHHhhh
Confidence 345554 99999999999988777653
No 166
>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=92.43 E-value=0.15 Score=62.55 Aligned_cols=41 Identities=37% Similarity=0.508 Sum_probs=34.0
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|.+.|.+.+..++. .+.++.||-||+|+|||||+.+++..
T Consensus 299 g~~~~~~~~l~~~~~------------~~~Glilv~G~tGSGKTTtl~a~l~~ 339 (564)
T TIGR02538 299 GFEPDQKALFLEAIH------------KPQGMVLVTGPTGSGKTVSLYTALNI 339 (564)
T ss_pred CCCHHHHHHHHHHHH------------hcCCeEEEECCCCCCHHHHHHHHHHh
Confidence 677888999987763 24588999999999999999888864
No 167
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=92.34 E-value=0.19 Score=57.53 Aligned_cols=41 Identities=22% Similarity=0.230 Sum_probs=31.4
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.|++.|.+.+..|+.. +.-.||-||+|+|||+++.+|+..+
T Consensus 128 ~~~~~~~~~L~~~v~~-------------~~nilI~G~tGSGKTTll~aL~~~i 168 (323)
T PRK13833 128 IMTEAQASVIRSAIDS-------------RLNIVISGGTGSGKTTLANAVIAEI 168 (323)
T ss_pred CCCHHHHHHHHHHHHc-------------CCeEEEECCCCCCHHHHHHHHHHHH
Confidence 4777888888877631 1236999999999999998888643
No 168
>PRK04328 hypothetical protein; Provisional
Probab=92.31 E-value=0.3 Score=53.71 Aligned_cols=24 Identities=33% Similarity=0.404 Sum_probs=20.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.||-||||||||.....++.
T Consensus 22 ~gs~ili~G~pGsGKT~l~~~fl~ 45 (249)
T PRK04328 22 ERNVVLLSGGPGTGKSIFSQQFLW 45 (249)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHH
Confidence 346899999999999988777664
No 169
>PRK05642 DNA replication initiation factor; Validated
Probab=92.30 E-value=0.12 Score=56.21 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=19.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...+|+||+||||||...++.+.+
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~ 69 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRF 69 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 456999999999999988876543
No 170
>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=92.29 E-value=0.29 Score=53.81 Aligned_cols=24 Identities=17% Similarity=0.159 Sum_probs=20.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+++|.||||+|||+++..++.
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~ 52 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYAL 52 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHH
Confidence 346899999999999999888764
No 171
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=92.24 E-value=0.48 Score=56.52 Aligned_cols=42 Identities=14% Similarity=0.141 Sum_probs=30.9
Q ss_pred ccCcEEEEecccchhHHHhhh--cCCCCEEEEcCCCCCCccccc
Q 042849 944 NEAEIVFTTVSSSGRKLFSRL--THGFDMVVIDEAAQASEVGVL 985 (1019)
Q Consensus 944 ~eA~IV~sTlSssg~~ll~~l--~~~FDvVIIDEAAQa~E~stL 985 (1019)
..++|+++|....-.++.... ...|.+||+|||-.|+=-...
T Consensus 106 ~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAY 149 (542)
T COG1111 106 AKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAY 149 (542)
T ss_pred hhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchH
Confidence 467999999987666655432 136899999999998865443
No 172
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=92.20 E-value=0.11 Score=62.04 Aligned_cols=26 Identities=42% Similarity=0.815 Sum_probs=21.4
Q ss_pred CCCCeeE-EeCCCCCChhHHHHHHHHH
Q 042849 687 SPWPFTL-VQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 687 ~~~~fsL-IQGPPGTGKTkTI~~LL~~ 712 (1019)
.|.||-+ |-||||||||++|..||..
T Consensus 66 ~PPPfIvavvGPpGtGKsTLirSlVrr 92 (1077)
T COG5192 66 LPPPFIVAVVGPPGTGKSTLIRSLVRR 92 (1077)
T ss_pred CCCCeEEEeecCCCCChhHHHHHHHHH
Confidence 3556554 9999999999999999874
No 173
>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=92.17 E-value=0.39 Score=60.45 Aligned_cols=23 Identities=0% Similarity=0.141 Sum_probs=20.3
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..||+.|+.|+.-+.+++.-|.+
T Consensus 60 ~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 60 VRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred cccEEEEcccchHHHHHHHHHHh
Confidence 46999999999999999998865
No 174
>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=92.13 E-value=0.27 Score=59.28 Aligned_cols=24 Identities=38% Similarity=0.415 Sum_probs=20.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..++||-||||||||++...++.
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~ 285 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLE 285 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 456899999999999998777765
No 175
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=92.09 E-value=0.12 Score=60.88 Aligned_cols=21 Identities=43% Similarity=0.607 Sum_probs=17.9
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.||.||||||||+++.++..
T Consensus 181 gvLL~GppGTGKT~LAkalA~ 201 (398)
T PTZ00454 181 GVLLYGPPGTGKTMLAKAVAH 201 (398)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 469999999999998877765
No 176
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=92.08 E-value=0.21 Score=56.11 Aligned_cols=42 Identities=21% Similarity=0.222 Sum_probs=28.4
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..++...+.+...+.. | ....+-||.||||||||+++.++..
T Consensus 24 ~~~~~~~~~l~~~~~~---~-------~~~~~lll~G~~G~GKT~la~~l~~ 65 (316)
T PHA02544 24 ILPAADKETFKSIVKK---G-------RIPNMLLHSPSPGTGKTTVAKALCN 65 (316)
T ss_pred cCcHHHHHHHHHHHhc---C-------CCCeEEEeeCcCCCCHHHHHHHHHH
Confidence 4566666666655521 1 1234677799999999999887765
No 177
>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=92.05 E-value=0.24 Score=50.47 Aligned_cols=22 Identities=27% Similarity=0.505 Sum_probs=18.5
Q ss_pred CCcEEEEecCchhHHHHHHHHH
Q 042849 771 KPRMLVCAPSNAATDELLTRVL 792 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl 792 (1019)
+.|+||.+||-..++|+.+-|.
T Consensus 33 ~~rvLvL~PTRvva~em~~aL~ 54 (148)
T PF07652_consen 33 RLRVLVLAPTRVVAEEMYEALK 54 (148)
T ss_dssp T--EEEEESSHHHHHHHHHHTT
T ss_pred cCeEEEecccHHHHHHHHHHHh
Confidence 7899999999999999999874
No 178
>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=92.05 E-value=0.099 Score=63.00 Aligned_cols=21 Identities=43% Similarity=0.640 Sum_probs=18.4
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|+.||||||||+++.+|...
T Consensus 91 iLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 91 VLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 699999999999998887653
No 179
>PRK00254 ski2-like helicase; Provisional
Probab=92.04 E-value=0.41 Score=60.42 Aligned_cols=68 Identities=22% Similarity=0.218 Sum_probs=48.3
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHH-HHHHHHHHhhhhhhhhhhhhcCcccccCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWG-MLNVIHLVQYQHYYNSLLKKLAPESYKQP 737 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~-LL~~Lll~~~q~~~~sLlk~l~~~~~kq~ 737 (1019)
..||+.|.+||...+.. ..=.||+.|.|+|||.+... ++.. ++
T Consensus 22 ~~l~~~Q~~ai~~~~~~-------------g~nvlv~apTGsGKT~~~~l~il~~------------l~----------- 65 (720)
T PRK00254 22 EELYPPQAEALKSGVLE-------------GKNLVLAIPTASGKTLVAEIVMVNK------------LL----------- 65 (720)
T ss_pred CCCCHHHHHHHHHHHhC-------------CCcEEEECCCCcHHHHHHHHHHHHH------------HH-----------
Confidence 46999999999854421 12269999999999965522 2211 11
Q ss_pred CCCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 738 NESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 738 ~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.++|+++|+.+-+++...++..
T Consensus 66 -------------------------------~~~~~~l~l~P~~aLa~q~~~~~~~ 90 (720)
T PRK00254 66 -------------------------------REGGKAVYLVPLKALAEEKYREFKD 90 (720)
T ss_pred -------------------------------hcCCeEEEEeChHHHHHHHHHHHHH
Confidence 0256899999999999999988853
No 180
>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=92.04 E-value=0.12 Score=49.38 Aligned_cols=20 Identities=30% Similarity=0.440 Sum_probs=17.2
Q ss_pred EEeCCCCCChhHHHHHHHHH
Q 042849 693 LVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 693 LIQGPPGTGKTkTI~~LL~~ 712 (1019)
+|.|+||+|||+++..|...
T Consensus 2 ~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEESTTSSHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 79999999999888777664
No 181
>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=91.94 E-value=0.29 Score=55.97 Aligned_cols=23 Identities=17% Similarity=0.471 Sum_probs=20.9
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..++++++|+.+.++++..++..
T Consensus 29 ~~~ii~v~P~~~L~~q~~~~l~~ 51 (358)
T TIGR01587 29 ADRVIIALPTRATINAMYRRAKE 51 (358)
T ss_pred CCeEEEEeehHHHHHHHHHHHHH
Confidence 56999999999999999999865
No 182
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=91.89 E-value=0.17 Score=44.43 Aligned_cols=24 Identities=33% Similarity=0.623 Sum_probs=21.0
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.++||.||.|+|||+.+=+|..+|
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~~L 47 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQTVL 47 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHH
Confidence 389999999999999888887755
No 183
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=91.86 E-value=0.36 Score=53.04 Aligned_cols=24 Identities=42% Similarity=0.613 Sum_probs=20.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.||.||||||||.....++.
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~ 45 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLY 45 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHH
Confidence 357899999999999998888775
No 184
>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=91.83 E-value=0.18 Score=50.23 Aligned_cols=26 Identities=27% Similarity=0.354 Sum_probs=20.1
Q ss_pred CCCeeE-EeCCCCCChhHHHHHHHHHH
Q 042849 688 PWPFTL-VQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 688 ~~~fsL-IQGPPGTGKTkTI~~LL~~L 713 (1019)
.+|++| ..||||||||++..-|...|
T Consensus 51 ~KpLVlSfHG~tGtGKn~v~~liA~~l 77 (127)
T PF06309_consen 51 RKPLVLSFHGWTGTGKNFVSRLIAEHL 77 (127)
T ss_pred CCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence 446544 79999999999887777654
No 185
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=91.78 E-value=0.14 Score=54.81 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=20.1
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+++|.||||||||++...++.
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~ 45 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAV 45 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHH
Confidence 46899999999999998877764
No 186
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=91.76 E-value=0.13 Score=56.87 Aligned_cols=23 Identities=39% Similarity=0.647 Sum_probs=20.1
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.++-||||||||+..++|...+
T Consensus 107 nl~l~G~~G~GKThLa~Ai~~~l 129 (254)
T COG1484 107 NLVLLGPPGVGKTHLAIAIGNEL 129 (254)
T ss_pred cEEEECCCCCcHHHHHHHHHHHH
Confidence 46999999999999999998754
No 187
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=91.74 E-value=0.25 Score=56.54 Aligned_cols=40 Identities=33% Similarity=0.298 Sum_probs=30.7
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+++.|.+.+..|+. .....||-||||+|||+++.+|+..
T Consensus 132 ~~~~~~~~~L~~~v~-------------~~~~ilI~G~tGSGKTTll~aL~~~ 171 (319)
T PRK13894 132 IMTAAQREAIIAAVR-------------AHRNILVIGGTGSGKTTLVNAIINE 171 (319)
T ss_pred CCCHHHHHHHHHHHH-------------cCCeEEEECCCCCCHHHHHHHHHHh
Confidence 367778888876662 1245799999999999999888763
No 188
>PHA02624 large T antigen; Provisional
Probab=91.57 E-value=0.23 Score=60.83 Aligned_cols=24 Identities=29% Similarity=0.522 Sum_probs=21.6
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+..-||+||||||||+.+.+|+..
T Consensus 431 k~~il~~GPpnTGKTtf~~sLl~~ 454 (647)
T PHA02624 431 RRYWLFKGPVNSGKTTLAAALLDL 454 (647)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999999999874
No 189
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=91.53 E-value=0.14 Score=53.11 Aligned_cols=22 Identities=32% Similarity=0.712 Sum_probs=18.1
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-+|.||||+||||++..++..+
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l 23 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEEL 23 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHHh
Confidence 3899999999999999988743
No 190
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.47 E-value=0.42 Score=59.45 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=20.7
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
+++|+||+.|+...++++++...
T Consensus 63 ~~~viist~t~~lq~q~~~~~~~ 85 (654)
T COG1199 63 GKKVIISTRTKALQEQLLEEDLP 85 (654)
T ss_pred CCcEEEECCCHHHHHHHHHhhcc
Confidence 58999999999999999999854
No 191
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=91.37 E-value=2.3 Score=54.67 Aligned_cols=33 Identities=18% Similarity=0.334 Sum_probs=25.2
Q ss_pred cCcEEEEecccchhHHHhhhcCCCCEEEEcCCC
Q 042849 945 EAEIVFTTVSSSGRKLFSRLTHGFDMVVIDEAA 977 (1019)
Q Consensus 945 eA~IV~sTlSssg~~ll~~l~~~FDvVIIDEAA 977 (1019)
+.+|+.+|.....+.+-.....+||.|+||..-
T Consensus 181 dfdIlitTs~FL~k~~e~L~~~kFdfifVDDVD 213 (1187)
T COG1110 181 DFDILITTSQFLSKRFEELSKLKFDFIFVDDVD 213 (1187)
T ss_pred CccEEEEeHHHHHhhHHHhcccCCCEEEEccHH
Confidence 679999999887765544334589999999864
No 192
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=91.35 E-value=0.29 Score=55.69 Aligned_cols=42 Identities=24% Similarity=0.253 Sum_probs=28.4
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
++...+.+..++.+ | .....-|++||||||||+++..+...+
T Consensus 19 ~~~~~~~l~~~~~~---~-------~~~~~~Ll~G~~G~GKt~~a~~la~~l 60 (355)
T TIGR02397 19 QEHIVQTLKNAIKN---G-------RIAHAYLFSGPRGTGKTSIARIFAKAL 60 (355)
T ss_pred cHHHHHHHHHHHHc---C-------CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 55556666655521 1 112356999999999999988887754
No 193
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.34 E-value=0.14 Score=59.40 Aligned_cols=23 Identities=26% Similarity=0.325 Sum_probs=19.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-|+.||||||||+++..+...+
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l 62 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSL 62 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHh
Confidence 35999999999999998887754
No 194
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.22 E-value=0.17 Score=59.08 Aligned_cols=25 Identities=28% Similarity=0.282 Sum_probs=22.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
...+.++-||+|+|||+|++.|...
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~ 160 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAAR 160 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 3578999999999999999999863
No 195
>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=91.22 E-value=0.33 Score=55.01 Aligned_cols=40 Identities=25% Similarity=0.283 Sum_probs=30.5
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+.+.|.+.+..|+. .....||-||+|+|||+++.+|+..
T Consensus 116 ~~~~~~~~~L~~~v~-------------~~~~ilI~G~tGSGKTTll~al~~~ 155 (299)
T TIGR02782 116 IMTAAQRDVLREAVL-------------ARKNILVVGGTGSGKTTLANALLAE 155 (299)
T ss_pred CCCHHHHHHHHHHHH-------------cCCeEEEECCCCCCHHHHHHHHHHH
Confidence 467777777777662 1245799999999999999888863
No 196
>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=91.19 E-value=0.16 Score=54.05 Aligned_cols=24 Identities=42% Similarity=0.534 Sum_probs=20.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|.||||||||++...++.
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~~a~ 41 (218)
T cd01394 18 RGTVTQVYGPPGTGKTNIAIQLAV 41 (218)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 346899999999999998888765
No 197
>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=91.15 E-value=0.55 Score=50.36 Aligned_cols=24 Identities=38% Similarity=0.391 Sum_probs=20.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.+|.||||||||++...++.
T Consensus 19 ~G~~~~i~G~~G~GKT~l~~~~~~ 42 (229)
T TIGR03881 19 RGFFVAVTGEPGTGKTIFCLHFAY 42 (229)
T ss_pred CCeEEEEECCCCCChHHHHHHHHH
Confidence 346899999999999998877764
No 198
>PRK04296 thymidine kinase; Provisional
Probab=91.14 E-value=0.17 Score=53.31 Aligned_cols=23 Identities=13% Similarity=0.228 Sum_probs=19.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+.||.||||+|||+.+..++..
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~ 25 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYN 25 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHH
Confidence 47899999999999988887753
No 199
>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=91.12 E-value=0.17 Score=53.37 Aligned_cols=24 Identities=33% Similarity=0.490 Sum_probs=20.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|.||||||||+....++.
T Consensus 11 ~g~i~~i~G~~GsGKT~l~~~~~~ 34 (209)
T TIGR02237 11 RGTITQIYGPPGSGKTNICMILAV 34 (209)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 357899999999999998876654
No 200
>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B. DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.
Probab=91.03 E-value=5.5 Score=53.27 Aligned_cols=37 Identities=14% Similarity=-0.004 Sum_probs=26.4
Q ss_pred CCEEEEcCCCCCCccc--cccccccCCCeEEEecCCCCC
Q 042849 968 FDMVVIDEAAQASEVG--VLPPLSLGAARCVLGGGSSAA 1004 (1019)
Q Consensus 968 FDvVIIDEAAQa~E~s--tLIPL~~g~kr~ILVGDpkQL 1004 (1019)
+..|+|||....+..+ .+=.|...++.+.+|||.-|-
T Consensus 197 ~~~I~VDeFqdf~~~Q~~lI~~L~~~~~~v~Vv~d~Dq~ 235 (1158)
T TIGR02773 197 GAEIYIDGFHSFTPQEYSVIGALMKKAKKVTVTLTLDGP 235 (1158)
T ss_pred CCEEEEccCCCCCHHHHHHHHHHHHhCCcEEEEEEeCCc
Confidence 4689999998766543 333443357889999988876
No 201
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=91.00 E-value=0.32 Score=52.49 Aligned_cols=23 Identities=35% Similarity=0.521 Sum_probs=19.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..+|+||+|+||||.+.++...+
T Consensus 36 ~l~l~G~~G~GKTHLL~Ai~~~~ 58 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHLLQAIANEA 58 (219)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH
T ss_pred ceEEECCCCCCHHHHHHHHHHHH
Confidence 35899999999999988887754
No 202
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.97 E-value=0.16 Score=61.53 Aligned_cols=23 Identities=35% Similarity=0.499 Sum_probs=19.7
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
-|+.||||||||+++..+...+.
T Consensus 39 ~Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 39 YLFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred EEEECCCCCCHHHHHHHHHHHHh
Confidence 49999999999999988877653
No 203
>PHA02244 ATPase-like protein
Probab=90.95 E-value=0.17 Score=58.80 Aligned_cols=21 Identities=24% Similarity=0.501 Sum_probs=18.0
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||+||||||||+.+.+|...
T Consensus 122 VLL~GppGtGKTtLA~aLA~~ 142 (383)
T PHA02244 122 VFLKGGAGSGKNHIAEQIAEA 142 (383)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999988887653
No 204
>CHL00195 ycf46 Ycf46; Provisional
Probab=90.93 E-value=0.16 Score=61.34 Aligned_cols=24 Identities=38% Similarity=0.439 Sum_probs=19.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+++ .|+.||||||||.++.++...
T Consensus 259 pkG-ILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 259 PRG-LLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred Cce-EEEECCCCCcHHHHHHHHHHH
Confidence 344 499999999999988888664
No 205
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=90.84 E-value=0.21 Score=59.35 Aligned_cols=38 Identities=39% Similarity=0.423 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 664 PQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 664 SQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.|..|-+ |+.-.++|.|. -|+-||||||||-++..|-.
T Consensus 183 GQ~~AKr-AleiAAAGgHn---------Ll~~GpPGtGKTmla~Rl~~ 220 (490)
T COG0606 183 GQEQAKR-ALEIAAAGGHN---------LLLVGPPGTGKTMLASRLPG 220 (490)
T ss_pred CcHHHHH-HHHHHHhcCCc---------EEEecCCCCchHHhhhhhcc
Confidence 4555544 33334457664 59999999999999887754
No 206
>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=90.83 E-value=0.64 Score=53.79 Aligned_cols=22 Identities=14% Similarity=0.250 Sum_probs=18.3
Q ss_pred CcEEEEecCchhHHHHHHHHHh
Q 042849 772 PRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 772 ~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.+.++.+|+++-+++..+++.+
T Consensus 40 ~~~~~~~P~~aL~~~~~~~~~~ 61 (357)
T TIGR03158 40 NDTIALYPTNALIEDQTEAIKE 61 (357)
T ss_pred CCEEEEeChHHHHHHHHHHHHH
Confidence 4678999999999998888754
No 207
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=90.79 E-value=0.14 Score=64.58 Aligned_cols=21 Identities=38% Similarity=0.588 Sum_probs=17.6
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.||+||||||||+++..+..
T Consensus 54 slLL~GPpGtGKTTLA~aIA~ 74 (725)
T PRK13341 54 SLILYGPPGVGKTTLARIIAN 74 (725)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 359999999999988877654
No 208
>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=90.77 E-value=0.46 Score=47.76 Aligned_cols=25 Identities=36% Similarity=0.437 Sum_probs=21.5
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+..+.++.||.|+|||+++.+++..
T Consensus 21 ~~~~i~l~G~lGaGKTtl~~~l~~~ 45 (133)
T TIGR00150 21 FGTVVLLKGDLGAGKTTLVQGLLQG 45 (133)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHH
Confidence 3468999999999999999888863
No 209
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=90.74 E-value=0.19 Score=51.63 Aligned_cols=25 Identities=20% Similarity=0.411 Sum_probs=21.2
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+++++|-||-|||||+++-+|..+|
T Consensus 19 ~g~~vi~G~Ng~GKStil~ai~~~L 43 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTILEAIRYAL 43 (202)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHH
Confidence 4899999999999999887776543
No 210
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=90.71 E-value=0.5 Score=57.44 Aligned_cols=37 Identities=27% Similarity=0.351 Sum_probs=28.7
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
.++-..|-++|+. +.+.+.+|||-||||||+....=|
T Consensus 211 ~TIQkEQneIIR~---------------ek~~ilVVQGaAGSGKTtiALHRv 247 (747)
T COG3973 211 ETIQKEQNEIIRF---------------EKNKILVVQGAAGSGKTTIALHRV 247 (747)
T ss_pred HHhhHhHHHHHhc---------------cCCCeEEEecCCCCCchhHHHHHH
Confidence 4566788888873 245789999999999998766544
No 211
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.70 E-value=0.16 Score=60.99 Aligned_cols=23 Identities=26% Similarity=0.358 Sum_probs=19.6
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-|++||||||||+++..+...+
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~L 64 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKRL 64 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHhc
Confidence 35999999999999988887754
No 212
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.69 E-value=0.16 Score=56.21 Aligned_cols=20 Identities=50% Similarity=0.770 Sum_probs=17.5
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.|..||||||||.+..++.+
T Consensus 154 VLFyGppGTGKTm~Akalan 173 (368)
T COG1223 154 VLFYGPPGTGKTMMAKALAN 173 (368)
T ss_pred eEEECCCCccHHHHHHHHhc
Confidence 69999999999998877754
No 213
>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=90.69 E-value=0.19 Score=51.69 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=19.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
++.+|-||||+|||+++..|..
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~ 25 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVE 25 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 6899999999999988777764
No 214
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=90.67 E-value=0.23 Score=56.03 Aligned_cols=26 Identities=42% Similarity=0.769 Sum_probs=23.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+.++.||.||-|+|||||+++||.-|
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~i 149 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYI 149 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHH
Confidence 56899999999999999999999844
No 215
>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=90.64 E-value=0.21 Score=57.50 Aligned_cols=25 Identities=40% Similarity=0.745 Sum_probs=21.9
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.++.||.||+|+|||+|+.+++..
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~ 145 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDY 145 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHh
Confidence 3478999999999999999988864
No 216
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=90.63 E-value=0.23 Score=51.39 Aligned_cols=25 Identities=36% Similarity=0.668 Sum_probs=22.0
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..+++|-||||+|||+++..++..+
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~ 56 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAAL 56 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence 4799999999999999999988644
No 217
>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=90.62 E-value=0.18 Score=59.13 Aligned_cols=23 Identities=35% Similarity=0.426 Sum_probs=19.8
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..+|+||||||||+++.++...+
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l 160 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEI 160 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHH
Confidence 35899999999999998887754
No 218
>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=90.60 E-value=0.44 Score=63.23 Aligned_cols=23 Identities=30% Similarity=0.472 Sum_probs=20.8
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+||+.+.||.|+.|+..||++
T Consensus 41 ~~~i~~~t~t~~aa~em~~Ri~~ 63 (1141)
T TIGR02784 41 PSKILCLTYTKAAAAEMQNRVFD 63 (1141)
T ss_pred CCeEEEEecCHHHHHHHHHHHHH
Confidence 46899999999999999999975
No 219
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.44 E-value=0.39 Score=59.63 Aligned_cols=47 Identities=17% Similarity=0.280 Sum_probs=31.3
Q ss_pred CChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 661 FNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 661 LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.++.+.+.|...+.....+ ..+..+.+|.||||||||+|+..+...+
T Consensus 88 ~~~~ki~~l~~~l~~~~~~------~~~~~illL~GP~GsGKTTl~~~la~~l 134 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLE------NAPKRILLITGPSGCGKSTTIKILSKEL 134 (637)
T ss_pred CcHHHHHHHHHHHHhcccc------cCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4666666677665321111 1234679999999999999988877643
No 220
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=90.38 E-value=1.1 Score=50.35 Aligned_cols=41 Identities=15% Similarity=0.077 Sum_probs=27.5
Q ss_pred HHhccCcEEEEecccchhHHHhh---hcCCCCEEEEcCCCCCCc
Q 042849 941 SFANEAEIVFTTVSSSGRKLFSR---LTHGFDMVVIDEAAQASE 981 (1019)
Q Consensus 941 ~iL~eA~IV~sTlSssg~~ll~~---l~~~FDvVIIDEAAQa~E 981 (1019)
..+..|+||+|+-+-.-...... ......+||||||-.+.+
T Consensus 207 ~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d 250 (289)
T smart00488 207 KAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250 (289)
T ss_pred HHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHH
Confidence 34689999999987543332211 123568999999987654
No 221
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=90.38 E-value=1.1 Score=50.35 Aligned_cols=41 Identities=15% Similarity=0.077 Sum_probs=27.5
Q ss_pred HHhccCcEEEEecccchhHHHhh---hcCCCCEEEEcCCCCCCc
Q 042849 941 SFANEAEIVFTTVSSSGRKLFSR---LTHGFDMVVIDEAAQASE 981 (1019)
Q Consensus 941 ~iL~eA~IV~sTlSssg~~ll~~---l~~~FDvVIIDEAAQa~E 981 (1019)
..+..|+||+|+-+-.-...... ......+||||||-.+.+
T Consensus 207 ~~~~~Adivi~ny~yll~~~~r~~~~~~l~~~~lIiDEAHnL~d 250 (289)
T smart00489 207 KAIEFANVVVLPYQYLLDPKIRQALSIELKDSIVIFDEAHNLDN 250 (289)
T ss_pred HHhhcCCEEEECHHHHhcHHHHHHhcccccccEEEEeCccChHH
Confidence 34689999999987543332211 123568999999987654
No 222
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=90.34 E-value=0.19 Score=54.52 Aligned_cols=21 Identities=43% Similarity=0.555 Sum_probs=17.5
Q ss_pred CCeeEEeCCCCCChhHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~L 709 (1019)
....||.||||||||+++..+
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~ 32 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL 32 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc
Confidence 467999999999999876554
No 223
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=90.33 E-value=0.48 Score=56.24 Aligned_cols=24 Identities=29% Similarity=0.354 Sum_probs=20.4
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.+|-||+|+|||||++.|...
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~ 244 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAAR 244 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 357888899999999999988763
No 224
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=90.33 E-value=0.98 Score=61.79 Aligned_cols=36 Identities=11% Similarity=0.092 Sum_probs=26.1
Q ss_pred CEEEEcCCCCCCc--ccccccccc-CCCeEEEecCCCCC
Q 042849 969 DMVVIDEAAQASE--VGVLPPLSL-GAARCVLGGGSSAA 1004 (1019)
Q Consensus 969 DvVIIDEAAQa~E--~stLIPL~~-g~kr~ILVGDpkQL 1004 (1019)
+++|||||+++.= +..|+-+.. .--||||+||.+|+
T Consensus 502 ~ilIVDEAg~lsar~m~~Ll~~A~~~~arvVllgd~~Q~ 540 (1747)
T PRK13709 502 STLIVDQAEKLSLKETLTLLDGAARHNVQVLILDSGQRT 540 (1747)
T ss_pred cEEEEECCCcCCHHHHHHHHHHHHHhCCEEEEECCcccc
Confidence 5999999998654 444443322 23599999999998
No 225
>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=90.30 E-value=0.21 Score=51.38 Aligned_cols=20 Identities=30% Similarity=0.557 Sum_probs=16.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+||||....|..
T Consensus 2 i~i~G~pGsGKst~a~~la~ 21 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVE 21 (183)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999987777654
No 226
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=90.20 E-value=0.2 Score=60.70 Aligned_cols=24 Identities=25% Similarity=0.274 Sum_probs=20.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-|++||||||||+++..+...+
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~L 67 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAV 67 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 456999999999999998887765
No 227
>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=90.17 E-value=0.26 Score=50.51 Aligned_cols=22 Identities=32% Similarity=0.333 Sum_probs=18.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.+|-||||+|||+++..+...
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~ 23 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALY 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4688999999999998888753
No 228
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=90.08 E-value=0.21 Score=59.47 Aligned_cols=23 Identities=35% Similarity=0.437 Sum_probs=20.0
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.+|+||||||||++..++...+
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~~~ 172 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGNYI 172 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 36999999999999998888754
No 229
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=89.96 E-value=0.22 Score=55.58 Aligned_cols=24 Identities=33% Similarity=0.571 Sum_probs=20.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
--|+.||||||||+++..+...|+
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~ 49 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELL 49 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHh
Confidence 379999999999999988887654
No 230
>PRK11823 DNA repair protein RadA; Provisional
Probab=89.94 E-value=0.61 Score=55.75 Aligned_cols=25 Identities=28% Similarity=0.502 Sum_probs=21.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+..++||.||||+|||++...++..
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~ 103 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAAR 103 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHH
Confidence 3468999999999999988887653
No 231
>PRK13767 ATP-dependent helicase; Provisional
Probab=89.91 E-value=0.91 Score=58.69 Aligned_cols=34 Identities=38% Similarity=0.537 Sum_probs=26.2
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
..+++-|.+||..++ .| .=.||+.|.|||||...
T Consensus 31 ~~~tpiQ~~Ai~~il----~g----------~nvli~APTGSGKTlaa 64 (876)
T PRK13767 31 GTFTPPQRYAIPLIH----EG----------KNVLISSPTGSGKTLAA 64 (876)
T ss_pred CCCCHHHHHHHHHHH----cC----------CCEEEECCCCCcHHHHH
Confidence 358999999998654 12 22799999999999643
No 232
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.90 E-value=0.22 Score=58.45 Aligned_cols=22 Identities=23% Similarity=0.356 Sum_probs=18.9
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-|++||||||||+++..+...|
T Consensus 41 ~lf~Gp~G~GKtt~A~~~a~~l 62 (397)
T PRK14955 41 YIFSGLRGVGKTTAARVFAKAV 62 (397)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5899999999999888887654
No 233
>PF13173 AAA_14: AAA domain
Probab=89.87 E-value=0.3 Score=47.88 Aligned_cols=23 Identities=26% Similarity=0.481 Sum_probs=20.2
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.++.+|.||.|+|||+++..++.
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~ 24 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAK 24 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHH
Confidence 46899999999999999888775
No 234
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=89.68 E-value=0.49 Score=56.71 Aligned_cols=42 Identities=33% Similarity=0.499 Sum_probs=35.6
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+++.|...+..++ +.+.++.|+-||-|.|||+|.-++|..+
T Consensus 241 g~~~~~~~~~~~~~------------~~p~GliLvTGPTGSGKTTTLY~~L~~l 282 (500)
T COG2804 241 GMSPFQLARLLRLL------------NRPQGLILVTGPTGSGKTTTLYAALSEL 282 (500)
T ss_pred CCCHHHHHHHHHHH------------hCCCeEEEEeCCCCCCHHHHHHHHHHHh
Confidence 56888999998876 2377999999999999999999988743
No 235
>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=89.63 E-value=0.69 Score=54.07 Aligned_cols=24 Identities=29% Similarity=0.542 Sum_probs=20.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.||.||||+|||+++..+..
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~ 104 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAA 104 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHH
Confidence 357899999999999998887765
No 236
>CHL00176 ftsH cell division protein; Validated
Probab=89.54 E-value=0.23 Score=61.75 Aligned_cols=20 Identities=45% Similarity=0.719 Sum_probs=17.9
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||.||||||||+++.++..
T Consensus 219 VLL~GPpGTGKT~LAralA~ 238 (638)
T CHL00176 219 VLLVGPPGTGKTLLAKAIAG 238 (638)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 69999999999999888765
No 237
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=89.51 E-value=0.19 Score=51.12 Aligned_cols=19 Identities=32% Similarity=0.557 Sum_probs=14.1
Q ss_pred EEeCCCCCChhHHHHHHHH
Q 042849 693 LVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 693 LIQGPPGTGKTkTI~~LL~ 711 (1019)
.|.|+||||||+++..|-.
T Consensus 3 ~i~G~~stGKTTL~~~L~~ 21 (163)
T PF13521_consen 3 VITGGPSTGKTTLIEALAA 21 (163)
T ss_dssp EEE--TTSHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 7999999999998876653
No 238
>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=89.50 E-value=0.3 Score=56.68 Aligned_cols=26 Identities=15% Similarity=0.386 Sum_probs=22.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+.++.||-||+|+|||+|+.+|+..+
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i 158 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIREL 158 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHH
Confidence 45899999999999999999988643
No 239
>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=89.47 E-value=0.3 Score=52.05 Aligned_cols=24 Identities=25% Similarity=0.234 Sum_probs=20.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|.||||+|||++...++.
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~ 41 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAV 41 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHH
Confidence 357999999999999998887764
No 240
>PRK09087 hypothetical protein; Validated
Probab=89.39 E-value=0.29 Score=53.15 Aligned_cols=22 Identities=36% Similarity=0.522 Sum_probs=18.4
Q ss_pred CCeeEEeCCCCCChhHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
.+..+|+||+|+||||..-++.
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~ 65 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWR 65 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHH
Confidence 3667999999999999877554
No 241
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=89.38 E-value=0.98 Score=56.02 Aligned_cols=32 Identities=31% Similarity=0.314 Sum_probs=24.8
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTH 704 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTk 704 (1019)
..|.+.|.+||..++. | .=.|+.+|.|+|||-
T Consensus 24 ~~~r~~Q~~ai~~il~----g----------~dvlv~apTGsGKTl 55 (607)
T PRK11057 24 QQFRPGQQEIIDAVLS----G----------RDCLVVMPTGGGKSL 55 (607)
T ss_pred CCCCHHHHHHHHHHHc----C----------CCEEEEcCCCchHHH
Confidence 3588999999987651 1 226999999999984
No 242
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=89.36 E-value=0.26 Score=51.55 Aligned_cols=19 Identities=42% Similarity=0.747 Sum_probs=15.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|.|.||||||+ ++..|.
T Consensus 3 I~ITGTPGvGKTT-~~~~L~ 21 (180)
T COG1936 3 IAITGTPGVGKTT-VCKLLR 21 (180)
T ss_pred EEEeCCCCCchHH-HHHHHH
Confidence 5899999999995 555554
No 243
>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=89.31 E-value=0.46 Score=52.20 Aligned_cols=40 Identities=13% Similarity=0.141 Sum_probs=29.0
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 663 GPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 663 eSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+...+.|...|.... ....+..|+|+||+|||+++..+..
T Consensus 2 e~~~~~l~~~L~~~~---------~~~~~v~I~G~~G~GKT~LA~~~~~ 41 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNS---------NEVRVVAIVGMGGIGKTTLARQVAR 41 (287)
T ss_dssp HHHHHHHHHHHHTTT---------TSSEEEEEEESTTSSHHHHHHHHHC
T ss_pred HHHHHHHHHHhhCCC---------CCeEEEEEEcCCcCCcceeeeeccc
Confidence 355677777774211 2357899999999999998877664
No 244
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=89.21 E-value=0.27 Score=58.64 Aligned_cols=22 Identities=32% Similarity=0.471 Sum_probs=19.6
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+|+|||||||||++.++...+
T Consensus 133 l~lyG~~G~GKTHLl~ai~~~l 154 (440)
T PRK14088 133 LFIYGGVGLGKTHLLQSIGNYV 154 (440)
T ss_pred EEEEcCCCCcHHHHHHHHHHHH
Confidence 6999999999999998888754
No 245
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=89.19 E-value=0.8 Score=50.10 Aligned_cols=22 Identities=36% Similarity=0.495 Sum_probs=18.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-...+.||+|||||.||..+-.
T Consensus 33 ~~~~~~GpagtGKtetik~La~ 54 (231)
T PF12774_consen 33 LGGALSGPAGTGKTETIKDLAR 54 (231)
T ss_dssp TEEEEESSTTSSHHHHHHHHHH
T ss_pred CCCCCcCCCCCCchhHHHHHHH
Confidence 3468999999999999988865
No 246
>PRK10867 signal recognition particle protein; Provisional
Probab=89.10 E-value=0.89 Score=54.16 Aligned_cols=24 Identities=25% Similarity=0.274 Sum_probs=20.6
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.++-||||+|||+|++.|...
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~ 123 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKY 123 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHH
Confidence 357889999999999999998763
No 247
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=89.03 E-value=0.52 Score=54.36 Aligned_cols=22 Identities=32% Similarity=0.472 Sum_probs=18.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
=.||.||||||||+++.+|...
T Consensus 27 ~vli~G~~G~gKttl~r~~~~~ 48 (337)
T TIGR02030 27 GVMVMGDRGTGKSTAVRALAAL 48 (337)
T ss_pred eEEEEcCCCCCHHHHHHHHHHh
Confidence 3699999999999988887654
No 248
>PHA02774 E1; Provisional
Probab=89.02 E-value=0.27 Score=59.96 Aligned_cols=23 Identities=26% Similarity=0.556 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-.+|+||||||||+...+|+..
T Consensus 435 nciv~~GPP~TGKS~fa~sL~~~ 457 (613)
T PHA02774 435 NCLVIYGPPDTGKSMFCMSLIKF 457 (613)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 56899999999999999998874
No 249
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=88.99 E-value=0.29 Score=58.48 Aligned_cols=23 Identities=30% Similarity=0.618 Sum_probs=20.0
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.+|+|||||||||+..++...+.
T Consensus 144 l~L~G~~G~GKTHLl~Ai~~~l~ 166 (445)
T PRK12422 144 IYLFGPEGSGKTHLMQAAVHALR 166 (445)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 58999999999999998887653
No 250
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=88.91 E-value=0.29 Score=58.84 Aligned_cols=23 Identities=39% Similarity=0.404 Sum_probs=19.3
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
....|+.||||||||.+..++..
T Consensus 276 ~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 276 PKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred CCeeEEECCCCCCHHHHHHHHHh
Confidence 34679999999999998887765
No 251
>PRK08233 hypothetical protein; Provisional
Probab=88.89 E-value=0.3 Score=49.92 Aligned_cols=22 Identities=18% Similarity=0.216 Sum_probs=18.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+..|-||||+||||+...|..
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~ 25 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTH 25 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 4678999999999988877765
No 252
>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=88.89 E-value=0.41 Score=42.15 Aligned_cols=20 Identities=20% Similarity=0.398 Sum_probs=16.1
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.|-||||+|||++...+..
T Consensus 2 i~i~G~~gsGKst~~~~l~~ 21 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAE 21 (69)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 36789999999987766654
No 253
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.89 E-value=0.6 Score=53.92 Aligned_cols=23 Identities=30% Similarity=0.342 Sum_probs=19.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.-|++||||+|||+++..+...
T Consensus 40 ~~~L~~G~~G~GKt~~a~~la~~ 62 (367)
T PRK14970 40 QALLFCGPRGVGKTTCARILARK 62 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 46799999999999988887653
No 254
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.85 E-value=0.56 Score=57.37 Aligned_cols=24 Identities=25% Similarity=0.249 Sum_probs=19.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-|++||||||||+++..+...+
T Consensus 39 ha~Lf~Gp~GvGKTTlAr~lAk~L 62 (546)
T PRK14957 39 HAYLFTGTRGVGKTTLGRLLAKCL 62 (546)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 346899999999999888887654
No 255
>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=88.64 E-value=0.35 Score=51.81 Aligned_cols=24 Identities=25% Similarity=0.250 Sum_probs=20.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|.||||||||+....++.
T Consensus 18 ~g~i~~i~G~~GsGKT~l~~~l~~ 41 (235)
T cd01123 18 TGSITEIFGEFGSGKTQLCHQLAV 41 (235)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 357899999999999998877753
No 256
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.64 E-value=0.27 Score=62.64 Aligned_cols=24 Identities=25% Similarity=0.267 Sum_probs=20.3
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.-||.||||||||+++..|...|.
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcc
Confidence 459999999999999988887653
No 257
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=88.62 E-value=0.4 Score=53.79 Aligned_cols=24 Identities=29% Similarity=0.346 Sum_probs=20.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.+|-||+|+|||||+..|...
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~ 217 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAAR 217 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 357888899999999999988763
No 258
>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=88.56 E-value=0.39 Score=56.12 Aligned_cols=25 Identities=20% Similarity=0.287 Sum_probs=21.8
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+..||-||+|+|||||+.+|+..+
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i 173 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHC 173 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHH
Confidence 3678999999999999999988743
No 259
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=88.53 E-value=0.28 Score=56.44 Aligned_cols=23 Identities=43% Similarity=0.658 Sum_probs=19.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-.||-||||||||-...+|-.-
T Consensus 66 rgiLi~GppgTGKTAlA~gIa~e 88 (450)
T COG1224 66 RGILIVGPPGTGKTALAMGIARE 88 (450)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH
Confidence 45799999999999988887653
No 260
>PRK00131 aroK shikimate kinase; Reviewed
Probab=88.50 E-value=0.45 Score=48.00 Aligned_cols=22 Identities=23% Similarity=0.255 Sum_probs=18.0
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..-+|-||||||||++...|..
T Consensus 5 ~~i~l~G~~GsGKstla~~La~ 26 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAK 26 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHH
Confidence 4679999999999987766654
No 261
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=88.37 E-value=0.34 Score=50.44 Aligned_cols=24 Identities=25% Similarity=0.426 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-|+.||||||||+++..+...+
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l 38 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKAL 38 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 457999999999999988887654
No 262
>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=88.34 E-value=0.33 Score=49.17 Aligned_cols=19 Identities=21% Similarity=0.462 Sum_probs=14.7
Q ss_pred EEeCCCCCChhHHHHHHHH
Q 042849 693 LVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 693 LIQGPPGTGKTkTI~~LL~ 711 (1019)
+|.||||+|||++...|..
T Consensus 2 ~l~G~~GsGKSTla~~l~~ 20 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAH 20 (163)
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 5789999999976655543
No 263
>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=88.32 E-value=0.33 Score=48.38 Aligned_cols=20 Identities=25% Similarity=0.403 Sum_probs=16.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+|||++...|..
T Consensus 2 i~l~G~~GsGKST~a~~l~~ 21 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAE 21 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHh
Confidence 58899999999977666543
No 264
>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=88.28 E-value=0.37 Score=61.37 Aligned_cols=25 Identities=32% Similarity=0.533 Sum_probs=21.0
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.++.|+.||||||||+++..|...+
T Consensus 347 ~~~lll~GppG~GKT~lAk~iA~~l 371 (775)
T TIGR00763 347 GPILCLVGPPGVGKTSLGKSIAKAL 371 (775)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 3578999999999999888887654
No 265
>PHA02653 RNA helicase NPH-II; Provisional
Probab=88.27 E-value=0.97 Score=56.70 Aligned_cols=23 Identities=13% Similarity=0.135 Sum_probs=20.0
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+|+|.+|+-+|+.++..++.+
T Consensus 222 ~~~ilvt~PrreLa~qi~~~i~~ 244 (675)
T PHA02653 222 ERPIVLSLPRVALVRLHSITLLK 244 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHHH
Confidence 56899999999999998888854
No 266
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=88.20 E-value=0.67 Score=56.80 Aligned_cols=26 Identities=19% Similarity=0.309 Sum_probs=21.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...+-++-||||+|||+++-.|...+
T Consensus 102 ~~~IL~LvGPpG~GKSsLa~~la~~l 127 (644)
T PRK15455 102 KKQILYLLGPVGGGKSSLAERLKSLM 127 (644)
T ss_pred CCceEEEecCCCCCchHHHHHHHHHH
Confidence 45799999999999998887776644
No 267
>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=88.19 E-value=1.7 Score=55.02 Aligned_cols=47 Identities=26% Similarity=0.355 Sum_probs=34.3
Q ss_pred ccCcEEEEecccchhHHHhhh---------cCCCCEEEEcCCCCCCcccccccccc
Q 042849 944 NEAEIVFTTVSSSGRKLFSRL---------THGFDMVVIDEAAQASEVGVLPPLSL 990 (1019)
Q Consensus 944 ~eA~IV~sTlSssg~~ll~~l---------~~~FDvVIIDEAAQa~E~stLIPL~~ 990 (1019)
..++||.+|.+..+.+++... -..+.++|||||=.+..=+.-.||..
T Consensus 163 y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeartplii 218 (762)
T TIGR03714 163 YNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQTPLVI 218 (762)
T ss_pred CCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcCCeee
Confidence 368999999998875544221 24688999999998877776666643
No 268
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=88.13 E-value=0.35 Score=50.30 Aligned_cols=22 Identities=32% Similarity=0.576 Sum_probs=19.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
|+.+|-|..|+|||++|..++.
T Consensus 1 Pv~ii~GfLGsGKTTli~~ll~ 22 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTLINHLLK 22 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH
T ss_pred CEEEEEcCCCCCHHHHHHHHHH
Confidence 5789999999999999998884
No 269
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=88.06 E-value=1.7 Score=52.94 Aligned_cols=33 Identities=33% Similarity=0.293 Sum_probs=25.5
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHH
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHT 705 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkT 705 (1019)
..+++-|.+||..++. |. =.|++.|.|+|||..
T Consensus 142 ~~ptpiQ~~aip~il~----g~----------dviv~ApTGSGKTla 174 (518)
T PLN00206 142 EFPTPIQMQAIPAALS----GR----------SLLVSADTGSGKTAS 174 (518)
T ss_pred CCCCHHHHHHHHHHhc----CC----------CEEEEecCCCCccHH
Confidence 3578999999987661 21 269999999999954
No 270
>PRK06851 hypothetical protein; Provisional
Probab=88.01 E-value=0.96 Score=52.77 Aligned_cols=23 Identities=26% Similarity=0.458 Sum_probs=20.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+-+|-||||||||+++..+...
T Consensus 215 ~~~~i~G~pG~GKstl~~~i~~~ 237 (367)
T PRK06851 215 NRYFLKGRPGTGKSTMLKKIAKA 237 (367)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHH
Confidence 56899999999999998888764
No 271
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.00 E-value=0.35 Score=58.71 Aligned_cols=24 Identities=25% Similarity=0.321 Sum_probs=19.9
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.-|++||||||||+++..+...|.
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (509)
T PRK14958 40 AYLFTGTRGVGKTTISRILAKCLN 63 (509)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 359999999999998888877653
No 272
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.96 E-value=0.36 Score=58.27 Aligned_cols=23 Identities=26% Similarity=0.299 Sum_probs=18.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
--|++||||||||+++..+...|
T Consensus 37 a~Lf~Gp~G~GKTT~ArilAk~L 59 (491)
T PRK14964 37 SILLVGASGVGKTTCARIISLCL 59 (491)
T ss_pred eEEEECCCCccHHHHHHHHHHHH
Confidence 36999999999999887776544
No 273
>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=87.93 E-value=0.71 Score=54.88 Aligned_cols=23 Identities=26% Similarity=0.286 Sum_probs=20.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.++-||||+|||||+..|..
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~ 122 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAY 122 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHH
Confidence 46889999999999999999875
No 274
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=87.91 E-value=0.52 Score=46.78 Aligned_cols=15 Identities=47% Similarity=0.846 Sum_probs=13.1
Q ss_pred eEEeCCCCCChhHHH
Q 042849 692 TLVQGPPGTGKTHTV 706 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI 706 (1019)
.||+|+|||||+.+.
T Consensus 24 vli~GE~GtGK~~~A 38 (138)
T PF14532_consen 24 VLITGEPGTGKSLLA 38 (138)
T ss_dssp EEEECCTTSSHHHHH
T ss_pred EEEEcCCCCCHHHHH
Confidence 599999999999754
No 275
>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=87.88 E-value=0.39 Score=57.90 Aligned_cols=24 Identities=42% Similarity=0.343 Sum_probs=20.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.||.||||||||+....++.
T Consensus 20 ~g~~~Li~G~pGsGKT~la~qfl~ 43 (484)
T TIGR02655 20 IGRSTLVSGTSGTGKTLFSIQFLY 43 (484)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHH
Confidence 346899999999999998888765
No 276
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=87.85 E-value=1 Score=56.65 Aligned_cols=73 Identities=26% Similarity=0.193 Sum_probs=53.3
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.+-..|..||.....+-. +.... .||+=-+|||||+|..+|+..| ++
T Consensus 165 ~~RyyQ~~AI~rv~Eaf~--------~g~~r-aLlvMATGTGKTrTAiaii~rL------------~r------------ 211 (875)
T COG4096 165 GPRYYQIIAIRRVIEAFS--------KGQNR-ALLVMATGTGKTRTAIAIIDRL------------IK------------ 211 (875)
T ss_pred cchHHHHHHHHHHHHHHh--------cCCce-EEEEEecCCCcceeHHHHHHHH------------Hh------------
Confidence 345689999987664332 11223 8999999999999999999754 21
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..-.+|||..|-.|+-+++-...+.+
T Consensus 212 ----------------------------~~~~KRVLFLaDR~~Lv~QA~~af~~ 237 (875)
T COG4096 212 ----------------------------SGWVKRVLFLADRNALVDQAYGAFED 237 (875)
T ss_pred ----------------------------cchhheeeEEechHHHHHHHHHHHHH
Confidence 01257999999999999998866644
No 277
>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=87.85 E-value=0.48 Score=50.27 Aligned_cols=25 Identities=20% Similarity=0.236 Sum_probs=19.9
Q ss_pred CCCCeeEEeCCCCCChhHHHHHHHH
Q 042849 687 SPWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 687 ~~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+..+..|.||+|+||||++..|..
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~ 28 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYE 28 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHH
Confidence 3456788999999999987766665
No 278
>CHL00095 clpC Clp protease ATP binding subunit
Probab=87.78 E-value=0.52 Score=60.42 Aligned_cols=49 Identities=22% Similarity=0.272 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCC--eeEEeCCCCCChhHHHHHHHHHH
Q 042849 664 PQLAAIQWAAIHTAAGTSSGMTKSPWP--FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 664 SQ~eAI~~Al~~~~~g~s~~~~k~~~~--fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.|..||.....+.. ....|......| .-|+.||||||||++...|...+
T Consensus 513 GQ~~ai~~l~~~i~-~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l 563 (821)
T CHL00095 513 GQDEAVVAVSKAIR-RARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF 563 (821)
T ss_pred ChHHHHHHHHHHHH-HHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence 68787765432211 111122112233 45899999999999888887654
No 279
>PRK04040 adenylate kinase; Provisional
Probab=87.76 E-value=0.44 Score=50.31 Aligned_cols=23 Identities=35% Similarity=0.512 Sum_probs=18.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+.+|.|+||+|||+.+..+...
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHH
Confidence 46799999999999887777653
No 280
>PF13479 AAA_24: AAA domain
Probab=87.67 E-value=0.3 Score=52.32 Aligned_cols=18 Identities=44% Similarity=0.835 Sum_probs=15.6
Q ss_pred eEEeCCCCCChhHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~L 709 (1019)
.||.||||+|||+++..+
T Consensus 6 ~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 6 ILIYGPPGSGKTTLAASL 23 (213)
T ss_pred EEEECCCCCCHHHHHHhC
Confidence 699999999999877655
No 281
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=87.61 E-value=0.63 Score=59.91 Aligned_cols=49 Identities=27% Similarity=0.403 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCC--CCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 664 PQLAAIQWAAIHTAAGTSSGMTK--SPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 664 SQ~eAI~~Al~~~~~g~s~~~~k--~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.|-.||.....+. .....|+.. .+.++.|+.||||||||.+..+|...+
T Consensus 570 GQ~~Av~~v~~~i-~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l 620 (852)
T TIGR03345 570 GQDHALEAIAERI-RTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL 620 (852)
T ss_pred ChHHHHHHHHHHH-HHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence 6777776443222 111122222 233457999999999999998887654
No 282
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=87.54 E-value=0.42 Score=54.32 Aligned_cols=24 Identities=25% Similarity=0.249 Sum_probs=20.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|.||||||||++...++.
T Consensus 101 ~g~vtei~G~~GsGKT~l~~~~~~ 124 (317)
T PRK04301 101 TQSITEFYGEFGSGKTQICHQLAV 124 (317)
T ss_pred CCcEEEEECCCCCCHhHHHHHHHH
Confidence 357899999999999998877764
No 283
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=87.53 E-value=0.39 Score=57.60 Aligned_cols=24 Identities=46% Similarity=0.659 Sum_probs=18.5
Q ss_pred CCCCCeeEEeCCCCCChhHHHHHHH
Q 042849 686 KSPWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 686 k~~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
|-|+++ |+-||||||||-+..++.
T Consensus 335 KLPKGV-LLvGPPGTGKTlLARAvA 358 (752)
T KOG0734|consen 335 KLPKGV-LLVGPPGTGKTLLARAVA 358 (752)
T ss_pred cCCCce-EEeCCCCCchhHHHHHhh
Confidence 346665 999999999997766654
No 284
>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=87.44 E-value=0.47 Score=60.06 Aligned_cols=23 Identities=43% Similarity=0.547 Sum_probs=18.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-.||.||||||||+++.+|...
T Consensus 213 ~giLL~GppGtGKT~laraia~~ 235 (733)
T TIGR01243 213 KGVLLYGPPGTGKTLLAKAVANE 235 (733)
T ss_pred ceEEEECCCCCChHHHHHHHHHH
Confidence 34699999999999887776553
No 285
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=87.43 E-value=0.41 Score=57.23 Aligned_cols=22 Identities=36% Similarity=0.521 Sum_probs=19.3
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+|+|||||||||++.++...+
T Consensus 144 l~i~G~~G~GKTHLl~Ai~~~l 165 (450)
T PRK14087 144 LFIYGESGMGKTHLLKAAKNYI 165 (450)
T ss_pred eEEECCCCCcHHHHHHHHHHHH
Confidence 5899999999999998887754
No 286
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=87.42 E-value=0.38 Score=55.87 Aligned_cols=23 Identities=48% Similarity=0.835 Sum_probs=18.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
|+.=.|..||||||||-+..++.
T Consensus 244 PWkgvLm~GPPGTGKTlLAKAvA 266 (491)
T KOG0738|consen 244 PWKGVLMVGPPGTGKTLLAKAVA 266 (491)
T ss_pred ccceeeeeCCCCCcHHHHHHHHH
Confidence 45557999999999997666553
No 287
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=87.42 E-value=0.34 Score=60.67 Aligned_cols=44 Identities=30% Similarity=0.392 Sum_probs=28.1
Q ss_pred hhHhhhccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHH
Q 042849 652 NFIDHLHRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 652 ~l~~~L~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
++.+++..==|+.|...+=. |-|++ .|+.||||||||-+..++.
T Consensus 322 El~E~V~fLKNP~~Y~~lGA--------------KiPkG-vLL~GPPGTGKTLLAKAiA 365 (774)
T KOG0731|consen 322 ELMEFVKFLKNPEQYQELGA--------------KIPKG-VLLVGPPGTGKTLLAKAIA 365 (774)
T ss_pred HHHHHHHHhcCHHHHHHcCC--------------cCcCc-eEEECCCCCcHHHHHHHHh
Confidence 34444322237777766531 23556 5999999999998776663
No 288
>PRK10865 protein disaggregation chaperone; Provisional
Probab=87.36 E-value=0.78 Score=59.14 Aligned_cols=24 Identities=33% Similarity=0.462 Sum_probs=19.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+..|+.||||||||+++..|...+
T Consensus 599 ~~~Lf~Gp~G~GKT~lA~aLa~~l 622 (857)
T PRK10865 599 GSFLFLGPTGVGKTELCKALANFM 622 (857)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 457999999999999888776543
No 289
>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=87.34 E-value=0.4 Score=52.85 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=20.6
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+..||-||+|+|||+++.+++.
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~ 149 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLE 149 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHH
T ss_pred ceEEEEECCCccccchHHHHHhh
Confidence 36789999999999999988876
No 290
>PRK14527 adenylate kinase; Provisional
Probab=87.30 E-value=0.56 Score=49.09 Aligned_cols=23 Identities=26% Similarity=0.461 Sum_probs=19.0
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.+|-||||+|||+....|..
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~ 28 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQ 28 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHH
Confidence 46899999999999987766653
No 291
>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=87.25 E-value=0.47 Score=53.60 Aligned_cols=24 Identities=29% Similarity=0.281 Sum_probs=20.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|-||||||||++...+..
T Consensus 94 ~g~i~ei~G~~g~GKT~l~~~~~~ 117 (310)
T TIGR02236 94 TQAITEVFGEFGSGKTQICHQLAV 117 (310)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 347899999999999998877753
No 292
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=87.23 E-value=0.67 Score=53.62 Aligned_cols=22 Identities=32% Similarity=0.501 Sum_probs=19.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.-.||-||+|+|||+++.+|+.
T Consensus 163 ~nilI~G~tGSGKTTll~aLl~ 184 (344)
T PRK13851 163 LTMLLCGPTGSGKTTMSKTLIS 184 (344)
T ss_pred CeEEEECCCCccHHHHHHHHHc
Confidence 4579999999999999988875
No 293
>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=87.08 E-value=0.5 Score=51.29 Aligned_cols=22 Identities=23% Similarity=0.344 Sum_probs=19.0
Q ss_pred eeEEeCCCCCChhHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
++||.||||||||++...+..+
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~ 24 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALA 24 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHH
Confidence 6899999999999988877643
No 294
>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=87.07 E-value=0.46 Score=53.12 Aligned_cols=20 Identities=45% Similarity=0.768 Sum_probs=17.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.|+-||||||||.+|..++.
T Consensus 36 vLl~G~~GtGKT~li~~~l~ 55 (272)
T PF12775_consen 36 VLLVGPSGTGKTSLIQNFLS 55 (272)
T ss_dssp EEEESSTTSSHHHHHHHHHH
T ss_pred EEEECCCCCchhHHHHhhhc
Confidence 59999999999998888764
No 295
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=87.07 E-value=0.48 Score=53.21 Aligned_cols=20 Identities=40% Similarity=0.625 Sum_probs=15.6
Q ss_pred CeeEEeCCCCCChhHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~L 709 (1019)
+=.|+.||||+|||+...-|
T Consensus 53 DHvLl~GPPGlGKTTLA~II 72 (332)
T COG2255 53 DHVLLFGPPGLGKTTLAHII 72 (332)
T ss_pred CeEEeeCCCCCcHHHHHHHH
Confidence 45899999999999654333
No 296
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=87.02 E-value=0.49 Score=52.09 Aligned_cols=24 Identities=46% Similarity=0.591 Sum_probs=18.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..=.|+.||||||||-++.+..+
T Consensus 188 pprgvllygppg~gktml~kava~ 211 (408)
T KOG0727|consen 188 PPRGVLLYGPPGTGKTMLAKAVAN 211 (408)
T ss_pred CCcceEEeCCCCCcHHHHHHHHhh
Confidence 334469999999999987766554
No 297
>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=87.01 E-value=0.35 Score=56.14 Aligned_cols=23 Identities=39% Similarity=0.638 Sum_probs=18.0
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-.||-||||||||-+..+|...
T Consensus 51 r~iLiaGppGtGKTAlA~~ia~e 73 (398)
T PF06068_consen 51 RAILIAGPPGTGKTALAMAIAKE 73 (398)
T ss_dssp -EEEEEE-TTSSHHHHHHHHHHH
T ss_pred cEEEEeCCCCCCchHHHHHHHHH
Confidence 56799999999999988888653
No 298
>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=86.97 E-value=0.41 Score=49.50 Aligned_cols=20 Identities=35% Similarity=0.652 Sum_probs=15.9
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+|||+....|..
T Consensus 2 I~i~G~pGsGKst~a~~La~ 21 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAK 21 (194)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 48999999999977666544
No 299
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=86.91 E-value=5.5 Score=50.63 Aligned_cols=39 Identities=13% Similarity=0.290 Sum_probs=33.3
Q ss_pred CCCcEEEEecCchhHHHHHHHHHhcCcccCcccccCCcEEEEcCchh
Q 042849 770 PKPRMLVCAPSNAATDELLTRVLDRGFIDGEMKVYRPDVARVGVDSQ 816 (1019)
Q Consensus 770 ~k~RILVCAPSNaAVDEll~RLl~~Gi~d~~g~~y~p~VVRiG~~s~ 816 (1019)
..++|..++.||.-+.+++.-|.+. .|++.++-+|.+.+
T Consensus 109 ~ipkIyyaSRTHsQltQvvrElrrT--------~Y~vkmtVLgSReq 147 (945)
T KOG1132|consen 109 GIPKIYYASRTHSQLTQVVRELRRT--------GYRVKMTVLGSREQ 147 (945)
T ss_pred CCceEEEecchHHHHHHHHHHHhhc--------CCCCceEEeecchh
Confidence 3789999999999999999998664 46788999998765
No 300
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=86.90 E-value=0.45 Score=58.63 Aligned_cols=23 Identities=30% Similarity=0.445 Sum_probs=19.6
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
-|++||||||||+++..+...|.
T Consensus 41 ~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 41 YIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 58999999999999888877553
No 301
>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=86.87 E-value=0.54 Score=48.33 Aligned_cols=22 Identities=27% Similarity=0.332 Sum_probs=18.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|-||||+|||+++-.|..
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~ 23 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARA 23 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 3679999999999988876654
No 302
>PRK14531 adenylate kinase; Provisional
Probab=86.74 E-value=0.52 Score=49.09 Aligned_cols=20 Identities=35% Similarity=0.586 Sum_probs=16.3
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+|||+....|..
T Consensus 5 i~i~G~pGsGKsT~~~~la~ 24 (183)
T PRK14531 5 LLFLGPPGAGKGTQAARLCA 24 (183)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999987665544
No 303
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.74 E-value=0.44 Score=58.69 Aligned_cols=24 Identities=29% Similarity=0.446 Sum_probs=20.6
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.-|+.||||||||+++..+...|+
T Consensus 37 a~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 459999999999999988887654
No 304
>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=86.73 E-value=0.5 Score=54.11 Aligned_cols=24 Identities=21% Similarity=0.270 Sum_probs=20.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|-||||||||++...++.
T Consensus 54 ~G~iteI~G~~GsGKTtLaL~~~~ 77 (321)
T TIGR02012 54 RGRIIEIYGPESSGKTTLALHAIA 77 (321)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 346999999999999998877665
No 305
>PRK13909 putative recombination protein RecB; Provisional
Probab=86.72 E-value=0.98 Score=58.65 Aligned_cols=22 Identities=23% Similarity=0.445 Sum_probs=20.3
Q ss_pred CcEEEEecCchhHHHHHHHHHh
Q 042849 772 PRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 772 ~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..||+.+.||+|+.|+-+|+++
T Consensus 30 ~~IlavTFT~kAa~Emk~Ri~~ 51 (910)
T PRK13909 30 SEILALTFTKKAANEMKERIID 51 (910)
T ss_pred ceEEEEeehHHHHHHHHHHHHH
Confidence 5899999999999999999975
No 306
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=86.71 E-value=2.3 Score=50.96 Aligned_cols=23 Identities=22% Similarity=0.410 Sum_probs=19.7
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..++||.+||.+-+.++...+..
T Consensus 162 ~~~aLil~PtreLa~Q~~~~~~~ 184 (475)
T PRK01297 162 EPRALIIAPTRELVVQIAKDAAA 184 (475)
T ss_pred CceEEEEeCcHHHHHHHHHHHHH
Confidence 57899999999999998887754
No 307
>PRK05541 adenylylsulfate kinase; Provisional
Probab=86.64 E-value=0.69 Score=47.59 Aligned_cols=24 Identities=21% Similarity=0.248 Sum_probs=19.7
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.+|.||||+|||+++..|...
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~ 30 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYER 30 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHH
Confidence 358899999999999888777653
No 308
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=86.59 E-value=0.74 Score=57.20 Aligned_cols=22 Identities=36% Similarity=0.626 Sum_probs=17.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...||.||||||||+++..+..
T Consensus 176 ~~vlL~Gp~GtGKTTLAr~i~~ 197 (615)
T TIGR02903 176 QHIILYGPPGVGKTTAARLALE 197 (615)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 4589999999999987766654
No 309
>PRK05480 uridine/cytidine kinase; Provisional
Probab=86.57 E-value=0.61 Score=49.40 Aligned_cols=23 Identities=22% Similarity=0.232 Sum_probs=19.3
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+..|.||||+||||++..|..
T Consensus 6 ~~iI~I~G~sGsGKTTl~~~l~~ 28 (209)
T PRK05480 6 PIIIGIAGGSGSGKTTVASTIYE 28 (209)
T ss_pred CEEEEEECCCCCCHHHHHHHHHH
Confidence 46889999999999988766665
No 310
>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=86.56 E-value=1.3 Score=53.03 Aligned_cols=24 Identities=29% Similarity=0.548 Sum_probs=20.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..++||-|+||+|||++...++.
T Consensus 93 ~GsvilI~G~pGsGKTTL~lq~a~ 116 (454)
T TIGR00416 93 PGSLILIGGDPGIGKSTLLLQVAC 116 (454)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHH
Confidence 457899999999999998887765
No 311
>PRK06762 hypothetical protein; Provisional
Probab=86.55 E-value=0.61 Score=47.37 Aligned_cols=22 Identities=23% Similarity=0.489 Sum_probs=17.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|-||||+||||....|..
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~ 24 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQE 24 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 4689999999999987666544
No 312
>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=86.53 E-value=0.82 Score=47.86 Aligned_cols=23 Identities=35% Similarity=0.548 Sum_probs=20.1
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
....+|.||.|+|||+++..++.
T Consensus 20 ~~~~~l~G~rg~GKTsLl~~~~~ 42 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSLLKEFIN 42 (234)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHH
T ss_pred CcEEEEEcCCcCCHHHHHHHHHH
Confidence 46789999999999998887776
No 313
>PRK08118 topology modulation protein; Reviewed
Probab=86.50 E-value=0.45 Score=49.15 Aligned_cols=20 Identities=20% Similarity=0.370 Sum_probs=15.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+||||....|-.
T Consensus 4 I~I~G~~GsGKSTlak~L~~ 23 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGE 23 (167)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999976555543
No 314
>CHL00206 ycf2 Ycf2; Provisional
Probab=86.48 E-value=0.5 Score=64.06 Aligned_cols=24 Identities=29% Similarity=0.262 Sum_probs=19.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+++ .|+.||||||||.++.++..-
T Consensus 1630 PKG-ILLiGPPGTGKTlLAKALA~e 1653 (2281)
T CHL00206 1630 SRG-ILVIGSIGTGRSYLVKYLATN 1653 (2281)
T ss_pred CCc-eEEECCCCCCHHHHHHHHHHh
Confidence 445 499999999999999888653
No 315
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=86.43 E-value=1.4 Score=53.44 Aligned_cols=23 Identities=43% Similarity=0.400 Sum_probs=19.9
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.||-||||||||.....++.
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~ 53 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLV 53 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHH
Confidence 46899999999999998877764
No 316
>PRK03839 putative kinase; Provisional
Probab=86.43 E-value=0.55 Score=48.49 Aligned_cols=20 Identities=30% Similarity=0.464 Sum_probs=15.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+||||+...|..
T Consensus 3 I~l~G~pGsGKsT~~~~La~ 22 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAE 22 (180)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47889999999987665554
No 317
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=86.42 E-value=0.82 Score=56.95 Aligned_cols=24 Identities=29% Similarity=0.551 Sum_probs=20.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+.||.||||||||+++..+...+
T Consensus 51 ~~~l~~G~~G~GKttla~~l~~~l 74 (637)
T PRK13765 51 RHVMMIGSPGTGKSMLAKAMAELL 74 (637)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHc
Confidence 579999999999999998877654
No 318
>PRK13947 shikimate kinase; Provisional
Probab=86.40 E-value=0.55 Score=47.77 Aligned_cols=20 Identities=30% Similarity=0.263 Sum_probs=15.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|.||||+|||++...|..
T Consensus 4 I~l~G~~GsGKst~a~~La~ 23 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVAT 23 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 48899999999976655544
No 319
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.37 E-value=0.49 Score=58.80 Aligned_cols=24 Identities=25% Similarity=0.304 Sum_probs=20.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-|+.||||||||+++..+...+
T Consensus 38 HAyLF~GPpGvGKTTlAriLAK~L 61 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILAKCL 61 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 346999999999999888887654
No 320
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=86.30 E-value=0.89 Score=56.44 Aligned_cols=24 Identities=29% Similarity=0.482 Sum_probs=20.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...|+.||||||||+++..+...+
T Consensus 38 ~~~ll~G~pG~GKT~la~~la~~l 61 (608)
T TIGR00764 38 RNVLLIGEPGVGKSMLAKAMAELL 61 (608)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHc
Confidence 468999999999999988887654
No 321
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=86.27 E-value=3 Score=52.34 Aligned_cols=66 Identities=23% Similarity=0.325 Sum_probs=47.7
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNE 739 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~ 739 (1019)
.|-..|.+-++.|| | .=+||+-|-|.|||...+.+..- | ++
T Consensus 62 ~lR~YQ~eivq~AL-----g----------kNtii~lPTG~GKTfIAa~Vm~n-h-----------~r------------ 102 (746)
T KOG0354|consen 62 ELRNYQEELVQPAL-----G----------KNTIIALPTGSGKTFIAAVIMKN-H-----------FE------------ 102 (746)
T ss_pred cccHHHHHHhHHhh-----c----------CCeEEEeecCCCccchHHHHHHH-H-----------Hh------------
Confidence 56778999999887 1 12899999999999765554421 0 10
Q ss_pred CCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHH
Q 042849 740 SNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVL 792 (1019)
Q Consensus 740 ~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl 792 (1019)
..++.||++.||+-.-|-+-..++.
T Consensus 103 ----------------------------w~p~~KiVF~aP~~pLv~QQ~a~~~ 127 (746)
T KOG0354|consen 103 ----------------------------WRPKGKVVFLAPTRPLVNQQIACFS 127 (746)
T ss_pred ----------------------------cCCcceEEEeeCCchHHHHHHHHHh
Confidence 1246899999999888888776653
No 322
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=86.25 E-value=1.6 Score=56.94 Aligned_cols=32 Identities=22% Similarity=0.154 Sum_probs=23.8
Q ss_pred CCChHHHH---HHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhH
Q 042849 660 TFNGPQLA---AIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTH 704 (1019)
Q Consensus 660 ~LNeSQ~e---AI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTk 704 (1019)
..-+.|.+ +|..++. .....+|..|+|||||.
T Consensus 257 e~R~~Q~~m~~~v~~~l~-------------~~~~~~iEA~TGtGKTl 291 (928)
T PRK08074 257 EKREGQQEMMKEVYTALR-------------DSEHALIEAGTGTGKSL 291 (928)
T ss_pred cCCHHHHHHHHHHHHHHh-------------cCCCEEEECCCCCchhH
Confidence 56788888 6666652 12557899999999984
No 323
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=86.24 E-value=0.62 Score=55.18 Aligned_cols=22 Identities=32% Similarity=0.460 Sum_probs=17.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+-.||.||||||||+++..|..
T Consensus 109 ~~iLl~Gp~GtGKT~lAr~lA~ 130 (412)
T PRK05342 109 SNILLIGPTGSGKTLLAQTLAR 130 (412)
T ss_pred ceEEEEcCCCCCHHHHHHHHHH
Confidence 4479999999999987766654
No 324
>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]
Probab=86.17 E-value=0.54 Score=52.01 Aligned_cols=22 Identities=45% Similarity=0.691 Sum_probs=16.2
Q ss_pred CCCCeeEEeCCCCCChhHHHHHH
Q 042849 687 SPWPFTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 687 ~~~~fsLIQGPPGTGKTkTI~~L 709 (1019)
.|.+ .|..||||||||-...+.
T Consensus 204 pPKG-vLmYGPPGTGKTlmARAc 225 (424)
T KOG0652|consen 204 PPKG-VLMYGPPGTGKTLMARAC 225 (424)
T ss_pred CCCc-eEeeCCCCCcHHHHHHHH
Confidence 3444 599999999999655443
No 325
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.16 E-value=0.51 Score=58.58 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=19.7
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
-|++||||||||+++..+...|+
T Consensus 41 ~Lf~Gp~GvGKttlA~~lAk~L~ 63 (620)
T PRK14954 41 YIFSGLRGVGKTTAARVFAKAVN 63 (620)
T ss_pred EEEECCCCCCHHHHHHHHHHHhC
Confidence 68999999999999888877653
No 326
>KOG1804 consensus RNA helicase [RNA processing and modification]
Probab=86.15 E-value=0.4 Score=60.29 Aligned_cols=72 Identities=28% Similarity=0.265 Sum_probs=56.3
Q ss_pred HhccCcEEEEecccchhH-HHhhhcCCCCEEEEcCCCCCCcccccccccc--CCCeEEEecCCCCCCCcccCcccc
Q 042849 942 FANEAEIVFTTVSSSGRK-LFSRLTHGFDMVVIDEAAQASEVGVLPPLSL--GAARCVLGGGSSAAPCNSYQQGSR 1014 (1019)
Q Consensus 942 iL~eA~IV~sTlSssg~~-ll~~l~~~FDvVIIDEAAQa~E~stLIPL~~--g~kr~ILVGDpkQLPPtV~S~~Ak 1014 (1019)
+++ -.|++.|.+.+-.. .+......|...+.|||+|++|++.+.||.+ ..++++|.||+.||-|++.|....
T Consensus 240 ~~~-Hrv~~~~~~~s~~~~~l~~~~~~~t~~~~~eaae~~~~~~l~P~~~~~~~~~~~L~~~~~ql~~~l~s~~~~ 314 (775)
T KOG1804|consen 240 LFK-HRVVVVTLSQSQYLTPLGLPVGFFTHILLDEAAQAMECELLMPLALPSSGTRIVLAGPHLQLTPFLNSVARE 314 (775)
T ss_pred hcc-cceeEeecceeecccccCCCCCceeeeeHHHHHhcCCceeecccccCCCCceeeecccccccccchhhhhhh
Confidence 344 56777777765422 2333345688899999999999999999877 578999999999999999887755
No 327
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.12 E-value=0.51 Score=57.57 Aligned_cols=23 Identities=26% Similarity=0.309 Sum_probs=19.1
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-|+.||||||||+++..+...|
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l 62 (527)
T PRK14969 40 AYLFTGTRGVGKTTLARILAKSL 62 (527)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 35899999999998887777654
No 328
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=86.01 E-value=0.49 Score=48.59 Aligned_cols=22 Identities=41% Similarity=0.632 Sum_probs=18.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
|=-||.|-||||||+|...|..
T Consensus 8 PNILvtGTPG~GKstl~~~lae 29 (176)
T KOG3347|consen 8 PNILVTGTPGTGKSTLAERLAE 29 (176)
T ss_pred CCEEEeCCCCCCchhHHHHHHH
Confidence 4469999999999999888765
No 329
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=85.98 E-value=0.68 Score=53.00 Aligned_cols=24 Identities=33% Similarity=0.289 Sum_probs=20.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.+|-||||.|||||+..|...
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~ 137 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHK 137 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHH
Confidence 457888899999999999998763
No 330
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=85.95 E-value=3.5 Score=53.13 Aligned_cols=46 Identities=24% Similarity=0.354 Sum_probs=35.1
Q ss_pred cCcEEEEecccchhHHHhhh----------cCCCCEEEEcCCCCCCcccccccccc
Q 042849 945 EAEIVFTTVSSSGRKLFSRL----------THGFDMVVIDEAAQASEVGVLPPLSL 990 (1019)
Q Consensus 945 eA~IV~sTlSssg~~ll~~l----------~~~FDvVIIDEAAQa~E~stLIPL~~ 990 (1019)
.++||.+|..-.|.+++..- -..|.++|||||-....-++-.||..
T Consensus 183 ~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEADsmLiDEArTPLII 238 (970)
T PRK12899 183 QCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEVDSILIDEARTPLII 238 (970)
T ss_pred CCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEechhhhhhhccCCceee
Confidence 37899999887765555432 12577999999999999888889865
No 331
>PRK14532 adenylate kinase; Provisional
Probab=85.90 E-value=0.56 Score=48.71 Aligned_cols=20 Identities=25% Similarity=0.552 Sum_probs=16.1
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+||||....|..
T Consensus 3 i~~~G~pGsGKsT~a~~la~ 22 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVE 22 (188)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47899999999987666654
No 332
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=85.89 E-value=0.67 Score=55.26 Aligned_cols=25 Identities=24% Similarity=0.255 Sum_probs=21.2
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..+.++-||||+|||+|+..|...+
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L 119 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYF 119 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHH
Confidence 4578899999999999999987643
No 333
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=85.79 E-value=1.6 Score=52.93 Aligned_cols=23 Identities=35% Similarity=0.387 Sum_probs=20.0
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.||-||||||||.....++.
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~ 295 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAE 295 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHH
Confidence 46899999999999998888764
No 334
>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=85.61 E-value=0.51 Score=59.69 Aligned_cols=21 Identities=43% Similarity=0.624 Sum_probs=17.7
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|+.||||||||.++.++...
T Consensus 490 iLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 490 VLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 488999999999988877653
No 335
>PRK13768 GTPase; Provisional
Probab=85.51 E-value=0.68 Score=51.11 Aligned_cols=23 Identities=22% Similarity=0.398 Sum_probs=20.0
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+.+|.||+|+|||+++.++...+
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l 26 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWL 26 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHH
Confidence 57999999999999998887644
No 336
>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=85.49 E-value=0.75 Score=51.46 Aligned_cols=22 Identities=36% Similarity=0.456 Sum_probs=18.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.++-||||.|||+|++.|..
T Consensus 73 ~vi~l~G~~G~GKTTt~akLA~ 94 (272)
T TIGR00064 73 NVILFVGVNGVGKTTTIAKLAN 94 (272)
T ss_pred eEEEEECCCCCcHHHHHHHHHH
Confidence 4555569999999999999875
No 337
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=85.46 E-value=0.76 Score=51.90 Aligned_cols=25 Identities=20% Similarity=0.181 Sum_probs=21.2
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
...+..|-||||+|||+++..++..
T Consensus 33 ~~~~i~i~G~~G~GKttl~~~l~~~ 57 (300)
T TIGR00750 33 NAHRVGITGTPGAGKSTLLEALGME 57 (300)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHH
Confidence 3467888899999999999998864
No 338
>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=85.31 E-value=0.65 Score=53.30 Aligned_cols=24 Identities=21% Similarity=0.274 Sum_probs=20.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+++|-||||||||++...++.
T Consensus 54 ~G~iteI~Gp~GsGKTtLal~~~~ 77 (325)
T cd00983 54 KGRIIEIYGPESSGKTTLALHAIA 77 (325)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 346999999999999988777654
No 339
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=85.21 E-value=0.75 Score=54.07 Aligned_cols=24 Identities=29% Similarity=0.484 Sum_probs=20.9
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.++-||+|+|||+|++.|...
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~ 197 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAI 197 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 368899999999999999988753
No 340
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=85.21 E-value=0.57 Score=52.63 Aligned_cols=22 Identities=41% Similarity=0.675 Sum_probs=18.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.-.||-||||||||-..++|-.
T Consensus 65 ravLlaGppgtGKTAlAlaisq 86 (456)
T KOG1942|consen 65 RAVLLAGPPGTGKTALALAISQ 86 (456)
T ss_pred cEEEEecCCCCchhHHHHHHHH
Confidence 4579999999999988877754
No 341
>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=85.19 E-value=0.72 Score=48.36 Aligned_cols=20 Identities=25% Similarity=0.411 Sum_probs=17.2
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
..|-||+|+|||+++..|..
T Consensus 2 igi~G~~GsGKSTl~~~l~~ 21 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIE 21 (198)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57999999999998877765
No 342
>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=85.16 E-value=0.7 Score=45.08 Aligned_cols=24 Identities=25% Similarity=0.506 Sum_probs=19.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+..|.||.|+|||+++..|..
T Consensus 10 ~g~~~~i~G~nGsGKStLl~~l~g 33 (137)
T PF00005_consen 10 PGEIVAIVGPNGSGKSTLLKALAG 33 (137)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHTT
T ss_pred CCCEEEEEccCCCccccceeeecc
Confidence 347899999999999988766654
No 343
>PRK00889 adenylylsulfate kinase; Provisional
Probab=85.13 E-value=0.9 Score=46.68 Aligned_cols=23 Identities=22% Similarity=0.237 Sum_probs=18.9
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+-+|-|+||+|||++...|..
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~ 26 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAE 26 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHH
Confidence 35788999999999987777765
No 344
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=85.11 E-value=0.65 Score=49.03 Aligned_cols=24 Identities=25% Similarity=0.537 Sum_probs=18.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+-+.+|-||||+|||+++..++.
T Consensus 14 ~P~~~i~aG~~GsGKSt~~~~~~~ 37 (199)
T PF06414_consen 14 KPTLIIIAGQPGSGKSTLARQLLE 37 (199)
T ss_dssp S-EEEEEES-TTSTTHHHHHHHHH
T ss_pred CCEEEEEeCCCCCCHHHHHHHhhh
Confidence 345788999999999998877765
No 345
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=85.05 E-value=1.1 Score=51.67 Aligned_cols=22 Identities=27% Similarity=0.306 Sum_probs=19.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.-.||-||+|+|||+++.+|+.
T Consensus 161 ~nili~G~tgSGKTTll~aL~~ 182 (332)
T PRK13900 161 KNIIISGGTSTGKTTFTNAALR 182 (332)
T ss_pred CcEEEECCCCCCHHHHHHHHHh
Confidence 4479999999999999988876
No 346
>PRK14530 adenylate kinase; Provisional
Probab=85.04 E-value=0.81 Score=48.87 Aligned_cols=22 Identities=32% Similarity=0.557 Sum_probs=17.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+|-||||+|||+....|..
T Consensus 4 ~~I~i~G~pGsGKsT~~~~La~ 25 (215)
T PRK14530 4 PRILLLGAPGAGKGTQSSNLAE 25 (215)
T ss_pred CEEEEECCCCCCHHHHHHHHHH
Confidence 3468999999999977666654
No 347
>PRK07261 topology modulation protein; Provisional
Probab=85.01 E-value=0.59 Score=48.42 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=16.5
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+||||....|..
T Consensus 3 i~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999988766543
No 348
>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=84.95 E-value=0.82 Score=47.16 Aligned_cols=22 Identities=14% Similarity=0.347 Sum_probs=18.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+-+|.||||+|||+....|..
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~ 24 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQS 24 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHH
Confidence 5789999999999987776654
No 349
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=84.95 E-value=0.98 Score=57.41 Aligned_cols=23 Identities=30% Similarity=0.420 Sum_probs=18.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+..|+.||||||||.+...+...
T Consensus 489 ~~~Lf~GP~GvGKT~lAk~LA~~ 511 (758)
T PRK11034 489 GSFLFAGPTGVGKTEVTVQLSKA 511 (758)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 45799999999999988766543
No 350
>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=84.87 E-value=1.4 Score=45.82 Aligned_cols=20 Identities=25% Similarity=0.330 Sum_probs=16.8
Q ss_pred eeEEeCCCCCChhHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL 710 (1019)
+.||-||||+|||+....++
T Consensus 1 ~~li~G~~~sGKS~~a~~~~ 20 (169)
T cd00544 1 IILVTGGARSGKSRFAERLA 20 (169)
T ss_pred CEEEECCCCCCHHHHHHHHH
Confidence 47999999999998876664
No 351
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.85 E-value=0.64 Score=57.66 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=20.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|++||||||||+++..+...|+
T Consensus 39 ha~Lf~Gp~GvGKTtlAr~lAk~Ln 63 (618)
T PRK14951 39 HAYLFTGTRGVGKTTVSRILAKSLN 63 (618)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3469999999999999988877654
No 352
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=84.81 E-value=0.64 Score=58.86 Aligned_cols=22 Identities=41% Similarity=0.586 Sum_probs=18.8
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-|+.||||||||+++-++...+
T Consensus 206 ~lL~G~pG~GKT~l~~~la~~~ 227 (731)
T TIGR02639 206 PLLVGEPGVGKTAIAEGLALRI 227 (731)
T ss_pred eEEECCCCCCHHHHHHHHHHHH
Confidence 4899999999999988887654
No 353
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=84.78 E-value=0.82 Score=46.23 Aligned_cols=20 Identities=20% Similarity=0.395 Sum_probs=17.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|.|+||+|||+++..|..
T Consensus 2 i~i~G~~GsGKSTla~~L~~ 21 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEE 21 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999987777765
No 354
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=84.74 E-value=0.74 Score=47.07 Aligned_cols=22 Identities=36% Similarity=0.546 Sum_probs=19.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
|+.+|-|++|+|||+++..++.
T Consensus 1 p~~~l~G~~GsGKTtl~~~l~~ 22 (158)
T cd03112 1 PVTVLTGFLGAGKTTLLNHILT 22 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHh
Confidence 5789999999999999888765
No 355
>PLN02200 adenylate kinase family protein
Probab=84.72 E-value=0.78 Score=50.15 Aligned_cols=22 Identities=32% Similarity=0.492 Sum_probs=17.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+.+|-||||+|||+....|..
T Consensus 44 ~ii~I~G~PGSGKsT~a~~La~ 65 (234)
T PLN02200 44 FITFVLGGPGSGKGTQCEKIVE 65 (234)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3679999999999987766654
No 356
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=84.69 E-value=0.81 Score=54.23 Aligned_cols=22 Identities=27% Similarity=0.542 Sum_probs=19.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|.||+|+|||+|+..|..
T Consensus 224 ~vi~lvGptGvGKTTtaaKLA~ 245 (432)
T PRK12724 224 KVVFFVGPTGSGKTTSIAKLAA 245 (432)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 5788999999999999999875
No 357
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=84.69 E-value=0.66 Score=55.51 Aligned_cols=25 Identities=28% Similarity=0.284 Sum_probs=20.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|++||||||||+++..+...++
T Consensus 40 ha~Lf~Gp~G~GKtt~A~~lAk~l~ 64 (451)
T PRK06305 40 HAYLFSGIRGTGKTTLARIFAKALN 64 (451)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhc
Confidence 3468999999999999988887653
No 358
>PRK14528 adenylate kinase; Provisional
Probab=84.68 E-value=0.63 Score=48.85 Aligned_cols=20 Identities=30% Similarity=0.551 Sum_probs=16.1
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+|||++...|..
T Consensus 4 i~i~G~pGsGKtt~a~~la~ 23 (186)
T PRK14528 4 IIFMGPPGAGKGTQAKILCE 23 (186)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999987665543
No 359
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=84.65 E-value=0.63 Score=54.80 Aligned_cols=23 Identities=26% Similarity=0.625 Sum_probs=19.9
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
-|++||||+|||+++..+...++
T Consensus 39 ~Lf~Gp~G~GKt~lA~~lA~~l~ 61 (394)
T PRK07940 39 WLFTGPPGSGRSVAARAFAAALQ 61 (394)
T ss_pred EEEECCCCCcHHHHHHHHHHHhC
Confidence 68999999999999988877654
No 360
>PRK13764 ATPase; Provisional
Probab=84.64 E-value=0.8 Score=56.58 Aligned_cols=24 Identities=25% Similarity=0.430 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
...||-||||+||||++.+|+..+
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i 281 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFY 281 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHH
Confidence 346999999999999999988644
No 361
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=84.63 E-value=1.3 Score=51.32 Aligned_cols=21 Identities=29% Similarity=0.684 Sum_probs=17.9
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||.||+|||||+++..+...
T Consensus 41 vli~G~~GtGKs~~ar~~~~~ 61 (350)
T CHL00081 41 VMIMGDRGTGKSTTIRALVDL 61 (350)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 689999999999988777653
No 362
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=84.56 E-value=0.77 Score=43.40 Aligned_cols=20 Identities=30% Similarity=0.483 Sum_probs=17.5
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-|++|+|||++|..++.
T Consensus 2 I~V~G~~g~GKTsLi~~l~~ 21 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLIRRLCG 21 (119)
T ss_dssp EEEECSTTSSHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHhc
Confidence 37999999999999888875
No 363
>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=84.51 E-value=0.71 Score=45.26 Aligned_cols=20 Identities=25% Similarity=0.508 Sum_probs=16.3
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+|||++...|..
T Consensus 2 I~i~G~~GsGKst~a~~la~ 21 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAK 21 (147)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47999999999987766654
No 364
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=84.47 E-value=0.98 Score=40.28 Aligned_cols=22 Identities=27% Similarity=0.416 Sum_probs=18.6
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+|.|.+|+|||++...+...+
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l 23 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAAL 23 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5789999999999998887643
No 365
>PRK02496 adk adenylate kinase; Provisional
Probab=84.46 E-value=0.78 Score=47.54 Aligned_cols=20 Identities=30% Similarity=0.569 Sum_probs=16.3
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+|||++...|..
T Consensus 4 i~i~G~pGsGKst~a~~la~ 23 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAE 23 (184)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58899999999987766654
No 366
>PLN02459 probable adenylate kinase
Probab=84.45 E-value=1 Score=50.18 Aligned_cols=20 Identities=25% Similarity=0.306 Sum_probs=14.9
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+|||+....|..
T Consensus 32 ii~~G~PGsGK~T~a~~la~ 51 (261)
T PLN02459 32 WVFLGCPGVGKGTYASRLSK 51 (261)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 35579999999977655544
No 367
>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=84.44 E-value=0.81 Score=46.95 Aligned_cols=22 Identities=32% Similarity=0.655 Sum_probs=17.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|.||+|+|||+++..|..
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHc
Confidence 3679999999999987666553
No 368
>PTZ00202 tuzin; Provisional
Probab=84.43 E-value=2.6 Score=50.39 Aligned_cols=23 Identities=17% Similarity=0.267 Sum_probs=20.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|.+|-||+|+|||+++..++..
T Consensus 287 rivvLtG~~G~GKTTLlR~~~~~ 309 (550)
T PTZ00202 287 RIVVFTGFRGCGKSSLCRSAVRK 309 (550)
T ss_pred eEEEEECCCCCCHHHHHHHHHhc
Confidence 59999999999999988877753
No 369
>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=84.39 E-value=0.71 Score=50.07 Aligned_cols=22 Identities=36% Similarity=0.575 Sum_probs=17.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+-||+||+|||||.+.+.+..
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~ 23 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQ 23 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHH
T ss_pred cEEEEECCCCCChhHHHHHHHH
Confidence 3679999999999998877765
No 370
>PRK01184 hypothetical protein; Provisional
Probab=84.39 E-value=0.77 Score=47.51 Aligned_cols=19 Identities=32% Similarity=0.380 Sum_probs=15.0
Q ss_pred eeEEeCCCCCChhHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL 710 (1019)
+.+|-||||+||||. +.++
T Consensus 3 ~i~l~G~~GsGKsT~-a~~~ 21 (184)
T PRK01184 3 IIGVVGMPGSGKGEF-SKIA 21 (184)
T ss_pred EEEEECCCCCCHHHH-HHHH
Confidence 568999999999984 4443
No 371
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=84.34 E-value=1.4 Score=45.92 Aligned_cols=21 Identities=24% Similarity=0.325 Sum_probs=17.1
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+.||-||||+|||+....++.
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~ 23 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAA 23 (170)
T ss_pred EEEEECCCCccHHHHHHHHHH
Confidence 579999999999987666543
No 372
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=84.28 E-value=0.58 Score=48.67 Aligned_cols=19 Identities=32% Similarity=0.574 Sum_probs=14.2
Q ss_pred eEEeCCCCCChhHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL 710 (1019)
--|-||||+||||+...|.
T Consensus 3 ItIsG~pGsG~TTva~~lA 21 (179)
T COG1102 3 ITISGLPGSGKTTVARELA 21 (179)
T ss_pred EEeccCCCCChhHHHHHHH
Confidence 4689999999996554443
No 373
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=84.27 E-value=0.67 Score=57.34 Aligned_cols=24 Identities=25% Similarity=0.350 Sum_probs=20.5
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
--|++||||||||+++..+...|+
T Consensus 48 a~L~~Gp~GvGKTt~Ar~lAk~L~ 71 (598)
T PRK09111 48 AFMLTGVRGVGKTTTARILARALN 71 (598)
T ss_pred eEEEECCCCCCHHHHHHHHHHhhC
Confidence 359999999999999988887654
No 374
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.25 E-value=0.71 Score=57.32 Aligned_cols=25 Identities=24% Similarity=0.271 Sum_probs=21.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|++||||||||+++..|...|+
T Consensus 39 HA~LFtGP~GvGKTTLAriLAkaLn 63 (700)
T PRK12323 39 HAYLFTGTRGVGKTTLSRILAKSLN 63 (700)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3469999999999999988887664
No 375
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.24 E-value=0.66 Score=57.65 Aligned_cols=24 Identities=33% Similarity=0.491 Sum_probs=20.6
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
--|+.||||||||+++..+...|+
T Consensus 40 a~Lf~Gp~G~GKttlA~~lAk~L~ 63 (620)
T PRK14948 40 AYLFTGPRGTGKTSSARILAKSLN 63 (620)
T ss_pred eEEEECCCCCChHHHHHHHHHHhc
Confidence 359999999999999988887654
No 376
>PRK10865 protein disaggregation chaperone; Provisional
Probab=84.23 E-value=0.78 Score=59.12 Aligned_cols=25 Identities=36% Similarity=0.474 Sum_probs=20.9
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+..|+.||||||||+++-++...+
T Consensus 199 ~~n~lL~G~pGvGKT~l~~~la~~i 223 (857)
T PRK10865 199 KNNPVLIGEPGVGKTAIVEGLAQRI 223 (857)
T ss_pred cCceEEECCCCCCHHHHHHHHHHHh
Confidence 3557899999999999998887654
No 377
>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=84.15 E-value=0.44 Score=55.50 Aligned_cols=23 Identities=43% Similarity=0.706 Sum_probs=20.7
Q ss_pred eeEEeCCCCCChhHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
--||.|-||||||+....++.++
T Consensus 12 TLLIKG~PGTGKTtfaLelL~~l 34 (484)
T PF07088_consen 12 TLLIKGEPGTGKTTFALELLNSL 34 (484)
T ss_pred EEEEecCCCCCceeeehhhHHHH
Confidence 46999999999999999998876
No 378
>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=84.11 E-value=0.76 Score=52.50 Aligned_cols=23 Identities=26% Similarity=0.186 Sum_probs=18.9
Q ss_pred CCCeeEEeCCCCCChhHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
...+++|.||||||||+....+.
T Consensus 95 ~G~iteI~G~~GsGKTql~lqla 117 (313)
T TIGR02238 95 SMSITEVFGEFRCGKTQLSHTLC 117 (313)
T ss_pred CCeEEEEECCCCCCcCHHHHHHH
Confidence 45799999999999998775543
No 379
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=84.06 E-value=0.78 Score=53.11 Aligned_cols=23 Identities=22% Similarity=0.120 Sum_probs=18.9
Q ss_pred CCCeeEEeCCCCCChhHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
...+++|-||||||||+....+.
T Consensus 125 ~G~ItEI~G~~GsGKTql~lqla 147 (344)
T PLN03187 125 TRCITEAFGEFRSGKTQLAHTLC 147 (344)
T ss_pred CCeEEEEecCCCCChhHHHHHHH
Confidence 45799999999999998765553
No 380
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=84.01 E-value=0.75 Score=51.90 Aligned_cols=23 Identities=43% Similarity=0.803 Sum_probs=18.0
Q ss_pred CCCeeEEeCCCCCChhHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
|+.=-|+-|||||||+++..+..
T Consensus 165 PwrgiLLyGPPGTGKSYLAKAVA 187 (439)
T KOG0739|consen 165 PWRGILLYGPPGTGKSYLAKAVA 187 (439)
T ss_pred cceeEEEeCCCCCcHHHHHHHHH
Confidence 34445999999999999876654
No 381
>PRK09354 recA recombinase A; Provisional
Probab=83.99 E-value=0.81 Score=53.02 Aligned_cols=23 Identities=22% Similarity=0.303 Sum_probs=19.8
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+++|-||||||||++...++.
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~ 82 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIA 82 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHH
Confidence 46999999999999998877664
No 382
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=83.95 E-value=8.7 Score=44.45 Aligned_cols=71 Identities=23% Similarity=0.175 Sum_probs=50.3
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
-+|.+.|..|-...+... ....=.|||.--|.|||-.|-..|... +
T Consensus 96 G~Ls~~Q~~as~~l~q~i----------~~k~~~lv~AV~GaGKTEMif~~i~~a------------l------------ 141 (441)
T COG4098 96 GTLSPGQKKASNQLVQYI----------KQKEDTLVWAVTGAGKTEMIFQGIEQA------------L------------ 141 (441)
T ss_pred cccChhHHHHHHHHHHHH----------HhcCcEEEEEecCCCchhhhHHHHHHH------------H------------
Confidence 579999998877655321 122348999999999998776555421 1
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+.+|.+.+|-=.-+-|+.-||.+
T Consensus 142 ------------------------------~~G~~vciASPRvDVclEl~~Rlk~ 166 (441)
T COG4098 142 ------------------------------NQGGRVCIASPRVDVCLELYPRLKQ 166 (441)
T ss_pred ------------------------------hcCCeEEEecCcccchHHHHHHHHH
Confidence 1267888888888888888888854
No 383
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.91 E-value=0.75 Score=56.82 Aligned_cols=23 Identities=35% Similarity=0.544 Sum_probs=19.7
Q ss_pred eEEeCCCCCChhHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
-|+.||||||||+++..+...|.
T Consensus 41 ~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 41 YLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 49999999999999988887553
No 384
>PRK00300 gmk guanylate kinase; Provisional
Probab=83.83 E-value=1 Score=47.29 Aligned_cols=24 Identities=29% Similarity=0.523 Sum_probs=19.3
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.+|.||+|+|||+++..|..
T Consensus 4 ~g~~i~i~G~sGsGKstl~~~l~~ 27 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLVKALLE 27 (205)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHh
Confidence 456889999999999976666654
No 385
>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]
Probab=83.79 E-value=1.6 Score=58.10 Aligned_cols=56 Identities=29% Similarity=0.304 Sum_probs=42.6
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCCcccCCchhHHhhhhhhhhhccCCCC
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSDNVSMGSIDEVLQNMDQNLLRTLPKL 768 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~ 768 (1019)
.+..||-.--|||||+||+..+-.+++ +. | .
T Consensus 16 ~~~~lveASAGSGKT~vL~~r~lrlLl-----------~~-------------------~-------------------~ 46 (1139)
T COG1074 16 GQSVLVEASAGTGKTFVLAERVLRLLL-----------EG-------------------G-------------------P 46 (1139)
T ss_pred CCcEEEEEcCCCCchhHHHHHHHHHHh-----------hc-------------------C-------------------C
Confidence 456899999999999999997754321 10 0 0
Q ss_pred CCCCcEEEEecCchhHHHHHHHHHh
Q 042849 769 CPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 769 ~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..-.+|||.+.||+|.-|+-.||.+
T Consensus 47 ~~v~~ILvvTFT~aAa~Emk~RI~~ 71 (1139)
T COG1074 47 LDVDEILVVTFTKAAAAEMKERIRD 71 (1139)
T ss_pred CChhHeeeeeccHHHHHHHHHHHHH
Confidence 1145899999999999999999954
No 386
>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=83.78 E-value=1.6 Score=56.37 Aligned_cols=24 Identities=29% Similarity=0.428 Sum_probs=19.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
+..|+.||||||||++...|...+
T Consensus 596 ~~~Lf~Gp~GvGKt~lA~~La~~l 619 (852)
T TIGR03346 596 GSFLFLGPTGVGKTELAKALAEFL 619 (852)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHh
Confidence 457999999999999888877643
No 387
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=83.77 E-value=0.77 Score=57.21 Aligned_cols=24 Identities=25% Similarity=0.306 Sum_probs=20.3
Q ss_pred eEEeCCCCCChhHHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIHL 715 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Lll 715 (1019)
-|+.||||||||+++..+...|+.
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHhhhh
Confidence 699999999999998888776543
No 388
>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=83.73 E-value=0.91 Score=47.68 Aligned_cols=21 Identities=29% Similarity=0.514 Sum_probs=17.7
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-|.||||+||||+...|...
T Consensus 2 IgI~G~sgSGKTTla~~L~~~ 22 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLAKRLAQI 22 (194)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 469999999999888777653
No 389
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=83.72 E-value=0.75 Score=57.50 Aligned_cols=24 Identities=25% Similarity=0.346 Sum_probs=20.2
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
--|+.||||||||+++..+...|.
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhc
Confidence 459999999999999888877553
No 390
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=83.64 E-value=0.99 Score=46.25 Aligned_cols=22 Identities=23% Similarity=0.471 Sum_probs=18.9
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..|-||+|+|||+++..|+..+
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l 23 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKAL 23 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 4678999999999999998743
No 391
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=83.48 E-value=0.93 Score=49.67 Aligned_cols=20 Identities=40% Similarity=0.685 Sum_probs=17.5
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
+||-||||+|||+..--|..
T Consensus 140 tLiigpP~~GKTTlLRdiaR 159 (308)
T COG3854 140 TLIIGPPQVGKTTLLRDIAR 159 (308)
T ss_pred eEEecCCCCChHHHHHHHHH
Confidence 89999999999998777665
No 392
>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=83.31 E-value=0.72 Score=54.62 Aligned_cols=20 Identities=30% Similarity=0.413 Sum_probs=17.2
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.++-|||||||||+..++-.
T Consensus 212 li~lGp~GTGKThla~~l~~ 231 (449)
T TIGR02688 212 LIELGPKGTGKSYIYNNLSP 231 (449)
T ss_pred EEEECCCCCCHHHHHHHHhH
Confidence 58899999999999887654
No 393
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=83.24 E-value=0.96 Score=47.08 Aligned_cols=22 Identities=32% Similarity=0.607 Sum_probs=18.9
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-.|.||||.|||+.+..+...|
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L 29 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKL 29 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHH
Confidence 4899999999999998888643
No 394
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=83.23 E-value=0.83 Score=56.16 Aligned_cols=25 Identities=32% Similarity=0.425 Sum_probs=20.5
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|+.||||||||+++..+...+.
T Consensus 39 hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 39 HAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3468999999999999888877653
No 395
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=83.22 E-value=0.97 Score=54.63 Aligned_cols=24 Identities=33% Similarity=0.446 Sum_probs=20.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+-||.||+|+|||+||-.|-.
T Consensus 109 ~~~iLLltGPsGcGKSTtvkvLsk 132 (634)
T KOG1970|consen 109 GSRILLLTGPSGCGKSTTVKVLSK 132 (634)
T ss_pred CceEEEEeCCCCCCchhHHHHHHH
Confidence 346999999999999999877765
No 396
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.17 E-value=0.75 Score=56.91 Aligned_cols=21 Identities=38% Similarity=0.600 Sum_probs=18.1
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.|+.||||||||..+.++...
T Consensus 704 iLLyGppGcGKT~la~a~a~~ 724 (952)
T KOG0735|consen 704 ILLYGPPGCGKTLLASAIASN 724 (952)
T ss_pred eEEECCCCCcHHHHHHHHHhh
Confidence 499999999999988887653
No 397
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=83.11 E-value=0.81 Score=56.26 Aligned_cols=25 Identities=24% Similarity=0.470 Sum_probs=21.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|+.||||||||+++..+...+.
T Consensus 39 hayLf~Gp~G~GKTt~Ar~lAk~L~ 63 (563)
T PRK06647 39 NAYIFSGPRGVGKTSSARAFARCLN 63 (563)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhhc
Confidence 4569999999999999988887654
No 398
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=83.10 E-value=0.84 Score=57.53 Aligned_cols=25 Identities=24% Similarity=0.270 Sum_probs=20.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|+.||||||||+++..|...|+
T Consensus 39 HAyLFtGPpGvGKTTlAriLAKaLn 63 (830)
T PRK07003 39 HAYLFTGTRGVGKTTLSRIFAKALN 63 (830)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3469999999999999888877653
No 399
>PRK06547 hypothetical protein; Provisional
Probab=82.90 E-value=1.1 Score=46.68 Aligned_cols=24 Identities=25% Similarity=0.326 Sum_probs=19.6
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...+.+|-||||+|||++...|..
T Consensus 14 ~~~~i~i~G~~GsGKTt~a~~l~~ 37 (172)
T PRK06547 14 GMITVLIDGRSGSGKTTLAGALAA 37 (172)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHH
Confidence 346788999999999988877765
No 400
>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=82.80 E-value=3.3 Score=51.70 Aligned_cols=21 Identities=14% Similarity=0.374 Sum_probs=18.6
Q ss_pred CCcEEEEecCchhHHHHHHHH
Q 042849 771 KPRMLVCAPSNAATDELLTRV 791 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RL 791 (1019)
+.+|||++||..=.++++..+
T Consensus 46 ~~rvlIstpT~~Lq~Ql~~~l 66 (636)
T TIGR03117 46 DQKIAIAVPTLALMGQLWSEL 66 (636)
T ss_pred CceEEEECCcHHHHHHHHHHH
Confidence 579999999999999999755
No 401
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=82.80 E-value=1.3 Score=46.48 Aligned_cols=25 Identities=24% Similarity=0.384 Sum_probs=21.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.++.-|-||+|+|||+++..|+..+
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l 30 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPAL 30 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHH
Confidence 4688899999999999999998743
No 402
>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=82.74 E-value=0.93 Score=53.73 Aligned_cols=22 Identities=32% Similarity=0.527 Sum_probs=18.3
Q ss_pred eeEEeCCCCCChhHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
-.|+.||||||||++...|...
T Consensus 49 ~ILLiGppG~GKT~lAraLA~~ 70 (441)
T TIGR00390 49 NILMIGPTGVGKTEIARRLAKL 70 (441)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4699999999999888777653
No 403
>PRK12608 transcription termination factor Rho; Provisional
Probab=82.73 E-value=1 Score=52.71 Aligned_cols=22 Identities=27% Similarity=0.472 Sum_probs=18.7
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.||-||||||||+++..|+..+
T Consensus 136 ~LIvG~pGtGKTTLl~~la~~i 157 (380)
T PRK12608 136 GLIVAPPRAGKTVLLQQIAAAV 157 (380)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 6999999999998887777644
No 404
>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=82.71 E-value=1 Score=53.43 Aligned_cols=22 Identities=32% Similarity=0.460 Sum_probs=18.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+-.||.||||||||+++..|..
T Consensus 117 ~~iLL~GP~GsGKT~lAraLA~ 138 (413)
T TIGR00382 117 SNILLIGPTGSGKTLLAQTLAR 138 (413)
T ss_pred ceEEEECCCCcCHHHHHHHHHH
Confidence 3579999999999988777654
No 405
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=82.67 E-value=1.6 Score=53.33 Aligned_cols=19 Identities=42% Similarity=0.779 Sum_probs=15.7
Q ss_pred eEEeCCCCCChhHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL 710 (1019)
.||.||||||||+.+-.+.
T Consensus 89 vLi~Ge~GtGKt~lAr~i~ 107 (531)
T TIGR02902 89 VIIYGPPGVGKTAAARLVL 107 (531)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 5999999999998665554
No 406
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.59 E-value=0.88 Score=56.15 Aligned_cols=25 Identities=28% Similarity=0.351 Sum_probs=20.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|+.||||||||+++..+...|+
T Consensus 39 hayLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 39 HAFLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhhc
Confidence 3459999999999999988887653
No 407
>PTZ00035 Rad51 protein; Provisional
Probab=82.59 E-value=0.99 Score=52.07 Aligned_cols=23 Identities=26% Similarity=0.173 Sum_probs=19.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
...++.|.||||+|||++...+.
T Consensus 117 ~G~iteI~G~~GsGKT~l~~~l~ 139 (337)
T PTZ00035 117 TGSITELFGEFRTGKTQLCHTLC 139 (337)
T ss_pred CCeEEEEECCCCCchhHHHHHHH
Confidence 45799999999999998875554
No 408
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=82.59 E-value=3 Score=50.96 Aligned_cols=24 Identities=29% Similarity=0.401 Sum_probs=20.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..++.+|-||+|+|||+|+..|..
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa 372 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQ 372 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHH
Confidence 346788889999999999988875
No 409
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=82.45 E-value=0.83 Score=55.71 Aligned_cols=23 Identities=43% Similarity=0.644 Sum_probs=17.4
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+.+ .|+|||||+|||-...++.+
T Consensus 545 PsG-vLL~GPPGCGKTLlAKAVAN 567 (802)
T KOG0733|consen 545 PSG-VLLCGPPGCGKTLLAKAVAN 567 (802)
T ss_pred CCc-eEEeCCCCccHHHHHHHHhh
Confidence 445 49999999999976666543
No 410
>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=82.44 E-value=2.6 Score=49.98 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=20.8
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.+|-|+||+|||.++..++.
T Consensus 194 ~G~l~vi~g~pg~GKT~~~l~~a~ 217 (434)
T TIGR00665 194 PSDLIILAARPSMGKTAFALNIAE 217 (434)
T ss_pred CCeEEEEEeCCCCChHHHHHHHHH
Confidence 446999999999999999888865
No 411
>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=82.43 E-value=1.2 Score=46.49 Aligned_cols=23 Identities=30% Similarity=0.504 Sum_probs=19.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
...|+-||+|+|||.++..|...
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~~ 26 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAEL 26 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHH
T ss_pred EEEEEECCCCCCHHHHHHHHHHH
Confidence 45799999999999988777654
No 412
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=82.38 E-value=1 Score=46.93 Aligned_cols=22 Identities=23% Similarity=0.484 Sum_probs=17.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|-||+|+|||+++..|..
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 4689999999999987766643
No 413
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=82.34 E-value=3 Score=49.10 Aligned_cols=24 Identities=25% Similarity=0.226 Sum_probs=21.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.+|-||.|+|||+|++.|..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~ 228 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGW 228 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHH
Confidence 457899999999999999998865
No 414
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=82.34 E-value=0.8 Score=57.14 Aligned_cols=17 Identities=53% Similarity=0.839 Sum_probs=0.0
Q ss_pred EEeCCCCCChhHHHHHH
Q 042849 693 LVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 693 LIQGPPGTGKTkTI~~L 709 (1019)
|+.||||||||-...++
T Consensus 709 LLYGPPGTGKTLlAKAV 725 (953)
T KOG0736|consen 709 LLYGPPGTGKTLLAKAV 725 (953)
T ss_pred EEECCCCCchHHHHHHH
No 415
>PRK06696 uridine kinase; Validated
Probab=82.29 E-value=2 Score=46.31 Aligned_cols=25 Identities=20% Similarity=0.094 Sum_probs=20.7
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.-+..|-||||+||||+...|...|
T Consensus 22 ~~iI~I~G~sgsGKSTlA~~L~~~l 46 (223)
T PRK06696 22 PLRVAIDGITASGKTTFADELAEEI 46 (223)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHH
Confidence 3589999999999999887777643
No 416
>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=82.28 E-value=0.87 Score=45.69 Aligned_cols=18 Identities=33% Similarity=0.700 Sum_probs=14.8
Q ss_pred EeCCCCCChhHHHHHHHH
Q 042849 694 VQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 694 IQGPPGTGKTkTI~~LL~ 711 (1019)
|-||||+|||+....|..
T Consensus 1 i~G~PgsGK~t~~~~la~ 18 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAK 18 (151)
T ss_dssp EEESTTSSHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHH
Confidence 679999999987776654
No 417
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=82.23 E-value=2.1 Score=44.47 Aligned_cols=18 Identities=33% Similarity=0.564 Sum_probs=14.4
Q ss_pred eEEeCCCCCChhHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~L 709 (1019)
.||+|++||||+.+...|
T Consensus 25 VlI~GE~GtGK~~lA~~I 42 (168)
T PF00158_consen 25 VLITGETGTGKELLARAI 42 (168)
T ss_dssp EEEECSTTSSHHHHHHHH
T ss_pred EEEEcCCCCcHHHHHHHH
Confidence 699999999999654433
No 418
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=82.20 E-value=2.8 Score=49.53 Aligned_cols=24 Identities=17% Similarity=0.275 Sum_probs=21.1
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.+|-|+||+|||.++..++.
T Consensus 193 ~g~liviag~pg~GKT~~al~ia~ 216 (421)
T TIGR03600 193 KGDLIVIGARPSMGKTTLALNIAE 216 (421)
T ss_pred CCceEEEEeCCCCCHHHHHHHHHH
Confidence 457999999999999999888874
No 419
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=82.13 E-value=0.82 Score=54.93 Aligned_cols=19 Identities=47% Similarity=0.775 Sum_probs=14.2
Q ss_pred CeeEEeCCCCCChhHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~L 709 (1019)
++ |+.||||||||-....|
T Consensus 258 Gi-LLyGPPGTGKTLiARqI 276 (744)
T KOG0741|consen 258 GI-LLYGPPGTGKTLIARQI 276 (744)
T ss_pred eE-EEECCCCCChhHHHHHH
Confidence 44 99999999999544333
No 420
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=82.10 E-value=1.1 Score=47.20 Aligned_cols=22 Identities=27% Similarity=0.533 Sum_probs=17.8
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.||.|+||+|||.++..++..+
T Consensus 41 ~li~G~tgsGKS~~l~~ll~~l 62 (205)
T PF01580_consen 41 LLIAGATGSGKSTLLRTLLLSL 62 (205)
T ss_dssp EEEE--TTSSHHHHHHHHHHHH
T ss_pred EEEEcCCCCCccHHHHHHHHHH
Confidence 6999999999999999988754
No 421
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=82.01 E-value=1 Score=55.75 Aligned_cols=22 Identities=27% Similarity=0.453 Sum_probs=19.6
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+|+||+||||||++.+|.+.+
T Consensus 317 L~LyG~sGsGKTHLL~AIa~~a 338 (617)
T PRK14086 317 LFIYGESGLGKTHLLHAIGHYA 338 (617)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5999999999999999888754
No 422
>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=82.00 E-value=3.7 Score=53.04 Aligned_cols=20 Identities=10% Similarity=0.335 Sum_probs=16.2
Q ss_pred CCcEEEEecCchhHHHHHHH
Q 042849 771 KPRMLVCAPSNAATDELLTR 790 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~R 790 (1019)
+++|+|++||..-.++++.+
T Consensus 292 ~~~vvi~t~t~~Lq~Ql~~~ 311 (850)
T TIGR01407 292 EKPVVISTNTKVLQSQLLEK 311 (850)
T ss_pred CCeEEEEeCcHHHHHHHHHH
Confidence 46899999999988887664
No 423
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=81.95 E-value=1 Score=44.20 Aligned_cols=20 Identities=25% Similarity=0.448 Sum_probs=16.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|.||||+|||+.+..++.
T Consensus 2 i~i~G~~~~GKTsli~~l~~ 21 (160)
T cd00876 2 VVVLGAGGVGKSAITIQFVK 21 (160)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 38999999999998777764
No 424
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=81.95 E-value=2.7 Score=50.83 Aligned_cols=64 Identities=23% Similarity=0.271 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCCCCCCC
Q 042849 664 PQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPNESNSD 743 (1019)
Q Consensus 664 SQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~~~~s~ 743 (1019)
-|-+||...+. |...| ...-.+.|--|||||+|++.+|.-
T Consensus 16 DQP~AI~~Lv~----gi~~g-----~~~QtLLGvTGSGKTfT~AnVI~~------------------------------- 55 (663)
T COG0556 16 DQPEAIAELVE----GIENG-----LKHQTLLGVTGSGKTFTMANVIAK------------------------------- 55 (663)
T ss_pred CcHHHHHHHHH----HHhcC-----ceeeEEeeeccCCchhHHHHHHHH-------------------------------
Confidence 46688886653 22222 245788999999999999998862
Q ss_pred cccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 744 NVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 744 ~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.++..||.||.-+-.-++..-+..
T Consensus 56 --------------------------~~rPtLV~AhNKTLAaQLy~Efk~ 79 (663)
T COG0556 56 --------------------------VQRPTLVLAHNKTLAAQLYSEFKE 79 (663)
T ss_pred --------------------------hCCCeEEEecchhHHHHHHHHHHH
Confidence 156889999988888888888743
No 425
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=81.90 E-value=0.96 Score=58.26 Aligned_cols=22 Identities=36% Similarity=0.539 Sum_probs=18.8
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-|+.||||||||+++-++...|
T Consensus 211 ~lLvG~pGvGKTal~~~La~~i 232 (852)
T TIGR03345 211 PILTGEAGVGKTAVVEGLALRI 232 (852)
T ss_pred eeEECCCCCCHHHHHHHHHHHH
Confidence 4899999999999888877654
No 426
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=81.81 E-value=3.4 Score=52.22 Aligned_cols=44 Identities=16% Similarity=0.058 Sum_probs=26.2
Q ss_pred CCChHHHH---HHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 660 TFNGPQLA---AIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 660 ~LNeSQ~e---AI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-+.|.+ +|..++.+ +. +......+|..|.||||| .+-||-++
T Consensus 25 e~R~~Q~~M~~~V~~al~~---~~-----~~~~~~lviEAgTGtGKT--laYLlPai 71 (697)
T PRK11747 25 IPRAGQRQMIAEVAKTLAG---EY-----LKDGRILVIEAGTGVGKT--LSYLLAGI 71 (697)
T ss_pred CcCHHHHHHHHHHHHHHhc---cc-----ccccceEEEECCCCcchh--HHHHHHHH
Confidence 34457776 66666621 00 001357899999999998 34444433
No 427
>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=81.79 E-value=1.2 Score=44.20 Aligned_cols=20 Identities=25% Similarity=0.255 Sum_probs=15.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+|||+....|..
T Consensus 2 i~l~G~~GsGKstla~~la~ 21 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAK 21 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 37889999999977666643
No 428
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=81.79 E-value=1.1 Score=50.03 Aligned_cols=22 Identities=27% Similarity=0.427 Sum_probs=17.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.++-||||+|||+....|..
T Consensus 3 ~liil~G~pGSGKSTla~~L~~ 24 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAA 24 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHH
Confidence 3678899999999987777654
No 429
>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=81.72 E-value=0.95 Score=48.14 Aligned_cols=20 Identities=30% Similarity=0.614 Sum_probs=15.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+|||+....|..
T Consensus 2 I~i~G~pGsGKsT~a~~La~ 21 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAE 21 (210)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 37899999999977665543
No 430
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=81.54 E-value=1 Score=54.94 Aligned_cols=24 Identities=25% Similarity=0.291 Sum_probs=20.4
Q ss_pred eeEEeCCCCCChhHHHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
.-|+.||||||||+++..+...++
T Consensus 38 ayLf~Gp~G~GKTt~Ar~LAk~L~ 61 (535)
T PRK08451 38 AYLFSGLRGSGKTSSARIFARALV 61 (535)
T ss_pred eEEEECCCCCcHHHHHHHHHHHhc
Confidence 459999999999999988887653
No 431
>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=81.44 E-value=1.2 Score=57.55 Aligned_cols=24 Identities=38% Similarity=0.543 Sum_probs=20.0
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-|+.||||||||+++-++...+
T Consensus 195 ~n~lL~G~pGvGKT~l~~~la~~i 218 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIVEGLAQRI 218 (852)
T ss_pred CceEEEcCCCCCHHHHHHHHHHHH
Confidence 456899999999999998887654
No 432
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=81.34 E-value=2.3 Score=54.04 Aligned_cols=23 Identities=30% Similarity=0.407 Sum_probs=18.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+..|+.||||||||.+...|...
T Consensus 485 ~~~lf~Gp~GvGKT~lA~~la~~ 507 (731)
T TIGR02639 485 GSFLFTGPTGVGKTELAKQLAEA 507 (731)
T ss_pred eeEEEECCCCccHHHHHHHHHHH
Confidence 34699999999999888777654
No 433
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=81.34 E-value=1.3 Score=46.22 Aligned_cols=21 Identities=33% Similarity=0.469 Sum_probs=17.4
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..|-|+||+|||++...|...
T Consensus 2 i~i~G~sgsGKttla~~l~~~ 22 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQ 22 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999888777653
No 434
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=81.31 E-value=1.3 Score=56.73 Aligned_cols=25 Identities=32% Similarity=0.498 Sum_probs=20.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..++.++.||||||||++...+...
T Consensus 348 ~g~~i~l~GppG~GKTtl~~~ia~~ 372 (784)
T PRK10787 348 KGPILCLVGPPGVGKTSLGQSIAKA 372 (784)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHH
Confidence 3478999999999999888777654
No 435
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.29 E-value=1.1 Score=54.28 Aligned_cols=24 Identities=33% Similarity=0.470 Sum_probs=18.3
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
..-|+.||||||||+++..+...+
T Consensus 39 hayLf~Gp~G~GKTtlAr~lAk~L 62 (486)
T PRK14953 39 HAYIFAGPRGTGKTTIARILAKVL 62 (486)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 345899999999987776666544
No 436
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=81.29 E-value=1.1 Score=56.56 Aligned_cols=25 Identities=36% Similarity=0.453 Sum_probs=20.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..-|+.||||||||+++..+...|.
T Consensus 41 HAYLF~GP~GtGKTt~AriLAk~Ln 65 (725)
T PRK07133 41 HAYLFSGPRGTGKTSVAKIFANALN 65 (725)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHhc
Confidence 3469999999999999988877654
No 437
>CHL00095 clpC Clp protease ATP binding subunit
Probab=81.26 E-value=1.1 Score=57.67 Aligned_cols=41 Identities=20% Similarity=0.264 Sum_probs=27.3
Q ss_pred ChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHH
Q 042849 662 NGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 662 NeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+.+.+.+...|.. . ..+. -|+.||||||||.++-++...+
T Consensus 184 r~~ei~~~~~~L~r-----~-----~~~n-~lL~G~pGvGKTal~~~la~~i 224 (821)
T CHL00095 184 REKEIERVIQILGR-----R-----TKNN-PILIGEPGVGKTAIAEGLAQRI 224 (821)
T ss_pred cHHHHHHHHHHHcc-----c-----ccCC-eEEECCCCCCHHHHHHHHHHHH
Confidence 45666666666521 1 1122 4899999999999988876644
No 438
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.25 E-value=1 Score=55.84 Aligned_cols=25 Identities=28% Similarity=0.412 Sum_probs=20.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
+--|++||||||||+++..+...|+
T Consensus 39 ha~Lf~GPpG~GKTtiArilAk~L~ 63 (624)
T PRK14959 39 PAYLFSGTRGVGKTTIARIFAKALN 63 (624)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhcc
Confidence 4468999999999998888877553
No 439
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=81.24 E-value=1.4 Score=53.33 Aligned_cols=24 Identities=29% Similarity=0.306 Sum_probs=21.2
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+.++-||.|.|||||+..|...
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~ 279 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAAR 279 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHH
Confidence 468999999999999999998763
No 440
>PRK14737 gmk guanylate kinase; Provisional
Probab=81.17 E-value=1.4 Score=46.55 Aligned_cols=23 Identities=17% Similarity=0.345 Sum_probs=19.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.+|-||+|+|||+++-.|+.
T Consensus 4 ~~~ivl~GpsG~GK~tl~~~l~~ 26 (186)
T PRK14737 4 PKLFIISSVAGGGKSTIIQALLE 26 (186)
T ss_pred CeEEEEECCCCCCHHHHHHHHHh
Confidence 35789999999999998877765
No 441
>PRK14738 gmk guanylate kinase; Provisional
Probab=81.08 E-value=1.3 Score=47.22 Aligned_cols=22 Identities=27% Similarity=0.445 Sum_probs=17.8
Q ss_pred CCeeEEeCCCCCChhHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
..+.+|-||||+|||+++-.|.
T Consensus 13 ~~~ivi~GpsG~GK~tl~~~L~ 34 (206)
T PRK14738 13 PLLVVISGPSGVGKDAVLARMR 34 (206)
T ss_pred CeEEEEECcCCCCHHHHHHHHH
Confidence 3577899999999998776654
No 442
>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=81.04 E-value=1.4 Score=52.45 Aligned_cols=24 Identities=29% Similarity=0.379 Sum_probs=21.0
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
.+.++.||||+|||+|++.+...+
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l 123 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYL 123 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHH
Confidence 488999999999999999987643
No 443
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=81.01 E-value=1.3 Score=50.97 Aligned_cols=24 Identities=21% Similarity=0.234 Sum_probs=20.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-+.-|.||||+|||+++..++..+
T Consensus 57 ~~igi~G~~GaGKSTl~~~l~~~l 80 (332)
T PRK09435 57 LRIGITGVPGVGKSTFIEALGMHL 80 (332)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHH
Confidence 478899999999999999988743
No 444
>PRK00279 adk adenylate kinase; Reviewed
Probab=81.00 E-value=1 Score=48.02 Aligned_cols=20 Identities=30% Similarity=0.546 Sum_probs=15.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+|||++...|..
T Consensus 3 I~v~G~pGsGKsT~a~~la~ 22 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAE 22 (215)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 58999999999976655543
No 445
>PRK07667 uridine kinase; Provisional
Probab=80.96 E-value=1.4 Score=46.37 Aligned_cols=24 Identities=21% Similarity=0.120 Sum_probs=19.7
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-+..|-||||+|||++...|...
T Consensus 17 ~~iIgI~G~~gsGKStla~~L~~~ 40 (193)
T PRK07667 17 RFILGIDGLSRSGKTTFVANLKEN 40 (193)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH
Confidence 357899999999999888777653
No 446
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=80.77 E-value=2.2 Score=50.76 Aligned_cols=22 Identities=32% Similarity=0.527 Sum_probs=17.9
Q ss_pred eeEEeCCCCCChhHHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
-.|+.||||||||++...|...
T Consensus 52 ~ILliGp~G~GKT~LAr~LAk~ 73 (443)
T PRK05201 52 NILMIGPTGVGKTEIARRLAKL 73 (443)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3599999999999887776553
No 447
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=80.75 E-value=0.65 Score=52.84 Aligned_cols=24 Identities=46% Similarity=0.722 Sum_probs=20.3
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
|=.|.-||||||||.||.+....|
T Consensus 63 Ph~L~YgPPGtGktsti~a~a~~l 86 (360)
T KOG0990|consen 63 PHLLFYGPPGTGKTSTILANARDF 86 (360)
T ss_pred CcccccCCCCCCCCCchhhhhhhh
Confidence 347999999999999999887655
No 448
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=80.63 E-value=3 Score=52.04 Aligned_cols=23 Identities=39% Similarity=0.641 Sum_probs=17.7
Q ss_pred CCCCeeEEeCCCCCChhHHHHHHH
Q 042849 687 SPWPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 687 ~~~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
.+..+-|+.||||-|||++ +.+|
T Consensus 324 P~kKilLL~GppGlGKTTL-AHVi 346 (877)
T KOG1969|consen 324 PPKKILLLCGPPGLGKTTL-AHVI 346 (877)
T ss_pred CccceEEeecCCCCChhHH-HHHH
Confidence 3457999999999999964 4444
No 449
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=80.51 E-value=1.5 Score=45.53 Aligned_cols=22 Identities=27% Similarity=0.406 Sum_probs=18.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+-.|.||||+||||.+..|..
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~ 25 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKK 25 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 4689999999999987766654
No 450
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=80.49 E-value=1.5 Score=44.25 Aligned_cols=24 Identities=33% Similarity=0.624 Sum_probs=20.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
|+.+|.||.|+|||+++..|+..+
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l 24 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINEL 24 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEEEECCCCCCHHHHHHHHHHHH
Confidence 357899999999999999999854
No 451
>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=80.46 E-value=1.4 Score=47.72 Aligned_cols=21 Identities=19% Similarity=0.240 Sum_probs=17.2
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.-|-||+|.||||++..|...
T Consensus 2 igI~G~sGSGKTTla~~L~~~ 22 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQAL 22 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHH
Confidence 457799999999998777763
No 452
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=80.41 E-value=2 Score=49.42 Aligned_cols=22 Identities=32% Similarity=0.366 Sum_probs=19.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+-|+-|-.||||||||.-|..
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~ 161 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAK 161 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHH
Confidence 4689999999999999999876
No 453
>PF00519 PPV_E1_C: Papillomavirus helicase; InterPro: IPR001177 Papillomaviruses are a large family of DNA tumour viruses which give rise to warts in their host species. The helicase E1 protein is an ATP-dependent DNA helicase required for initiation of viral DNA replication []. It forms a complex with the viral E2 protein, which is a site-specific DNA-binding transcriptional activator. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins []. The E1 protein is a 70 kDa polypeptide with a central DNA-binding domain and a C-terminal ATPase/helicase domain. It binds specific 18 bp DNA sequences at the origin of replication, melts the DNA duplex and functions as a 3' to 5' helicase []. In addition to E2 it also interacts with DNA polymerase alpha and replication protein A to effect DNA replication. The DNA-binding domain forms a five-stranded antiparallel beta sheet bordered by four loosely packed alpha helices on one side and two tightly packed helices on the other []. Two structural modules within this domain, an extended loop and a helix, contain conserved residues and are critical for DNA binding. In solution E1 is a monomer, but binds DNA as a dimer. Recruitment of more E1 subunits to the complex leads to melting of the origin and ultimately to the formation of an E1 hexamer with helicase activity []. The entry represents the C-terminal region of E1, containing both the DNA-binding and ATPase/helical domains.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1TUE_K 1R9W_A 2V9P_B 2GXA_I 1KSX_J 1KSY_A 1F08_B.
Probab=80.32 E-value=1.4 Score=51.57 Aligned_cols=24 Identities=25% Similarity=0.484 Sum_probs=20.8
Q ss_pred CCeeEEeCCCCCChhHHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~~ 712 (1019)
+.--+|.|||+|||+...-.|+..
T Consensus 262 KnClvi~GPPdTGKS~F~~SLi~F 285 (432)
T PF00519_consen 262 KNCLVIYGPPDTGKSMFCMSLIKF 285 (432)
T ss_dssp SSEEEEESSCCCSHHHHHHHHHHH
T ss_pred ccEEEEECCCCCchhHHHHHHHHH
Confidence 457899999999999999888873
No 454
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=80.29 E-value=2.5 Score=49.15 Aligned_cols=26 Identities=31% Similarity=0.454 Sum_probs=21.9
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVIHL 715 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~Lll 715 (1019)
..-||.||+|+|||+++..+...|+.
T Consensus 46 ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 46 HALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred eeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 35799999999999999988876543
No 455
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=80.25 E-value=1.6 Score=45.54 Aligned_cols=22 Identities=18% Similarity=0.211 Sum_probs=18.4
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|.||+|+|||++...|..
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~ 25 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAA 25 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 5789999999999987766654
No 456
>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=80.15 E-value=1.4 Score=48.03 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=17.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-|+||+|||+.+..|..
T Consensus 2 Ivl~G~pGSGKST~a~~La~ 21 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAK 21 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 58999999999988877764
No 457
>PRK09694 helicase Cas3; Provisional
Probab=80.01 E-value=4.1 Score=52.75 Aligned_cols=23 Identities=17% Similarity=0.446 Sum_probs=19.6
Q ss_pred CCcEEEEecCchhHHHHHHHHHh
Q 042849 771 KPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
..+|+++.||-+.++++..|+.+
T Consensus 331 ~~gi~~aLPT~Atan~m~~Rl~~ 353 (878)
T PRK09694 331 ADSIIFALPTQATANAMLSRLEA 353 (878)
T ss_pred CCeEEEECcHHHHHHHHHHHHHH
Confidence 46899999999999999999853
No 458
>PRK13695 putative NTPase; Provisional
Probab=79.83 E-value=1.5 Score=45.08 Aligned_cols=20 Identities=40% Similarity=0.684 Sum_probs=17.0
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|.|+||+|||+++..++.
T Consensus 3 i~ltG~~G~GKTTll~~i~~ 22 (174)
T PRK13695 3 IGITGPPGVGKTTLVLKIAE 22 (174)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47899999999998887655
No 459
>PRK13949 shikimate kinase; Provisional
Probab=79.75 E-value=1.4 Score=45.68 Aligned_cols=20 Identities=25% Similarity=0.273 Sum_probs=15.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-||||+|||++...|..
T Consensus 4 I~liG~~GsGKstl~~~La~ 23 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALAR 23 (169)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47889999999987665544
No 460
>PRK05748 replicative DNA helicase; Provisional
Probab=79.69 E-value=3.7 Score=49.03 Aligned_cols=24 Identities=25% Similarity=0.410 Sum_probs=20.9
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
+..+.+|=|+||+|||.+...++.
T Consensus 202 ~G~livIaarpg~GKT~~al~ia~ 225 (448)
T PRK05748 202 PNDLIIVAARPSVGKTAFALNIAQ 225 (448)
T ss_pred CCceEEEEeCCCCCchHHHHHHHH
Confidence 457899999999999999888875
No 461
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=79.69 E-value=1.6 Score=52.91 Aligned_cols=22 Identities=36% Similarity=0.526 Sum_probs=18.2
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...||.||||||||+++..|-.
T Consensus 212 ~~vlliG~pGsGKTtlar~l~~ 233 (499)
T TIGR00368 212 HNLLLFGPPGSGKTMLASRLQG 233 (499)
T ss_pred CEEEEEecCCCCHHHHHHHHhc
Confidence 4589999999999988776654
No 462
>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=79.63 E-value=1.6 Score=42.44 Aligned_cols=22 Identities=27% Similarity=0.373 Sum_probs=18.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL 710 (1019)
..+.+|-||.|+|||+++..++
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 4689999999999998776653
No 463
>PRK14526 adenylate kinase; Provisional
Probab=79.50 E-value=1.3 Score=47.87 Aligned_cols=19 Identities=32% Similarity=0.518 Sum_probs=14.9
Q ss_pred eEEeCCCCCChhHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL 710 (1019)
-+|.||||+|||+....|.
T Consensus 3 i~l~G~pGsGKsT~a~~La 21 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILS 21 (211)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4789999999997765444
No 464
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=79.46 E-value=1.2 Score=48.90 Aligned_cols=21 Identities=43% Similarity=0.767 Sum_probs=18.0
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+|-||||.||||-..++...
T Consensus 5 qvVIGPPgSGKsTYc~g~~~f 25 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQF 25 (290)
T ss_pred eEEEcCCCCCccchhhhHHHH
Confidence 489999999999988887653
No 465
>PF12846 AAA_10: AAA-like domain
Probab=79.44 E-value=1.8 Score=47.35 Aligned_cols=22 Identities=36% Similarity=0.616 Sum_probs=19.2
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
++|-|++|+|||+++..++..+
T Consensus 4 ~~i~G~tGsGKT~~~~~l~~~~ 25 (304)
T PF12846_consen 4 TLILGKTGSGKTTLLKNLLEQL 25 (304)
T ss_pred EEEECCCCCcHHHHHHHHHHHH
Confidence 7999999999999999887643
No 466
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=79.41 E-value=1 Score=49.50 Aligned_cols=18 Identities=44% Similarity=0.715 Sum_probs=15.1
Q ss_pred EeCCCCCChhHHHHHHHH
Q 042849 694 VQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 694 IQGPPGTGKTkTI~~LL~ 711 (1019)
|-||||+||||.+.++-.
T Consensus 1 ViGpaGSGKTT~~~~~~~ 18 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSE 18 (238)
T ss_dssp -EESTTSSHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHH
Confidence 569999999998888876
No 467
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=79.23 E-value=1.4 Score=48.95 Aligned_cols=19 Identities=47% Similarity=0.707 Sum_probs=15.1
Q ss_pred eeEEeCCCCCChhHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~L 709 (1019)
=.|+.||||||||-...+.
T Consensus 213 gvllygppgtgktl~arav 231 (435)
T KOG0729|consen 213 GVLLYGPPGTGKTLCARAV 231 (435)
T ss_pred ceEEeCCCCCchhHHHHHH
Confidence 3599999999999765544
No 468
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=79.23 E-value=1.4 Score=56.07 Aligned_cols=22 Identities=36% Similarity=0.468 Sum_probs=18.4
Q ss_pred eEEeCCCCCChhHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~L 713 (1019)
-||.||||||||.++-++...+
T Consensus 210 ~LLvGppGvGKT~lae~la~~i 231 (758)
T PRK11034 210 PLLVGESGVGKTAIAEGLAWRI 231 (758)
T ss_pred eEEECCCCCCHHHHHHHHHHHH
Confidence 3899999999999988876543
No 469
>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]
Probab=79.11 E-value=1.2 Score=58.30 Aligned_cols=24 Identities=38% Similarity=0.462 Sum_probs=19.9
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.|+|||-||.||||||+|=.+=.
T Consensus 26 ~sPlTLIvG~NG~GKTTiIEcLKy 49 (1294)
T KOG0962|consen 26 FSPLTLIVGANGTGKTTIIECLKY 49 (1294)
T ss_pred cCCeeeEecCCCCCchhHHHHHHH
Confidence 459999999999999988766543
No 470
>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=79.04 E-value=4.7 Score=51.74 Aligned_cols=36 Identities=25% Similarity=0.186 Sum_probs=27.0
Q ss_pred ccCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHH
Q 042849 658 HRTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTV 706 (1019)
Q Consensus 658 ~~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI 706 (1019)
.....+-|.++|..++. | ....++|-|.|||||-++
T Consensus 13 G~~PtpiQ~~~i~~il~----G---------~~~v~~~apTGSGKTaa~ 48 (844)
T TIGR02621 13 GYSPFPWQLSLAERFVA----G---------QPPESCSTPTGLGKTSII 48 (844)
T ss_pred CCCCCHHHHHHHHHHHc----C---------CCcceEecCCCCcccHHH
Confidence 34578899999997661 2 124688999999999765
No 471
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=79.04 E-value=1.6 Score=46.54 Aligned_cols=22 Identities=27% Similarity=0.413 Sum_probs=18.3
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+.+|-|+||+|||+....+..
T Consensus 4 ~~i~i~G~~G~GKst~a~~l~~ 25 (197)
T PRK12339 4 TIHFIGGIPGVGKTSISGYIAR 25 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 4689999999999987766655
No 472
>PRK13975 thymidylate kinase; Provisional
Probab=78.91 E-value=1.8 Score=45.03 Aligned_cols=22 Identities=27% Similarity=0.418 Sum_probs=17.6
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-|-.|.||||+|||+.+..|..
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~ 24 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAE 24 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 3679999999999977665554
No 473
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=78.81 E-value=1.4 Score=55.24 Aligned_cols=21 Identities=43% Similarity=0.651 Sum_probs=18.2
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.||.||||||||+++..+...
T Consensus 188 ill~G~~G~GKt~~~~~~a~~ 208 (644)
T PRK10733 188 VLMVGPPGTGKTLLAKAIAGE 208 (644)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 699999999999988877653
No 474
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=78.76 E-value=1.5 Score=46.02 Aligned_cols=21 Identities=33% Similarity=0.632 Sum_probs=17.5
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
.+|-||||.||||....|...
T Consensus 3 iiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 489999999999887777654
No 475
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=78.72 E-value=1.8 Score=46.77 Aligned_cols=24 Identities=29% Similarity=0.580 Sum_probs=20.8
Q ss_pred CeeEEeCCCCCChhHHHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLNVI 713 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~~L 713 (1019)
++.++.||||.|||+....|...|
T Consensus 2 pLiIlTGyPgsGKTtfakeLak~L 25 (261)
T COG4088 2 PLIILTGYPGSGKTTFAKELAKEL 25 (261)
T ss_pred ceEEEecCCCCCchHHHHHHHHHH
Confidence 567999999999999998888754
No 476
>PRK06761 hypothetical protein; Provisional
Probab=78.70 E-value=1.7 Score=49.13 Aligned_cols=22 Identities=27% Similarity=0.505 Sum_probs=19.0
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+-+|-||||+||||++..+..
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~ 25 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLND 25 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 5789999999999988877765
No 477
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=78.65 E-value=1.6 Score=43.51 Aligned_cols=20 Identities=25% Similarity=0.415 Sum_probs=16.9
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+|-||||+|||+++..++.
T Consensus 3 i~v~G~~~~GKTsli~~~~~ 22 (164)
T smart00173 3 LVVLGSGGVGKSALTIQFVQ 22 (164)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 36779999999998888764
No 478
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=78.45 E-value=1.2 Score=51.63 Aligned_cols=20 Identities=45% Similarity=0.722 Sum_probs=16.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.|+.||||||||....++-.
T Consensus 130 iLL~GPpG~GKTmlAKA~Ak 149 (386)
T KOG0737|consen 130 ILLYGPPGTGKTMLAKAIAK 149 (386)
T ss_pred ceecCCCCchHHHHHHHHHH
Confidence 59999999999988776643
No 479
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=78.38 E-value=0.9 Score=47.87 Aligned_cols=22 Identities=36% Similarity=0.403 Sum_probs=12.9
Q ss_pred CCcEEEEecCchhHHHHHHHHH
Q 042849 771 KPRMLVCAPSNAATDELLTRVL 792 (1019)
Q Consensus 771 k~RILVCAPSNaAVDEll~RLl 792 (1019)
..+|+||||+-.++..+...+.
T Consensus 26 ~~~I~vtAP~~~~~~~lf~~~~ 47 (177)
T PF05127_consen 26 KIRILVTAPSPENVQTLFEFAE 47 (177)
T ss_dssp ---EEEE-SS--S-HHHHHCC-
T ss_pred CceEEEecCCHHHHHHHHHHHH
Confidence 3689999999999999988764
No 480
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=78.26 E-value=1.9 Score=51.10 Aligned_cols=20 Identities=45% Similarity=0.690 Sum_probs=16.3
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-|.-||||||||-.+.++..
T Consensus 189 lLLfGPpgtGKtmL~~aiAs 208 (428)
T KOG0740|consen 189 LLLFGPPGTGKTMLAKAIAT 208 (428)
T ss_pred hheecCCCCchHHHHHHHHh
Confidence 38899999999987766644
No 481
>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=78.22 E-value=1.7 Score=43.42 Aligned_cols=19 Identities=32% Similarity=0.671 Sum_probs=15.0
Q ss_pred eEEeCCCCCChhHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL 710 (1019)
.+|.||+|+|||+.+..|.
T Consensus 2 i~i~GpsGsGKstl~~~L~ 20 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLL 20 (137)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4788999999997655554
No 482
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=78.16 E-value=1.9 Score=43.72 Aligned_cols=21 Identities=24% Similarity=0.509 Sum_probs=17.5
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..+-||+|+|||+++..+...
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~ 22 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITA 22 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHH
Confidence 367799999999999888753
No 483
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=78.11 E-value=1.6 Score=43.86 Aligned_cols=21 Identities=24% Similarity=0.279 Sum_probs=17.4
Q ss_pred eeEEeCCCCCChhHHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
-.+|.||||+|||+++..+..
T Consensus 16 ~v~i~G~~g~GKStLl~~l~~ 36 (173)
T cd04155 16 RILILGLDNAGKTTILKQLAS 36 (173)
T ss_pred EEEEEccCCCCHHHHHHHHhc
Confidence 379999999999998766653
No 484
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=77.98 E-value=1.7 Score=50.71 Aligned_cols=24 Identities=29% Similarity=0.526 Sum_probs=21.1
Q ss_pred eEEeCCCCCChhHHHHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNVIHL 715 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~Lll 715 (1019)
-|+.||+|+||++++..+...|+.
T Consensus 44 ~Lf~Gp~G~GK~~lA~~~A~~Llc 67 (365)
T PRK07471 44 WLIGGPQGIGKATLAYRMARFLLA 67 (365)
T ss_pred EEEECCCCCCHHHHHHHHHHHHhC
Confidence 599999999999999999887653
No 485
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=77.72 E-value=9 Score=48.08 Aligned_cols=25 Identities=24% Similarity=0.405 Sum_probs=18.2
Q ss_pred CCCCEEEEcCCCCCCcccccccccc
Q 042849 966 HGFDMVVIDEAAQASEVGVLPPLSL 990 (1019)
Q Consensus 966 ~~FDvVIIDEAAQa~E~stLIPL~~ 990 (1019)
.+|+++|||||--+.-=+...||..
T Consensus 241 r~~~~aIvDEvDSiLiDeartplii 265 (656)
T PRK12898 241 RGLHFAIVDEADSVLIDEARTPLII 265 (656)
T ss_pred cccceeEeecccceeeccCCCceEE
Confidence 4789999999986665555566644
No 486
>cd01918 HprK_C 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 Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=77.58 E-value=1.9 Score=44.28 Aligned_cols=20 Identities=30% Similarity=0.718 Sum_probs=17.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.||.||+|.|||++...++.
T Consensus 17 vLi~G~sG~GKStlal~L~~ 36 (149)
T cd01918 17 VLITGPSGIGKSELALELIK 36 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 69999999999999887765
No 487
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=77.55 E-value=2.8 Score=49.22 Aligned_cols=20 Identities=45% Similarity=0.629 Sum_probs=16.4
Q ss_pred eeEEeCCCCCChhHHHHHHH
Q 042849 691 FTLVQGPPGTGKTHTVWGML 710 (1019)
Q Consensus 691 fsLIQGPPGTGKTkTI~~LL 710 (1019)
-.|..||||||||-....|.
T Consensus 386 NilfyGPPGTGKTm~ArelA 405 (630)
T KOG0742|consen 386 NILFYGPPGTGKTMFARELA 405 (630)
T ss_pred heeeeCCCCCCchHHHHHHH
Confidence 37999999999997776653
No 488
>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=77.51 E-value=2 Score=47.50 Aligned_cols=22 Identities=36% Similarity=0.727 Sum_probs=18.6
Q ss_pred Cee-EEeCCCCCChhHHHHHHHH
Q 042849 690 PFT-LVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fs-LIQGPPGTGKTkTI~~LL~ 711 (1019)
+|. +|-||+|+|||+++..|+.
T Consensus 13 ~fr~viIG~sGSGKT~li~~lL~ 35 (241)
T PF04665_consen 13 PFRMVIIGKSGSGKTTLIKSLLY 35 (241)
T ss_pred CceEEEECCCCCCHHHHHHHHHH
Confidence 443 5999999999999999875
No 489
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=77.50 E-value=1.7 Score=42.38 Aligned_cols=22 Identities=23% Similarity=0.499 Sum_probs=18.1
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
...++-||||.|||+++..++.
T Consensus 4 ~~i~~~G~~g~GKttl~~~l~~ 25 (168)
T cd04163 4 GFVAIVGRPNVGKSTLLNALVG 25 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHhC
Confidence 3478999999999998877653
No 490
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=77.49 E-value=7.1 Score=49.09 Aligned_cols=69 Identities=22% Similarity=0.171 Sum_probs=49.8
Q ss_pred cCCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCCCChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 659 RTFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPGTGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 659 ~~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPGTGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
..++.-|..|+...+..... ...-.+|.|.+|+|||.+++.++..
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~---------~~~~~ll~Gl~gs~ka~lia~l~~~-------------------------- 55 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEA---------GEKHQTLLGVTGSGKTFTMANVIAR-------------------------- 55 (652)
T ss_pred CCCChHHHHHHHHHHHhhhc---------CCCcEEEEcCCCcHHHHHHHHHHHH--------------------------
Confidence 47788999999865422111 1112479999999999998776531
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHHHHh
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTRVLD 793 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~RLl~ 793 (1019)
.++++||.+|+..-.+++...|..
T Consensus 56 -------------------------------~~r~vLIVt~~~~~A~~l~~dL~~ 79 (652)
T PRK05298 56 -------------------------------LQRPTLVLAHNKTLAAQLYSEFKE 79 (652)
T ss_pred -------------------------------hCCCEEEEECCHHHHHHHHHHHHH
Confidence 145799999999999999999843
No 491
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=77.40 E-value=1.9 Score=56.02 Aligned_cols=27 Identities=22% Similarity=0.319 Sum_probs=23.7
Q ss_pred CCCeeEEeCCCCCChhHHHHHHHHHHH
Q 042849 688 PWPFTLVQGPPGTGKTHTVWGMLNVIH 714 (1019)
Q Consensus 688 ~~~fsLIQGPPGTGKTkTI~~LL~~Ll 714 (1019)
..||+||.||-|.|||+.+=+|..+|+
T Consensus 24 ~~gi~lI~G~nGsGKSSIldAI~~ALy 50 (908)
T COG0419 24 DSGIFLIVGPNGAGKSSILDAITFALY 50 (908)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHHc
Confidence 458999999999999999888887764
No 492
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=77.21 E-value=2.1 Score=50.53 Aligned_cols=22 Identities=36% Similarity=0.421 Sum_probs=19.7
Q ss_pred CeeEEeCCCCCChhHHHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.+.+|-||+|+|||+|+..|..
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~ 263 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAW 263 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHH
Confidence 5779999999999999998875
No 493
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=77.15 E-value=5.2 Score=54.62 Aligned_cols=65 Identities=14% Similarity=0.116 Sum_probs=51.2
Q ss_pred CCChHHHHHHHHHHHHhhcCCCCCCCCCCCCeeEEeCCCC-CChhHHHHHHHHHHHHHhhhhhhhhhhhhcCcccccCCC
Q 042849 660 TFNGPQLAAIQWAAIHTAAGTSSGMTKSPWPFTLVQGPPG-TGKTHTVWGMLNVIHLVQYQHYYNSLLKKLAPESYKQPN 738 (1019)
Q Consensus 660 ~LNeSQ~eAI~~Al~~~~~g~s~~~~k~~~~fsLIQGPPG-TGKTkTI~~LL~~Lll~~~q~~~~sLlk~l~~~~~kq~~ 738 (1019)
.+|..|.+|+...+. +...|.+|+|+=| ||||+++..++.++-
T Consensus 281 ~~~~~q~~Av~~il~------------dr~~v~iv~~~GgAtGKtt~l~~l~~~a~------------------------ 324 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQ------------DRPSLAIVSGQGGAAGQRERVAELVMMAR------------------------ 324 (1623)
T ss_pred ccchhHHHHHHHHhc------------CCCceEEEEecccccccHHHHHHHHHHHH------------------------
Confidence 467899999987761 3568999999888 999999998776320
Q ss_pred CCCCCcccCCchhHHhhhhhhhhhccCCCCCCCCcEEEEecCchhHHHHHHH
Q 042849 739 ESNSDNVSMGSIDEVLQNMDQNLLRTLPKLCPKPRMLVCAPSNAATDELLTR 790 (1019)
Q Consensus 739 ~~~s~~~~~g~~~e~~~~~~~n~~r~~~k~~~k~RILVCAPSNaAVDEll~R 790 (1019)
..+.+|.+.||++.|+..+...
T Consensus 325 ------------------------------~~G~~V~~lApt~~a~~~L~e~ 346 (1623)
T PRK14712 325 ------------------------------EQGREVQIIAADRRSQMNLKQD 346 (1623)
T ss_pred ------------------------------hCCcEEEEEeCCHHHHHHHHhc
Confidence 1378999999999999888764
No 494
>PRK08356 hypothetical protein; Provisional
Probab=77.13 E-value=1.8 Score=45.54 Aligned_cols=20 Identities=25% Similarity=0.096 Sum_probs=15.6
Q ss_pred CeeEEeCCCCCChhHHHHHH
Q 042849 690 PFTLVQGPPGTGKTHTVWGM 709 (1019)
Q Consensus 690 ~fsLIQGPPGTGKTkTI~~L 709 (1019)
.+-+|.||||+|||+..-.|
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l 25 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFF 25 (195)
T ss_pred EEEEEECCCCCCHHHHHHHH
Confidence 45688999999999765444
No 495
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=77.08 E-value=2.5 Score=43.85 Aligned_cols=23 Identities=17% Similarity=0.231 Sum_probs=19.5
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
..+.+|-|+||+|||+++..|..
T Consensus 18 ~~~i~i~G~~GsGKstla~~l~~ 40 (184)
T TIGR00455 18 GVVIWLTGLSGSGKSTIANALEK 40 (184)
T ss_pred CeEEEEECCCCCCHHHHHHHHHH
Confidence 46899999999999987777765
No 496
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=77.06 E-value=1.8 Score=42.22 Aligned_cols=20 Identities=20% Similarity=0.466 Sum_probs=16.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.++.||||+|||+++..+..
T Consensus 4 i~l~G~~~~GKstli~~l~~ 23 (157)
T cd04164 4 VVIVGKPNVGKSSLLNALAG 23 (157)
T ss_pred EEEECCCCCCHHHHHHHHHC
Confidence 58899999999998877653
No 497
>PRK00625 shikimate kinase; Provisional
Probab=77.04 E-value=2 Score=44.91 Aligned_cols=20 Identities=25% Similarity=0.295 Sum_probs=15.7
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
-+|-|+||+|||++...|..
T Consensus 3 I~LiG~pGsGKTT~~k~La~ 22 (173)
T PRK00625 3 IFLCGLPTVGKTSFGKALAK 22 (173)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47889999999977665543
No 498
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=76.81 E-value=1.9 Score=41.72 Aligned_cols=20 Identities=25% Similarity=0.509 Sum_probs=16.8
Q ss_pred eEEeCCCCCChhHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~ 711 (1019)
.++.|+||+|||+++..++.
T Consensus 3 i~~~G~~~~GKStl~~~l~~ 22 (159)
T cd00154 3 IVLIGDSGVGKTSLLLRFVD 22 (159)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 48899999999988777654
No 499
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=76.76 E-value=2.2 Score=45.53 Aligned_cols=21 Identities=33% Similarity=0.479 Sum_probs=17.9
Q ss_pred eEEeCCCCCChhHHHHHHHHH
Q 042849 692 TLVQGPPGTGKTHTVWGMLNV 712 (1019)
Q Consensus 692 sLIQGPPGTGKTkTI~~LL~~ 712 (1019)
..|-||+|+|||+++..++..
T Consensus 4 i~i~G~~GsGKTTll~~l~~~ 24 (199)
T TIGR00101 4 IGVAGPVGSGKTALIEALTRA 24 (199)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 467899999999999888763
No 500
>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=76.70 E-value=2 Score=45.62 Aligned_cols=23 Identities=22% Similarity=0.396 Sum_probs=19.9
Q ss_pred CCeeEEeCCCCCChhHHHHHHHH
Q 042849 689 WPFTLVQGPPGTGKTHTVWGMLN 711 (1019)
Q Consensus 689 ~~fsLIQGPPGTGKTkTI~~LL~ 711 (1019)
.++++|.||-|+|||.++-+|-.
T Consensus 24 ~~~~~i~G~NGsGKS~ileAi~~ 46 (220)
T PF02463_consen 24 PGLNVIVGPNGSGKSNILEAIEF 46 (220)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHH
T ss_pred CCCEEEEcCCCCCHHHHHHHHHH
Confidence 46999999999999998887754
Done!