Query psy4476
Match_columns 266
No_of_seqs 237 out of 1620
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 18:05:54 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4476.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4476hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1802|consensus 100.0 1.9E-33 4.1E-38 272.6 13.6 170 13-195 294-466 (935)
2 TIGR00376 DNA helicase, putati 99.9 1.5E-24 3.3E-29 217.0 14.2 158 12-195 55-213 (637)
3 KOG1803|consensus 99.9 2.3E-24 4.9E-29 208.7 8.4 172 8-195 68-241 (649)
4 PRK10875 recD exonuclease V su 99.9 3.7E-24 8E-29 212.9 -2.5 147 88-247 109-282 (615)
5 TIGR01447 recD exodeoxyribonuc 99.8 1.6E-19 3.4E-24 179.4 3.1 143 88-246 105-275 (586)
6 TIGR01448 recD_rel helicase, p 99.7 6.5E-18 1.4E-22 171.6 3.1 145 89-246 279-432 (720)
7 PF13086 AAA_11: AAA domain; P 99.6 5.6E-16 1.2E-20 133.8 1.1 57 133-195 1-65 (236)
8 PF13604 AAA_30: AAA domain; P 99.5 3.2E-15 6.8E-20 129.5 2.2 99 133-244 1-107 (196)
9 TIGR02768 TraA_Ti Ti-type conj 99.4 1.8E-13 4E-18 139.7 4.6 98 132-246 351-455 (744)
10 PF13245 AAA_19: Part of AAA d 99.3 1.5E-13 3.2E-18 102.0 -0.1 70 140-213 1-74 (76)
11 PRK13889 conjugal transfer rel 99.3 6.7E-13 1.5E-17 138.1 2.7 98 132-246 345-449 (988)
12 KOG1805|consensus 99.2 2.7E-11 5.9E-16 123.2 8.7 132 72-213 607-751 (1100)
13 TIGR02760 TraI_TIGR conjugativ 99.2 5.5E-12 1.2E-16 139.4 2.8 105 132-246 428-545 (1960)
14 PRK13709 conjugal transfer nic 99.2 8.4E-12 1.8E-16 135.6 3.6 99 132-245 966-1077(1747)
15 PRK14712 conjugal transfer nic 99.1 1.7E-11 3.6E-16 132.1 3.4 100 132-244 834-944 (1623)
16 PRK13826 Dtr system oriT relax 99.1 1.7E-11 3.8E-16 128.5 3.0 98 132-246 380-484 (1102)
17 TIGR02760 TraI_TIGR conjugativ 98.9 1.2E-09 2.6E-14 121.2 4.4 102 132-245 1018-1127(1960)
18 PF05970 PIF1: PIF1-like helic 98.8 2.9E-09 6.2E-14 100.6 3.7 72 133-217 1-79 (364)
19 COG0507 RecD ATP-dependent exo 98.6 2.4E-08 5.3E-13 101.5 2.5 103 132-249 318-426 (696)
20 PF00580 UvrD-helicase: UvrD/R 98.4 3.2E-08 6.9E-13 89.3 -0.7 55 134-195 1-57 (315)
21 KOG1807|consensus 98.4 1.1E-07 2.3E-12 95.5 2.8 84 130-226 375-463 (1025)
22 PRK11054 helD DNA helicase IV; 98.4 3.1E-08 6.6E-13 100.7 -2.3 86 132-224 195-288 (684)
23 smart00487 DEXDc DEAD-like hel 98.2 1.1E-06 2.3E-11 72.7 3.6 58 132-194 7-65 (201)
24 PRK10919 ATP-dependent DNA hel 98.2 2.7E-07 5.8E-12 93.8 -0.4 84 133-221 2-94 (672)
25 TIGR01075 uvrD DNA helicase II 98.1 3.8E-07 8.3E-12 93.2 -1.0 83 132-221 3-95 (715)
26 TIGR01074 rep ATP-dependent DN 98.1 4.3E-07 9.4E-12 91.8 -1.2 82 133-221 1-93 (664)
27 PRK11773 uvrD DNA-dependent he 98.1 6E-07 1.3E-11 91.9 -0.4 85 132-221 8-100 (721)
28 TIGR01073 pcrA ATP-dependent D 98.0 9.6E-07 2.1E-11 90.4 -1.8 86 132-222 3-96 (726)
29 PF04851 ResIII: Type III rest 97.8 8.9E-06 1.9E-10 67.4 1.6 52 133-194 3-61 (184)
30 PF02562 PhoH: PhoH-like prote 97.7 2.4E-05 5.2E-10 68.5 2.7 59 132-195 3-61 (205)
31 cd00046 DEXDc DEAD-like helica 97.7 1.6E-05 3.5E-10 61.7 1.2 40 150-194 2-41 (144)
32 PRK10536 hypothetical protein; 97.7 3.9E-05 8.5E-10 69.4 3.7 62 128-194 54-115 (262)
33 PF00270 DEAD: DEAD/DEAH box h 97.5 6.4E-05 1.4E-09 61.8 2.5 54 136-194 2-55 (169)
34 cd00009 AAA The AAA+ (ATPases 97.4 9.6E-05 2.1E-09 57.9 3.0 53 135-194 3-58 (151)
35 cd00268 DEADc DEAD-box helicas 97.4 0.00015 3.2E-09 61.9 3.8 58 132-194 20-80 (203)
36 KOG0989|consensus 97.4 7.3E-05 1.6E-09 68.9 1.7 27 139-165 45-74 (346)
37 smart00382 AAA ATPases associa 97.4 6.3E-05 1.4E-09 58.2 1.0 39 149-194 3-41 (148)
38 PTZ00424 helicase 45; Provisio 97.1 0.00033 7.2E-09 66.1 3.5 58 132-194 49-107 (401)
39 PRK08181 transposase; Validate 97.0 0.00058 1.3E-08 62.2 3.8 53 130-189 84-140 (269)
40 PRK12377 putative replication 97.0 0.00076 1.6E-08 60.8 4.5 46 135-187 80-133 (248)
41 PRK07952 DNA replication prote 97.0 0.00047 1E-08 62.0 2.9 49 134-189 77-133 (244)
42 COG0507 RecD ATP-dependent exo 96.9 7E-05 1.5E-09 76.4 -3.3 118 132-251 200-348 (696)
43 PF00004 AAA: ATPase family as 96.9 0.00017 3.8E-09 56.6 -0.4 13 152-164 2-14 (132)
44 PRK11776 ATP-dependent RNA hel 96.9 0.0007 1.5E-08 65.6 3.6 59 131-194 24-83 (460)
45 KOG0744|consensus 96.9 0.00032 7E-09 65.3 1.0 17 148-164 177-193 (423)
46 PHA02558 uvsW UvsW helicase; P 96.9 0.00083 1.8E-08 66.1 3.6 57 132-194 113-169 (501)
47 COG0210 UvrD Superfamily I DNA 96.8 0.00035 7.7E-09 70.6 0.2 83 133-220 2-93 (655)
48 TIGR02928 orc1/cdc6 family rep 96.8 0.00062 1.4E-08 63.5 1.7 35 135-173 20-61 (365)
49 PRK11192 ATP-dependent RNA hel 96.7 0.0012 2.7E-08 63.3 3.7 58 132-194 22-84 (434)
50 KOG1806|consensus 96.7 0.0015 3.1E-08 68.2 3.8 58 133-195 738-795 (1320)
51 KOG1804|consensus 96.7 0.00043 9.4E-09 71.0 -0.1 42 149-195 327-368 (775)
52 PRK11634 ATP-dependent RNA hel 96.6 0.0014 3.1E-08 66.3 3.5 60 131-194 26-85 (629)
53 PRK06526 transposase; Provisio 96.6 0.0011 2.4E-08 59.9 2.3 52 131-189 78-132 (254)
54 PLN03025 replication factor C 96.6 0.001 2.2E-08 61.6 2.1 30 135-164 18-50 (319)
55 cd01124 KaiC KaiC is a circadi 96.6 0.00086 1.9E-08 56.3 1.3 38 150-194 1-38 (187)
56 PRK06851 hypothetical protein; 96.5 0.0008 1.7E-08 63.9 0.8 42 147-194 29-71 (367)
57 KOG2028|consensus 96.5 0.00079 1.7E-08 63.8 0.5 28 137-164 148-178 (554)
58 PF05496 RuvB_N: Holliday junc 96.5 0.0014 3.1E-08 58.3 1.9 25 140-164 38-66 (233)
59 PRK05580 primosome assembly pr 96.4 0.0026 5.5E-08 65.1 3.7 56 132-194 143-201 (679)
60 PRK09183 transposase/IS protei 96.4 0.0027 5.8E-08 57.4 3.3 52 131-189 82-136 (259)
61 TIGR02881 spore_V_K stage V sp 96.4 0.0008 1.7E-08 60.5 -0.2 14 151-164 45-58 (261)
62 COG1484 DnaC DNA replication p 96.4 0.0022 4.8E-08 57.9 2.6 61 133-200 83-151 (254)
63 cd01129 PulE-GspE PulE/GspE Th 96.4 0.0029 6.2E-08 57.4 3.3 37 133-173 63-101 (264)
64 PRK13833 conjugal transfer pro 96.3 0.0031 6.7E-08 59.0 3.2 37 133-173 128-165 (323)
65 PRK12402 replication factor C 96.3 0.0023 5E-08 58.8 2.3 30 135-164 20-52 (337)
66 PRK06893 DNA replication initi 96.3 0.0049 1.1E-07 54.5 4.2 23 148-174 39-61 (229)
67 PRK13894 conjugal transfer ATP 96.3 0.0033 7.1E-08 58.7 3.2 37 133-173 132-169 (319)
68 COG1061 SSL2 DNA or RNA helica 96.2 0.0037 8.1E-08 60.7 3.6 53 132-194 35-91 (442)
69 PRK08084 DNA replication initi 96.2 0.0052 1.1E-07 54.6 4.1 32 133-164 27-61 (235)
70 TIGR01242 26Sp45 26S proteasom 96.2 0.0019 4.1E-08 60.9 1.3 29 136-164 128-172 (364)
71 TIGR00643 recG ATP-dependent D 96.2 0.0036 7.8E-08 63.4 3.3 56 132-194 234-295 (630)
72 cd01120 RecA-like_NTPases RecA 96.2 0.002 4.3E-08 51.9 1.1 36 150-192 1-36 (165)
73 KOG0991|consensus 96.2 0.0038 8.3E-08 56.1 2.9 18 149-166 49-66 (333)
74 PRK04296 thymidine kinase; Pro 96.1 0.0018 3.9E-08 55.7 0.6 37 149-192 3-39 (190)
75 TIGR02640 gas_vesic_GvpN gas v 96.1 0.0025 5.4E-08 57.5 1.5 29 136-164 5-37 (262)
76 PRK04837 ATP-dependent RNA hel 96.1 0.0047 1E-07 59.2 3.5 59 131-194 28-94 (423)
77 PRK01172 ski2-like helicase; P 96.1 0.0045 9.7E-08 63.0 3.4 56 132-194 21-76 (674)
78 PRK04195 replication factor C 96.1 0.0032 6.9E-08 61.7 2.2 31 134-164 18-55 (482)
79 TIGR00635 ruvB Holliday juncti 96.0 0.0035 7.5E-08 57.2 2.1 15 150-164 32-46 (305)
80 TIGR01650 PD_CobS cobaltochela 96.0 0.0057 1.2E-07 57.2 3.6 34 132-165 47-81 (327)
81 PF13191 AAA_16: AAA ATPase do 96.0 0.0019 4.1E-08 53.8 0.3 34 136-173 6-45 (185)
82 TIGR02533 type_II_gspE general 96.0 0.0053 1.2E-07 60.4 3.4 37 133-173 225-263 (486)
83 COG2256 MGS1 ATPase related to 96.0 0.0037 7.9E-08 59.8 2.1 25 140-164 37-64 (436)
84 PRK10917 ATP-dependent DNA hel 96.0 0.0057 1.2E-07 62.6 3.4 56 132-194 260-321 (681)
85 cd03115 SRP The signal recogni 95.9 0.0029 6.2E-08 53.0 1.1 38 150-194 2-40 (173)
86 PRK08116 hypothetical protein; 95.9 0.0055 1.2E-07 55.7 2.9 36 135-174 90-136 (268)
87 PRK00411 cdc6 cell division co 95.9 0.0038 8.3E-08 58.9 2.0 29 136-164 36-71 (394)
88 PF09848 DUF2075: Uncharacteri 95.9 0.0024 5.3E-08 60.0 0.6 16 149-164 2-17 (352)
89 COG1936 Predicted nucleotide k 95.9 0.0027 5.8E-08 54.2 0.7 15 150-164 2-16 (180)
90 PF01695 IstB_IS21: IstB-like 95.9 0.0022 4.8E-08 54.7 0.2 43 150-199 49-92 (178)
91 PF13401 AAA_22: AAA domain; P 95.9 0.0017 3.7E-08 51.2 -0.4 22 148-173 4-25 (131)
92 KOG0743|consensus 95.9 0.0019 4E-08 62.4 -0.3 21 150-174 237-257 (457)
93 cd01130 VirB11-like_ATPase Typ 95.9 0.0049 1.1E-07 52.6 2.2 37 133-173 9-46 (186)
94 TIGR03878 thermo_KaiC_2 KaiC d 95.9 0.003 6.5E-08 57.0 0.9 36 148-190 36-71 (259)
95 TIGR02880 cbbX_cfxQ probable R 95.9 0.0024 5.2E-08 58.5 0.2 14 151-164 61-74 (284)
96 smart00763 AAA_PrkA PrkA AAA d 95.8 0.012 2.7E-07 55.7 4.9 17 148-164 78-94 (361)
97 TIGR02782 TrbB_P P-type conjug 95.8 0.0072 1.6E-07 55.8 3.3 37 133-173 116-153 (299)
98 PRK10590 ATP-dependent RNA hel 95.8 0.0079 1.7E-07 58.4 3.6 58 132-194 22-86 (456)
99 PTZ00361 26 proteosome regulat 95.8 0.0037 8.1E-08 60.7 1.3 29 136-164 189-233 (438)
100 PRK03992 proteasome-activating 95.8 0.0038 8.2E-08 59.7 1.2 29 136-164 137-181 (389)
101 TIGR03689 pup_AAA proteasome A 95.7 0.004 8.7E-08 61.6 1.3 15 150-164 218-232 (512)
102 PF07728 AAA_5: AAA domain (dy 95.7 0.0022 4.7E-08 51.6 -0.6 14 151-164 2-15 (139)
103 TIGR03420 DnaA_homol_Hda DnaA 95.7 0.0086 1.9E-07 51.9 3.1 31 134-164 21-54 (226)
104 PRK08903 DnaA regulatory inact 95.7 0.0088 1.9E-07 52.3 3.1 37 133-173 23-63 (227)
105 PF05729 NACHT: NACHT domain 95.7 0.0031 6.8E-08 51.2 0.2 21 149-173 1-21 (166)
106 PRK00440 rfc replication facto 95.7 0.0061 1.3E-07 55.5 2.0 29 136-164 23-54 (319)
107 PF13207 AAA_17: AAA domain; P 95.6 0.0024 5.3E-08 49.8 -0.5 14 151-164 2-15 (121)
108 cd01131 PilT Pilus retraction 95.6 0.0045 9.8E-08 53.5 1.0 21 149-173 2-22 (198)
109 PRK11664 ATP-dependent RNA hel 95.6 0.0095 2.1E-07 62.2 3.5 52 136-194 7-59 (812)
110 PRK00080 ruvB Holliday junctio 95.6 0.0064 1.4E-07 56.5 2.0 16 149-164 52-67 (328)
111 TIGR00614 recQ_fam ATP-depende 95.6 0.013 2.7E-07 57.3 4.1 54 131-194 9-62 (470)
112 PLN00206 DEAD-box ATP-dependen 95.6 0.015 3.3E-07 57.5 4.8 61 130-194 140-207 (518)
113 PRK10436 hypothetical protein; 95.6 0.01 2.2E-07 58.1 3.3 32 133-164 201-234 (462)
114 PRK04537 ATP-dependent RNA hel 95.5 0.011 2.3E-07 59.4 3.5 60 131-194 29-95 (572)
115 PF01078 Mg_chelatase: Magnesi 95.5 0.01 2.2E-07 52.1 2.9 30 136-165 9-39 (206)
116 CHL00181 cbbX CbbX; Provisiona 95.5 0.0038 8.3E-08 57.3 0.2 14 151-164 62-75 (287)
117 PRK08727 hypothetical protein; 95.5 0.016 3.5E-07 51.3 4.2 21 149-173 42-62 (233)
118 PTZ00454 26S protease regulato 95.5 0.0073 1.6E-07 58.0 2.1 14 151-164 182-195 (398)
119 COG3973 Superfamily I DNA and 95.5 0.006 1.3E-07 61.0 1.4 54 136-192 215-269 (747)
120 PF07652 Flavi_DEAD: Flaviviru 95.5 0.0052 1.1E-07 51.1 0.8 40 149-194 5-44 (148)
121 PRK02362 ski2-like helicase; P 95.5 0.011 2.4E-07 60.9 3.3 57 131-194 21-78 (737)
122 PHA00729 NTP-binding motif con 95.4 0.0037 7.9E-08 55.6 -0.2 14 151-164 20-33 (226)
123 PRK06835 DNA replication prote 95.4 0.012 2.6E-07 55.2 3.1 33 149-188 184-216 (329)
124 PTZ00110 helicase; Provisional 95.4 0.01 2.2E-07 59.2 2.6 61 130-194 149-214 (545)
125 PRK06921 hypothetical protein; 95.4 0.012 2.6E-07 53.5 2.9 36 149-190 118-153 (266)
126 TIGR02538 type_IV_pilB type IV 95.4 0.013 2.8E-07 58.8 3.3 37 133-173 299-337 (564)
127 TIGR01970 DEAH_box_HrpB ATP-de 95.3 0.013 2.7E-07 61.3 3.3 51 137-194 5-56 (819)
128 PTZ00112 origin recognition co 95.3 0.0085 1.8E-07 62.7 2.0 30 136-165 761-798 (1164)
129 PRK14974 cell division protein 95.3 0.0063 1.4E-07 57.2 1.0 35 150-191 142-176 (336)
130 PRK00254 ski2-like helicase; P 95.3 0.013 2.7E-07 60.3 3.2 58 131-194 21-79 (720)
131 TIGR00580 mfd transcription-re 95.3 0.013 2.8E-07 62.0 3.3 55 133-194 451-511 (926)
132 PF13238 AAA_18: AAA domain; P 95.3 0.0038 8.3E-08 48.7 -0.5 13 152-164 2-14 (129)
133 PHA02653 RNA helicase NPH-II; 95.3 0.021 4.6E-07 58.4 4.7 54 136-194 167-232 (675)
134 PRK10689 transcription-repair 95.3 0.014 3E-07 63.1 3.4 55 133-194 600-660 (1147)
135 PF13671 AAA_33: AAA domain; P 95.3 0.0038 8.2E-08 50.0 -0.6 16 150-165 1-16 (143)
136 TIGR03015 pepcterm_ATPase puta 95.3 0.01 2.2E-07 52.8 2.1 30 135-164 25-59 (269)
137 PF06745 KaiC: KaiC; InterPro 95.3 0.0051 1.1E-07 53.7 0.1 37 149-192 20-57 (226)
138 PRK13342 recombination factor 95.2 0.0078 1.7E-07 57.8 1.4 23 142-164 27-52 (413)
139 COG1474 CDC6 Cdc6-related prot 95.2 0.013 2.9E-07 55.7 2.8 30 136-165 23-59 (366)
140 COG0467 RAD55 RecA-superfamily 95.2 0.0073 1.6E-07 54.1 1.0 39 148-193 23-61 (260)
141 PRK11331 5-methylcytosine-spec 95.2 0.014 3.1E-07 56.9 3.0 31 134-164 179-210 (459)
142 PRK01297 ATP-dependent RNA hel 95.2 0.017 3.6E-07 56.4 3.5 59 131-194 107-173 (475)
143 PRK14962 DNA polymerase III su 95.2 0.011 2.4E-07 58.0 2.2 26 139-164 23-52 (472)
144 PRK06851 hypothetical protein; 95.2 0.0071 1.5E-07 57.5 0.8 40 148-194 214-254 (367)
145 PF00448 SRP54: SRP54-type pro 95.2 0.0065 1.4E-07 52.7 0.5 38 150-194 3-41 (196)
146 PRK13531 regulatory ATPase Rav 95.2 0.0075 1.6E-07 59.3 1.0 19 146-164 37-55 (498)
147 PHA02544 44 clamp loader, smal 95.2 0.01 2.2E-07 54.3 1.8 32 133-164 24-59 (316)
148 PRK06620 hypothetical protein; 95.2 0.0079 1.7E-07 52.8 1.0 16 150-165 46-61 (214)
149 TIGR01054 rgy reverse gyrase. 95.2 0.013 2.8E-07 63.4 2.8 55 133-194 78-132 (1171)
150 PF03215 Rad17: Rad17 cell cyc 95.1 0.0078 1.7E-07 59.7 1.0 17 149-165 46-62 (519)
151 KOG0651|consensus 95.1 0.0095 2.1E-07 55.4 1.4 15 150-164 168-182 (388)
152 COG1222 RPT1 ATP-dependent 26S 95.1 0.0085 1.8E-07 56.6 1.0 32 132-164 154-201 (406)
153 PRK11448 hsdR type I restricti 95.1 0.014 3E-07 62.9 2.6 56 133-194 413-474 (1123)
154 PRK13767 ATP-dependent helicas 95.0 0.018 3.9E-07 60.6 3.3 59 132-194 31-95 (876)
155 PRK14722 flhF flagellar biosyn 95.0 0.0088 1.9E-07 57.0 1.0 21 149-173 138-158 (374)
156 cd00984 DnaB_C DnaB helicase C 95.0 0.0089 1.9E-07 52.5 0.9 39 149-193 14-52 (242)
157 cd01394 radB RadB. The archaea 95.0 0.0093 2E-07 51.7 0.9 17 149-165 20-36 (218)
158 TIGR03877 thermo_KaiC_1 KaiC d 95.0 0.0088 1.9E-07 53.0 0.8 35 149-190 22-56 (237)
159 PRK09401 reverse gyrase; Revie 95.0 0.02 4.2E-07 62.1 3.5 55 133-194 80-134 (1176)
160 PRK09361 radB DNA repair and r 95.0 0.0095 2.1E-07 52.0 0.9 16 149-164 24-39 (225)
161 PF13555 AAA_29: P-loop contai 94.9 0.0068 1.5E-07 43.2 -0.0 21 149-173 24-44 (62)
162 smart00489 DEXDc3 DEAD-like he 94.9 0.018 3.9E-07 52.9 2.7 55 135-194 10-72 (289)
163 smart00488 DEXDc2 DEAD-like he 94.9 0.018 3.9E-07 52.9 2.7 55 135-194 10-72 (289)
164 PF05127 Helicase_RecD: Helica 94.9 0.0076 1.6E-07 51.7 0.1 37 152-194 1-37 (177)
165 TIGR00064 ftsY signal recognit 94.9 0.009 2E-07 54.4 0.6 38 150-194 74-112 (272)
166 TIGR01359 UMP_CMP_kin_fam UMP- 94.9 0.011 2.4E-07 49.6 1.1 15 150-164 1-15 (183)
167 TIGR01241 FtsH_fam ATP-depende 94.8 0.0077 1.7E-07 59.2 0.0 14 151-164 91-104 (495)
168 PRK10867 signal recognition pa 94.8 0.0098 2.1E-07 57.8 0.7 39 150-194 102-141 (433)
169 COG2805 PilT Tfp pilus assembl 94.8 0.012 2.5E-07 54.7 1.1 34 148-187 125-158 (353)
170 PRK14961 DNA polymerase III su 94.8 0.012 2.5E-07 55.7 1.1 14 151-164 41-54 (363)
171 TIGR02655 circ_KaiC circadian 94.8 0.011 2.3E-07 58.2 0.8 36 149-191 264-299 (484)
172 TIGR00348 hsdR type I site-spe 94.8 0.018 4E-07 58.8 2.6 56 134-194 239-304 (667)
173 TIGR01967 DEAH_box_HrpA ATP-de 94.8 0.022 4.8E-07 61.8 3.3 53 136-194 69-122 (1283)
174 PRK10416 signal recognition pa 94.8 0.01 2.3E-07 55.3 0.7 38 150-194 116-154 (318)
175 PRK05973 replicative DNA helic 94.7 0.011 2.5E-07 52.9 0.9 17 148-164 64-80 (237)
176 PF02492 cobW: CobW/HypB/UreG, 94.7 0.01 2.2E-07 50.3 0.4 21 149-173 1-21 (178)
177 COG2804 PulE Type II secretory 94.7 0.024 5.2E-07 55.7 3.0 32 133-164 241-274 (500)
178 PRK08533 flagellar accessory p 94.7 0.015 3.2E-07 51.6 1.4 40 148-194 24-63 (230)
179 PRK00771 signal recognition pa 94.6 0.013 2.8E-07 57.1 1.0 38 150-194 97-135 (437)
180 PRK13341 recombination factor 94.6 0.015 3.3E-07 59.9 1.6 16 149-164 53-68 (725)
181 KOG1801|consensus 94.6 0.028 6E-07 58.8 3.5 58 131-195 224-290 (827)
182 PRK08939 primosomal protein Dn 94.6 0.0088 1.9E-07 55.5 -0.2 43 150-199 158-201 (306)
183 PRK04328 hypothetical protein; 94.6 0.013 2.8E-07 52.5 0.9 36 148-190 23-58 (249)
184 PRK14963 DNA polymerase III su 94.6 0.015 3.3E-07 57.5 1.4 14 151-164 39-52 (504)
185 KOG0741|consensus 94.6 0.012 2.6E-07 58.2 0.6 14 151-164 259-272 (744)
186 PRK11057 ATP-dependent DNA hel 94.6 0.034 7.4E-07 56.2 3.9 53 132-194 24-76 (607)
187 TIGR01360 aden_kin_iso1 adenyl 94.5 0.0097 2.1E-07 49.9 -0.1 16 149-164 4-19 (188)
188 TIGR02237 recomb_radB DNA repa 94.5 0.013 2.8E-07 50.4 0.7 16 149-164 13-28 (209)
189 PF03266 NTPase_1: NTPase; In 94.5 0.0083 1.8E-07 50.8 -0.5 15 151-165 2-16 (168)
190 cd01983 Fer4_NifH The Fer4_Nif 94.5 0.017 3.7E-07 42.2 1.2 33 151-190 2-34 (99)
191 TIGR02397 dnaX_nterm DNA polym 94.5 0.022 4.7E-07 52.9 2.2 30 135-164 19-52 (355)
192 PRK14956 DNA polymerase III su 94.5 0.022 4.8E-07 56.0 2.3 24 141-164 29-56 (484)
193 TIGR01420 pilT_fam pilus retra 94.5 0.015 3.2E-07 54.7 1.0 22 148-173 122-143 (343)
194 COG2255 RuvB Holliday junction 94.5 0.025 5.5E-07 52.1 2.4 16 149-164 53-68 (332)
195 TIGR02525 plasmid_TraJ plasmid 94.4 0.028 6.2E-07 53.6 2.8 23 147-173 148-170 (372)
196 PF00910 RNA_helicase: RNA hel 94.4 0.015 3.2E-07 45.2 0.7 14 152-165 2-15 (107)
197 PF13521 AAA_28: AAA domain; P 94.4 0.007 1.5E-07 50.2 -1.2 13 152-164 3-15 (163)
198 PRK14088 dnaA chromosomal repl 94.4 0.03 6.5E-07 54.4 3.0 35 150-189 132-166 (440)
199 COG0552 FtsY Signal recognitio 94.4 0.018 3.8E-07 53.9 1.3 35 150-191 141-175 (340)
200 TIGR03499 FlhF flagellar biosy 94.4 0.015 3.2E-07 53.2 0.8 38 150-193 196-235 (282)
201 COG1223 Predicted ATPase (AAA+ 94.4 0.012 2.6E-07 53.7 0.2 14 151-164 154-167 (368)
202 KOG0987|consensus 94.4 0.062 1.3E-06 53.7 5.2 60 132-199 116-181 (540)
203 TIGR02785 addA_Gpos recombinat 94.4 0.016 3.4E-07 63.2 1.0 56 134-195 2-57 (1232)
204 PRK12724 flagellar biosynthesi 94.3 0.016 3.4E-07 56.2 0.9 20 150-173 225-244 (432)
205 PF00308 Bac_DnaA: Bacterial d 94.3 0.028 6.1E-07 49.4 2.4 21 150-174 36-56 (219)
206 PHA02624 large T antigen; Prov 94.3 0.025 5.5E-07 57.0 2.3 30 140-173 419-452 (647)
207 TIGR02655 circ_KaiC circadian 94.3 0.015 3.4E-07 57.0 0.8 17 148-164 21-37 (484)
208 KOG1970|consensus 94.3 0.014 3E-07 57.8 0.4 19 148-166 110-128 (634)
209 PRK00149 dnaA chromosomal repl 94.3 0.033 7.1E-07 54.1 2.9 21 150-174 150-170 (450)
210 TIGR01425 SRP54_euk signal rec 94.2 0.018 3.9E-07 55.9 0.9 38 150-194 102-140 (429)
211 PRK06645 DNA polymerase III su 94.2 0.022 4.7E-07 56.5 1.5 15 150-164 45-59 (507)
212 TIGR01618 phage_P_loop phage n 94.2 0.027 5.8E-07 49.9 1.9 16 149-164 13-28 (220)
213 TIGR00362 DnaA chromosomal rep 94.1 0.018 3.9E-07 55.0 0.8 21 150-174 138-158 (405)
214 PRK06067 flagellar accessory p 94.1 0.02 4.3E-07 50.4 1.0 40 148-194 25-64 (234)
215 PRK14701 reverse gyrase; Provi 94.1 0.035 7.7E-07 61.9 3.1 55 133-194 79-133 (1638)
216 PLN00020 ribulose bisphosphate 94.1 0.012 2.7E-07 56.1 -0.3 15 150-164 150-164 (413)
217 TIGR00750 lao LAO/AO transport 94.1 0.018 4E-07 53.0 0.8 33 149-188 35-67 (300)
218 cd01122 GP4d_helicase GP4d_hel 94.1 0.019 4.1E-07 51.4 0.9 40 148-193 30-69 (271)
219 CHL00195 ycf46 Ycf46; Provisio 94.1 0.013 2.8E-07 57.8 -0.2 14 151-164 262-275 (489)
220 cd02021 GntK Gluconate kinase 94.1 0.017 3.8E-07 46.9 0.5 15 150-164 1-15 (150)
221 COG0714 MoxR-like ATPases [Gen 94.1 0.037 7.9E-07 51.5 2.7 51 136-194 30-81 (329)
222 TIGR02773 addB_Gpos ATP-depend 94.1 0.0069 1.5E-07 65.5 -2.5 85 150-239 3-97 (1158)
223 PF07726 AAA_3: ATPase family 94.1 0.007 1.5E-07 49.4 -1.9 15 151-165 2-16 (131)
224 PF06309 Torsin: Torsin; Inte 94.0 0.029 6.3E-07 45.6 1.7 13 152-164 57-69 (127)
225 PF03308 ArgK: ArgK protein; 94.0 0.014 3.1E-07 52.9 -0.1 37 151-194 32-70 (266)
226 PF13476 AAA_23: AAA domain; P 94.0 0.011 2.4E-07 49.5 -0.7 23 147-173 18-40 (202)
227 PHA02244 ATPase-like protein 94.0 0.029 6.2E-07 53.5 1.9 27 138-164 108-135 (383)
228 PRK05642 DNA replication initi 94.0 0.023 5.1E-07 50.4 1.1 21 149-173 46-66 (234)
229 PRK14531 adenylate kinase; Pro 93.9 0.021 4.7E-07 48.4 0.8 14 151-164 5-18 (183)
230 KOG3347|consensus 93.9 0.022 4.7E-07 47.9 0.8 16 149-164 8-23 (176)
231 TIGR00959 ffh signal recogniti 93.9 0.021 4.5E-07 55.5 0.7 40 150-195 101-141 (428)
232 PF13173 AAA_14: AAA domain 93.8 0.017 3.8E-07 46.0 0.1 17 148-164 2-18 (128)
233 COG1198 PriA Primosomal protei 93.8 0.056 1.2E-06 55.7 3.8 57 131-194 196-256 (730)
234 KOG0738|consensus 93.8 0.024 5.2E-07 54.2 1.0 15 150-164 247-261 (491)
235 PF01443 Viral_helicase1: Vira 93.8 0.015 3.3E-07 50.4 -0.4 15 151-165 1-15 (234)
236 COG3854 SpoIIIAA ncharacterize 93.8 0.027 5.9E-07 50.6 1.2 40 151-194 140-181 (308)
237 PRK05703 flhF flagellar biosyn 93.8 0.025 5.4E-07 54.8 1.0 39 150-194 223-263 (424)
238 PRK13768 GTPase; Provisional 93.7 0.023 5E-07 51.1 0.7 32 150-188 4-35 (253)
239 TIGR01389 recQ ATP-dependent D 93.7 0.077 1.7E-06 53.3 4.5 53 132-194 12-64 (591)
240 PHA00547 hypothetical protein 93.7 0.051 1.1E-06 49.6 2.8 29 137-165 64-92 (337)
241 KOG0731|consensus 93.7 0.027 5.8E-07 58.0 1.2 15 151-165 347-361 (774)
242 PRK13900 type IV secretion sys 93.7 0.055 1.2E-06 50.8 3.2 31 139-173 150-181 (332)
243 TIGR00150 HI0065_YjeE ATPase, 93.7 0.045 9.8E-07 44.8 2.3 34 136-173 5-43 (133)
244 KOG1533|consensus 93.7 0.04 8.6E-07 49.5 2.1 37 151-194 5-43 (290)
245 PRK14712 conjugal transfer nic 93.7 0.041 9E-07 60.9 2.6 71 133-213 281-356 (1623)
246 PRK14955 DNA polymerase III su 93.7 0.039 8.4E-07 52.8 2.1 28 137-164 23-54 (397)
247 cd01428 ADK Adenylate kinase ( 93.7 0.025 5.5E-07 47.7 0.8 14 151-164 2-15 (194)
248 PRK13407 bchI magnesium chelat 93.6 0.04 8.6E-07 51.8 2.0 15 150-164 31-45 (334)
249 TIGR03881 KaiC_arch_4 KaiC dom 93.6 0.027 5.9E-07 49.2 0.8 17 148-164 20-36 (229)
250 PRK08233 hypothetical protein; 93.6 0.018 4E-07 47.9 -0.3 15 150-164 5-19 (182)
251 PRK14958 DNA polymerase III su 93.5 0.045 9.7E-07 54.3 2.3 29 136-164 22-54 (509)
252 PF00437 T2SE: Type II/IV secr 93.5 0.024 5.2E-07 50.9 0.4 46 138-190 116-162 (270)
253 PRK14532 adenylate kinase; Pro 93.5 0.028 6.1E-07 47.5 0.8 14 151-164 3-16 (188)
254 PRK14970 DNA polymerase III su 93.5 0.048 1E-06 51.3 2.4 30 135-164 22-55 (367)
255 PRK09435 membrane ATPase/prote 93.5 0.025 5.5E-07 53.1 0.5 20 150-173 58-77 (332)
256 TIGR00604 rad3 DNA repair heli 93.5 0.061 1.3E-06 55.3 3.3 55 136-194 13-71 (705)
257 PRK14957 DNA polymerase III su 93.5 0.038 8.3E-07 55.2 1.8 26 139-164 25-54 (546)
258 PRK14964 DNA polymerase III su 93.5 0.044 9.6E-07 54.1 2.2 29 136-164 19-51 (491)
259 PRK14960 DNA polymerase III su 93.5 0.034 7.5E-07 56.6 1.4 26 139-164 24-53 (702)
260 PRK03839 putative kinase; Prov 93.5 0.028 6E-07 47.3 0.7 14 151-164 3-16 (180)
261 PRK14949 DNA polymerase III su 93.4 0.033 7.2E-07 58.4 1.3 23 142-164 28-54 (944)
262 cd02019 NK Nucleoside/nucleoti 93.4 0.034 7.5E-07 39.8 1.0 14 151-164 2-15 (69)
263 KOG0733|consensus 93.4 0.021 4.5E-07 57.4 -0.2 14 151-164 226-239 (802)
264 COG1102 Cmk Cytidylate kinase 93.3 0.025 5.4E-07 48.0 0.2 13 152-164 4-16 (179)
265 KOG0727|consensus 93.3 0.061 1.3E-06 49.0 2.7 30 136-165 161-206 (408)
266 PRK14969 DNA polymerase III su 93.3 0.049 1.1E-06 54.2 2.2 29 136-164 22-54 (527)
267 PRK08118 topology modulation p 93.3 0.031 6.8E-07 47.0 0.8 14 151-164 4-17 (167)
268 PRK01184 hypothetical protein; 93.3 0.031 6.8E-07 47.1 0.7 15 150-164 3-17 (184)
269 TIGR00602 rad24 checkpoint pro 93.2 0.048 1.1E-06 55.4 2.1 32 134-165 88-127 (637)
270 CHL00176 ftsH cell division pr 93.2 0.025 5.4E-07 57.6 0.1 14 151-164 219-232 (638)
271 TIGR03880 KaiC_arch_3 KaiC dom 93.2 0.035 7.5E-07 48.5 0.8 39 149-194 17-55 (224)
272 PRK07940 DNA polymerase III su 93.1 0.059 1.3E-06 51.8 2.4 14 151-164 39-52 (394)
273 PRK13851 type IV secretion sys 93.1 0.052 1.1E-06 51.2 2.0 32 138-173 151-183 (344)
274 TIGR02322 phosphon_PhnN phosph 93.1 0.025 5.4E-07 47.4 -0.2 16 149-164 2-17 (179)
275 TIGR01313 therm_gnt_kin carboh 93.1 0.029 6.4E-07 46.3 0.2 13 152-164 2-14 (163)
276 PRK00131 aroK shikimate kinase 93.0 0.034 7.3E-07 45.8 0.6 16 149-164 5-20 (175)
277 COG0464 SpoVK ATPases of the A 93.0 0.025 5.5E-07 55.4 -0.2 31 135-165 251-293 (494)
278 PRK06762 hypothetical protein; 93.0 0.036 7.8E-07 45.9 0.7 16 149-164 3-18 (166)
279 PRK09087 hypothetical protein; 93.0 0.067 1.5E-06 47.3 2.5 18 148-165 44-61 (226)
280 TIGR00603 rad25 DNA repair hel 93.0 0.11 2.4E-06 53.7 4.2 53 132-194 254-309 (732)
281 TIGR00764 lon_rel lon-related 92.9 0.063 1.4E-06 54.4 2.4 27 138-164 23-53 (608)
282 COG0606 Predicted ATPase with 92.9 0.069 1.5E-06 52.2 2.5 29 138-166 187-216 (490)
283 PRK14527 adenylate kinase; Pro 92.9 0.041 9E-07 46.9 0.9 16 149-164 7-22 (191)
284 PLN02200 adenylate kinase fami 92.9 0.039 8.5E-07 49.1 0.8 15 150-164 45-59 (234)
285 PRK14528 adenylate kinase; Pro 92.8 0.041 8.8E-07 47.0 0.8 14 151-164 4-17 (186)
286 PRK04040 adenylate kinase; Pro 92.8 0.04 8.6E-07 47.4 0.7 15 150-164 4-18 (188)
287 PRK05342 clpX ATP-dependent pr 92.8 0.05 1.1E-06 52.6 1.4 15 150-164 110-124 (412)
288 PRK13766 Hef nuclease; Provisi 92.8 0.12 2.7E-06 53.3 4.5 55 133-194 15-69 (773)
289 PF14532 Sigma54_activ_2: Sigm 92.8 0.046 1E-06 44.2 1.0 16 149-164 22-37 (138)
290 PRK12422 chromosomal replicati 92.7 0.085 1.8E-06 51.4 2.9 34 150-190 143-176 (445)
291 PRK14952 DNA polymerase III su 92.7 0.075 1.6E-06 53.6 2.6 28 137-164 20-51 (584)
292 PRK12723 flagellar biosynthesi 92.7 0.043 9.2E-07 52.6 0.8 21 149-173 175-195 (388)
293 PF00931 NB-ARC: NB-ARC domain 92.7 0.071 1.5E-06 47.7 2.2 29 136-164 2-35 (287)
294 PRK07994 DNA polymerase III su 92.6 0.067 1.4E-06 54.5 2.1 27 138-164 24-54 (647)
295 PRK14530 adenylate kinase; Pro 92.6 0.048 1E-06 47.4 1.0 17 148-164 3-19 (215)
296 PF13479 AAA_24: AAA domain 92.6 0.042 9.1E-07 48.0 0.6 14 151-164 6-19 (213)
297 PF06068 TIP49: TIP49 C-termin 92.6 0.045 9.7E-07 52.2 0.8 36 149-194 51-86 (398)
298 PRK08074 bifunctional ATP-depe 92.6 0.11 2.5E-06 55.0 3.9 56 133-194 257-316 (928)
299 PRK05896 DNA polymerase III su 92.6 0.07 1.5E-06 53.9 2.2 29 136-164 22-54 (605)
300 cd01393 recA_like RecA is a b 92.6 0.037 8.1E-07 48.0 0.2 18 148-165 19-36 (226)
301 PRK13947 shikimate kinase; Pro 92.6 0.038 8.3E-07 45.8 0.3 14 151-164 4-17 (171)
302 TIGR02012 tigrfam_recA protein 92.6 0.047 1E-06 51.1 0.9 17 149-165 56-72 (321)
303 PF12774 AAA_6: Hydrolytic ATP 92.6 0.036 7.8E-07 49.4 0.1 75 135-219 18-101 (231)
304 PRK02496 adk adenylate kinase; 92.6 0.046 1E-06 46.1 0.8 14 151-164 4-17 (184)
305 PRK11131 ATP-dependent RNA hel 92.6 0.095 2.1E-06 57.1 3.3 51 136-192 76-127 (1294)
306 PF05673 DUF815: Protein of un 92.6 0.1 2.2E-06 47.1 3.0 30 136-165 33-69 (249)
307 PRK11889 flhF flagellar biosyn 92.6 0.047 1E-06 52.7 0.9 38 150-194 243-281 (436)
308 COG1875 NYN ribonuclease and A 92.6 0.082 1.8E-06 50.3 2.4 62 129-194 224-287 (436)
309 PF04665 Pox_A32: Poxvirus A32 92.5 0.056 1.2E-06 48.6 1.3 43 146-195 10-53 (241)
310 TIGR00390 hslU ATP-dependent p 92.5 0.059 1.3E-06 52.2 1.5 16 150-165 49-64 (441)
311 PRK14087 dnaA chromosomal repl 92.5 0.087 1.9E-06 51.4 2.6 35 150-189 143-177 (450)
312 TIGR01587 cas3_core CRISPR-ass 92.5 0.05 1.1E-06 50.6 1.0 39 151-194 2-40 (358)
313 PF00406 ADK: Adenylate kinase 92.5 0.04 8.6E-07 45.1 0.2 12 153-164 1-12 (151)
314 PF07088 GvpD: GvpD gas vesicl 92.4 0.06 1.3E-06 51.7 1.4 16 150-165 12-27 (484)
315 PRK13765 ATP-dependent proteas 92.4 0.083 1.8E-06 53.8 2.5 28 138-165 36-67 (637)
316 cd03114 ArgK-like The function 92.4 0.054 1.2E-06 44.8 0.9 32 151-189 2-33 (148)
317 TIGR01243 CDC48 AAA family ATP 92.4 0.039 8.4E-07 56.9 0.0 15 150-164 214-228 (733)
318 KOG0962|consensus 92.3 0.049 1.1E-06 58.7 0.7 18 148-165 27-44 (1294)
319 TIGR01351 adk adenylate kinase 92.3 0.052 1.1E-06 47.1 0.8 14 151-164 2-15 (210)
320 COG1618 Predicted nucleotide k 92.3 0.05 1.1E-06 46.2 0.6 15 151-165 8-22 (179)
321 PRK07261 topology modulation p 92.3 0.053 1.1E-06 45.7 0.7 14 151-164 3-16 (171)
322 TIGR03817 DECH_helic helicase/ 92.3 0.13 2.7E-06 53.4 3.6 59 131-194 34-92 (742)
323 COG0470 HolB ATPase involved i 92.3 0.041 8.9E-07 50.0 0.1 16 150-165 26-41 (325)
324 TIGR00678 holB DNA polymerase 92.2 0.058 1.3E-06 45.7 1.0 24 141-164 3-30 (188)
325 PRK06995 flhF flagellar biosyn 92.2 0.054 1.2E-06 53.4 0.9 21 149-173 257-277 (484)
326 PRK07246 bifunctional ATP-depe 92.2 0.13 2.9E-06 53.8 3.7 54 133-194 245-302 (820)
327 KOG0734|consensus 92.2 0.042 9.2E-07 54.5 0.0 14 151-164 340-353 (752)
328 KOG0328|consensus 92.2 0.19 4.2E-06 46.4 4.3 57 133-194 49-106 (400)
329 TIGR01407 dinG_rel DnaQ family 92.1 0.12 2.6E-06 54.2 3.4 55 133-194 245-303 (850)
330 PRK11823 DNA repair protein Ra 92.1 0.054 1.2E-06 52.8 0.7 17 148-164 80-96 (446)
331 PRK09111 DNA polymerase III su 92.1 0.093 2E-06 53.1 2.4 30 135-164 29-62 (598)
332 cd00227 CPT Chloramphenicol (C 92.1 0.061 1.3E-06 45.2 0.9 16 149-164 3-18 (175)
333 KOG0736|consensus 92.1 0.064 1.4E-06 55.2 1.2 14 151-164 708-721 (953)
334 KOG0652|consensus 92.1 0.067 1.4E-06 49.0 1.2 14 151-164 208-221 (424)
335 PRK14951 DNA polymerase III su 92.0 0.078 1.7E-06 53.8 1.8 27 138-164 24-54 (618)
336 COG0466 Lon ATP-dependent Lon 92.0 0.074 1.6E-06 54.3 1.6 21 149-173 351-371 (782)
337 TIGR03158 cas3_cyano CRISPR-as 92.0 0.11 2.4E-06 49.0 2.6 48 137-194 1-50 (357)
338 PRK00279 adk adenylate kinase; 92.0 0.059 1.3E-06 46.9 0.8 14 151-164 3-16 (215)
339 PRK14950 DNA polymerase III su 92.0 0.1 2.2E-06 52.6 2.5 29 136-164 22-54 (585)
340 PRK09302 circadian clock prote 91.9 0.062 1.3E-06 53.0 0.9 38 148-191 31-68 (509)
341 TIGR02524 dot_icm_DotB Dot/Icm 91.8 0.073 1.6E-06 50.5 1.2 22 148-173 134-155 (358)
342 PRK06647 DNA polymerase III su 91.8 0.097 2.1E-06 52.6 2.1 29 136-164 22-54 (563)
343 TIGR02236 recomb_radA DNA repa 91.8 0.064 1.4E-06 49.3 0.8 18 148-165 95-112 (310)
344 cd01121 Sms Sms (bacterial rad 91.8 0.061 1.3E-06 51.3 0.7 17 148-164 82-98 (372)
345 cd01123 Rad51_DMC1_radA Rad51_ 91.8 0.066 1.4E-06 46.7 0.8 18 148-165 19-36 (235)
346 PRK07003 DNA polymerase III su 91.8 0.087 1.9E-06 54.6 1.7 27 138-164 24-54 (830)
347 cd00983 recA RecA is a bacter 91.8 0.07 1.5E-06 50.0 1.0 18 148-165 55-72 (325)
348 cd02020 CMPK Cytidine monophos 91.8 0.076 1.6E-06 42.4 1.1 14 151-164 2-15 (147)
349 CHL00095 clpC Clp protease ATP 91.7 0.094 2E-06 54.9 2.0 29 136-164 185-216 (821)
350 COG1224 TIP49 DNA helicase TIP 91.7 0.073 1.6E-06 50.6 1.1 16 149-164 66-81 (450)
351 PRK08154 anaerobic benzoate ca 91.7 0.13 2.9E-06 47.5 2.8 33 132-164 106-149 (309)
352 PRK12323 DNA polymerase III su 91.7 0.1 2.3E-06 53.2 2.2 29 136-164 22-54 (700)
353 TIGR00763 lon ATP-dependent pr 91.6 0.052 1.1E-06 56.4 0.0 16 149-164 348-363 (775)
354 TIGR03574 selen_PSTK L-seryl-t 91.6 0.078 1.7E-06 47.2 1.1 15 150-164 1-15 (249)
355 PRK14965 DNA polymerase III su 91.6 0.11 2.4E-06 52.3 2.2 29 136-164 22-54 (576)
356 PRK07667 uridine kinase; Provi 91.6 0.078 1.7E-06 45.5 1.0 15 150-164 19-33 (193)
357 TIGR01243 CDC48 AAA family ATP 91.6 0.056 1.2E-06 55.8 0.1 14 151-164 490-503 (733)
358 PRK12726 flagellar biosynthesi 91.5 0.077 1.7E-06 50.9 1.0 39 149-194 207-246 (407)
359 KOG0742|consensus 91.5 0.082 1.8E-06 51.1 1.2 15 151-165 387-401 (630)
360 COG1137 YhbG ABC-type (unclass 91.5 0.16 3.5E-06 44.8 2.9 55 150-224 32-89 (243)
361 COG1703 ArgK Putative periplas 91.5 0.061 1.3E-06 49.8 0.3 39 149-194 52-92 (323)
362 COG0563 Adk Adenylate kinase a 91.5 0.075 1.6E-06 45.4 0.8 14 151-164 3-16 (178)
363 PRK12608 transcription termina 91.5 0.077 1.7E-06 50.7 0.9 15 151-165 136-150 (380)
364 TIGR02030 BchI-ChlI magnesium 91.5 0.11 2.4E-06 48.9 1.9 16 149-164 26-41 (337)
365 PRK14953 DNA polymerase III su 91.4 0.1 2.2E-06 51.5 1.8 24 141-164 27-54 (486)
366 PRK07133 DNA polymerase III su 91.4 0.1 2.2E-06 53.8 1.8 29 136-164 24-56 (725)
367 PRK13764 ATPase; Provisional 91.4 0.074 1.6E-06 53.7 0.8 22 148-173 257-278 (602)
368 PRK04301 radA DNA repair and r 91.4 0.08 1.7E-06 49.0 1.0 18 148-165 102-119 (317)
369 PRK05541 adenylylsulfate kinas 91.4 0.078 1.7E-06 44.4 0.8 15 150-164 9-23 (176)
370 CHL00081 chlI Mg-protoporyphyr 91.3 0.11 2.3E-06 49.3 1.7 27 138-164 25-54 (350)
371 PRK00625 shikimate kinase; Pro 91.3 0.064 1.4E-06 45.6 0.3 14 151-164 3-16 (173)
372 COG5192 BMS1 GTP-binding prote 91.3 0.062 1.4E-06 53.7 0.2 18 152-173 73-90 (1077)
373 TIGR03117 cas_csf4 CRISPR-asso 91.3 0.13 2.8E-06 52.4 2.4 50 140-194 7-57 (636)
374 TIGR02903 spore_lon_C ATP-depe 91.3 0.099 2.1E-06 53.0 1.6 16 149-164 176-191 (615)
375 PRK00889 adenylylsulfate kinas 91.3 0.081 1.7E-06 44.3 0.8 16 149-164 5-20 (175)
376 PRK06547 hypothetical protein; 91.3 0.089 1.9E-06 44.7 1.1 16 149-164 16-31 (172)
377 TIGR00416 sms DNA repair prote 91.3 0.08 1.7E-06 51.8 0.9 17 148-164 94-110 (454)
378 PF13481 AAA_25: AAA domain; P 91.3 0.051 1.1E-06 45.8 -0.5 41 148-194 32-81 (193)
379 KOG3928|consensus 91.2 0.11 2.3E-06 50.1 1.7 36 151-194 182-217 (461)
380 PF12846 AAA_10: AAA-like doma 91.2 0.11 2.3E-06 46.3 1.6 39 149-194 2-40 (304)
381 PHA02774 E1; Provisional 91.2 0.089 1.9E-06 52.9 1.1 30 140-173 422-455 (613)
382 TIGR00176 mobB molybdopterin-g 91.2 0.099 2.2E-06 43.6 1.2 34 151-191 2-35 (155)
383 PTZ00088 adenylate kinase 1; P 91.1 0.083 1.8E-06 47.0 0.8 14 151-164 9-22 (229)
384 PRK05563 DNA polymerase III su 91.1 0.13 2.9E-06 51.5 2.3 27 138-164 24-54 (559)
385 TIGR02902 spore_lonB ATP-depen 91.1 0.17 3.6E-06 50.5 2.9 27 138-164 73-102 (531)
386 PRK10078 ribose 1,5-bisphospho 91.1 0.063 1.4E-06 45.6 -0.1 16 149-164 3-18 (186)
387 TIGR00041 DTMP_kinase thymidyl 91.0 0.1 2.3E-06 44.1 1.2 16 149-164 4-19 (195)
388 PHA02530 pseT polynucleotide k 91.0 0.083 1.8E-06 48.0 0.7 16 150-165 4-19 (300)
389 PRK10865 protein disaggregatio 91.0 0.1 2.3E-06 54.8 1.4 16 149-164 200-215 (857)
390 PRK14948 DNA polymerase III su 91.0 0.13 2.8E-06 52.3 2.0 15 150-164 40-54 (620)
391 COG0410 LivF ABC-type branched 91.0 0.094 2E-06 46.8 0.9 57 149-222 30-86 (237)
392 PF03029 ATP_bind_1: Conserved 91.0 0.067 1.4E-06 47.8 -0.0 17 153-173 1-17 (238)
393 PRK14954 DNA polymerase III su 90.9 0.12 2.6E-06 52.4 1.8 23 142-164 28-54 (620)
394 PHA03311 helicase-primase subu 90.9 0.074 1.6E-06 54.5 0.2 56 150-217 73-132 (828)
395 PRK14526 adenylate kinase; Pro 90.8 0.091 2E-06 46.1 0.7 14 151-164 3-16 (211)
396 PRK11747 dinG ATP-dependent DN 90.7 0.22 4.7E-06 51.3 3.4 53 136-194 28-89 (697)
397 COG4962 CpaF Flp pilus assembl 90.7 0.22 4.7E-06 47.0 3.1 33 132-164 156-189 (355)
398 PLN03187 meiotic recombination 90.7 0.1 2.2E-06 49.2 1.0 17 148-164 126-142 (344)
399 PF01637 Arch_ATPase: Archaeal 90.7 0.081 1.8E-06 45.1 0.3 27 138-164 7-36 (234)
400 COG3911 Predicted ATPase [Gene 90.7 0.069 1.5E-06 44.9 -0.2 16 149-164 10-25 (183)
401 KOG0729|consensus 90.6 0.12 2.6E-06 47.5 1.3 14 151-164 214-227 (435)
402 TIGR03263 guanyl_kin guanylate 90.6 0.073 1.6E-06 44.5 -0.1 16 149-164 2-17 (180)
403 COG4088 Predicted nucleotide k 90.6 0.12 2.6E-06 45.8 1.3 17 149-165 2-18 (261)
404 TIGR02238 recomb_DMC1 meiotic 90.6 0.11 2.4E-06 48.3 1.1 17 148-164 96-112 (313)
405 PRK09354 recA recombinase A; P 90.6 0.11 2.3E-06 49.3 1.0 18 148-165 60-77 (349)
406 cd02023 UMPK Uridine monophosp 90.6 0.08 1.7E-06 45.2 0.1 15 150-164 1-15 (198)
407 PRK15455 PrkA family serine pr 90.6 0.14 3E-06 51.6 1.8 17 148-164 103-119 (644)
408 PRK08356 hypothetical protein; 90.5 0.099 2.1E-06 44.8 0.7 15 150-164 7-21 (195)
409 COG1199 DinG Rad3-related DNA 90.5 0.19 4.2E-06 50.9 2.8 55 134-194 16-74 (654)
410 PF12775 AAA_7: P-loop contain 90.5 0.08 1.7E-06 48.3 0.1 17 149-165 34-50 (272)
411 cd03112 CobW_like The function 90.5 0.077 1.7E-06 44.2 -0.0 17 149-165 1-17 (158)
412 PRK08691 DNA polymerase III su 90.5 0.15 3.3E-06 52.3 2.1 29 136-164 22-54 (709)
413 COG1112 Superfamily I DNA and 90.5 0.84 1.8E-05 46.7 7.5 117 72-195 210-334 (767)
414 PRK09376 rho transcription ter 90.4 0.11 2.3E-06 50.1 0.8 15 151-165 172-186 (416)
415 COG1702 PhoH Phosphate starvat 90.4 0.28 6.1E-06 46.2 3.5 56 131-191 126-181 (348)
416 TIGR02639 ClpA ATP-dependent C 90.3 0.15 3.4E-06 52.6 2.0 23 142-164 194-219 (731)
417 cd00464 SK Shikimate kinase (S 90.3 0.11 2.4E-06 41.9 0.8 13 152-164 3-15 (154)
418 PRK13949 shikimate kinase; Pro 90.3 0.094 2E-06 44.2 0.3 14 151-164 4-17 (169)
419 PTZ00301 uridine kinase; Provi 90.3 0.098 2.1E-06 45.9 0.5 15 150-164 5-19 (210)
420 TIGR00382 clpX endopeptidase C 90.3 0.078 1.7E-06 51.3 -0.2 15 150-164 118-132 (413)
421 cd02028 UMPK_like Uridine mono 90.3 0.13 2.8E-06 43.8 1.1 14 151-164 2-15 (179)
422 KOG0990|consensus 90.2 0.1 2.2E-06 48.8 0.5 17 149-165 63-79 (360)
423 PRK06305 DNA polymerase III su 90.1 0.16 3.5E-06 49.5 1.8 15 150-164 41-55 (451)
424 PRK15453 phosphoribulokinase; 90.0 0.13 2.9E-06 47.3 1.1 17 148-164 5-21 (290)
425 PRK10865 protein disaggregatio 90.0 0.15 3.1E-06 53.8 1.5 15 150-164 600-614 (857)
426 PRK05480 uridine/cytidine kina 90.0 0.085 1.8E-06 45.5 -0.2 16 149-164 7-22 (209)
427 PF00485 PRK: Phosphoribulokin 89.9 0.075 1.6E-06 45.4 -0.6 14 151-164 2-15 (194)
428 PRK05201 hslU ATP-dependent pr 89.9 0.18 4E-06 48.9 2.0 15 150-164 52-66 (443)
429 PRK05439 pantothenate kinase; 89.9 0.12 2.6E-06 48.1 0.7 15 150-164 88-102 (311)
430 cd00544 CobU Adenosylcobinamid 89.9 0.14 3.1E-06 43.4 1.1 15 150-164 1-15 (169)
431 cd02117 NifH_like This family 89.8 0.11 2.5E-06 44.9 0.5 32 150-189 3-34 (212)
432 TIGR02788 VirB11 P-type DNA tr 89.8 0.18 3.9E-06 46.6 1.8 31 139-173 134-165 (308)
433 TIGR03575 selen_PSTK_euk L-ser 89.8 0.14 3E-06 48.4 1.1 15 150-164 1-15 (340)
434 cd01128 rho_factor Transcripti 89.8 0.13 2.7E-06 46.5 0.8 17 149-165 17-33 (249)
435 PF00158 Sigma54_activat: Sigm 89.8 0.13 2.7E-06 43.6 0.7 16 149-164 23-38 (168)
436 PF06414 Zeta_toxin: Zeta toxi 89.7 0.091 2E-06 45.2 -0.2 18 147-164 13-31 (199)
437 cd01125 repA Hexameric Replica 89.7 0.13 2.9E-06 45.4 0.8 17 149-165 2-18 (239)
438 PF00176 SNF2_N: SNF2 family N 89.7 0.18 3.8E-06 45.0 1.6 53 137-194 1-69 (299)
439 PRK06217 hypothetical protein; 89.6 0.094 2E-06 44.4 -0.2 14 151-164 4-17 (183)
440 cd00550 ArsA_ATPase Oxyanion-t 89.6 0.13 2.8E-06 46.2 0.6 33 150-189 2-34 (254)
441 TIGR02974 phageshock_pspF psp 89.6 0.18 3.9E-06 47.1 1.7 18 147-164 21-38 (329)
442 cd02034 CooC The accessory pro 89.6 0.15 3.3E-06 40.5 1.0 30 151-187 2-31 (116)
443 TIGR02621 cas3_GSU0051 CRISPR- 89.6 0.34 7.4E-06 50.8 3.8 31 134-164 16-47 (844)
444 PRK09302 circadian clock prote 89.5 0.14 3.1E-06 50.5 0.9 39 149-194 274-312 (509)
445 PRK05800 cobU adenosylcobinami 89.5 0.14 3E-06 43.4 0.7 15 150-164 3-17 (170)
446 PRK14959 DNA polymerase III su 89.5 0.24 5.2E-06 50.3 2.5 26 139-164 25-54 (624)
447 COG1643 HrpA HrpA-like helicas 89.4 0.32 6.9E-06 51.0 3.5 51 136-192 52-103 (845)
448 PLN02674 adenylate kinase 89.4 0.14 3.1E-06 46.1 0.8 16 149-164 32-47 (244)
449 KOG0737|consensus 89.4 0.13 2.9E-06 48.8 0.6 15 151-165 130-144 (386)
450 PRK14738 gmk guanylate kinase; 89.4 0.098 2.1E-06 45.4 -0.3 16 149-164 14-29 (206)
451 TIGR03346 chaperone_ClpB ATP-d 89.4 0.2 4.4E-06 52.6 2.0 16 149-164 195-210 (852)
452 PRK08451 DNA polymerase III su 89.3 0.21 4.5E-06 49.9 1.9 27 138-164 22-52 (535)
453 PRK06761 hypothetical protein; 89.3 0.11 2.3E-06 47.8 -0.1 16 149-164 4-19 (282)
454 cd02027 APSK Adenosine 5'-phos 89.2 0.16 3.6E-06 41.7 1.0 15 150-164 1-15 (149)
455 PLN02459 probable adenylate ki 89.2 0.15 3.2E-06 46.4 0.8 14 151-164 32-45 (261)
456 PRK12339 2-phosphoglycerate ki 89.2 0.15 3.2E-06 44.3 0.7 16 149-164 4-19 (197)
457 TIGR00368 Mg chelatase-related 89.2 0.23 5E-06 49.2 2.1 28 137-164 199-227 (499)
458 TIGR03345 VI_ClpV1 type VI sec 89.1 0.17 3.6E-06 53.3 1.1 27 138-164 192-224 (852)
459 TIGR00665 DnaB replicative DNA 89.1 0.16 3.5E-06 48.9 0.9 40 149-194 196-235 (434)
460 PRK14086 dnaA chromosomal repl 89.0 0.16 3.6E-06 51.4 0.9 22 149-174 315-336 (617)
461 KOG0739|consensus 88.9 0.18 3.9E-06 47.0 1.1 30 136-165 139-183 (439)
462 PRK06696 uridine kinase; Valid 88.9 0.16 3.6E-06 44.4 0.8 20 150-173 24-43 (223)
463 PRK11608 pspF phage shock prot 88.9 0.23 4.9E-06 46.3 1.8 41 147-193 28-69 (326)
464 KOG1942|consensus 88.9 0.18 4E-06 46.9 1.1 16 149-164 65-80 (456)
465 PRK14529 adenylate kinase; Pro 88.9 0.16 3.5E-06 45.0 0.7 14 151-164 3-16 (223)
466 COG4889 Predicted helicase [Ge 88.9 0.81 1.8E-05 48.2 5.8 52 132-193 160-216 (1518)
467 PTZ00202 tuzin; Provisional 88.8 0.31 6.7E-06 47.9 2.7 29 136-164 268-302 (550)
468 PRK14737 gmk guanylate kinase; 88.7 0.12 2.5E-06 44.4 -0.3 16 149-164 5-20 (186)
469 cd02035 ArsA ArsA ATPase funct 88.6 0.19 4.1E-06 43.9 1.0 34 150-190 1-34 (217)
470 PF00005 ABC_tran: ABC transpo 88.6 0.11 2.5E-06 41.1 -0.4 16 149-164 12-27 (137)
471 PRK15429 formate hydrogenlyase 88.5 0.22 4.7E-06 51.0 1.5 16 149-164 400-415 (686)
472 TIGR01817 nifA Nif-specific re 88.5 0.22 4.7E-06 49.4 1.5 17 148-164 219-235 (534)
473 cd02040 NifH NifH gene encodes 88.5 0.15 3.3E-06 45.3 0.3 33 149-189 3-35 (270)
474 cd02022 DPCK Dephospho-coenzym 88.4 0.17 3.7E-06 42.8 0.5 14 151-164 2-15 (179)
475 CHL00206 ycf2 Ycf2; Provisiona 88.4 0.13 2.9E-06 57.8 -0.2 15 151-165 1633-1647(2281)
476 PRK00300 gmk guanylate kinase; 88.4 0.14 3E-06 43.7 -0.0 16 149-164 6-21 (205)
477 PF13304 AAA_21: AAA domain; P 88.4 0.14 3E-06 43.1 0.0 15 150-164 1-15 (303)
478 PTZ00035 Rad51 protein; Provis 88.4 0.19 4.2E-06 47.2 0.9 18 148-165 118-135 (337)
479 cd03283 ABC_MutS-like MutS-lik 88.3 0.15 3.2E-06 44.2 0.1 17 148-164 25-41 (199)
480 PRK12727 flagellar biosynthesi 88.3 0.2 4.4E-06 50.0 1.1 40 149-194 351-392 (559)
481 PRK13695 putative NTPase; Prov 88.3 0.13 2.8E-06 43.1 -0.3 14 151-164 3-16 (174)
482 PRK14723 flhF flagellar biosyn 88.3 0.2 4.3E-06 52.0 1.0 21 149-173 186-206 (767)
483 TIGR02688 conserved hypothetic 88.3 0.14 2.9E-06 49.8 -0.2 15 151-165 212-226 (449)
484 PF02463 SMC_N: RecF/RecN/SMC 88.3 0.11 2.5E-06 44.9 -0.6 22 148-173 24-45 (220)
485 KOG2004|consensus 88.3 0.22 4.7E-06 51.2 1.3 26 149-180 439-464 (906)
486 KOG0726|consensus 88.2 0.43 9.3E-06 44.5 3.0 29 136-164 191-235 (440)
487 TIGR03819 heli_sec_ATPase heli 88.2 0.33 7.1E-06 45.7 2.4 31 134-164 163-194 (340)
488 PF03205 MobB: Molybdopterin g 88.1 0.17 3.7E-06 41.4 0.4 22 149-174 1-22 (140)
489 cd01672 TMPK Thymidine monopho 88.1 0.23 5E-06 41.5 1.2 37 150-193 2-39 (200)
490 PRK05707 DNA polymerase III su 88.0 0.22 4.8E-06 46.6 1.1 29 136-164 6-38 (328)
491 PF01745 IPT: Isopentenyl tran 88.0 0.18 3.9E-06 44.8 0.5 16 149-164 2-17 (233)
492 COG0419 SbcC ATPase involved i 88.0 0.17 3.7E-06 53.5 0.4 24 147-174 24-47 (908)
493 PF10412 TrwB_AAD_bind: Type I 88.0 0.17 3.8E-06 48.3 0.4 38 150-194 17-54 (386)
494 PRK13975 thymidylate kinase; P 87.8 0.21 4.5E-06 42.3 0.7 16 149-164 3-18 (196)
495 PF08433 KTI12: Chromatin asso 87.7 0.18 3.9E-06 46.0 0.3 35 149-190 2-36 (270)
496 KOG0732|consensus 87.7 0.18 3.8E-06 53.7 0.3 42 151-199 302-343 (1080)
497 PF10236 DAP3: Mitochondrial r 87.7 0.24 5.3E-06 45.9 1.2 21 149-173 24-44 (309)
498 PRK00698 tmk thymidylate kinas 87.7 0.26 5.6E-06 41.8 1.2 16 149-164 4-19 (205)
499 TIGR00595 priA primosomal prot 87.6 0.16 3.4E-06 50.3 -0.2 36 152-194 1-36 (505)
500 PRK12678 transcription termina 87.5 0.21 4.6E-06 50.3 0.7 16 151-166 419-434 (672)
No 1
>KOG1802|consensus
Probab=100.00 E-value=1.9e-33 Score=272.64 Aligned_cols=170 Identities=44% Similarity=0.613 Sum_probs=154.4
Q ss_pred CCCCCCCeEEEEecCCCCCCCCCCCCceeeEEEEEeeC---ceEEEEcCCCCCCCCCcCCCceeecccccchHHHHHHHH
Q psy4476 13 HALDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPV---TEVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLA 89 (266)
Q Consensus 13 ~~l~~GD~V~l~~~~~~~~~~~~~~~~~~~G~V~kv~~---~~V~v~l~~~~~~p~~~~~~~~~v~~~~n~~t~~R~~~a 89 (266)
.++..||..++.+.+.. ...|...|.|.++.+ +|+.++++.+..+|.+...+ |.++++|+.++|+||+.|
T Consensus 294 ~kl~~GdE~~L~y~~~~------~~~w~~~g~v~~~pd~~~dE~~lEl~~~~~~p~e~~~~-Ftvd~vwk~ts~drm~~a 366 (935)
T KOG1802|consen 294 LKLAIGDEIRLTYSGGL------VLPWNGIGSVLKIPDNNGDEVKLELEFSQDPPIEVTHG-FTVDFVWKSTSFDRMQLA 366 (935)
T ss_pred hccccCCeeEEEecCCc------CCcccccceEEecCCCCcceeEEEeecCCCCCcccccc-eEEEEEEcCccHHHHHHH
Confidence 45789999999988763 345999999999987 79999998776677777777 999999999999999999
Q ss_pred HHHhHHhccchHHHHHHHHcCCCCchhhhhccCCCCCCCCCCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccc
Q psy4476 90 LRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGG 169 (266)
Q Consensus 90 L~~l~~~e~~~~~~L~~~l~g~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i 169 (266)
|+.|+.++..++.|+|+.++|++..+......+|..|..+++++||.||..||+++|+++++|||||||||||.| +
T Consensus 367 lk~la~D~~~vs~y~y~klLgh~~~~~~~k~~LP~~~s~~~lpkLN~SQ~~AV~~VL~rplsLIQGPPGTGKTvt----s 442 (935)
T KOG1802|consen 367 LKLLAVDEKKVSGYLYHKLLGHPVEDSSLKKLLPRRFSVPNLPKLNASQSNAVKHVLQRPLSLIQGPPGTGKTVT----S 442 (935)
T ss_pred HHHhhhccccchhhhhhHHhcCcchhhhhcccCchhhcCCCchhhchHHHHHHHHHHcCCceeeecCCCCCceeh----h
Confidence 999999999999999999999987667777889999999999999999999999999999999999999999999 8
Q ss_pred cccccchhhhhccCCceEecCCCCcc
Q psy4476 170 AGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 170 ~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
++|+ |++.+....+||||||||.|
T Consensus 443 a~IV--yhl~~~~~~~VLvcApSNiA 466 (935)
T KOG1802|consen 443 ATIV--YHLARQHAGPVLVCAPSNIA 466 (935)
T ss_pred HHHH--HHHHHhcCCceEEEcccchh
Confidence 9999 68888788999999999997
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=99.92 E-value=1.5e-24 Score=217.02 Aligned_cols=158 Identities=20% Similarity=0.167 Sum_probs=119.6
Q ss_pred CCCCCCCCeEEEEecCCCCCCCCCCCCceeeEEEEEeeCceEEEEcCCCCCCCCCcCCCceeecccccchHHHHHHHHHH
Q psy4476 12 LHALDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPVTEVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQLALR 91 (266)
Q Consensus 12 ~~~l~~GD~V~l~~~~~~~~~~~~~~~~~~~G~V~kv~~~~V~v~l~~~~~~p~~~~~~~~~v~~~~n~~t~~R~~~aL~ 91 (266)
.+.|.+||+|.|+..+. ..+.+.|+|+++..+.|+|.++.. .|.+...+ |++++.+|++||+||..||.
T Consensus 55 ~~~~~~GD~v~i~~~~~--------~~~~~~g~V~~v~~~~i~v~~~~~--~~~~~~~~-~~i~~~~~~~t~~rm~~aL~ 123 (637)
T TIGR00376 55 ATEISVGDIVLVSRGNP--------LQSDLTGVVTRVGKRFITVALEES--VPQWSLKR-VRIDLYANDVTFKRMKEALR 123 (637)
T ss_pred CCcCCCCCEEEEecCCC--------CCCCcEEEEEEEcCcEEEEEECCC--CCcccCce-EEEEEecCccHHHHHHHHHH
Confidence 46899999999986433 235689999999999999999864 23332334 99999999999999999999
Q ss_pred HhHHhccchHHHHHHHHcCCCCchhhhhccCCCCCCCCCCCCCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEeCcccc
Q psy4476 92 KFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGA 170 (266)
Q Consensus 92 ~l~~~e~~~~~~L~~~l~g~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~ 170 (266)
+|.... ..+++.++|...+..... ..+..+ ..+.||++|+.||..|+.+ ++++||||||||||+| ++
T Consensus 124 ~l~~~~----~~l~~~llg~~~p~~~~~-~~~~~~---~~~~ln~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t----~~ 191 (637)
T TIGR00376 124 ALTENH----SRLLEFILGREAPSKASE-IHDFQF---FDPNLNESQKEAVSFALSSKDLFLIHGPPGTGKTRT----LV 191 (637)
T ss_pred HHHhch----hhHHHHHhCCCCCCcccc-cccccc---cCCCCCHHHHHHHHHHhcCCCeEEEEcCCCCCHHHH----HH
Confidence 997543 367888999743322111 111111 2268999999999999986 8999999999999999 55
Q ss_pred ccccchhhhhccCCceEecCCCCcc
Q psy4476 171 GIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 171 ~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
+|+. ++.+ .+.+||+|||||.|
T Consensus 192 ~ii~--~~~~-~g~~VLv~a~sn~A 213 (637)
T TIGR00376 192 ELIR--QLVK-RGLRVLVTAPSNIA 213 (637)
T ss_pred HHHH--HHHH-cCCCEEEEcCcHHH
Confidence 5662 3333 46799999999985
No 3
>KOG1803|consensus
Probab=99.90 E-value=2.3e-24 Score=208.72 Aligned_cols=172 Identities=15% Similarity=0.115 Sum_probs=125.0
Q ss_pred ccccCCCCCCCCeEEEEecCCCCCCCCCCCCceeeEEEEEeeCceEEEEcCCCCCCCCCcCCCceeecccccchHHHHHH
Q psy4476 8 TCVELHALDAGDELKLAATSYDASTPGSGPRSRGLRFRIILPVTEVGLELKSSAGAPTESYHGLFCGPSFWKSTSFDRMQ 87 (266)
Q Consensus 8 ~cl~~~~l~~GD~V~l~~~~~~~~~~~~~~~~~~~G~V~kv~~~~V~v~l~~~~~~p~~~~~~~~~v~~~~n~~t~~R~~ 87 (266)
--||.+.|.+||+|.++..... .+......|+|+++..+.+.+.|.+..+.+.... .+++..+.|..+|+||.
T Consensus 68 ~~lp~~~~~~gd~v~lr~~~~~-----~~~~~~~~GvV~~~~~~~i~~a~ee~~d~~~~~~--~l~l~kl~n~vty~R~~ 140 (649)
T KOG1803|consen 68 EVLPSNSFGPGDVVWLRTDKLN-----NKSKPCTEGVVYRVAEDSIDVAFEEEVDKPLTLS--SLRLLKLENKVTYRRMK 140 (649)
T ss_pred cccCcCCCCCCcEEEEEccccc-----ccCcccccceeEeeccchhhHhHHhhhcccchhh--HHHHHHhhhhhhheecH
Confidence 4689999999999999833221 1222257999999999999999986554443221 36788899999999999
Q ss_pred HHHHHhHH-hccchHHHHHHHHcCCCCchhhhhccCCCCCCCCCCCCCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEe
Q psy4476 88 LALRKFAV-DDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 88 ~aL~~l~~-~e~~~~~~L~~~l~g~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTi 165 (266)
.++..+.. .....+..+.+.+++...+....+.... . .......||.||+.||.+|+.+ ++.+||||||||||+|
T Consensus 141 ~~~i~l~~~~~~~~~~~vv~~l~~~~~~~~~~~~~~~-~-~~~~~~~ln~SQk~Av~~~~~~k~l~~I~GPPGTGKT~T- 217 (649)
T KOG1803|consen 141 DTMICLSKFSNPGPSSDVVETLFGDRKPIPSPNIEIK-K-ITFFNKNLNSSQKAAVSFAINNKDLLIIHGPPGTGKTRT- 217 (649)
T ss_pred HHHhhHhhhcCccchhhhHHHHhccccCCCCchhhhc-c-cccCCccccHHHHHHHHHHhccCCceEeeCCCCCCceee-
Confidence 99988875 3333566677778887533322221111 1 1122357999999999999986 8999999999999999
Q ss_pred CccccccccchhhhhccCCceEecCCCCcc
Q psy4476 166 QPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 166 v~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
+.+|+. ++.+ .++|||||||||.|
T Consensus 218 ---lvEiI~--qlvk-~~k~VLVcaPSn~A 241 (649)
T KOG1803|consen 218 ---LVEIIS--QLVK-QKKRVLVCAPSNVA 241 (649)
T ss_pred ---HHHHHH--HHHH-cCCeEEEEcCchHH
Confidence 556673 3443 57999999999996
No 4
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=99.87 E-value=3.7e-24 Score=212.92 Aligned_cols=147 Identities=21% Similarity=0.215 Sum_probs=106.1
Q ss_pred HHHHHhHHhccchHHHHHHHHcCCCCchhhhhccCCCCCCCCCCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCc
Q psy4476 88 LALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQP 167 (266)
Q Consensus 88 ~aL~~l~~~e~~~~~~L~~~l~g~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~ 167 (266)
.+|.++|.+|..++..|.++.....++.......+...|... ....++|+.|+..|+.+++++|+||||||||||
T Consensus 109 lYl~ry~~~E~~iA~~l~~~~~~~~~~~~~~~~~l~~lf~~~--~~~~d~Qk~Av~~a~~~~~~vItGgpGTGKTt~--- 183 (615)
T PRK10875 109 LYLQRMWQNERTVARFFNEVNHAIEVDEALLRQTLDALFGPV--TDEVDWQKVAAAVALTRRISVISGGPGTGKTTT--- 183 (615)
T ss_pred EEeHHHHHHHHHHHHHHHHhccCCCCChHHHHHHHHHhcCcC--CCCCHHHHHHHHHHhcCCeEEEEeCCCCCHHHH---
Confidence 489999999999999887764222233222222233333211 134589999999999999999999999999999
Q ss_pred cccccccchhhhhc---cCCceEecCCCCc--ccccccccccC-----------------cccccccc-cccccccCCCC
Q psy4476 168 GGAGIGNSANTNRL---RNKSNLNHRPSGA--NKLSQGHLSQG-----------------NNSQEITQ-PYSQVMSQGGG 224 (266)
Q Consensus 168 ~i~~Ii~~~~~~~~---~~~kiLvcAPSN~--arl~~g~~~~g-----------------~~~~~i~~-~~~~~~~~~g~ 224 (266)
+..|+. .+.+. +..+|++|||||. +||.| ++| .++.|||| |+.. +...+
T Consensus 184 -v~~ll~--~l~~~~~~~~~~i~l~APTgkAA~rL~e---~~~~~~~~~~~~~~~~~~~~~~a~TiHrlLg~~--~~~~~ 255 (615)
T PRK10875 184 -VAKLLA--ALIQLADGERCRIRLAAPTGKAAARLTE---SLGKALRQLPLTDEQKKRIPEEASTLHRLLGAQ--PGSQR 255 (615)
T ss_pred -HHHHHH--HHHHhcCCCCcEEEEECCcHHHHHHHHH---HHHhhhhccccchhhhhcCCCchHHHHHHhCcC--CCccc
Confidence 555552 22221 2357999999998 58888 444 36889999 8875 55556
Q ss_pred cccCC-CCCCcceeee---eecccccC
Q psy4476 225 FSLSQ-ADLSQDSLMM---SQLDGMLS 247 (266)
Q Consensus 225 ~~~~~-~~~~~d~~~~---s~~d~~l~ 247 (266)
|..+. +++..|++|+ ||||..|-
T Consensus 256 ~~~~~~~~l~~dvlIvDEaSMvd~~lm 282 (615)
T PRK10875 256 LRYHAGNPLHLDVLVVDEASMVDLPMM 282 (615)
T ss_pred hhhccccCCCCCeEEEChHhcccHHHH
Confidence 88876 9999999999 99997653
No 5
>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=99.76 E-value=1.6e-19 Score=179.36 Aligned_cols=143 Identities=20% Similarity=0.185 Sum_probs=100.4
Q ss_pred HHHHHhHHhccchHHHHHHHHcCCCCchhhhhccCCCCCCCCCCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCc
Q psy4476 88 LALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQP 167 (266)
Q Consensus 88 ~aL~~l~~~e~~~~~~L~~~l~g~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~ 167 (266)
.+|.+++.+|..++.+|.++......... ...+...|.. ... .++|+.||..|+.+++++|+||||||||||
T Consensus 105 lYl~r~~~~E~~ia~~l~~~~~~~~~~~~--~~~l~~~~~~--~~~-~~~Qk~A~~~al~~~~~vitGgpGTGKTt~--- 176 (586)
T TIGR01447 105 LYLRRYWREEEKLAAKLRTLLEARKRTAP--SAILENLFPL--LNE-QNWQKVAVALALKSNFSLITGGPGTGKTTT--- 176 (586)
T ss_pred EEehHHHHHHHHHHHHHHHHhccCCCCcc--hHHHHHhhcc--ccc-cHHHHHHHHHHhhCCeEEEEcCCCCCHHHH---
Confidence 37888999999999888876543321110 1111111211 111 278999999999999999999999999999
Q ss_pred cccccccchhhhhcc----CCceEecCCCCc--ccccccccccC-----------------cccccccc-cccccccCCC
Q psy4476 168 GGAGIGNSANTNRLR----NKSNLNHRPSGA--NKLSQGHLSQG-----------------NNSQEITQ-PYSQVMSQGG 223 (266)
Q Consensus 168 ~i~~Ii~~~~~~~~~----~~kiLvcAPSN~--arl~~g~~~~g-----------------~~~~~i~~-~~~~~~~~~g 223 (266)
+..|+. .+.+.. ..+|++|||||. +||.| ++| .++.|||| |+.. +...
T Consensus 177 -v~~ll~--~l~~~~~~~~~~~I~l~APTGkAA~rL~e---~~~~~~~~l~~~~~~~~~~~~~a~TiHrlLg~~--~~~~ 248 (586)
T TIGR01447 177 -VARLLL--ALVKQSPKQGKLRIALAAPTGKAAARLAE---SLRKAVKNLAAAEALIAALPSEAVTIHRLLGIK--PDTK 248 (586)
T ss_pred -HHHHHH--HHHHhccccCCCcEEEECCcHHHHHHHHH---HHHhhhcccccchhhhhccccccchhhhhhccc--CCcc
Confidence 555552 222211 257999999998 48888 433 24889999 8874 5445
Q ss_pred CcccCC-CCCCcceeee---eeccccc
Q psy4476 224 GFSLSQ-ADLSQDSLMM---SQLDGML 246 (266)
Q Consensus 224 ~~~~~~-~~~~~d~~~~---s~~d~~l 246 (266)
+|..+. +++..|+||+ ||||..+
T Consensus 249 ~~~~~~~~~l~~dvlIiDEaSMvd~~l 275 (586)
T TIGR01447 249 RFRHHERNPLPLDVLVVDEASMVDLPL 275 (586)
T ss_pred hhhhcccCCCcccEEEEcccccCCHHH
Confidence 677765 8999999999 9999764
No 6
>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=99.69 E-value=6.5e-18 Score=171.56 Aligned_cols=145 Identities=15% Similarity=0.110 Sum_probs=100.3
Q ss_pred HHHHhHHhccchHHHHHHHHcCCC-CchhhhhccCCCCCCCCCCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCc
Q psy4476 89 ALRKFAVDDQSVSAYIYHRLLGHN-VDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQP 167 (266)
Q Consensus 89 aL~~l~~~e~~~~~~L~~~l~g~~-~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~ 167 (266)
++..++..|..++..|.+...... +........+. .+.......||+.|++|+..++.+++++|+|+|||||||+
T Consensus 279 ~~~~~~~~E~~ia~~l~~~~~~~~~~~~~~~~~~i~-~~~~~~~~~l~~~Q~~Ai~~~~~~~~~iitGgpGTGKTt~--- 354 (720)
T TIGR01448 279 YLPSLFRAEKQIASHIRRLLATSPAIGAINDQEHIW-EVEKKLRKGLSEEQKQALDTAIQHKVVILTGGPGTGKTTI--- 354 (720)
T ss_pred eeHHHHHHHHHHHHHHHHHhcCCCCCCchhHHHHHH-HHHHhcCCCCCHHHHHHHHHHHhCCeEEEECCCCCCHHHH---
Confidence 566667777777777776543322 11111110010 0111123579999999999999999999999999999999
Q ss_pred cccccccchhhhhccC--CceEecCCCCc--ccccccccccCcccccccc-cccccccCCCCcccCCCCCCcceeee---
Q psy4476 168 GGAGIGNSANTNRLRN--KSNLNHRPSGA--NKLSQGHLSQGNNSQEITQ-PYSQVMSQGGGFSLSQADLSQDSLMM--- 239 (266)
Q Consensus 168 ~i~~Ii~~~~~~~~~~--~kiLvcAPSN~--arl~~g~~~~g~~~~~i~~-~~~~~~~~~g~~~~~~~~~~~d~~~~--- 239 (266)
+.+|+. .+.. .+ .+|++|||||+ +||.+ ++|.++.|||| +++. +....+....+++..|++|+
T Consensus 355 -l~~i~~--~~~~-~~~~~~v~l~ApTg~AA~~L~e---~~g~~a~Tih~lL~~~--~~~~~~~~~~~~~~~~llIvDEa 425 (720)
T TIGR01448 355 -TRAIIE--LAEE-LGGLLPVGLAAPTGRAAKRLGE---VTGLTASTIHRLLGYG--PDTFRHNHLEDPIDCDLLIVDES 425 (720)
T ss_pred -HHHHHH--HHHH-cCCCceEEEEeCchHHHHHHHH---hcCCccccHHHHhhcc--CCccchhhhhccccCCEEEEecc
Confidence 667763 3333 23 68999999998 48999 89999999999 7764 32222222236899999998
Q ss_pred eeccccc
Q psy4476 240 SQLDGML 246 (266)
Q Consensus 240 s~~d~~l 246 (266)
||||..+
T Consensus 426 SMvd~~~ 432 (720)
T TIGR01448 426 SMMDTWL 432 (720)
T ss_pred ccCCHHH
Confidence 9998653
No 7
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=99.56 E-value=5.6e-16 Score=133.77 Aligned_cols=57 Identities=32% Similarity=0.231 Sum_probs=42.9
Q ss_pred CCCHHHHHHHHHHHhCCC-eEEEcCCCCCcceEeCccccccccchhh-------hhccCCceEecCCCCcc
Q psy4476 133 DLNRSQVYAVKHAIQRPL-SLIQGMNQRSNGLHHQPGGAGIGNSANT-------NRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~-tLIqGPPGTGKTtTiv~~i~~Ii~~~~~-------~~~~~~kiLvcAPSN~a 195 (266)
+||++|++||..++.++. ++||||||||||+| +++++. .+ ....+.+||+|||||.|
T Consensus 1 ~ln~~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~----l~~~i~--~~~~~~~~~~~~~~~~il~~~~sN~a 65 (236)
T PF13086_consen 1 KLNESQREAIQSALSSNGITLIQGPPGTGKTTT----LASIIA--QLLQRFKSRSADRGKKILVVSPSNAA 65 (236)
T ss_dssp ---HHHHHHHHHHCTSSE-EEEE-STTSSHHHH----HHHHHH--HH-------HCCCSS-EEEEESSHHH
T ss_pred CCCHHHHHHHHHHHcCCCCEEEECCCCCChHHH----HHHHHH--HhccchhhhhhhccccceeecCCchh
Confidence 489999999999999875 99999999999999 455552 22 13367899999999995
No 8
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=99.52 E-value=3.2e-15 Score=129.53 Aligned_cols=99 Identities=20% Similarity=0.240 Sum_probs=67.9
Q ss_pred CCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc--cccccccccCccc
Q psy4476 133 DLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN--KLSQGHLSQGNNS 208 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~~~ 208 (266)
+||+.|++|+..++.+ ++++|+||||||||++ +..+.. .+.. .+.+|++|||||.| +|.+ ..|..+
T Consensus 1 ~L~~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~----l~~~~~--~~~~-~g~~v~~~apT~~Aa~~L~~---~~~~~a 70 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGDRVSVLQGPAGTGKTTL----LKALAE--ALEA-AGKRVIGLAPTNKAAKELRE---KTGIEA 70 (196)
T ss_dssp -S-HHHHHHHHHHHHCTCSEEEEEESTTSTHHHH----HHHHHH--HHHH-TT--EEEEESSHHHHHHHHH---HHTS-E
T ss_pred CCCHHHHHHHHHHHhcCCeEEEEEECCCCCHHHH----HHHHHH--HHHh-CCCeEEEECCcHHHHHHHHH---hhCcch
Confidence 4899999999999975 5999999999999999 555552 3333 46899999999984 8888 788999
Q ss_pred ccccc-cccccccCCCCcccCCCCCCcceeee---eeccc
Q psy4476 209 QEITQ-PYSQVMSQGGGFSLSQADLSQDSLMM---SQLDG 244 (266)
Q Consensus 209 ~~i~~-~~~~~~~~~g~~~~~~~~~~~d~~~~---s~~d~ 244 (266)
.|||+ +... . .+.+.-..+....|++|+ ||||.
T Consensus 71 ~Ti~~~l~~~--~-~~~~~~~~~~~~~~vliVDEasmv~~ 107 (196)
T PF13604_consen 71 QTIHSFLYRI--P-NGDDEGRPELPKKDVLIVDEASMVDS 107 (196)
T ss_dssp EEHHHHTTEE--C-CEECCSSCC-TSTSEEEESSGGG-BH
T ss_pred hhHHHHHhcC--C-cccccccccCCcccEEEEecccccCH
Confidence 99998 5542 2 111111112445678887 89884
No 9
>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=99.39 E-value=1.8e-13 Score=139.67 Aligned_cols=98 Identities=13% Similarity=0.118 Sum_probs=77.8
Q ss_pred CCCCHHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc--ccccccccccCccc
Q psy4476 132 PDLNRSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA--NKLSQGHLSQGNNS 208 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~--arl~~g~~~~g~~~ 208 (266)
..||+.|++||..++. +++++|+|||||||||+ +.+|+. .+.. .+.+|.+|||||. ++|.+ .+|..+
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~~~~il~G~aGTGKTtl----l~~i~~--~~~~-~g~~V~~~ApTg~Aa~~L~~---~~g~~a 420 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSGDIAVVVGRAGTGKSTM----LKAARE--AWEA-AGYRVIGAALSGKAAEGLQA---ESGIES 420 (744)
T ss_pred CCCCHHHHHHHHHHhcCCCEEEEEecCCCCHHHH----HHHHHH--HHHh-CCCeEEEEeCcHHHHHHHHh---ccCCce
Confidence 4699999999999997 58999999999999999 666662 3333 4689999999998 48888 899999
Q ss_pred ccccccccccccCCCCcccCC-CCCCcceeee---eeccccc
Q psy4476 209 QEITQPYSQVMSQGGGFSLSQ-ADLSQDSLMM---SQLDGML 246 (266)
Q Consensus 209 ~~i~~~~~~~~~~~g~~~~~~-~~~~~d~~~~---s~~d~~l 246 (266)
.|||++... |.... +...+|++|+ ||||..+
T Consensus 421 ~Ti~~~~~~-------~~~~~~~~~~~~llIvDEasMv~~~~ 455 (744)
T TIGR02768 421 RTLASLEYA-------WANGRDLLSDKDVLVIDEAGMVGSRQ 455 (744)
T ss_pred eeHHHHHhh-------hccCcccCCCCcEEEEECcccCCHHH
Confidence 999985322 22223 4678999998 8988654
No 10
>PF13245 AAA_19: Part of AAA domain
Probab=99.34 E-value=1.5e-13 Score=101.95 Aligned_cols=70 Identities=24% Similarity=0.237 Sum_probs=47.5
Q ss_pred HHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc--cccccccccCcc-cccccc
Q psy4476 140 YAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN--KLSQGHLSQGNN-SQEITQ 213 (266)
Q Consensus 140 ~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~~-~~~i~~ 213 (266)
+||..|+. +++.+|+||||||||+|++..++.++ ..... .+++||+++|+|++ .+.+ ++..|.. +.|||.
T Consensus 1 ~av~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~--~~~~~-~~~~vlv~a~t~~aa~~l~~-rl~~~~~~~~T~h~ 74 (76)
T PF13245_consen 1 EAVRRALAGSPLFVVQGPPGTGKTTTLAARIAELL--AARAD-PGKRVLVLAPTRAAADELRE-RLGLGVPFAMTIHS 74 (76)
T ss_pred CHHHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHH--HHhcC-CCCeEEEECCCHHHHHHHHH-HHcCCCcchhhHHH
Confidence 47888888 89999999999999999533222221 00111 26799999999994 4444 2233555 788986
No 11
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=99.31 E-value=6.7e-13 Score=138.15 Aligned_cols=98 Identities=17% Similarity=0.131 Sum_probs=76.6
Q ss_pred CCCCHHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc--cccccccccCccc
Q psy4476 132 PDLNRSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN--KLSQGHLSQGNNS 208 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~~~ 208 (266)
..||+.|++||..++. +++++|+|+|||||||+ +..+. ..+. ..+.+|++|||||.| +|.+ .+|..+
T Consensus 345 ~~Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~----l~~~~--~~~e-~~G~~V~~~ApTGkAA~~L~e---~tGi~a 414 (988)
T PRK13889 345 LVLSGEQADALAHVTDGRDLGVVVGYAGTGKSAM----LGVAR--EAWE-AAGYEVRGAALSGIAAENLEG---GSGIAS 414 (988)
T ss_pred CCCCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHH----HHHHH--HHHH-HcCCeEEEecCcHHHHHHHhh---ccCcch
Confidence 4699999999999998 57999999999999999 55555 2333 357899999999984 8888 889999
Q ss_pred ccccccccccccCCCCcccCC-CCCCcceeee---eeccccc
Q psy4476 209 QEITQPYSQVMSQGGGFSLSQ-ADLSQDSLMM---SQLDGML 246 (266)
Q Consensus 209 ~~i~~~~~~~~~~~g~~~~~~-~~~~~d~~~~---s~~d~~l 246 (266)
.|||++.. +|.... .....|+||+ ||||..+
T Consensus 415 ~TI~sll~-------~~~~~~~~l~~~~vlIVDEASMv~~~~ 449 (988)
T PRK13889 415 RTIASLEH-------GWGQGRDLLTSRDVLVIDEAGMVGTRQ 449 (988)
T ss_pred hhHHHHHh-------hhcccccccccCcEEEEECcccCCHHH
Confidence 99998532 122223 5678899998 8988654
No 12
>KOG1805|consensus
Probab=99.22 E-value=2.7e-11 Score=123.19 Aligned_cols=132 Identities=18% Similarity=0.076 Sum_probs=79.5
Q ss_pred eeecccccchHHHHHHHHHHHhHHhccchHHHHHHHHcCCCCchhhh--hc-cCCCCCCCCCCCCCCHHHHHHHHHHHh-
Q psy4476 72 FCGPSFWKSTSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVDEVLF--RC-HLPKHFSAPNLPDLNRSQVYAVKHAIQ- 147 (266)
Q Consensus 72 ~~v~~~~n~~t~~R~~~aL~~l~~~e~~~~~~L~~~l~g~~~~~~~~--~~-~~~~~~~~~~~~~LN~sQ~~AV~~aL~- 147 (266)
|+++.-.-+.+..-+...|..+..... ....|++++....++.... .. ..|+... .-...||..|++|+..||.
T Consensus 607 ~ridK~d~~ss~s~~r~nL~~l~~~~~-~~~~lRdlivd~~pP~f~~~~~~~~~p~~~~-~~~~~LN~dQr~A~~k~L~a 684 (1100)
T KOG1805|consen 607 FRIDKEDIMSSASTKRGNLMSLLLNDE-GGKILRDLIVDLKPPKFVDALSKVLIPKIKK-IILLRLNNDQRQALLKALAA 684 (1100)
T ss_pred eeccHHhhhhhhhhhhhhHHHHhcCCc-cchhHHHHhhhcCCchhhcccccccCchhhH-HHHhhcCHHHHHHHHHHHhc
Confidence 777766555444444445655543221 1233455443332222111 11 1122211 1234799999999999997
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc------cccc-c--ccccCcccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN------KLSQ-G--HLSQGNNSQEITQ 213 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a------rl~~-g--~~~~g~~~~~i~~ 213 (266)
.+++||.|.|||||||| ++.++ ..+.. .+++||+.+=||.| +|.- | .+-=|...+ ||-
T Consensus 685 edy~LI~GMPGTGKTTt----I~~LI--kiL~~-~gkkVLLtsyThsAVDNILiKL~~~~i~~lRLG~~~k-ih~ 751 (1100)
T KOG1805|consen 685 EDYALILGMPGTGKTTT----ISLLI--KILVA-LGKKVLLTSYTHSAVDNILIKLKGFGIYILRLGSEEK-IHP 751 (1100)
T ss_pred cchheeecCCCCCchhh----HHHHH--HHHHH-cCCeEEEEehhhHHHHHHHHHHhccCcceeecCCccc-cch
Confidence 58999999999999999 55556 34433 68999999999986 3333 2 344466666 664
No 13
>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=99.20 E-value=5.5e-12 Score=139.39 Aligned_cols=105 Identities=10% Similarity=0.045 Sum_probs=80.5
Q ss_pred CCCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc--ccccccccccCcc
Q psy4476 132 PDLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA--NKLSQGHLSQGNN 207 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~--arl~~g~~~~g~~ 207 (266)
..||+.|++||..++.+ .+.+|+|+|||||||+ +.+++. .+.. .+.+|.+||||++ ++|.+ .+|..
T Consensus 428 ~~Ls~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~----l~~l~~--~~~~-~G~~V~~lAPTgrAA~~L~e---~~g~~ 497 (1960)
T TIGR02760 428 FALSPSNKDAVSTLFTSTKRFIIINGFGGTGSTEI----AQLLLH--LASE-QGYEIQIITAGSLSAQELRQ---KIPRL 497 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCCeEEEEECCCCCHHHH----HHHHHH--HHHh-cCCeEEEEeCCHHHHHHHHH---Hhcch
Confidence 36999999999999985 7999999999999999 666662 3333 5789999999998 59999 99999
Q ss_pred cccccc-cccccccCCC----CcccCCCCC-Ccceeee---eeccccc
Q psy4476 208 SQEITQ-PYSQVMSQGG----GFSLSQADL-SQDSLMM---SQLDGML 246 (266)
Q Consensus 208 ~~~i~~-~~~~~~~~~g----~~~~~~~~~-~~d~~~~---s~~d~~l 246 (266)
+.|||+ ++.-.-+... +|....+|+ .+|+||+ ||||..+
T Consensus 498 A~Ti~~~l~~l~~~~~~~tv~~fl~~~~~l~~~~vlIVDEAsMl~~~~ 545 (1960)
T TIGR02760 498 ASTFITWVKNLFNDDQDHTVQGLLDKSSPFSNKDIFVVDEANKLSNNE 545 (1960)
T ss_pred hhhHHHHHHhhcccccchhHHHhhcccCCCCCCCEEEEECCCCCCHHH
Confidence 999998 6531001111 344334665 8899998 8998654
No 14
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.19 E-value=8.4e-12 Score=135.65 Aligned_cols=99 Identities=13% Similarity=0.177 Sum_probs=74.0
Q ss_pred CCCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccccchhhh---hccCCceEecCCCCc--cccccccccc
Q psy4476 132 PDLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTN---RLRNKSNLNHRPSGA--NKLSQGHLSQ 204 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~---~~~~~kiLvcAPSN~--arl~~g~~~~ 204 (266)
..||+.|++||..++.. ++++|+|+|||||||+ +..|+. .+. ...+.+|+.|||||. ++|.+ +
T Consensus 966 ~~Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~----l~~v~~--~~~~l~~~~~~~V~glAPTgrAAk~L~e----~ 1035 (1747)
T PRK13709 966 EGLTSGQRAATRMILESTDRFTVVQGYAGVGKTTQ----FRAVMS--AVNTLPESERPRVVGLGPTHRAVGEMRS----A 1035 (1747)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHH----HHHHHH--HHHHhhcccCceEEEECCcHHHHHHHHh----c
Confidence 46999999999999984 6999999999999999 555552 222 123467999999998 47765 6
Q ss_pred Ccccccccc-cccccccCCCCcccC-C-CCCCcceeee---eecccc
Q psy4476 205 GNNSQEITQ-PYSQVMSQGGGFSLS-Q-ADLSQDSLMM---SQLDGM 245 (266)
Q Consensus 205 g~~~~~i~~-~~~~~~~~~g~~~~~-~-~~~~~d~~~~---s~~d~~ 245 (266)
|.++.|||+ |... . .|..+ . +++..|++|+ ||||..
T Consensus 1036 Gi~A~TI~s~L~~~--~---~~~~~~~~~~~~~~llIVDEaSMv~~~ 1077 (1747)
T PRK13709 1036 GVDAQTLASFLHDT--Q---LQQRSGETPDFSNTLFLLDESSMVGNT 1077 (1747)
T ss_pred CcchhhHHHHhccc--c---cccccccCCCCCCcEEEEEccccccHH
Confidence 999999999 6531 1 12222 2 4577899888 999843
No 15
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=99.15 E-value=1.7e-11 Score=132.09 Aligned_cols=100 Identities=12% Similarity=0.150 Sum_probs=74.3
Q ss_pred CCCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccccch-hhhhccCCceEecCCCCcc--cccccccccCc
Q psy4476 132 PDLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIGNSA-NTNRLRNKSNLNHRPSGAN--KLSQGHLSQGN 206 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~-~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~ 206 (266)
..||+.|++||..+|.. ++++|+|+|||||||+ +.+|+... .+....+.+|+.|||||.| +|.+ +|.
T Consensus 834 ~~Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~----l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e----~Gi 905 (1623)
T PRK14712 834 EKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQ----FRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRS----AGV 905 (1623)
T ss_pred cccCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHH----HHHHHHHHHHHhhccCceEEEEechHHHHHHHHH----hCc
Confidence 47999999999999964 8999999999999999 55555200 1112235679999999994 7754 599
Q ss_pred ccccccc-cccccccCCCCcccC-C-CCCCcceeee---eeccc
Q psy4476 207 NSQEITQ-PYSQVMSQGGGFSLS-Q-ADLSQDSLMM---SQLDG 244 (266)
Q Consensus 207 ~~~~i~~-~~~~~~~~~g~~~~~-~-~~~~~d~~~~---s~~d~ 244 (266)
++.|||+ |... . .|... . +++..|++|+ ||||.
T Consensus 906 ~A~TIasfL~~~----~-~~~~~~~~~~~~~~llIVDEASMV~~ 944 (1623)
T PRK14712 906 DAQTLASFLHDT----Q-LQQRSGETPDFSNTLFLLDESSMVGN 944 (1623)
T ss_pred hHhhHHHHhccc----c-chhhcccCCCCCCcEEEEEccccccH
Confidence 9999999 6542 1 23332 2 4578899998 99987
No 16
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=99.14 E-value=1.7e-11 Score=128.53 Aligned_cols=98 Identities=10% Similarity=0.095 Sum_probs=74.7
Q ss_pred CCCCHHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc--cccccccccCccc
Q psy4476 132 PDLNRSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN--KLSQGHLSQGNNS 208 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~~~ 208 (266)
..||+.|++||..++. +++++|+|+|||||||+ +..+.. .+. ..+.+|+.|||||.| +|.+ .+|.++
T Consensus 380 ~~Ls~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~----l~~~~~--~~e-~~G~~V~g~ApTgkAA~~L~e---~~Gi~a 449 (1102)
T PRK13826 380 ARLSDEQKTAIEHVAGPARIAAVVGRAGAGKTTM----MKAARE--AWE-AAGYRVVGGALAGKAAEGLEK---EAGIQS 449 (1102)
T ss_pred CCCCHHHHHHHHHHhccCCeEEEEeCCCCCHHHH----HHHHHH--HHH-HcCCeEEEEcCcHHHHHHHHH---hhCCCe
Confidence 4799999999998764 68999999999999999 555552 333 357899999999994 8888 899999
Q ss_pred ccccccccccccCCCCcccCCCCCC-cceeee---eeccccc
Q psy4476 209 QEITQPYSQVMSQGGGFSLSQADLS-QDSLMM---SQLDGML 246 (266)
Q Consensus 209 ~~i~~~~~~~~~~~g~~~~~~~~~~-~d~~~~---s~~d~~l 246 (266)
.|||++... -.. ..++++ .|+||+ ||||..+
T Consensus 450 ~TIas~ll~--~~~-----~~~~l~~~~vlVIDEAsMv~~~~ 484 (1102)
T PRK13826 450 RTLSSWELR--WNQ-----GRDQLDNKTVFVLDEAGMVASRQ 484 (1102)
T ss_pred eeHHHHHhh--hcc-----CccCCCCCcEEEEECcccCCHHH
Confidence 999984321 111 235566 467777 8988653
No 17
>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=98.88 E-value=1.2e-09 Score=121.24 Aligned_cols=102 Identities=13% Similarity=0.140 Sum_probs=72.1
Q ss_pred CCCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc--cccccccccCcc
Q psy4476 132 PDLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN--KLSQGHLSQGNN 207 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~~ 207 (266)
..||+.|++|+..++.. .+.+|+|+|||||||++...+..|. ..+. ..+.+|+.|||||.| +|.+ .|..
T Consensus 1018 ~~Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~--~~~~-~~g~~v~glApT~~Aa~~L~~----~g~~ 1090 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVL--QAFE-SEQLQVIGLAPTHEAVGELKS----AGVQ 1090 (1960)
T ss_pred CCCCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHH--HHHH-hcCCeEEEEeChHHHHHHHHh----cCCc
Confidence 46999999999999964 7999999999999999421113333 1222 246789999999994 6754 5999
Q ss_pred cccccc-cccccccCCCCcccCCCCCCcceeee---eecccc
Q psy4476 208 SQEITQ-PYSQVMSQGGGFSLSQADLSQDSLMM---SQLDGM 245 (266)
Q Consensus 208 ~~~i~~-~~~~~~~~~g~~~~~~~~~~~d~~~~---s~~d~~ 245 (266)
+.|||+ |. + .+ .+.........|++|+ ||||..
T Consensus 1091 a~Ti~s~l~-~--~~--~~~~~~~~~~~~v~ivDEasMv~~~ 1127 (1960)
T TIGR02760 1091 AQTLDSFLT-D--IS--LYRNSGGDFRNTLFILDESSMVSNF 1127 (1960)
T ss_pred hHhHHHHhc-C--cc--cccccCCCCcccEEEEEccccccHH
Confidence 999998 43 1 11 1112224667788888 898863
No 18
>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=98.80 E-value=2.9e-09 Score=100.56 Aligned_cols=72 Identities=19% Similarity=0.166 Sum_probs=53.4
Q ss_pred CCCHHHHHHHHHHHh------CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcccccccccccCc
Q psy4476 133 DLNRSQVYAVKHAIQ------RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGANKLSQGHLSQGN 206 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~------~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~arl~~g~~~~g~ 206 (266)
.||+.|++|+..++. .....|+||.|||||++ +.+|.. .+ +..++++++||||+.|+..- ..|
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l----~~~i~~--~~-~~~~~~~~~~a~tg~AA~~i---~~G- 69 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFL----IKAIID--YL-RSRGKKVLVTAPTGIAAFNI---PGG- 69 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHH----HHHHHH--Hh-ccccceEEEecchHHHHHhc---cCC-
Confidence 489999999888843 24678999999999999 677763 22 33567899999999965444 223
Q ss_pred ccccccc-cccc
Q psy4476 207 NSQEITQ-PYSQ 217 (266)
Q Consensus 207 ~~~~i~~-~~~~ 217 (266)
.|+|+ .++.
T Consensus 70 --~T~hs~f~i~ 79 (364)
T PF05970_consen 70 --RTIHSFFGIP 79 (364)
T ss_pred --cchHHhcCcc
Confidence 47898 5553
No 19
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=98.57 E-value=2.4e-08 Score=101.49 Aligned_cols=103 Identities=20% Similarity=0.220 Sum_probs=84.8
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc--ccccccccccCcccc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA--NKLSQGHLSQGNNSQ 209 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~--arl~~g~~~~g~~~~ 209 (266)
..++++|++|+..++..+.+.+.||||||||++ +..++. .... ....++++||++. .+|.+ .+|.++.
T Consensus 318 ~~~~~~q~~a~~vl~~de~smlt~~~~~~~~~~----~~~~~~--l~~~-~~~~~l~aa~tG~a~~~l~e---~tg~~a~ 387 (696)
T COG0507 318 LRLSLEQKEALDVLVVDEVSMLTGGPGTGKTTA----IKAIAR--LIKE-GDGDQLLAAPTGKAAKRLNE---STGLEAR 387 (696)
T ss_pred CCcCcccHHHHHHHhcCCeeEEeccCCcchHHH----HHHHHH--HHHh-cCCcEEeechhhHHHHHHHH---hhCcchh
Confidence 578999999999999999999999999999999 666663 3332 4566999999998 59999 8899999
Q ss_pred cccc-cccccccCCCCcccCCCCCCcceeee---eecccccCCC
Q psy4476 210 EITQ-PYSQVMSQGGGFSLSQADLSQDSLMM---SQLDGMLSQE 249 (266)
Q Consensus 210 ~i~~-~~~~~~~~~g~~~~~~~~~~~d~~~~---s~~d~~l~~~ 249 (266)
|||| ++.. .+.+ ......++|.+|+ +|||..+-..
T Consensus 388 ti~~~~~~~--~~~~---~~~~~~~~d~~iiDe~~ml~~~~~~~ 426 (696)
T COG0507 388 TIHRLLGLW--EKTG---NNEEPLDGDLLIIDEASMLDTSLAFG 426 (696)
T ss_pred HHHHHHhcc--ccCC---CCCCccccceeEEehhhhHHHHHhhh
Confidence 9999 7654 5433 4458899999998 8999876644
No 20
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=98.43 E-value=3.2e-08 Score=89.30 Aligned_cols=55 Identities=11% Similarity=-0.031 Sum_probs=40.0
Q ss_pred CCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh--ccCCceEecCCCCcc
Q psy4476 134 LNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR--LRNKSNLNHRPSGAN 195 (266)
Q Consensus 134 LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~--~~~~kiLvcAPSN~a 195 (266)
||+.|++||.. .....+|.|+||||||+|++.. |+ +.+.. ....+||+.++||+|
T Consensus 1 l~~eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~r---i~--~ll~~~~~~~~~Il~lTft~~a 57 (315)
T PF00580_consen 1 LTDEQRRIIRS--TEGPLLVNAGAGSGKTTTLLER---IA--YLLYEGGVPPERILVLTFTNAA 57 (315)
T ss_dssp S-HHHHHHHHS---SSEEEEEE-TTSSHHHHHHHH---HH--HHHHTSSSTGGGEEEEESSHHH
T ss_pred CCHHHHHHHhC--CCCCEEEEeCCCCCchHHHHHH---HH--HhhccccCChHHheecccCHHH
Confidence 78999999998 7788899999999999996432 33 22222 245789999999984
No 21
>KOG1807|consensus
Probab=98.43 E-value=1.1e-07 Score=95.53 Aligned_cols=84 Identities=24% Similarity=0.201 Sum_probs=57.7
Q ss_pred CCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh---ccCCceEecCCCCcc--ccccccccc
Q psy4476 130 NLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR---LRNKSNLNHRPSGAN--KLSQGHLSQ 204 (266)
Q Consensus 130 ~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~---~~~~kiLvcAPSN~a--rl~~g~~~~ 204 (266)
...-|..||+.|...++...++|||||||||||.+ ...|+...+.+. ....+|||..=||.| .+.+|-.-.
T Consensus 375 g~~ildsSq~~A~qs~ltyelsliqgppGTgkt~v----tlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~~ 450 (1025)
T KOG1807|consen 375 GLVILDSSQQFAKQSKLTYELSLIQGPPGTGKTLV----TLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYYH 450 (1025)
T ss_pred CceeecHHHHHHHHHHhhhhhheeecCCCCCceee----hHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHhc
Confidence 34568999999999999999999999999999999 444442111222 124689999899984 666643322
Q ss_pred CcccccccccccccccCCCCcc
Q psy4476 205 GNNSQEITQPYSQVMSQGGGFS 226 (266)
Q Consensus 205 g~~~~~i~~~~~~~~~~~g~~~ 226 (266)
++ +. +|+++++|.
T Consensus 451 qr-------ps--Imr~gsr~~ 463 (1025)
T KOG1807|consen 451 QR-------PS--IMRQGSRFF 463 (1025)
T ss_pred CC-------ce--EEEeccccC
Confidence 22 33 467666654
No 22
>PRK11054 helD DNA helicase IV; Provisional
Probab=98.38 E-value=3.1e-08 Score=100.66 Aligned_cols=86 Identities=15% Similarity=0.071 Sum_probs=59.3
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh--ccCCceEecCCCCcc--ccccc---cc-c
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR--LRNKSNLNHRPSGAN--KLSQG---HL-S 203 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~--~~~~kiLvcAPSN~a--rl~~g---~~-~ 203 (266)
..||++|++||...- .-.+|.|+||||||+|++. .+. +++.. ....+||+.|.||.| .|.+- ++ .
T Consensus 195 ~~L~~~Q~~av~~~~--~~~lV~agaGSGKT~vl~~---r~a--yLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg~ 267 (684)
T PRK11054 195 SPLNPSQARAVVNGE--DSLLVLAGAGSGKTSVLVA---RAG--WLLARGQAQPEQILLLAFGRQAAEEMDERIRERLGT 267 (684)
T ss_pred CCCCHHHHHHHhCCC--CCeEEEEeCCCCHHHHHHH---HHH--HHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcCC
Confidence 479999999998543 4469999999999999632 222 22222 235689999999984 33331 12 3
Q ss_pred cCcccccccccccccccCCCC
Q psy4476 204 QGNNSQEITQPYSQVMSQGGG 224 (266)
Q Consensus 204 ~g~~~~~i~~~~~~~~~~~g~ 224 (266)
.+....|+|.+.+.++++.++
T Consensus 268 ~~v~v~TFHSlal~Il~~~~~ 288 (684)
T PRK11054 268 EDITARTFHALALHIIQQGSK 288 (684)
T ss_pred CCcEEEeHHHHHHHHHHHhhh
Confidence 456788999977766775443
No 23
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.21 E-value=1.1e-06 Score=72.72 Aligned_cols=58 Identities=14% Similarity=0.012 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..+++.|.+|+..++.. ...+|.||+|||||+++ +..++ ..+......++++++|+..
T Consensus 7 ~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~---~~~~~--~~~~~~~~~~~l~~~p~~~ 65 (201)
T smart00487 7 EPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAA---LLPAL--EALKRGKGKRVLVLVPTRE 65 (201)
T ss_pred CCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHH---HHHHH--HHhcccCCCcEEEEeCCHH
Confidence 56899999999999988 99999999999999983 22222 1222222478999999876
No 24
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=98.19 E-value=2.7e-07 Score=93.77 Aligned_cols=84 Identities=12% Similarity=0.016 Sum_probs=56.2
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc------cccc--c-ccc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN------KLSQ--G-HLS 203 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a------rl~~--g-~~~ 203 (266)
.||+.|++||.. ...-.+|.++||||||+|++..++.++. . ......+||+.+.||.| |+.. | ...
T Consensus 2 ~Ln~~Q~~av~~--~~g~~lV~AgpGSGKT~vL~~Ria~Li~--~-~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~~~ 76 (672)
T PRK10919 2 RLNPGQQQAVEF--VTGPCLVLAGAGSGKTRVITNKIAHLIR--G-CGYQARHIAAVTFTNKAAREMKERVAQTLGRKEA 76 (672)
T ss_pred CCCHHHHHHHhC--CCCCEEEEecCCCCHHHHHHHHHHHHHH--h-cCCCHHHeeeEechHHHHHHHHHHHHHHhCcccc
Confidence 599999999975 3456788899999999996433332221 0 11245789999999985 4443 2 223
Q ss_pred cCcccccccccccccccC
Q psy4476 204 QGNNSQEITQPYSQVMSQ 221 (266)
Q Consensus 204 ~g~~~~~i~~~~~~~~~~ 221 (266)
.+....|+|-+.+.+++.
T Consensus 77 ~~v~i~TfHS~~~~iLr~ 94 (672)
T PRK10919 77 RGLMISTFHTLGLDIIKR 94 (672)
T ss_pred cCcEEEcHHHHHHHHHHH
Confidence 455677999865554553
No 25
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=98.12 E-value=3.8e-07 Score=93.20 Aligned_cols=83 Identities=12% Similarity=0.001 Sum_probs=56.1
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhh--hccCCceEecCCCCcc------cccc--cc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTN--RLRNKSNLNHRPSGAN------KLSQ--GH 201 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~--~~~~~kiLvcAPSN~a------rl~~--g~ 201 (266)
..||+.|++||... ..-.+|-++||||||+|++. -|. +++. .....+||+.+.||.| |+.+ |.
T Consensus 3 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~~L~~---Ria--~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~ 75 (715)
T TIGR01075 3 DGLNDKQREAVAAP--PGNLLVLAGAGSGKTRVLTH---RIA--WLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT 75 (715)
T ss_pred cccCHHHHHHHcCC--CCCEEEEecCCCCHHHHHHH---HHH--HHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcc
Confidence 46999999999752 45679999999999999643 333 2222 1245789999999985 4443 22
Q ss_pred cccCcccccccccccccccC
Q psy4476 202 LSQGNNSQEITQPYSQVMSQ 221 (266)
Q Consensus 202 ~~~g~~~~~i~~~~~~~~~~ 221 (266)
...+..-.|+|-+.+.+++.
T Consensus 76 ~~~~~~i~TfHs~~~~iLr~ 95 (715)
T TIGR01075 76 SARGMWIGTFHGLAHRLLRA 95 (715)
T ss_pred cccCcEEEcHHHHHHHHHHH
Confidence 23345567999755544553
No 26
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=98.09 E-value=4.3e-07 Score=91.82 Aligned_cols=82 Identities=11% Similarity=0.050 Sum_probs=57.5
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh--ccCCceEecCCCCcc------cccc--c-c
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR--LRNKSNLNHRPSGAN------KLSQ--G-H 201 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~--~~~~kiLvcAPSN~a------rl~~--g-~ 201 (266)
.||+.|++||... ..-.+|.|+||||||+|++ ..|. +.+.. ....+||+.+.||.| |+.+ | .
T Consensus 1 ~Ln~~Q~~av~~~--~~~~~V~Ag~GSGKT~~L~---~ri~--~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~ 73 (664)
T TIGR01074 1 KLNPQQQEAVEYV--TGPCLVLAGAGSGKTRVIT---NKIA--YLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKG 73 (664)
T ss_pred CCCHHHHHHHhCC--CCCEEEEecCCCCHHHHHH---HHHH--HHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCcc
Confidence 4899999998753 4567999999999999974 3333 23322 245789999999985 4443 2 2
Q ss_pred cccCcccccccccccccccC
Q psy4476 202 LSQGNNSQEITQPYSQVMSQ 221 (266)
Q Consensus 202 ~~~g~~~~~i~~~~~~~~~~ 221 (266)
...+....|+|++.+.+++.
T Consensus 74 ~~~~v~v~TfHs~a~~il~~ 93 (664)
T TIGR01074 74 EARGLTISTFHTLGLDIIKR 93 (664)
T ss_pred ccCCeEEEeHHHHHHHHHHH
Confidence 24455677999977766664
No 27
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=98.09 E-value=6e-07 Score=91.88 Aligned_cols=85 Identities=13% Similarity=-0.035 Sum_probs=56.6
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc------cccc--cccc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN------KLSQ--GHLS 203 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a------rl~~--g~~~ 203 (266)
..||+.|++||... ..-.+|.++||||||+|++..++.++. . ......+||+.+-||.| |+.. |...
T Consensus 8 ~~Ln~~Q~~av~~~--~g~~lV~AgaGSGKT~vl~~Ria~Li~--~-~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~~ 82 (721)
T PRK11773 8 DSLNDKQREAVAAP--LGNMLVLAGAGSGKTRVLVHRIAWLMQ--V-ENASPYSIMAVTFTNKAAAEMRHRIEQLLGTSQ 82 (721)
T ss_pred HhcCHHHHHHHhCC--CCCEEEEecCCCCHHHHHHHHHHHHHH--c-CCCChhHeEeeeccHHHHHHHHHHHHHHhccCC
Confidence 46999999999853 456789999999999996433232221 0 11245789999999985 4433 2223
Q ss_pred cCcccccccccccccccC
Q psy4476 204 QGNNSQEITQPYSQVMSQ 221 (266)
Q Consensus 204 ~g~~~~~i~~~~~~~~~~ 221 (266)
.+..-.|+|-+.+.+++.
T Consensus 83 ~~~~i~TfHs~~~~iLr~ 100 (721)
T PRK11773 83 GGMWVGTFHGLAHRLLRA 100 (721)
T ss_pred CCCEEEcHHHHHHHHHHH
Confidence 345567999865555554
No 28
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=97.95 E-value=9.6e-07 Score=90.39 Aligned_cols=86 Identities=13% Similarity=0.032 Sum_probs=58.0
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc------cccc--cccc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN------KLSQ--GHLS 203 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a------rl~~--g~~~ 203 (266)
..||+.|++||.. ...-.+|-|+||||||+|++..++.++. . ......+||+.+-||.| |+.+ |...
T Consensus 3 ~~Ln~~Q~~av~~--~~g~~lV~AgaGSGKT~~l~~ria~Li~--~-~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~~~ 77 (726)
T TIGR01073 3 AHLNPEQREAVKT--TEGPLLIMAGAGSGKTRVLTHRIAHLIA--E-KNVAPWNILAITFTNKAAREMKERVEKLLGPVA 77 (726)
T ss_pred cccCHHHHHHHhC--CCCCEEEEeCCCCCHHHHHHHHHHHHHH--c-CCCCHHHeeeeeccHHHHHHHHHHHHHHhcccc
Confidence 3699999999985 2456899999999999996433332221 0 11235689999999984 4443 2223
Q ss_pred cCcccccccccccccccCC
Q psy4476 204 QGNNSQEITQPYSQVMSQG 222 (266)
Q Consensus 204 ~g~~~~~i~~~~~~~~~~~ 222 (266)
.+..-.|+|.+...++++.
T Consensus 78 ~~~~i~TFHs~~~~iLr~~ 96 (726)
T TIGR01073 78 EDIWISTFHSMCVRILRRD 96 (726)
T ss_pred CCcEEEcHHHHHHHHHHHH
Confidence 4556679999766666653
No 29
>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=97.79 E-value=8.9e-06 Score=67.42 Aligned_cols=52 Identities=15% Similarity=0.084 Sum_probs=39.8
Q ss_pred CCCHHHHHHHHHHHh-------CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQ-------RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~-------~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+|.+.|.+|+..++. .+-.+|++|+|+|||.+ +..++. .+.+ ++++++|+..
T Consensus 3 ~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~----~~~~~~--~l~~----~~l~~~p~~~ 61 (184)
T PF04851_consen 3 KLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTII----ALALIL--ELAR----KVLIVAPNIS 61 (184)
T ss_dssp EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHH----HHHHHH--HHHC----EEEEEESSHH
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChh----hhhhhh--cccc----ceeEecCHHH
Confidence 578999999999984 46789999999999999 443331 2221 9999999875
No 30
>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=97.68 E-value=2.4e-05 Score=68.54 Aligned_cols=59 Identities=14% Similarity=0.100 Sum_probs=36.5
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
..+|..|+.|+...+..++..+.||+|||||... ++.-+ ..+....-.||.++-|.-.+
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA---~a~Al--~~v~~g~~~kiii~Rp~v~~ 61 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLA---LAAAL--ELVKEGEYDKIIITRPPVEA 61 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHH---HHHHH--HHHHTTS-SEEEEEE-S--T
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHH---HHHHH--HHHHhCCCcEEEEEecCCCC
Confidence 3579999999999999999999999999999994 22222 12222234688888886643
No 31
>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=97.66 E-value=1.6e-05 Score=61.72 Aligned_cols=40 Identities=13% Similarity=-0.040 Sum_probs=28.1
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
-.+|.||||+|||+++ ...+. ........+++++++|++.
T Consensus 2 ~~~i~~~~G~GKT~~~----~~~~~-~~~~~~~~~~~lv~~p~~~ 41 (144)
T cd00046 2 DVLLAAPTGSGKTLAA----LLPIL-ELLDSLKGGQVLVLAPTRE 41 (144)
T ss_pred CEEEECCCCCchhHHH----HHHHH-HHHhcccCCCEEEEcCcHH
Confidence 4689999999999994 22231 1111124579999999997
No 32
>PRK10536 hypothetical protein; Provisional
Probab=97.66 E-value=3.9e-05 Score=69.41 Aligned_cols=62 Identities=13% Similarity=0.023 Sum_probs=44.3
Q ss_pred CCCCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 128 APNLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 128 ~~~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.......|..|..++......++.+|.||+|||||+.. .+... ..+....-.+|.++-|+=.
T Consensus 54 ~~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La----~a~a~-~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 54 TSPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWIS----AAKAA-EALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred CccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHH----HHHHH-HHHhcCCeeEEEEeCCCCC
Confidence 34456799999999998778899999999999999993 33221 1221112457888888754
No 33
>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=97.48 E-value=6.4e-05 Score=61.79 Aligned_cols=54 Identities=17% Similarity=-0.007 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 136 RSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+.|.+|+..+++..-.+|.||+|+|||+.. ...++ ..+.+.+..++++..|+..
T Consensus 2 ~~Q~~~~~~i~~~~~~li~aptGsGKT~~~---~~~~l--~~~~~~~~~~~lii~P~~~ 55 (169)
T PF00270_consen 2 PLQQEAIEAIISGKNVLISAPTGSGKTLAY---ILPAL--NRLQEGKDARVLIIVPTRA 55 (169)
T ss_dssp HHHHHHHHHHHTTSEEEEECSTTSSHHHHH---HHHHH--HHHHTTSSSEEEEEESSHH
T ss_pred HHHHHHHHHHHcCCCEEEECCCCCccHHHH---HHHHH--hhhccCCCceEEEEeeccc
Confidence 679999999997667999999999999994 11222 1222212348999999987
No 34
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.44 E-value=9.6e-05 Score=57.93 Aligned_cols=53 Identities=17% Similarity=0.132 Sum_probs=34.9
Q ss_pred CHHHHHHHHHHHhC---CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 135 NRSQVYAVKHAIQR---PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 135 N~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
++.+..++..++.. ...+|+||||||||++ +..+.. .+.. .+.++..+..+..
T Consensus 3 ~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l----~~~i~~--~~~~-~~~~v~~~~~~~~ 58 (151)
T cd00009 3 QEEAIEALREALELPPPKNLLLYGPPGTGKTTL----ARAIAN--ELFR-PGAPFLYLNASDL 58 (151)
T ss_pred hHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH----HHHHHH--Hhhc-CCCCeEEEehhhh
Confidence 45677777777754 5789999999999998 555552 2221 3456666555443
No 35
>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=97.40 E-value=0.00015 Score=61.95 Aligned_cols=58 Identities=10% Similarity=-0.046 Sum_probs=43.7
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhc---cCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL---RNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~---~~~kiLvcAPSN~ 194 (266)
..+++.|++|+...+...-.+|.+|+|+|||.+. +..++. .+... .+.++++++|+..
T Consensus 20 ~~~~~~Q~~~~~~~~~~~~~li~~~TG~GKT~~~---~~~~l~--~~~~~~~~~~~~viii~p~~~ 80 (203)
T cd00268 20 EKPTPIQARAIPPLLSGRDVIGQAQTGSGKTAAF---LIPILE--KLDPSPKKDGPQALILAPTRE 80 (203)
T ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCCcHHHHH---HHHHHH--HHHhhcccCCceEEEEcCCHH
Confidence 4588999999999998778999999999999883 222332 22221 3468999999986
No 36
>KOG0989|consensus
Probab=97.38 E-value=7.3e-05 Score=68.93 Aligned_cols=27 Identities=26% Similarity=0.278 Sum_probs=20.6
Q ss_pred HHHHHHHHhC---CCeEEEcCCCCCcceEe
Q psy4476 139 VYAVKHAIQR---PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 139 ~~AV~~aL~~---~~tLIqGPPGTGKTtTi 165 (266)
.++++.|+.+ |..|.+||||||||+|+
T Consensus 45 V~~L~~a~~~~~lp~~LFyGPpGTGKTSta 74 (346)
T KOG0989|consen 45 VQVLKNALLRRILPHYLFYGPPGTGKTSTA 74 (346)
T ss_pred HHHHHHHHhhcCCceEEeeCCCCCcHhHHH
Confidence 3445555543 77899999999999994
No 37
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=97.36 E-value=6.3e-05 Score=58.21 Aligned_cols=39 Identities=8% Similarity=0.015 Sum_probs=26.3
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
...+|.||||||||++ +..|+. .+.. ....++..+++..
T Consensus 3 ~~~~l~G~~G~GKTtl----~~~l~~--~~~~-~~~~~~~~~~~~~ 41 (148)
T smart00382 3 EVILIVGPPGSGKTTL----ARALAR--ELGP-PGGGVIYIDGEDI 41 (148)
T ss_pred CEEEEECCCCCcHHHH----HHHHHh--ccCC-CCCCEEEECCEEc
Confidence 4679999999999999 555552 2222 1135777777765
No 38
>PTZ00424 helicase 45; Provisional
Probab=97.14 E-value=0.00033 Score=66.15 Aligned_cols=58 Identities=10% Similarity=-0.030 Sum_probs=43.1
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhh-hccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTN-RLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~-~~~~~kiLvcAPSN~ 194 (266)
..+++.|.+|+..++...=.+|++|+|+|||.+. ...++. .+. ...+.++|+.+|+-.
T Consensus 49 ~~~~~~Q~~ai~~i~~~~d~ii~apTGsGKT~~~---~l~~l~--~~~~~~~~~~~lil~Pt~~ 107 (401)
T PTZ00424 49 EKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATF---VIAALQ--LIDYDLNACQALILAPTRE 107 (401)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHH---HHHHHH--HhcCCCCCceEEEECCCHH
Confidence 4688999999999998777889999999999873 112221 111 123568999999976
No 39
>PRK08181 transposase; Validated
Probab=97.03 E-value=0.00058 Score=62.21 Aligned_cols=53 Identities=19% Similarity=0.123 Sum_probs=36.9
Q ss_pred CCCCCCHHHHHHHHHHH---h-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 130 NLPDLNRSQVYAVKHAI---Q-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 130 ~~~~LN~sQ~~AV~~aL---~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
..+.++..|..|+..+- . ..-.+|+||||||||+. ..+|.+ .+.+ .+.+|+.+
T Consensus 84 ~~~~~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHL----a~Aia~--~a~~-~g~~v~f~ 140 (269)
T PRK08181 84 AVPMVSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHL----AAAIGL--ALIE-NGWRVLFT 140 (269)
T ss_pred CCCCCCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHH----HHHHHH--HHHH-cCCceeee
Confidence 34678999999987662 2 34579999999999999 556653 2233 35566544
No 40
>PRK12377 putative replication protein; Provisional
Probab=97.02 E-value=0.00076 Score=60.76 Aligned_cols=46 Identities=24% Similarity=0.278 Sum_probs=30.7
Q ss_pred CHHHHHHHHHHHh------C--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceE
Q psy4476 135 NRSQVYAVKHAIQ------R--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL 187 (266)
Q Consensus 135 N~sQ~~AV~~aL~------~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL 187 (266)
++.|+.|+..|.. . .-.+|+||||||||+. ..+|.+ .+.+ .+.+++
T Consensus 80 ~~~~~~a~~~a~~~a~~~~~~~~~l~l~G~~GtGKThL----a~AIa~--~l~~-~g~~v~ 133 (248)
T PRK12377 80 NDGQRYALSQAKSIADELMTGCTNFVFSGKPGTGKNHL----AAAIGN--RLLA-KGRSVI 133 (248)
T ss_pred ChhHHHHHHHHHHHHHHHHhcCCeEEEECCCCCCHHHH----HHHHHH--HHHH-cCCCeE
Confidence 4678777766542 1 3568999999999999 667764 3333 344543
No 41
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.00 E-value=0.00047 Score=61.96 Aligned_cols=49 Identities=24% Similarity=0.117 Sum_probs=34.8
Q ss_pred CCHHHHHHHHHHHh------C--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 134 LNRSQVYAVKHAIQ------R--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 134 LN~sQ~~AV~~aL~------~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
.++.|+.|+..+.. . ...+++||||||||+. ..+|.+ .+.+ .+.+|+++
T Consensus 77 ~~~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThL----a~aia~--~l~~-~g~~v~~i 133 (244)
T PRK07952 77 ECEGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHL----AAAICN--ELLL-RGKSVLII 133 (244)
T ss_pred CCchHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHH----HHHHHH--HHHh-cCCeEEEE
Confidence 35678888877763 1 3578999999999999 677774 3333 45677666
No 42
>COG0507 RecD ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]
Probab=96.94 E-value=7e-05 Score=76.39 Aligned_cols=118 Identities=14% Similarity=0.084 Sum_probs=82.1
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccch---hhhhccCCceEecCCCCcc--cccc------c
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSA---NTNRLRNKSNLNHRPSGAN--KLSQ------G 200 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~---~~~~~~~~kiLvcAPSN~a--rl~~------g 200 (266)
+.-+++|..|...++..+++++.|+||||||++|+.++..+++.. ........+|..|+|++.+ ++.| .
T Consensus 200 ~~~~~~r~~a~~~~~~~~~~~~~~G~~t~~~~~i~kl~~~l~~~~~~~~~~~~~~~~i~l~~~~~k~~~~~~e~~sl~~~ 279 (696)
T COG0507 200 PGNSPERIRAAALALLEEFSLISGGPGTGKTTTIAKLLLKLLEQPEIEVLKSGLAQRISLLAPTGKAALRLTERGSLRLA 279 (696)
T ss_pred CCCChHHHHHHHHHHHHHHHhhcCCCceeeHHHHHHHHHHHhccchhhhhHhhhHHHHHhcccchHHHHhhccchhHHHH
Confidence 455789999999999999999999999999999654333333200 0011134579999999963 2222 0
Q ss_pred -c--------------cccCcccccccc-cccccccCCCCcccCC-CCCCcceeee---eecccccCCCcc
Q psy4476 201 -H--------------LSQGNNSQEITQ-PYSQVMSQGGGFSLSQ-ADLSQDSLMM---SQLDGMLSQESA 251 (266)
Q Consensus 201 -~--------------~~~g~~~~~i~~-~~~~~~~~~g~~~~~~-~~~~~d~~~~---s~~d~~l~~~~~ 251 (266)
. .+.+..+.|+|| ++- .+....+..+. +....|.+++ ||+|+.+..+.+
T Consensus 280 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~ll~~--~~~~~~~~~~~~q~~a~~vl~~de~smlt~~~~~~~~ 348 (696)
T COG0507 280 ERLIARAELRILDSLFVALKIRAGTVHRLLGE--VPAKVKLRLSLEQKEALDVLVVDEVSMLTGGPGTGKT 348 (696)
T ss_pred HHHHHHHHHHHhhhhccccccchhHHHHHhhh--cccccCCCcCcccHHHHHHHhcCCeeEEeccCCcchH
Confidence 0 134556779999 664 35555677787 8999999998 999998875543
No 43
>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=96.93 E-value=0.00017 Score=56.64 Aligned_cols=13 Identities=15% Similarity=0.181 Sum_probs=12.6
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
||+||||||||++
T Consensus 2 ll~G~~G~GKT~l 14 (132)
T PF00004_consen 2 LLHGPPGTGKTTL 14 (132)
T ss_dssp EEESSTTSSHHHH
T ss_pred EEECcCCCCeeHH
Confidence 7999999999999
No 44
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=96.93 E-value=0.0007 Score=65.64 Aligned_cols=59 Identities=10% Similarity=0.097 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhh-hccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTN-RLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~-~~~~~kiLvcAPSN~ 194 (266)
+..+++.|.+|+..++...=.++++|.|||||.+- ...|++ .+. .....++|+.+||-.
T Consensus 24 ~~~~t~iQ~~ai~~~l~g~dvi~~a~TGsGKT~a~---~lpil~--~l~~~~~~~~~lil~Ptre 83 (460)
T PRK11776 24 YTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAF---GLGLLQ--KLDVKRFRVQALVLCPTRE 83 (460)
T ss_pred CCCCCHHHHHHHHHHhcCCCEEEECCCCCcHHHHH---HHHHHH--HhhhccCCceEEEEeCCHH
Confidence 35688999999999999888999999999999772 122331 121 112347899999976
No 45
>KOG0744|consensus
Probab=96.91 E-value=0.00032 Score=65.31 Aligned_cols=17 Identities=18% Similarity=0.155 Sum_probs=15.3
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
+++-|+|||||||||+.
T Consensus 177 NRliLlhGPPGTGKTSL 193 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSL 193 (423)
T ss_pred eeEEEEeCCCCCChhHH
Confidence 46789999999999998
No 46
>PHA02558 uvsW UvsW helicase; Provisional
Probab=96.86 E-value=0.00083 Score=66.12 Aligned_cols=57 Identities=12% Similarity=-0.006 Sum_probs=43.6
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|.+.|.+||..++.++-.+++.|.|+|||.+ ...+.. ..+.+ +..++|+.+|+-.
T Consensus 113 ~~~r~~Q~~av~~~l~~~~~il~apTGsGKT~i----~~~l~~-~~~~~-~~~~vLilvpt~e 169 (501)
T PHA02558 113 IEPHWYQYDAVYEGLKNNRRLLNLPTSAGKSLI----QYLLSR-YYLEN-YEGKVLIIVPTTS 169 (501)
T ss_pred CCCCHHHHHHHHHHHhcCceEEEeCCCCCHHHH----HHHHHH-HHHhc-CCCeEEEEECcHH
Confidence 468899999999999987789999999999998 333331 11222 3349999999965
No 47
>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]
Probab=96.78 E-value=0.00035 Score=70.62 Aligned_cols=83 Identities=14% Similarity=0.030 Sum_probs=54.1
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc------cccc--c-ccc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN------KLSQ--G-HLS 203 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a------rl~~--g-~~~ 203 (266)
.||+.|++||... ....+|-.+||||||+|++..++.++. . ......+||+.+=||.| |+.+ | .-.
T Consensus 2 ~Ln~~Q~~av~~~--~gp~lV~AGaGsGKT~vlt~Ria~li~--~-~~v~p~~Il~vTFTnkAA~em~~Rl~~~~~~~~~ 76 (655)
T COG0210 2 KLNPEQREAVLHP--DGPLLVLAGAGSGKTRVLTERIAYLIA--A-GGVDPEQILAITFTNKAAAEMRERLLKLLGLPAA 76 (655)
T ss_pred CCCHHHHHHHhcC--CCCeEEEECCCCCchhhHHHHHHHHHH--c-CCcChHHeeeeechHHHHHHHHHHHHHHhCcccc
Confidence 6999999999986 677899999999999997443333331 1 11234579999999985 4444 1 112
Q ss_pred cCccccccccccccccc
Q psy4476 204 QGNNSQEITQPYSQVMS 220 (266)
Q Consensus 204 ~g~~~~~i~~~~~~~~~ 220 (266)
.+....|.|-+...+++
T Consensus 77 ~~~~v~TfHs~~~~~lr 93 (655)
T COG0210 77 EGLTVGTFHSFALRILR 93 (655)
T ss_pred cCcEEeeHHHHHHHHHH
Confidence 22445577754433333
No 48
>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=96.76 E-value=0.00062 Score=63.54 Aligned_cols=35 Identities=11% Similarity=0.072 Sum_probs=27.0
Q ss_pred CHHHHHHHHHHHhC-------CCeEEEcCCCCCcceEeCccccccc
Q psy4476 135 NRSQVYAVKHAIQR-------PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 135 N~sQ~~AV~~aL~~-------~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
-+.|.+++..++.. +..+|+||||||||++ +..++
T Consensus 20 Re~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l----~~~~~ 61 (365)
T TIGR02928 20 RDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAV----TKYVM 61 (365)
T ss_pred cHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHH----HHHHH
Confidence 36788888877741 4689999999999999 55554
No 49
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=96.74 E-value=0.0012 Score=63.31 Aligned_cols=58 Identities=10% Similarity=-0.105 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhh-----hccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTN-----RLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~-----~~~~~kiLvcAPSN~ 194 (266)
..+.+.|.+|+..++...=.++++|+|||||.+. +..++. .+. .....++|+++||-.
T Consensus 22 ~~p~~iQ~~ai~~~~~g~d~l~~apTGsGKT~~~---~lp~l~--~l~~~~~~~~~~~~~lil~Pt~e 84 (434)
T PRK11192 22 TRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAF---LLPALQ--HLLDFPRRKSGPPRILILTPTRE 84 (434)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHH---HHHHHH--HHhhccccCCCCceEEEECCcHH
Confidence 4577899999999998777999999999999873 112221 111 112358999999985
No 50
>KOG1806|consensus
Probab=96.67 E-value=0.0015 Score=68.24 Aligned_cols=58 Identities=17% Similarity=0.111 Sum_probs=48.5
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
..|+.|.+|+..-.+..++.+-||||||||-+ ...|+. -...+....+.++..-||.|
T Consensus 738 ~ft~~qveai~sg~qpgltmvvgppgtgktd~----avqil~-~lyhn~p~qrTlivthsnqa 795 (1320)
T KOG1806|consen 738 KFTPTQVEAILSGMQPGLTMVVGPPGTGKTDV----AVQILS-VLYHNSPNQRTLIVTHSNQA 795 (1320)
T ss_pred ccCHHHHHHHHhcCCCCceeeecCCCCCCcch----hhhhhh-hhhhcCCCcceEEEEecccc
Confidence 45889999999999999999999999999999 555664 23345577899999999986
No 51
>KOG1804|consensus
Probab=96.66 E-value=0.00043 Score=70.98 Aligned_cols=42 Identities=17% Similarity=0.002 Sum_probs=30.2
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
....|+||||||||.|+++.++ ++ .+. .....+++|||+|++
T Consensus 327 ~~y~~~~p~~~g~~~n~~~a~~-~v---~~~-~~~~~il~~~p~~a~ 368 (775)
T KOG1804|consen 327 EPYIVFGPPGTGKTENYREAIA-IV---SFT-SPHFYILVCAPSNAS 368 (775)
T ss_pred cccccccCCCcCCccchHHHHH-HH---Hhc-chHHHhhcccccccc
Confidence 5678999999999999643222 22 122 245789999999994
No 52
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=96.65 E-value=0.0014 Score=66.33 Aligned_cols=60 Identities=10% Similarity=0.001 Sum_probs=43.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+..+++.|.+|+...+...-.|+++|+|||||.+. +..+++ .........++|+.+|+-.
T Consensus 26 ~~~ptpiQ~~ai~~ll~g~dvl~~ApTGsGKT~af---~lpll~-~l~~~~~~~~~LIL~PTre 85 (629)
T PRK11634 26 YEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAF---SLPLLH-NLDPELKAPQILVLAPTRE 85 (629)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHHHHH---HHHHHH-HhhhccCCCeEEEEeCcHH
Confidence 35688999999999998888999999999999883 122221 1111223458999999975
No 53
>PRK06526 transposase; Provisional
Probab=96.63 E-value=0.0011 Score=59.85 Aligned_cols=52 Identities=12% Similarity=0.123 Sum_probs=32.7
Q ss_pred CCCCCHHHHHHHHHH--H-hCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 131 LPDLNRSQVYAVKHA--I-QRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~a--L-~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
.+.++..|....... + ...-.+|.||||||||++ ..+|.. .+.+ .+.+|+..
T Consensus 78 ~~~~~~~~~~~l~~~~fi~~~~nlll~Gp~GtGKThL----a~al~~--~a~~-~g~~v~f~ 132 (254)
T PRK06526 78 QRSLKRDTIAHLGTLDFVTGKENVVFLGPPGTGKTHL----AIGLGI--RACQ-AGHRVLFA 132 (254)
T ss_pred CCCcchHHHHHHhcCchhhcCceEEEEeCCCCchHHH----HHHHHH--HHHH-CCCchhhh
Confidence 356778776554322 1 235579999999999999 566653 2222 45566543
No 54
>PLN03025 replication factor C subunit; Provisional
Probab=96.62 E-value=0.001 Score=61.58 Aligned_cols=30 Identities=13% Similarity=0.172 Sum_probs=21.8
Q ss_pred CHHHHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 135 NRSQVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 135 N~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
|+.....++.++.. +-.|++||||||||++
T Consensus 18 ~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtl 50 (319)
T PLN03025 18 NEDAVSRLQVIARDGNMPNLILSGPPGTGKTTS 50 (319)
T ss_pred cHHHHHHHHHHHhcCCCceEEEECCCCCCHHHH
Confidence 34455556555543 4578999999999999
No 55
>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=96.59 E-value=0.00086 Score=56.31 Aligned_cols=38 Identities=11% Similarity=0.005 Sum_probs=25.8
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
++||.||||||||+. ...++. ...+ .+.+++..+..-.
T Consensus 1 ~~li~G~~G~GKT~l----~~~~~~--~~~~-~g~~v~~~s~e~~ 38 (187)
T cd01124 1 STLLSGGPGTGKTTF----ALQFLY--AGLA-RGEPGLYVTLEES 38 (187)
T ss_pred CEEEEcCCCCCHHHH----HHHHHH--HHHH-CCCcEEEEECCCC
Confidence 468999999999999 555552 2223 4677776665443
No 56
>PRK06851 hypothetical protein; Provisional
Probab=96.54 E-value=0.0008 Score=63.88 Aligned_cols=42 Identities=10% Similarity=0.056 Sum_probs=30.5
Q ss_pred hCCCeEEEcCCCCCcceEeCccccccccchhhhhc-cCCceEecCCCCc
Q psy4476 147 QRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL-RNKSNLNHRPSGA 194 (266)
Q Consensus 147 ~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~-~~~kiLvcAPSN~ 194 (266)
..++.+|.|||||||||+ +..|+. .+... .....+.|++.|-
T Consensus 29 ~~~~~il~G~pGtGKStl----~~~i~~--~~~~~g~~Ve~~~~~~d~~ 71 (367)
T PRK06851 29 ANRIFILKGGPGTGKSTL----MKKIGE--EFLEKGYDVEFLHCSSDND 71 (367)
T ss_pred cceEEEEECCCCCCHHHH----HHHHHH--HHHHcCCeEEEEEcCCCCC
Confidence 457899999999999999 666663 33321 2234789999985
No 57
>KOG2028|consensus
Probab=96.50 E-value=0.00079 Score=63.79 Aligned_cols=28 Identities=14% Similarity=0.137 Sum_probs=20.0
Q ss_pred HHHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 137 SQVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 137 sQ~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
+|.--+...+.. |-.++|||||||||+.
T Consensus 148 ~q~gllrs~ieq~~ipSmIlWGppG~GKTtl 178 (554)
T KOG2028|consen 148 GQDGLLRSLIEQNRIPSMILWGPPGTGKTTL 178 (554)
T ss_pred CcchHHHHHHHcCCCCceEEecCCCCchHHH
Confidence 344445555543 5568899999999998
No 58
>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=96.46 E-value=0.0014 Score=58.27 Aligned_cols=25 Identities=16% Similarity=0.081 Sum_probs=17.5
Q ss_pred HHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 140 YAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 140 ~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
-.++.|..+ +-.|.+||||+||||.
T Consensus 38 i~i~aa~~r~~~l~h~lf~GPPG~GKTTL 66 (233)
T PF05496_consen 38 ILIRAAKKRGEALDHMLFYGPPGLGKTTL 66 (233)
T ss_dssp HHHHHHHCTTS---EEEEESSTTSSHHHH
T ss_pred HHHHHHHhcCCCcceEEEECCCccchhHH
Confidence 344555432 3468899999999998
No 59
>PRK05580 primosome assembly protein PriA; Validated
Probab=96.42 E-value=0.0026 Score=65.09 Aligned_cols=56 Identities=21% Similarity=0.094 Sum_probs=43.0
Q ss_pred CCCCHHHHHHHHHHHh---CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQ---RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~---~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|++.|++|+..++. ....|++||+|+|||.+. ..++. ..+. .++++|+.+|+-.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~----l~~i~-~~l~--~g~~vLvLvPt~~ 201 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVY----LQAIA-EVLA--QGKQALVLVPEIA 201 (679)
T ss_pred CCCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHH----HHHHH-HHHH--cCCeEEEEeCcHH
Confidence 4699999999999987 367999999999999883 22221 1222 4678999999986
No 60
>PRK09183 transposase/IS protein; Provisional
Probab=96.39 E-value=0.0027 Score=57.43 Aligned_cols=52 Identities=10% Similarity=0.065 Sum_probs=34.3
Q ss_pred CCCCCHHHHHHHHHH--Hh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 131 LPDLNRSQVYAVKHA--IQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~a--L~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
.+.+|..|...+... +. ....+|.||||||||+. ..+|.. .... .+.+|+..
T Consensus 82 ~~~~~~~~i~~L~~~~~i~~~~~v~l~Gp~GtGKThL----a~al~~--~a~~-~G~~v~~~ 136 (259)
T PRK09183 82 ATGAPQKQLQSLRSLSFIERNENIVLLGPSGVGKTHL----AIALGY--EAVR-AGIKVRFT 136 (259)
T ss_pred CCCCCHHHHHHHhcCCchhcCCeEEEEeCCCCCHHHH----HHHHHH--HHHH-cCCeEEEE
Confidence 457788777776543 23 35678999999999999 555552 2222 45677654
No 61
>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=96.39 E-value=0.0008 Score=60.52 Aligned_cols=14 Identities=7% Similarity=0.074 Sum_probs=13.1
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+++||||||||++
T Consensus 45 vll~GppGtGKTtl 58 (261)
T TIGR02881 45 MIFKGNPGTGKTTV 58 (261)
T ss_pred EEEEcCCCCCHHHH
Confidence 47999999999999
No 62
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.37 E-value=0.0022 Score=57.87 Aligned_cols=61 Identities=16% Similarity=0.042 Sum_probs=43.0
Q ss_pred CCCHHHHHHHHHHHh-------CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQ-------RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSGANKLSQG 200 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~-------~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN~arl~~g 200 (266)
..+..++.|+..+.. ..-.++.||||||||+. .++|.+ .+.+ .+.+|+ +.+|.-..+|++.
T Consensus 83 ~~~~~~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThL----a~Ai~~--~l~~-~g~sv~f~~~~el~~~Lk~~ 151 (254)
T COG1484 83 FQPGIDKKALEDLASLVEFFERGENLVLLGPPGVGKTHL----AIAIGN--ELLK-AGISVLFITAPDLLSKLKAA 151 (254)
T ss_pred CCcchhHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHH----HHHHHH--HHHH-cCCeEEEEEHHHHHHHHHHH
Confidence 344567777777653 34678999999999999 677775 3333 456655 6677777888884
No 63
>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=96.36 E-value=0.0029 Score=57.42 Aligned_cols=37 Identities=8% Similarity=0.071 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHh--CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQ--RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~--~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.+.|.++++.++. +.+.+|.||+|+||||+ +.+++
T Consensus 63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~----l~all 101 (264)
T cd01129 63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTT----LYSAL 101 (264)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHH----HHHHH
Confidence 467889999998886 36899999999999999 55555
No 64
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.30 E-value=0.0031 Score=58.98 Aligned_cols=37 Identities=14% Similarity=0.112 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+++.|.+.+..++.. .-.||.||+|+||||+ +.+++
T Consensus 128 ~~~~~~~~~L~~~v~~~~nilI~G~tGSGKTTl----l~aL~ 165 (323)
T PRK13833 128 IMTEAQASVIRSAIDSRLNIVISGGTGSGKTTL----ANAVI 165 (323)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH----HHHHH
Confidence 5788899999999875 4568999999999999 55555
No 65
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.29 E-value=0.0023 Score=58.80 Aligned_cols=30 Identities=20% Similarity=0.241 Sum_probs=23.4
Q ss_pred CHHHHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 135 NRSQVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 135 N~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
++...+.+..++.+ +..+|+||||||||++
T Consensus 20 ~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~l 52 (337)
T PRK12402 20 QDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAA 52 (337)
T ss_pred CHHHHHHHHHHHhCCCCceEEEECCCCCCHHHH
Confidence 45566667777764 3579999999999999
No 66
>PRK06893 DNA replication initiation factor; Validated
Probab=96.28 E-value=0.0049 Score=54.50 Aligned_cols=23 Identities=17% Similarity=0.209 Sum_probs=18.5
Q ss_pred CCCeEEEcCCCCCcceEeCcccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
.++.+|+||||||||+. ..+|.+
T Consensus 39 ~~~l~l~G~~G~GKThL----~~ai~~ 61 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHL----LKAVSN 61 (229)
T ss_pred CCeEEEECCCCCCHHHH----HHHHHH
Confidence 35679999999999999 556553
No 67
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.27 E-value=0.0033 Score=58.70 Aligned_cols=37 Identities=16% Similarity=0.022 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+++.|.+.+..++.. ...+|.||||+||||+ +.+|+
T Consensus 132 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTl----l~aL~ 169 (319)
T PRK13894 132 IMTAAQREAIIAAVRAHRNILVIGGTGSGKTTL----VNAII 169 (319)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH----HHHHH
Confidence 4678899999988874 6679999999999999 55555
No 68
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=96.24 E-value=0.0037 Score=60.70 Aligned_cols=53 Identities=15% Similarity=0.044 Sum_probs=42.9
Q ss_pred CCCCHHHHHHHHHHHh----CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQ----RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~----~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|.+.|.+|+..... .+-.+|.-|+|+|||.+ .+.++ .+ ...++||++|+-.
T Consensus 35 ~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~v----a~~~~-----~~-~~~~~Lvlv~~~~ 91 (442)
T COG1061 35 FELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVV----AAEAI-----AE-LKRSTLVLVPTKE 91 (442)
T ss_pred CCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHH----HHHHH-----HH-hcCCEEEEECcHH
Confidence 5799999999999988 78899999999999999 44444 12 2345999999875
No 69
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.22 E-value=0.0052 Score=54.57 Aligned_cols=32 Identities=13% Similarity=0.074 Sum_probs=23.0
Q ss_pred CCCHHHHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 133 DLNRSQVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
.-|.....++...... +..+|+||||||||+.
T Consensus 27 ~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThL 61 (235)
T PRK08084 27 GDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHL 61 (235)
T ss_pred CccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 3556555555555432 5679999999999999
No 70
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=96.21 E-value=0.0019 Score=60.89 Aligned_cols=29 Identities=17% Similarity=0.254 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHh----C------------CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQ----R------------PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~----~------------~~tLIqGPPGTGKTtT 164 (266)
+.|++.++.++. + .-.||+||||||||++
T Consensus 128 ~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~l 172 (364)
T TIGR01242 128 EEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLL 172 (364)
T ss_pred HHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHH
Confidence 567777776652 1 1268999999999999
No 71
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=96.20 E-value=0.0036 Score=63.43 Aligned_cols=56 Identities=21% Similarity=0.112 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHHhC---C---CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQR---P---LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~---~---~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|++.|++|+..++.. + -.|||||.|+|||.+. ...++ ..+ ..+.++++.|||-.
T Consensus 234 f~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va---~l~il--~~~--~~g~qvlilaPT~~ 295 (630)
T TIGR00643 234 FKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVA---ALAML--AAI--EAGYQVALMAPTEI 295 (630)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHH---HHHHH--HHH--HcCCcEEEECCHHH
Confidence 36999999999998863 2 2599999999999983 22233 111 24678999999986
No 72
>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=96.18 E-value=0.002 Score=51.91 Aligned_cols=36 Identities=11% Similarity=0.039 Sum_probs=23.3
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPS 192 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPS 192 (266)
+++|.||||+|||+. +..|+. .... .+.+++.....
T Consensus 1 ~~~i~G~~G~GKT~l----~~~i~~--~~~~-~~~~v~~~~~e 36 (165)
T cd01120 1 LILVFGPTGSGKTTL----ALQLAL--NIAT-KGGKVVYVDIE 36 (165)
T ss_pred CeeEeCCCCCCHHHH----HHHHHH--HHHh-cCCEEEEEECC
Confidence 468999999999999 555552 2222 34566554443
No 73
>KOG0991|consensus
Probab=96.17 E-value=0.0038 Score=56.07 Aligned_cols=18 Identities=17% Similarity=0.121 Sum_probs=15.6
Q ss_pred CCeEEEcCCCCCcceEeC
Q psy4476 149 PLSLIQGMNQRSNGLHHQ 166 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv 166 (266)
|-.+|.|||||||||.|.
T Consensus 49 P~liisGpPG~GKTTsi~ 66 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSIL 66 (333)
T ss_pred CceEeeCCCCCchhhHHH
Confidence 567999999999999953
No 74
>PRK04296 thymidine kinase; Provisional
Probab=96.12 E-value=0.0018 Score=55.69 Aligned_cols=37 Identities=19% Similarity=0.189 Sum_probs=25.7
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPS 192 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPS 192 (266)
.+.+|.||||+||||. +..++. .... .+.++++..|+
T Consensus 3 ~i~litG~~GsGKTT~----~l~~~~--~~~~-~g~~v~i~k~~ 39 (190)
T PRK04296 3 KLEFIYGAMNSGKSTE----LLQRAY--NYEE-RGMKVLVFKPA 39 (190)
T ss_pred EEEEEECCCCCHHHHH----HHHHHH--HHHH-cCCeEEEEecc
Confidence 3679999999999998 334442 2222 46788888773
No 75
>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=96.11 E-value=0.0025 Score=57.53 Aligned_cols=29 Identities=7% Similarity=-0.036 Sum_probs=20.0
Q ss_pred HHHHHHHHHHH----hCCCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAI----QRPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL----~~~~tLIqGPPGTGKTtT 164 (266)
+..++-++.++ ...-.+|.||||||||+.
T Consensus 5 ~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~l 37 (262)
T TIGR02640 5 DAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTL 37 (262)
T ss_pred HHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHH
Confidence 44444444443 345668999999999999
No 76
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=96.11 E-value=0.0047 Score=59.20 Aligned_cols=59 Identities=8% Similarity=-0.035 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh--------ccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR--------LRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~--------~~~~kiLvcAPSN~ 194 (266)
+..+++.|.+|+..++...=.++++|.|||||.+- +..+++ .+.. ..+.++|+.+|+-.
T Consensus 28 ~~~pt~iQ~~aip~il~g~dvi~~ApTGsGKTla~---llp~l~--~l~~~~~~~~~~~~~~~~lil~Ptre 94 (423)
T PRK04837 28 FHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAF---LTATFH--YLLSHPAPEDRKVNQPRALIMAPTRE 94 (423)
T ss_pred CCCCCHHHHHHHHHHhCCCcEEEECCCCchHHHHH---HHHHHH--HHHhcccccccccCCceEEEECCcHH
Confidence 35678999999999998877899999999999873 122221 1111 12357999999986
No 77
>PRK01172 ski2-like helicase; Provisional
Probab=96.09 E-value=0.0045 Score=63.05 Aligned_cols=56 Identities=11% Similarity=-0.008 Sum_probs=43.0
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|++.|.+|+...+...-.+|.+|.|+|||... ..+|+. .+. .+.++++++|+-+
T Consensus 21 ~~l~~~Q~~ai~~l~~~~nvlv~apTGSGKTl~a---~lail~--~l~--~~~k~v~i~P~ra 76 (674)
T PRK01172 21 FELYDHQRMAIEQLRKGENVIVSVPTAAGKTLIA---YSAIYE--TFL--AGLKSIYIVPLRS 76 (674)
T ss_pred CCCCHHHHHHHHHHhcCCcEEEECCCCchHHHHH---HHHHHH--HHH--hCCcEEEEechHH
Confidence 3589999999999877778999999999999873 122331 222 3578999999986
No 78
>PRK04195 replication factor C large subunit; Provisional
Probab=96.08 E-value=0.0032 Score=61.72 Aligned_cols=31 Identities=13% Similarity=0.028 Sum_probs=23.8
Q ss_pred CCHHHHHHHHHHHh-------CCCeEEEcCCCCCcceE
Q psy4476 134 LNRSQVYAVKHAIQ-------RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 134 LN~sQ~~AV~~aL~-------~~~tLIqGPPGTGKTtT 164 (266)
.|+.+.+.+...+. .+..||+||||||||++
T Consensus 18 g~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtl 55 (482)
T PRK04195 18 GNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSL 55 (482)
T ss_pred CCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHH
Confidence 45666666666553 35789999999999999
No 79
>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=96.04 E-value=0.0035 Score=57.19 Aligned_cols=15 Identities=13% Similarity=-0.040 Sum_probs=13.9
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..+|+||||||||+.
T Consensus 32 ~~ll~Gp~G~GKT~l 46 (305)
T TIGR00635 32 HLLLYGPPGLGKTTL 46 (305)
T ss_pred eEEEECCCCCCHHHH
Confidence 479999999999999
No 80
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=96.04 E-value=0.0057 Score=57.24 Aligned_cols=34 Identities=12% Similarity=0.166 Sum_probs=29.0
Q ss_pred CCCCHHHHHHHHHHHh-CCCeEEEcCCCCCcceEe
Q psy4476 132 PDLNRSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTi 165 (266)
..+++.-..+|..++. ++-.+|.||||||||+.+
T Consensus 47 y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla 81 (327)
T TIGR01650 47 YLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHI 81 (327)
T ss_pred ccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHH
Confidence 4688888899998886 466899999999999993
No 81
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=96.03 E-value=0.0019 Score=53.77 Aligned_cols=34 Identities=6% Similarity=0.039 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHh------CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 136 RSQVYAVKHAIQ------RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 136 ~sQ~~AV~~aL~------~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.|.+.+...+. .+..+|+||||+|||+. +.++.
T Consensus 6 ~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~l----l~~~~ 45 (185)
T PF13191_consen 6 EEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSL----LRALL 45 (185)
T ss_dssp HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHH----HHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHH----HHHHH
Confidence 457777777771 26789999999999999 55555
No 82
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=96.00 E-value=0.0053 Score=60.43 Aligned_cols=37 Identities=11% Similarity=0.082 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.+.|.++++.++.. .+.+|.||+|+||||| +.+++
T Consensus 225 g~~~~~~~~l~~~~~~~~GlilitGptGSGKTTt----L~a~L 263 (486)
T TIGR02533 225 GMSPELLSRFERLIRRPHGIILVTGPTGSGKTTT----LYAAL 263 (486)
T ss_pred CCCHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHH----HHHHH
Confidence 5788999999998864 6899999999999999 55555
No 83
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=95.99 E-value=0.0037 Score=59.76 Aligned_cols=25 Identities=8% Similarity=0.098 Sum_probs=18.1
Q ss_pred HHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 140 YAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 140 ~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
..+..++.. .-.+.||||||||||.
T Consensus 37 ~~lrr~v~~~~l~SmIl~GPPG~GKTTl 64 (436)
T COG2256 37 KPLRRAVEAGHLHSMILWGPPGTGKTTL 64 (436)
T ss_pred chHHHHHhcCCCceeEEECCCCCCHHHH
Confidence 345556653 3357799999999998
No 84
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=95.95 E-value=0.0057 Score=62.59 Aligned_cols=56 Identities=13% Similarity=0.005 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHHHHHhC------CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQR------PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~------~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|++.|++|+..++.. .-.|||||.|+|||.+. ...++. .+ ..+.++++-|||-.
T Consensus 260 f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va---~~~il~--~~--~~g~q~lilaPT~~ 321 (681)
T PRK10917 260 FELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVA---ALAALA--AI--EAGYQAALMAPTEI 321 (681)
T ss_pred CCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHH---HHHHHH--HH--HcCCeEEEEeccHH
Confidence 36999999999998763 13699999999999983 222221 11 24678999999986
No 85
>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=95.95 E-value=0.0029 Score=52.96 Aligned_cols=38 Identities=13% Similarity=0.146 Sum_probs=24.2
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN~ 194 (266)
+.+|.||||+||||+ ...+. ..+.. .+.+|+ +.++..+
T Consensus 2 ~~~~~G~~G~GKTt~----~~~la--~~~~~-~g~~v~~i~~D~~~ 40 (173)
T cd03115 2 VILLVGLQGVGKTTT----AAKLA--LYLKK-KGKKVLLVAADTYR 40 (173)
T ss_pred EEEEECCCCCCHHHH----HHHHH--HHHHH-CCCcEEEEEcCCCC
Confidence 468899999999999 44444 22333 356665 4555543
No 86
>PRK08116 hypothetical protein; Validated
Probab=95.94 E-value=0.0055 Score=55.69 Aligned_cols=36 Identities=22% Similarity=0.123 Sum_probs=25.7
Q ss_pred CHHHHHHHHHHH---h------C--CCeEEEcCCCCCcceEeCcccccccc
Q psy4476 135 NRSQVYAVKHAI---Q------R--PLSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 135 N~sQ~~AV~~aL---~------~--~~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
++.|..|+..|. . . .-.+|+||||||||+. ..+|.+
T Consensus 90 ~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThL----a~aia~ 136 (268)
T PRK08116 90 DKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYL----AACIAN 136 (268)
T ss_pred ChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHH----HHHHHH
Confidence 566777766654 1 1 2368999999999999 666664
No 87
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=95.94 E-value=0.0038 Score=58.91 Aligned_cols=29 Identities=17% Similarity=0.133 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHh-------CCCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQ-------RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~-------~~~tLIqGPPGTGKTtT 164 (266)
+.|.+.+..++. .+..+|+||||||||++
T Consensus 36 e~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l 71 (394)
T PRK00411 36 EEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTT 71 (394)
T ss_pred HHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHH
Confidence 446667776662 14579999999999999
No 88
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=95.93 E-value=0.0024 Score=59.96 Aligned_cols=16 Identities=19% Similarity=0.198 Sum_probs=14.7
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|+|.||||||.+
T Consensus 2 ~v~~I~G~aGTGKTvl 17 (352)
T PF09848_consen 2 QVILITGGAGTGKTVL 17 (352)
T ss_pred eEEEEEecCCcCHHHH
Confidence 4689999999999999
No 89
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=95.91 E-value=0.0027 Score=54.22 Aligned_cols=15 Identities=20% Similarity=0.089 Sum_probs=13.6
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..+|+|.|||||||+
T Consensus 2 ~I~ITGTPGvGKTT~ 16 (180)
T COG1936 2 LIAITGTPGVGKTTV 16 (180)
T ss_pred eEEEeCCCCCchHHH
Confidence 458999999999999
No 90
>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=95.91 E-value=0.0022 Score=54.72 Aligned_cols=43 Identities=21% Similarity=0.166 Sum_probs=26.1
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc-ccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA-NKLSQ 199 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~-arl~~ 199 (266)
=.+|+||||||||+. ..+|.. .+.+ .+.+++..--+.- .++.+
T Consensus 49 ~l~l~G~~G~GKThL----a~ai~~--~~~~-~g~~v~f~~~~~L~~~l~~ 92 (178)
T PF01695_consen 49 NLILYGPPGTGKTHL----AVAIAN--EAIR-KGYSVLFITASDLLDELKQ 92 (178)
T ss_dssp EEEEEESTTSSHHHH----HHHHHH--HHHH-TT--EEEEEHHHHHHHHHC
T ss_pred EEEEEhhHhHHHHHH----HHHHHH--Hhcc-CCcceeEeecCceeccccc
Confidence 368899999999999 666763 3333 4566665433332 44444
No 91
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.91 E-value=0.0017 Score=51.16 Aligned_cols=22 Identities=9% Similarity=0.058 Sum_probs=15.3
Q ss_pred CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.+.+|+||||+|||++ +..+.
T Consensus 4 ~~~~~i~G~~G~GKT~~----~~~~~ 25 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTL----IKRLA 25 (131)
T ss_dssp ---EEEEE-TTSSHHHH----HHHHH
T ss_pred CcccEEEcCCCCCHHHH----HHHHH
Confidence 46789999999999999 55555
No 92
>KOG0743|consensus
Probab=95.89 E-value=0.0019 Score=62.40 Aligned_cols=21 Identities=19% Similarity=0.089 Sum_probs=17.6
Q ss_pred CeEEEcCCCCCcceEeCcccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
=.|+.||||||||+- |+|+.+
T Consensus 237 GYLLYGPPGTGKSS~----IaAmAn 257 (457)
T KOG0743|consen 237 GYLLYGPPGTGKSSF----IAAMAN 257 (457)
T ss_pred cceeeCCCCCCHHHH----HHHHHh
Confidence 379999999999999 666654
No 93
>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=95.87 E-value=0.0049 Score=52.59 Aligned_cols=37 Identities=14% Similarity=-0.019 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+++.|.+.++.++.. ...+|.||+|+||||+ +.+|+
T Consensus 9 ~~~~~~~~~l~~~v~~g~~i~I~G~tGSGKTTl----l~aL~ 46 (186)
T cd01130 9 TFSPLQAAYLWLAVEARKNILISGGTGSGKTTL----LNALL 46 (186)
T ss_pred CCCHHHHHHHHHHHhCCCEEEEECCCCCCHHHH----HHHHH
Confidence 5788999999999975 6889999999999999 55555
No 94
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=95.87 E-value=0.003 Score=57.00 Aligned_cols=36 Identities=14% Similarity=0.130 Sum_probs=24.0
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
..+++|.||||||||+. ...++ +...+ .+.+++..+
T Consensus 36 gs~~lI~G~pGtGKT~l----~~qf~--~~~a~-~Ge~vlyis 71 (259)
T TIGR03878 36 YSVINITGVSDTGKSLM----VEQFA--VTQAS-RGNPVLFVT 71 (259)
T ss_pred CcEEEEEcCCCCCHHHH----HHHHH--HHHHh-CCCcEEEEE
Confidence 35789999999999998 44444 22222 356666554
No 95
>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=95.86 E-value=0.0024 Score=58.46 Aligned_cols=14 Identities=7% Similarity=-0.078 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|+||||||||++
T Consensus 61 vll~G~pGTGKT~l 74 (284)
T TIGR02880 61 MSFTGNPGTGKTTV 74 (284)
T ss_pred EEEEcCCCCCHHHH
Confidence 68999999999999
No 96
>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=95.84 E-value=0.012 Score=55.69 Aligned_cols=17 Identities=6% Similarity=0.042 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
+.+.+|.||||+||||.
T Consensus 78 r~il~L~GPPGsGKStl 94 (361)
T smart00763 78 KQILYLLGPVGGGKSSL 94 (361)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 36789999999999999
No 97
>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=95.83 E-value=0.0072 Score=55.81 Aligned_cols=37 Identities=11% Similarity=0.046 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHhC-CCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+++.|.+.+..++.. ...+|.||+|+||||+ +.+++
T Consensus 116 ~~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTl----l~al~ 153 (299)
T TIGR02782 116 IMTAAQRDVLREAVLARKNILVVGGTGSGKTTL----ANALL 153 (299)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEECCCCCCHHHH----HHHHH
Confidence 4667788888888874 5679999999999999 55555
No 98
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=95.82 E-value=0.0079 Score=58.44 Aligned_cols=58 Identities=9% Similarity=-0.028 Sum_probs=41.8
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh-------ccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR-------LRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~-------~~~~kiLvcAPSN~ 194 (266)
..+++.|++|+..++...=.+++.|.|||||.+. +..+++ .+.. ....++|+.+|+-.
T Consensus 22 ~~pt~iQ~~ai~~il~g~dvlv~apTGsGKTla~---~lpil~--~l~~~~~~~~~~~~~~aLil~Ptre 86 (456)
T PRK10590 22 REPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGF---TLPLLQ--HLITRQPHAKGRRPVRALILTPTRE 86 (456)
T ss_pred CCCCHHHHHHHHHHhCCCCEEEECCCCCcHHHHH---HHHHHH--HhhhcccccccCCCceEEEEeCcHH
Confidence 4688999999999998766899999999999883 112221 1111 01247999999976
No 99
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=95.80 E-value=0.0037 Score=60.74 Aligned_cols=29 Identities=17% Similarity=0.248 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHh----C------------CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQ----R------------PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~----~------------~~tLIqGPPGTGKTtT 164 (266)
+.|.+.++.++. + .-.||+||||||||++
T Consensus 189 ~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~L 233 (438)
T PTZ00361 189 EQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLL 233 (438)
T ss_pred HHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHH
Confidence 357777766652 1 2368999999999999
No 100
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=95.76 E-value=0.0038 Score=59.66 Aligned_cols=29 Identities=21% Similarity=0.282 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHh----C------------CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQ----R------------PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~----~------------~~tLIqGPPGTGKTtT 164 (266)
+.|++.++.++. + +-.|++||||||||++
T Consensus 137 ~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~l 181 (389)
T PRK03992 137 EEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLL 181 (389)
T ss_pred HHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHH
Confidence 567777776652 1 1268999999999999
No 101
>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=95.74 E-value=0.004 Score=61.61 Aligned_cols=15 Identities=20% Similarity=0.040 Sum_probs=13.6
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
-.|++||||||||++
T Consensus 218 GILLyGPPGTGKT~L 232 (512)
T TIGR03689 218 GVLLYGPPGCGKTLI 232 (512)
T ss_pred ceEEECCCCCcHHHH
Confidence 368999999999998
No 102
>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=95.72 E-value=0.0022 Score=51.61 Aligned_cols=14 Identities=14% Similarity=0.081 Sum_probs=12.9
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||||||+.
T Consensus 2 vlL~G~~G~GKt~l 15 (139)
T PF07728_consen 2 VLLVGPPGTGKTTL 15 (139)
T ss_dssp EEEEESSSSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 37899999999999
No 103
>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=95.71 E-value=0.0086 Score=51.90 Aligned_cols=31 Identities=10% Similarity=0.043 Sum_probs=21.7
Q ss_pred CCHHHHHHHHHHHh---CCCeEEEcCCCCCcceE
Q psy4476 134 LNRSQVYAVKHAIQ---RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 134 LN~sQ~~AV~~aL~---~~~tLIqGPPGTGKTtT 164 (266)
-|..-.++++..+. ....+|.||||||||+.
T Consensus 21 ~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~l 54 (226)
T TIGR03420 21 GNAELLAALRQLAAGKGDRFLYLWGESGSGKSHL 54 (226)
T ss_pred CcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHH
Confidence 34444555555432 35688999999999999
No 104
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.69 E-value=0.0088 Score=52.27 Aligned_cols=37 Identities=8% Similarity=-0.031 Sum_probs=26.5
Q ss_pred CCCHHHHHHHHHHHh----CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQ----RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~----~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.-|.....+++.... .+..+|+||||||||+. ..+|.
T Consensus 23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~L----a~ai~ 63 (227)
T PRK08903 23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHL----LQALV 63 (227)
T ss_pred CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHH----HHHHH
Confidence 456666666666543 24689999999999999 55554
No 105
>PF05729 NACHT: NACHT domain
Probab=95.66 E-value=0.0031 Score=51.19 Aligned_cols=21 Identities=10% Similarity=0.009 Sum_probs=17.5
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
++.+|+|+||+|||++ +..++
T Consensus 1 r~l~I~G~~G~GKStl----l~~~~ 21 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTL----LRKLA 21 (166)
T ss_pred CEEEEECCCCCChHHH----HHHHH
Confidence 3578999999999999 56666
No 106
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=95.65 E-value=0.0061 Score=55.51 Aligned_cols=29 Identities=17% Similarity=0.173 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
+.+.+++..++.+ +..+|+||||||||++
T Consensus 23 ~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~ 54 (319)
T PRK00440 23 EEIVERLKSYVKEKNMPHLLFAGPPGTGKTTA 54 (319)
T ss_pred HHHHHHHHHHHhCCCCCeEEEECCCCCCHHHH
Confidence 4566666666653 3469999999999999
No 107
>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=95.65 E-value=0.0024 Score=49.82 Aligned_cols=14 Identities=14% Similarity=0.138 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-+|.||||+||||+
T Consensus 2 I~I~G~~gsGKST~ 15 (121)
T PF13207_consen 2 IIISGPPGSGKSTL 15 (121)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 47999999999999
No 108
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=95.62 E-value=0.0045 Score=53.47 Aligned_cols=21 Identities=19% Similarity=0.137 Sum_probs=17.7
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.+|.||+|+||||+ +.+++
T Consensus 2 GlilI~GptGSGKTTl----l~~ll 22 (198)
T cd01131 2 GLVLVTGPTGSGKSTT----LAAMI 22 (198)
T ss_pred cEEEEECCCCCCHHHH----HHHHH
Confidence 4679999999999999 55555
No 109
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=95.61 E-value=0.0095 Score=62.16 Aligned_cols=52 Identities=10% Similarity=0.028 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 136 RSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
...+..+..++. ++..+|+||||+||||.+ ...|++ .. ....+|+|+.|+-.
T Consensus 7 ~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~---pl~lL~--~~--~~~~~ilvlqPrR~ 59 (812)
T PRK11664 7 AAVLPELLTALKTAPQVLLKAPTGAGKSTWL---PLQLLQ--HG--GINGKIIMLEPRRL 59 (812)
T ss_pred HHHHHHHHHHHHhCCCEEEEcCCCCCHHHHH---HHHHHH--cC--CcCCeEEEECChHH
Confidence 457778888886 578999999999999994 112331 11 12358999999986
No 110
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.60 E-value=0.0064 Score=56.47 Aligned_cols=16 Identities=13% Similarity=-0.029 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+..+|+||||||||+.
T Consensus 52 ~~~ll~GppG~GKT~l 67 (328)
T PRK00080 52 DHVLLYGPPGLGKTTL 67 (328)
T ss_pred CcEEEECCCCccHHHH
Confidence 3579999999999999
No 111
>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=95.60 E-value=0.013 Score=57.28 Aligned_cols=54 Identities=9% Similarity=-0.031 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+..+.+.|.+||..++...=.+|..|.|+|||.+- .+. .+. .+...+|.+|+-.
T Consensus 9 ~~~~r~~Q~~ai~~~l~g~dvlv~apTGsGKTl~y------~lp--~l~--~~~~~lVi~P~~~ 62 (470)
T TIGR00614 9 LSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCY------QLP--ALC--SDGITLVISPLIS 62 (470)
T ss_pred CCCCCHHHHHHHHHHHcCCCEEEEcCCCCcHhHHH------HHH--HHH--cCCcEEEEecHHH
Confidence 35688999999999999877899999999999761 110 111 2456788888764
No 112
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=95.59 E-value=0.015 Score=57.48 Aligned_cols=61 Identities=13% Similarity=0.024 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhh-------hccCCceEecCCCCc
Q psy4476 130 NLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTN-------RLRNKSNLNHRPSGA 194 (266)
Q Consensus 130 ~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~-------~~~~~kiLvcAPSN~ 194 (266)
.+..+++.|.+|+..++..+=.++..|.|+|||..-+ ++ |+. ..+. ...+.++|+.+|+..
T Consensus 140 g~~~ptpiQ~~aip~il~g~dviv~ApTGSGKTlayl--lP-il~-~l~~~~~~~~~~~~~~~aLIL~PTre 207 (518)
T PLN00206 140 GYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFL--VP-IIS-RCCTIRSGHPSEQRNPLAMVLTPTRE 207 (518)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEEecCCCCccHHHH--HH-HHH-HHHhhccccccccCCceEEEEeCCHH
Confidence 3467899999999999988888999999999998721 11 221 1110 113457999999976
No 113
>PRK10436 hypothetical protein; Provisional
Probab=95.56 E-value=0.01 Score=58.09 Aligned_cols=32 Identities=19% Similarity=0.334 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHh--CCCeEEEcCCCCCcceE
Q psy4476 133 DLNRSQVYAVKHAIQ--RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~--~~~tLIqGPPGTGKTtT 164 (266)
.+.+.|.+.++.++. +.+.||.||.|+|||||
T Consensus 201 G~~~~~~~~l~~~~~~~~GliLvtGpTGSGKTTt 234 (462)
T PRK10436 201 GMTPAQLAQFRQALQQPQGLILVTGPTGSGKTVT 234 (462)
T ss_pred CcCHHHHHHHHHHHHhcCCeEEEECCCCCChHHH
Confidence 477889999998876 46899999999999999
No 114
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.54 E-value=0.011 Score=59.36 Aligned_cols=60 Identities=13% Similarity=0.021 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh-------ccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR-------LRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~-------~~~~kiLvcAPSN~ 194 (266)
+..+++.|.+|+..+|...=.+|+.|.|||||.+- +..+++ ..+.. ....++|+++||-.
T Consensus 29 ~~~ptpiQ~~~ip~~l~G~Dvi~~ApTGSGKTlaf---llpil~-~l~~~~~~~~~~~~~~raLIl~PTre 95 (572)
T PRK04537 29 FTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAF---LVAVMN-RLLSRPALADRKPEDPRALILAPTRE 95 (572)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEEcCCCCcHHHHH---HHHHHH-HHHhcccccccccCCceEEEEeCcHH
Confidence 34688999999999998777899999999999883 122221 11110 01358999999976
No 115
>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=95.54 E-value=0.01 Score=52.09 Aligned_cols=30 Identities=13% Similarity=0.031 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhC-CCeEEEcCCCCCcceEe
Q psy4476 136 RSQVYAVKHAIQR-PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtTi 165 (266)
+.-+.|+..|... .=.||.||||||||+.+
T Consensus 9 e~aKrAL~iAAaG~h~lLl~GppGtGKTmlA 39 (206)
T PF01078_consen 9 EEAKRALEIAAAGGHHLLLIGPPGTGKTMLA 39 (206)
T ss_dssp HHHHHHHHHHHHCC--EEEES-CCCTHHHHH
T ss_pred HHHHHHHHHHHcCCCCeEEECCCCCCHHHHH
Confidence 5567788777654 56799999999999994
No 116
>CHL00181 cbbX CbbX; Provisional
Probab=95.53 E-value=0.0038 Score=57.30 Aligned_cols=14 Identities=7% Similarity=-0.059 Sum_probs=13.1
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+++||||||||++
T Consensus 62 ill~G~pGtGKT~l 75 (287)
T CHL00181 62 MSFTGSPGTGKTTV 75 (287)
T ss_pred EEEECCCCCCHHHH
Confidence 58899999999999
No 117
>PRK08727 hypothetical protein; Validated
Probab=95.52 E-value=0.016 Score=51.35 Aligned_cols=21 Identities=5% Similarity=-0.012 Sum_probs=17.6
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+..+|+||||||||+. ..++.
T Consensus 42 ~~l~l~G~~G~GKThL----~~a~~ 62 (233)
T PRK08727 42 DWLYLSGPAGTGKTHL----ALALC 62 (233)
T ss_pred CeEEEECCCCCCHHHH----HHHHH
Confidence 4689999999999999 55665
No 118
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=95.51 E-value=0.0073 Score=58.01 Aligned_cols=14 Identities=14% Similarity=0.173 Sum_probs=13.3
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|++||||||||++
T Consensus 182 vLL~GppGTGKT~L 195 (398)
T PTZ00454 182 VLLYGPPGTGKTML 195 (398)
T ss_pred EEEECCCCCCHHHH
Confidence 68999999999999
No 119
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=95.49 E-value=0.006 Score=60.99 Aligned_cols=54 Identities=13% Similarity=0.043 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhc-cCCceEecCCC
Q psy4476 136 RSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL-RNKSNLNHRPS 192 (266)
Q Consensus 136 ~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~-~~~kiLvcAPS 192 (266)
..|-++|+. =.+.+.+|||.||+||||+..-.++-+++ ..... -.+.|||.+|.
T Consensus 215 kEQneIIR~-ek~~ilVVQGaAGSGKTtiALHRvAyLlY--~~R~~l~~k~vlvl~PN 269 (747)
T COG3973 215 KEQNEIIRF-EKNKILVVQGAAGSGKTTIALHRVAYLLY--GYRGPLQAKPVLVLGPN 269 (747)
T ss_pred HhHHHHHhc-cCCCeEEEecCCCCCchhHHHHHHHHHHh--ccccccccCceEEEcCc
Confidence 456666553 13578899999999999994322333442 11111 13459999994
No 120
>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=95.47 E-value=0.0052 Score=51.11 Aligned_cols=40 Identities=13% Similarity=0.038 Sum_probs=27.2
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+++|.=.||.|||+-| +.+++. ...+ ++.|+||.|||=.
T Consensus 5 ~~~~~d~hpGaGKTr~v---lp~~~~--~~i~-~~~rvLvL~PTRv 44 (148)
T PF07652_consen 5 ELTVLDLHPGAGKTRRV---LPEIVR--EAIK-RRLRVLVLAPTRV 44 (148)
T ss_dssp EEEEEE--TTSSTTTTH---HHHHHH--HHHH-TT--EEEEESSHH
T ss_pred ceeEEecCCCCCCcccc---cHHHHH--HHHH-ccCeEEEecccHH
Confidence 57889999999999975 566662 2222 5689999999976
No 121
>PRK02362 ski2-like helicase; Provisional
Probab=95.45 E-value=0.011 Score=60.89 Aligned_cols=57 Identities=18% Similarity=0.081 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHHHHHH-hCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAI-QRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL-~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
...|++.|.+|+...+ ..+=.+|..|.|+|||.+. ..+|+. .+. .+.++++++|+=+
T Consensus 21 ~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia---~lail~--~l~--~~~kal~i~P~ra 78 (737)
T PRK02362 21 IEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIA---ELAMLK--AIA--RGGKALYIVPLRA 78 (737)
T ss_pred CCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHH---HHHHHH--HHh--cCCcEEEEeChHH
Confidence 4579999999999855 5567899999999999983 123331 222 4679999999976
No 122
>PHA00729 NTP-binding motif containing protein
Probab=95.43 E-value=0.0037 Score=55.64 Aligned_cols=14 Identities=14% Similarity=0.135 Sum_probs=13.3
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|+|||||||||.
T Consensus 20 IlItG~pGvGKT~L 33 (226)
T PHA00729 20 AVIFGKQGSGKTTY 33 (226)
T ss_pred EEEECCCCCCHHHH
Confidence 68999999999999
No 123
>PRK06835 DNA replication protein DnaC; Validated
Probab=95.40 E-value=0.012 Score=55.15 Aligned_cols=33 Identities=18% Similarity=0.113 Sum_probs=23.4
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEe
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLN 188 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLv 188 (266)
.-.+|+||||||||+. +.+|.+ .+.. .+.+|+.
T Consensus 184 ~~Lll~G~~GtGKThL----a~aIa~--~l~~-~g~~V~y 216 (329)
T PRK06835 184 ENLLFYGNTGTGKTFL----SNCIAK--ELLD-RGKSVIY 216 (329)
T ss_pred CcEEEECCCCCcHHHH----HHHHHH--HHHH-CCCeEEE
Confidence 5679999999999999 667764 2333 3456653
No 124
>PTZ00110 helicase; Provisional
Probab=95.38 E-value=0.01 Score=59.23 Aligned_cols=61 Identities=11% Similarity=-0.053 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh-----ccCCceEecCCCCc
Q psy4476 130 NLPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR-----LRNKSNLNHRPSGA 194 (266)
Q Consensus 130 ~~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~-----~~~~kiLvcAPSN~ 194 (266)
.+..+.+.|.+|+..++...=.+++.|.|+|||.+-+ +..|.. .... ..+..+|+.+||-.
T Consensus 149 g~~~pt~iQ~~aip~~l~G~dvI~~ApTGSGKTlayl--LP~l~~--i~~~~~~~~~~gp~~LIL~PTre 214 (545)
T PTZ00110 149 GFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFL--LPAIVH--INAQPLLRYGDGPIVLVLAPTRE 214 (545)
T ss_pred CCCCCCHHHHHHHHHHhcCCCEEEEeCCCChHHHHHH--HHHHHH--HHhcccccCCCCcEEEEECChHH
Confidence 3457889999999999987767899999999998721 222221 1111 12356999999975
No 125
>PRK06921 hypothetical protein; Provisional
Probab=95.37 E-value=0.012 Score=53.45 Aligned_cols=36 Identities=11% Similarity=-0.031 Sum_probs=24.3
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
.-.+++||||||||+. +.+|.+ .+.+..+.+|+...
T Consensus 118 ~~l~l~G~~G~GKThL----a~aia~--~l~~~~g~~v~y~~ 153 (266)
T PRK06921 118 NSIALLGQPGSGKTHL----LTAAAN--ELMRKKGVPVLYFP 153 (266)
T ss_pred CeEEEECCCCCcHHHH----HHHHHH--HHhhhcCceEEEEE
Confidence 4578999999999999 667764 33332245665444
No 126
>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=95.36 E-value=0.013 Score=58.76 Aligned_cols=37 Identities=14% Similarity=0.068 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHh--CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 133 DLNRSQVYAVKHAIQ--RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~--~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.+.|.+.++.++. +.+.||.||+|+||||| +.+++
T Consensus 299 g~~~~~~~~l~~~~~~~~Glilv~G~tGSGKTTt----l~a~l 337 (564)
T TIGR02538 299 GFEPDQKALFLEAIHKPQGMVLVTGPTGSGKTVS----LYTAL 337 (564)
T ss_pred CCCHHHHHHHHHHHHhcCCeEEEECCCCCCHHHH----HHHHH
Confidence 577889999998886 47899999999999999 55555
No 127
>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=95.34 E-value=0.013 Score=61.27 Aligned_cols=51 Identities=8% Similarity=0.053 Sum_probs=37.3
Q ss_pred HHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 137 SQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 137 sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..+..+..++. ++..+|+||||+||||.+ ...|++ .. ..+.+|+|++|+-.
T Consensus 5 ~~~~~i~~~l~~~~~vIi~a~TGSGKTT~v---pl~lL~--~~--~~~~~ilvlqPrR~ 56 (819)
T TIGR01970 5 AVLPALRDALAAHPQVVLEAPPGAGKSTAV---PLALLD--AP--GIGGKIIMLEPRRL 56 (819)
T ss_pred HHHHHHHHHHHcCCcEEEECCCCCCHHHHH---HHHHHH--hh--ccCCeEEEEeCcHH
Confidence 46778888886 589999999999999994 122331 11 13468999999975
No 128
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=95.34 E-value=0.0085 Score=62.66 Aligned_cols=30 Identities=13% Similarity=0.201 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHhC--------CCeEEEcCCCCCcceEe
Q psy4476 136 RSQVYAVKHAIQR--------PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 136 ~sQ~~AV~~aL~~--------~~tLIqGPPGTGKTtTi 165 (266)
+.|.+.|..+|.. .+.+|.||||||||.|+
T Consensus 761 EeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATV 798 (1164)
T PTZ00112 761 EKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATV 798 (1164)
T ss_pred HHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHH
Confidence 4677777777641 23469999999999993
No 129
>PRK14974 cell division protein FtsY; Provisional
Probab=95.33 E-value=0.0063 Score=57.20 Aligned_cols=35 Identities=11% Similarity=0.036 Sum_probs=23.9
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRP 191 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAP 191 (266)
+.++.||||+||||| ++.+.. .+.. .+.+|++++.
T Consensus 142 vi~~~G~~GvGKTTt----iakLA~--~l~~-~g~~V~li~~ 176 (336)
T PRK14974 142 VIVFVGVNGTGKTTT----IAKLAY--YLKK-NGFSVVIAAG 176 (336)
T ss_pred EEEEEcCCCCCHHHH----HHHHHH--HHHH-cCCeEEEecC
Confidence 567899999999999 565552 2332 4567765543
No 130
>PRK00254 ski2-like helicase; Provisional
Probab=95.32 E-value=0.013 Score=60.33 Aligned_cols=58 Identities=16% Similarity=0.079 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHH-HHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKH-AIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~-aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
...||+.|.+|+.. .+...=.+|+.|.|+|||.+. ...|+. .+.. .+.++++.+|+-+
T Consensus 21 ~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~---~l~il~--~l~~-~~~~~l~l~P~~a 79 (720)
T PRK00254 21 IEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVA---EIVMVN--KLLR-EGGKAVYLVPLKA 79 (720)
T ss_pred CCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHH---HHHHHH--HHHh-cCCeEEEEeChHH
Confidence 45799999999986 455667899999999999983 123332 2222 4578999999976
No 131
>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=95.32 E-value=0.013 Score=62.02 Aligned_cols=55 Identities=11% Similarity=-0.091 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHhC------CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQR------PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~------~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+++.|.+|+..++.. .=.||+||.|+|||.+. +.+++. .+. .+.++++.+||-.
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~va---l~a~l~--al~--~g~qvlvLvPT~~ 511 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVA---MRAAFK--AVL--DGKQVAVLVPTTL 511 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHH---HHHHHH--HHH--hCCeEEEEeCcHH
Confidence 5789999999999863 13699999999999883 222331 222 4578999999986
No 132
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=95.31 E-value=0.0038 Score=48.65 Aligned_cols=13 Identities=15% Similarity=0.089 Sum_probs=12.4
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
+|.|+||+||||+
T Consensus 2 ~i~G~~GsGKtTi 14 (129)
T PF13238_consen 2 GISGIPGSGKTTI 14 (129)
T ss_dssp EEEESTTSSHHHH
T ss_pred EEECCCCCCHHHH
Confidence 6899999999999
No 133
>PHA02653 RNA helicase NPH-II; Provisional
Probab=95.31 E-value=0.021 Score=58.39 Aligned_cols=54 Identities=11% Similarity=0.027 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccc--------hhhh----hccCCceEecCCCCc
Q psy4476 136 RSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNS--------ANTN----RLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~--------~~~~----~~~~~kiLvcAPSN~ 194 (266)
+.|.+++..++.++..+++|+.|+|||+. +..++.+ ..+. .....+|+|.+|+ +
T Consensus 167 ~iQ~qil~~i~~gkdvIv~A~TGSGKTtq----vPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~Pr-r 232 (675)
T PHA02653 167 DVQLKIFEAWISRKPVVLTGGTGVGKTSQ----VPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPR-V 232 (675)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCchhH----HHHHHHHhhhccchhhhhhhcccccCCcEEEEECcH-H
Confidence 45999999999999999999999999987 4433311 0111 1124589999999 5
No 134
>PRK10689 transcription-repair coupling factor; Provisional
Probab=95.28 E-value=0.014 Score=63.08 Aligned_cols=55 Identities=11% Similarity=-0.068 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHhC------CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQR------PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~------~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+++.|.+|+..++.. .=.||+||.|+|||.+.+ .++. ... ..+.++++.+||-.
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val---~aa~---~~~-~~g~qvlvLvPT~e 660 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAM---RAAF---LAV-ENHKQVAVLVPTTL 660 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHH---HHHH---HHH-HcCCeEEEEeCcHH
Confidence 6889999999999873 247999999999998831 1111 111 24679999999976
No 135
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=95.28 E-value=0.0038 Score=50.03 Aligned_cols=16 Identities=13% Similarity=0.108 Sum_probs=13.9
Q ss_pred CeEEEcCCCCCcceEe
Q psy4476 150 LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTi 165 (266)
+.++-||||+||||.+
T Consensus 1 lii~~G~pgsGKSt~a 16 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLA 16 (143)
T ss_dssp EEEEEESTTSSHHHHH
T ss_pred CEEEECCCCCCHHHHH
Confidence 3578999999999993
No 136
>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=95.26 E-value=0.01 Score=52.83 Aligned_cols=30 Identities=13% Similarity=0.109 Sum_probs=22.4
Q ss_pred CHHHHHHHHHH---Hh--CCCeEEEcCCCCCcceE
Q psy4476 135 NRSQVYAVKHA---IQ--RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 135 N~sQ~~AV~~a---L~--~~~tLIqGPPGTGKTtT 164 (266)
.+.+++|+... +. .++.+|+||||+||||+
T Consensus 25 ~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl 59 (269)
T TIGR03015 25 SKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTL 59 (269)
T ss_pred CHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHH
Confidence 35566666654 33 24789999999999999
No 137
>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=95.26 E-value=0.0051 Score=53.75 Aligned_cols=37 Identities=14% Similarity=0.011 Sum_probs=23.7
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhcc-CCceEecCCC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLR-NKSNLNHRPS 192 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~-~~kiLvcAPS 192 (266)
.+.||.||||||||+. ...++. ...+ . +.+++..+-.
T Consensus 20 s~~li~G~~GsGKT~l----~~q~l~--~~~~-~~ge~vlyvs~e 57 (226)
T PF06745_consen 20 SVVLISGPPGSGKTTL----ALQFLY--NGLK-NFGEKVLYVSFE 57 (226)
T ss_dssp SEEEEEESTTSSHHHH----HHHHHH--HHHH-HHT--EEEEESS
T ss_pred cEEEEEeCCCCCcHHH----HHHHHH--Hhhh-hcCCcEEEEEec
Confidence 5789999999999999 455552 2222 3 6777755543
No 138
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.25 E-value=0.0078 Score=57.83 Aligned_cols=23 Identities=9% Similarity=0.122 Sum_probs=17.1
Q ss_pred HHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 142 VKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 142 V~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
+..++.+ +-.+|+|||||||||+
T Consensus 27 L~~~i~~~~~~~ilL~GppGtGKTtL 52 (413)
T PRK13342 27 LRRMIEAGRLSSMILWGPPGTGKTTL 52 (413)
T ss_pred HHHHHHcCCCceEEEECCCCCCHHHH
Confidence 4444442 3468899999999999
No 139
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=95.24 E-value=0.013 Score=55.66 Aligned_cols=30 Identities=13% Similarity=0.212 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHh------CCC-eEEEcCCCCCcceEe
Q psy4476 136 RSQVYAVKHAIQ------RPL-SLIQGMNQRSNGLHH 165 (266)
Q Consensus 136 ~sQ~~AV~~aL~------~~~-tLIqGPPGTGKTtTi 165 (266)
++|.+.+..+|. .|. .+|.||||||||.|+
T Consensus 23 e~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 23 EEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATV 59 (366)
T ss_pred HHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHH
Confidence 678888887774 233 789999999999993
No 140
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.22 E-value=0.0073 Score=54.14 Aligned_cols=39 Identities=13% Similarity=0.095 Sum_probs=25.9
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCC
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSG 193 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN 193 (266)
..+.||.|+||||||+. ....++ ...+ .+.+++..+-.=
T Consensus 23 g~~~lI~G~pGsGKT~f----~~qfl~--~~~~-~ge~vlyvs~~e 61 (260)
T COG0467 23 GSVVLITGPPGTGKTIF----ALQFLY--EGAR-EGEPVLYVSTEE 61 (260)
T ss_pred CcEEEEEcCCCCcHHHH----HHHHHH--HHHh-cCCcEEEEEecC
Confidence 46899999999999999 444442 2222 356666555443
No 141
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=95.21 E-value=0.014 Score=56.88 Aligned_cols=31 Identities=6% Similarity=0.159 Sum_probs=24.7
Q ss_pred CCHHHHHHHHHHHh-CCCeEEEcCCCCCcceE
Q psy4476 134 LNRSQVYAVKHAIQ-RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 134 LN~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtT 164 (266)
..+...+.+..+|. .+-.+++||||||||++
T Consensus 179 i~e~~le~l~~~L~~~~~iil~GppGtGKT~l 210 (459)
T PRK11331 179 IPETTIETILKRLTIKKNIILQGPPGVGKTFV 210 (459)
T ss_pred CCHHHHHHHHHHHhcCCCEEEECCCCCCHHHH
Confidence 44566677777775 57888999999999999
No 142
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=95.19 E-value=0.017 Score=56.36 Aligned_cols=59 Identities=10% Similarity=-0.009 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhc--------cCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL--------RNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~--------~~~kiLvcAPSN~ 194 (266)
+..+++.|.+|+..++...=.+|+.|.|||||..- ...+++ .+.+. ...++|+.+|+-.
T Consensus 107 ~~~~~~iQ~~ai~~~~~G~dvi~~apTGSGKTlay---~lpil~--~l~~~~~~~~~~~~~~~aLil~Ptre 173 (475)
T PRK01297 107 FPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAF---LISIIN--QLLQTPPPKERYMGEPRALIIAPTRE 173 (475)
T ss_pred CCCCCHHHHHHHHHHhCCCCEEEECCCCChHHHHH---HHHHHH--HHHhcCcccccccCCceEEEEeCcHH
Confidence 45689999999999998766789999999999773 122221 11111 1357999999987
No 143
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.19 E-value=0.011 Score=58.03 Aligned_cols=26 Identities=8% Similarity=0.151 Sum_probs=18.8
Q ss_pred HHHHHHHHhC-CC---eEEEcCCCCCcceE
Q psy4476 139 VYAVKHAIQR-PL---SLIQGMNQRSNGLH 164 (266)
Q Consensus 139 ~~AV~~aL~~-~~---tLIqGPPGTGKTtT 164 (266)
...+..++.+ .+ .|++|||||||||+
T Consensus 23 ~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTl 52 (472)
T PRK14962 23 KKLIINALKKNSISHAYIFAGPRGTGKTTV 52 (472)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 4445555543 33 58999999999999
No 144
>PRK06851 hypothetical protein; Provisional
Probab=95.18 E-value=0.0071 Score=57.52 Aligned_cols=40 Identities=10% Similarity=0.017 Sum_probs=26.7
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEe-cCCCCc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLN-HRPSGA 194 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLv-cAPSN~ 194 (266)
.++.+|.|||||||||. +..|.. .+.+ ++.+|.+ +-|++-
T Consensus 214 ~~~~~i~G~pG~GKstl----~~~i~~--~a~~-~G~~v~~~hC~~dP 254 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTM----LKKIAK--AAEE-RGFDVEVYHCGFDP 254 (367)
T ss_pred ceEEEEeCCCCCcHHHH----HHHHHH--HHHh-CCCeEEEEeCCCCC
Confidence 46799999999999999 555552 3322 4566553 344554
No 145
>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=95.18 E-value=0.0065 Score=52.71 Aligned_cols=38 Identities=11% Similarity=-0.036 Sum_probs=25.6
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCc-eEecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKS-NLNHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~k-iLvcAPSN~ 194 (266)
+.++-||+|.||||| ++.+.. .+... +++ -|+|+-+.+
T Consensus 3 vi~lvGptGvGKTTt----~aKLAa--~~~~~-~~~v~lis~D~~R 41 (196)
T PF00448_consen 3 VIALVGPTGVGKTTT----IAKLAA--RLKLK-GKKVALISADTYR 41 (196)
T ss_dssp EEEEEESTTSSHHHH----HHHHHH--HHHHT-T--EEEEEESTSS
T ss_pred EEEEECCCCCchHhH----HHHHHH--HHhhc-cccceeecCCCCC
Confidence 457789999999999 666663 33332 455 567888777
No 146
>PRK13531 regulatory ATPase RavA; Provisional
Probab=95.17 E-value=0.0075 Score=59.27 Aligned_cols=19 Identities=11% Similarity=0.100 Sum_probs=16.7
Q ss_pred HhCCCeEEEcCCCCCcceE
Q psy4476 146 IQRPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 146 L~~~~tLIqGPPGTGKTtT 164 (266)
+...-.||.||||||||+.
T Consensus 37 lag~hVLL~GpPGTGKT~L 55 (498)
T PRK13531 37 LSGESVFLLGPPGIAKSLI 55 (498)
T ss_pred ccCCCEEEECCCChhHHHH
Confidence 3467789999999999999
No 147
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=95.16 E-value=0.01 Score=54.35 Aligned_cols=32 Identities=9% Similarity=0.003 Sum_probs=24.0
Q ss_pred CCCHHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 133 DLNRSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
-.++..++.+...+.+ .+.|++||||||||+.
T Consensus 24 ~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~l 59 (316)
T PHA02544 24 ILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTV 59 (316)
T ss_pred cCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHH
Confidence 3566777777776653 3566799999999999
No 148
>PRK06620 hypothetical protein; Validated
Probab=95.16 E-value=0.0079 Score=52.82 Aligned_cols=16 Identities=19% Similarity=0.191 Sum_probs=14.1
Q ss_pred CeEEEcCCCCCcceEe
Q psy4476 150 LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTi 165 (266)
..+|+||||+|||+..
T Consensus 46 ~l~l~Gp~G~GKThLl 61 (214)
T PRK06620 46 TLLIKGPSSSGKTYLT 61 (214)
T ss_pred eEEEECCCCCCHHHHH
Confidence 3799999999999993
No 149
>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=95.16 E-value=0.013 Score=63.41 Aligned_cols=55 Identities=9% Similarity=-0.055 Sum_probs=42.0
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+.+-|+.++..++...-.++++|+|+|||+.. ..++ ..+.. .+.++|+.+||-.
T Consensus 78 ~p~~iQ~~~i~~il~G~d~vi~ApTGsGKT~f~----l~~~--~~l~~-~g~~vLIL~PTre 132 (1171)
T TIGR01054 78 EPWSIQKMWAKRVLRGDSFAIIAPTGVGKTTFG----LAMS--LFLAK-KGKRCYIILPTTL 132 (1171)
T ss_pred CCcHHHHHHHHHHhCCCeEEEECCCCCCHHHHH----HHHH--HHHHh-cCCeEEEEeCHHH
Confidence 467899999999998877789999999999863 1122 11222 4678999999976
No 150
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=95.14 E-value=0.0078 Score=59.75 Aligned_cols=17 Identities=12% Similarity=0.100 Sum_probs=15.3
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
.+.|++||||+||||||
T Consensus 46 ~iLlLtGP~G~GKtttv 62 (519)
T PF03215_consen 46 RILLLTGPSGCGKTTTV 62 (519)
T ss_pred ceEEEECCCCCCHHHHH
Confidence 47899999999999994
No 151
>KOG0651|consensus
Probab=95.10 E-value=0.0095 Score=55.44 Aligned_cols=15 Identities=20% Similarity=0.067 Sum_probs=13.7
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..+||||||||||..
T Consensus 168 g~ll~GppGtGKTll 182 (388)
T KOG0651|consen 168 GLLLYGPPGTGKTLL 182 (388)
T ss_pred eeEEeCCCCCchhHH
Confidence 579999999999986
No 152
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=95.08 E-value=0.0085 Score=56.62 Aligned_cols=32 Identities=19% Similarity=0.309 Sum_probs=22.4
Q ss_pred CCCCHHHHHHHHHHHh----C----------C--CeEEEcCCCCCcceE
Q psy4476 132 PDLNRSQVYAVKHAIQ----R----------P--LSLIQGMNQRSNGLH 164 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~----~----------~--~tLIqGPPGTGKTtT 164 (266)
-.| +.|.+-|+-|+. + | =.|..||||||||..
T Consensus 154 GGL-~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLL 201 (406)
T COG1222 154 GGL-DEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLL 201 (406)
T ss_pred cCH-HHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHH
Confidence 456 448777776653 2 1 158999999999976
No 153
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=95.05 E-value=0.014 Score=62.90 Aligned_cols=56 Identities=13% Similarity=-0.033 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHh-----CCCeEEEcCCCCCcceEeCccccccccchhhhh-ccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQ-----RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR-LRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~-----~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~-~~~~kiLvcAPSN~ 194 (266)
.|=+.|.+||..+.. ++-.||+-|.|||||.| ...++. .+.+ ...+|||+.+|.+.
T Consensus 413 ~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~t----ai~li~--~L~~~~~~~rVLfLvDR~~ 474 (1123)
T PRK11448 413 GLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRT----AIALMY--RLLKAKRFRRILFLVDRSA 474 (1123)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHH----HHHHHH--HHHhcCccCeEEEEecHHH
Confidence 567899999987753 35689999999999999 444442 2222 23479999999987
No 154
>PRK13767 ATP-dependent helicase; Provisional
Probab=95.03 E-value=0.018 Score=60.64 Aligned_cols=59 Identities=17% Similarity=0.010 Sum_probs=42.9
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhh------ccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR------LRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~------~~~~kiLvcAPSN~ 194 (266)
..|++.|++|+..++..+-.||+.|.|+|||... ...|++ ..... ..+.++|+.+|+-+
T Consensus 31 ~~~tpiQ~~Ai~~il~g~nvli~APTGSGKTlaa---~Lpil~-~l~~~~~~~~~~~~~~~LyIsPtra 95 (876)
T PRK13767 31 GTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLAA---FLAIID-ELFRLGREGELEDKVYCLYVSPLRA 95 (876)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCcHHHHH---HHHHHH-HHHhhccccCCCCCeEEEEEcCHHH
Confidence 4689999999999998888999999999999983 122331 11111 12346999999876
No 155
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.03 E-value=0.0088 Score=57.01 Aligned_cols=21 Identities=10% Similarity=0.029 Sum_probs=17.6
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.++.||+|+||||| ++.|.
T Consensus 138 ~ii~lvGptGvGKTTt----iakLA 158 (374)
T PRK14722 138 GVFALMGPTGVGKTTT----TAKLA 158 (374)
T ss_pred cEEEEECCCCCCHHHH----HHHHH
Confidence 4778999999999999 55555
No 156
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=95.00 E-value=0.0089 Score=52.49 Aligned_cols=39 Identities=15% Similarity=0.089 Sum_probs=26.7
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSG 193 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN 193 (266)
.+++|.||||+|||+. +..++. ......+.+++....-.
T Consensus 14 ~l~lI~G~~G~GKT~~----~~~~~~--~~~~~~g~~vly~s~E~ 52 (242)
T cd00984 14 DLIIIAARPSMGKTAF----ALNIAE--NIAKKQGKPVLFFSLEM 52 (242)
T ss_pred eEEEEEeCCCCCHHHH----HHHHHH--HHHHhCCCceEEEeCCC
Confidence 5899999999999999 445552 33332367777666444
No 157
>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=94.99 E-value=0.0093 Score=51.74 Aligned_cols=17 Identities=6% Similarity=-0.009 Sum_probs=15.5
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
.+++|.||||+|||+..
T Consensus 20 ~i~~i~G~~GsGKT~l~ 36 (218)
T cd01394 20 TVTQVYGPPGTGKTNIA 36 (218)
T ss_pred eEEEEECCCCCCHHHHH
Confidence 57899999999999993
No 158
>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=94.98 E-value=0.0088 Score=53.04 Aligned_cols=35 Identities=9% Similarity=0.051 Sum_probs=23.4
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
.+.||.||||||||+. ...++. ...+ .+.+++.++
T Consensus 22 s~~lI~G~pGsGKT~l----a~~~l~--~~~~-~ge~~lyvs 56 (237)
T TIGR03877 22 NVVLLSGGPGTGKSIF----SQQFLW--NGLQ-MGEPGIYVA 56 (237)
T ss_pred eEEEEEcCCCCCHHHH----HHHHHH--HHHH-cCCcEEEEE
Confidence 5789999999999998 444442 1112 356666554
No 159
>PRK09401 reverse gyrase; Reviewed
Probab=94.96 E-value=0.02 Score=62.06 Aligned_cols=55 Identities=9% Similarity=-0.108 Sum_probs=42.1
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+.+.|+.|+..++...-.+|+.|.|+|||+.. ..++ ..+.. .+.++++.+||-.
T Consensus 80 ~pt~iQ~~~i~~il~g~dv~i~ApTGsGKT~f~----l~~~--~~l~~-~g~~alIL~PTre 134 (1176)
T PRK09401 80 KPWSLQRTWAKRLLLGESFAIIAPTGVGKTTFG----LVMS--LYLAK-KGKKSYIIFPTRL 134 (1176)
T ss_pred CCcHHHHHHHHHHHCCCcEEEEcCCCCCHHHHH----HHHH--HHHHh-cCCeEEEEeccHH
Confidence 567899999999999888899999999999762 1111 11222 4678999999976
No 160
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=94.95 E-value=0.0095 Score=51.99 Aligned_cols=16 Identities=13% Similarity=0.046 Sum_probs=15.1
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+++|.||||||||+.
T Consensus 24 ~i~~i~G~~GsGKT~l 39 (225)
T PRK09361 24 TITQIYGPPGSGKTNI 39 (225)
T ss_pred eEEEEECCCCCCHHHH
Confidence 5899999999999999
No 161
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=94.94 E-value=0.0068 Score=43.15 Aligned_cols=21 Identities=24% Similarity=0.233 Sum_probs=17.9
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
++++|.||.|+||||. +.+|.
T Consensus 24 ~~tli~G~nGsGKSTl----lDAi~ 44 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTL----LDAIQ 44 (62)
T ss_pred cEEEEECCCCCCHHHH----HHHHH
Confidence 4799999999999999 55555
No 162
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=94.91 E-value=0.018 Score=52.87 Aligned_cols=55 Identities=5% Similarity=-0.047 Sum_probs=37.0
Q ss_pred CHHHHH---HHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccC----CceEecCCCCc
Q psy4476 135 NRSQVY---AVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRN----KSNLNHRPSGA 194 (266)
Q Consensus 135 N~sQ~~---AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~----~kiLvcAPSN~ 194 (266)
=+.|.+ +|..++. ....+|..|.|||||..++ .+++. +.... +. .+|.+|.+|..
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L--~~al~--~~~~~-~~~~~~~kvi~~t~T~~ 72 (289)
T smart00489 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLL--CLTLT--WLRSF-PERIQKIKLIYLSRTVS 72 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHH--HHHHH--HHHhC-cccccccceeEEeccHH
Confidence 478998 4555555 4788999999999998852 22322 22211 22 38999999987
No 163
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=94.91 E-value=0.018 Score=52.87 Aligned_cols=55 Identities=5% Similarity=-0.047 Sum_probs=37.0
Q ss_pred CHHHHH---HHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccC----CceEecCCCCc
Q psy4476 135 NRSQVY---AVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRN----KSNLNHRPSGA 194 (266)
Q Consensus 135 N~sQ~~---AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~----~kiLvcAPSN~ 194 (266)
=+.|.+ +|..++. ....+|..|.|||||..++ .+++. +.... +. .+|.+|.+|..
T Consensus 10 r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L--~~al~--~~~~~-~~~~~~~kvi~~t~T~~ 72 (289)
T smart00488 10 YPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLL--CLTLT--WLRSF-PERIQKIKLIYLSRTVS 72 (289)
T ss_pred CHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHH--HHHHH--HHHhC-cccccccceeEEeccHH
Confidence 478998 4555555 4788999999999998852 22322 22211 22 38999999987
No 164
>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=94.89 E-value=0.0076 Score=51.69 Aligned_cols=37 Identities=14% Similarity=0.076 Sum_probs=19.2
Q ss_pred EEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 152 LIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 152 LIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+|+++.|.|||+.+ ..++. .+......+|+||||+-.
T Consensus 1 VltA~RGRGKSa~l---Gl~~a---~l~~~~~~~I~vtAP~~~ 37 (177)
T PF05127_consen 1 VLTADRGRGKSAAL---GLAAA---ALIQKGKIRILVTAPSPE 37 (177)
T ss_dssp -EEE-TTSSHHHHH---HHCCC---CSSS-----EEEE-SS--
T ss_pred CccCCCCCCHHHHH---HHHHH---HHHHhcCceEEEecCCHH
Confidence 68999999999994 22222 222223368999999976
No 165
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=94.87 E-value=0.009 Score=54.44 Aligned_cols=38 Identities=21% Similarity=0.177 Sum_probs=23.8
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN~ 194 (266)
+.++.||||.||||| ++.+.. .+.+ .+.+|+ +++.+.+
T Consensus 74 vi~l~G~~G~GKTTt----~akLA~--~l~~-~g~~V~li~~D~~r 112 (272)
T TIGR00064 74 VILFVGVNGVGKTTT----IAKLAN--KLKK-QGKSVLLAAGDTFR 112 (272)
T ss_pred EEEEECCCCCcHHHH----HHHHHH--HHHh-cCCEEEEEeCCCCC
Confidence 455669999999999 555542 2333 456665 5555543
No 166
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=94.86 E-value=0.011 Score=49.61 Aligned_cols=15 Identities=13% Similarity=0.290 Sum_probs=13.5
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+||||.
T Consensus 1 ~i~i~G~pGsGKst~ 15 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQ 15 (183)
T ss_pred CEEEECCCCCCHHHH
Confidence 358999999999999
No 167
>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=94.84 E-value=0.0077 Score=59.22 Aligned_cols=14 Identities=21% Similarity=0.207 Sum_probs=13.4
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+.||||||||++
T Consensus 91 iLL~GppGtGKT~l 104 (495)
T TIGR01241 91 VLLVGPPGTGKTLL 104 (495)
T ss_pred EEEECCCCCCHHHH
Confidence 68999999999999
No 168
>PRK10867 signal recognition particle protein; Provisional
Probab=94.83 E-value=0.0098 Score=57.76 Aligned_cols=39 Identities=8% Similarity=0.106 Sum_probs=25.7
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCce-EecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSN-LNHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~ki-LvcAPSN~ 194 (266)
+.++.||||+||||| ++.+.. .+....+.+| +|++.+-+
T Consensus 102 vI~~vG~~GsGKTTt----aakLA~--~l~~~~G~kV~lV~~D~~R 141 (433)
T PRK10867 102 VIMMVGLQGAGKTTT----AGKLAK--YLKKKKKKKVLLVAADVYR 141 (433)
T ss_pred EEEEECCCCCcHHHH----HHHHHH--HHHHhcCCcEEEEEccccc
Confidence 457789999999999 555542 2333225665 46777666
No 169
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.82 E-value=0.012 Score=54.67 Aligned_cols=34 Identities=24% Similarity=0.235 Sum_probs=25.7
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceE
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL 187 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL 187 (266)
+.+.|++||-|.||||| +++++. .+|+.....||
T Consensus 125 ~GLILVTGpTGSGKSTT----lAamId--~iN~~~~~HIl 158 (353)
T COG2805 125 RGLILVTGPTGSGKSTT----LAAMID--YINKHKAKHIL 158 (353)
T ss_pred CceEEEeCCCCCcHHHH----HHHHHH--HHhccCCcceE
Confidence 57999999999999999 788885 34544444444
No 170
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.81 E-value=0.012 Score=55.74 Aligned_cols=14 Identities=14% Similarity=0.088 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|++|||||||||+
T Consensus 41 ~L~~Gp~G~GKTtl 54 (363)
T PRK14961 41 WLLSGTRGVGKTTI 54 (363)
T ss_pred EEEecCCCCCHHHH
Confidence 58999999999999
No 171
>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=94.78 E-value=0.011 Score=58.20 Aligned_cols=36 Identities=11% Similarity=0.058 Sum_probs=24.9
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRP 191 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAP 191 (266)
.++||.||||||||+. ...+++ ...+ .+.+++.++-
T Consensus 264 s~~li~G~~G~GKt~l----~~~f~~--~~~~-~ge~~~y~s~ 299 (484)
T TIGR02655 264 SIILATGATGTGKTLL----VSKFLE--NACA-NKERAILFAY 299 (484)
T ss_pred cEEEEECCCCCCHHHH----HHHHHH--HHHH-CCCeEEEEEe
Confidence 5789999999999999 445552 2223 4567766653
No 172
>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=94.78 E-value=0.018 Score=58.78 Aligned_cols=56 Identities=16% Similarity=-0.009 Sum_probs=40.2
Q ss_pred CCHHHHHHHHHHHhC----------CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 134 LNRSQVYAVKHAIQR----------PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 134 LN~sQ~~AV~~aL~~----------~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.-..|..||..++.+ +-.|||-|.|||||.| +..++. .++......+||+.+|...
T Consensus 239 ~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t----~~~la~-~l~~~~~~~~vl~lvdR~~ 304 (667)
T TIGR00348 239 QRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLT----MLFAAR-KALELLKNPKVFFVVDRRE 304 (667)
T ss_pred hHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHH----HHHHHH-HHHhhcCCCeEEEEECcHH
Confidence 345699999988632 4689999999999999 444442 1222234678999999986
No 173
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=94.78 E-value=0.022 Score=61.84 Aligned_cols=53 Identities=13% Similarity=0.068 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 136 RSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
...++.|..++. +.+.+|+||||+||||- +..++. ........+|+++-|--.
T Consensus 69 ~~~~~~Il~~l~~~~vvii~g~TGSGKTTq----lPq~ll--e~~~~~~~~I~~tQPRRl 122 (1283)
T TIGR01967 69 SAKREDIAEAIAENQVVIIAGETGSGKTTQ----LPKICL--ELGRGSHGLIGHTQPRRL 122 (1283)
T ss_pred HHHHHHHHHHHHhCceEEEeCCCCCCcHHH----HHHHHH--HcCCCCCceEecCCccHH
Confidence 446788888886 58999999999999998 565552 222222347888878554
No 174
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.75 E-value=0.01 Score=55.30 Aligned_cols=38 Identities=13% Similarity=0.086 Sum_probs=24.8
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN~ 194 (266)
+.++-||||.||||| ++.+. ..+.. .+.+|+ +++.+.+
T Consensus 116 vi~lvGpnGsGKTTt----~~kLA--~~l~~-~g~~V~Li~~D~~r 154 (318)
T PRK10416 116 VILVVGVNGVGKTTT----IGKLA--HKYKA-QGKKVLLAAGDTFR 154 (318)
T ss_pred EEEEECCCCCcHHHH----HHHHH--HHHHh-cCCeEEEEecCccc
Confidence 456789999999999 55555 22332 456666 5556544
No 175
>PRK05973 replicative DNA helicase; Provisional
Probab=94.75 E-value=0.011 Score=52.85 Aligned_cols=17 Identities=18% Similarity=0.135 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..+++|.|+||+|||+.
T Consensus 64 Gsl~LIaG~PG~GKT~l 80 (237)
T PRK05973 64 GDLVLLGARPGHGKTLL 80 (237)
T ss_pred CCEEEEEeCCCCCHHHH
Confidence 36899999999999999
No 176
>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=94.70 E-value=0.01 Score=50.29 Aligned_cols=21 Identities=14% Similarity=0.121 Sum_probs=17.0
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
|+++|.|.+|+||||+ +..++
T Consensus 1 Pv~ii~GfLGsGKTTl----i~~ll 21 (178)
T PF02492_consen 1 PVIIITGFLGSGKTTL----INHLL 21 (178)
T ss_dssp -EEEEEESTTSSHHHH----HHHHH
T ss_pred CEEEEEcCCCCCHHHH----HHHHH
Confidence 6789999999999999 45444
No 177
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.68 E-value=0.024 Score=55.68 Aligned_cols=32 Identities=16% Similarity=0.198 Sum_probs=28.9
Q ss_pred CCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceE
Q psy4476 133 DLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtT 164 (266)
.+++.|.+.+..++.+ .+.|++||-|.|||||
T Consensus 241 g~~~~~~~~~~~~~~~p~GliLvTGPTGSGKTTT 274 (500)
T COG2804 241 GMSPFQLARLLRLLNRPQGLILVTGPTGSGKTTT 274 (500)
T ss_pred CCCHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHH
Confidence 4588999999999986 5889999999999999
No 178
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=94.65 E-value=0.015 Score=51.61 Aligned_cols=40 Identities=13% Similarity=0.042 Sum_probs=26.4
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..+.+|.||||||||+. ...++ +...+ ++.+++..+....
T Consensus 24 g~~~~i~G~~G~GKTtl----~~~~~--~~~~~-~g~~~~yi~~e~~ 63 (230)
T PRK08533 24 GSLILIEGDESTGKSIL----SQRLA--YGFLQ-NGYSVSYVSTQLT 63 (230)
T ss_pred CcEEEEECCCCCCHHHH----HHHHH--HHHHh-CCCcEEEEeCCCC
Confidence 46899999999999999 44444 22323 4566665555544
No 179
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=94.63 E-value=0.013 Score=57.06 Aligned_cols=38 Identities=5% Similarity=0.010 Sum_probs=24.6
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN~ 194 (266)
+.++.||||+||||| ++.+.. .+.+ .+.+|+ |++.+.+
T Consensus 97 vI~lvG~~GsGKTTt----aakLA~--~L~~-~g~kV~lV~~D~~R 135 (437)
T PRK00771 97 TIMLVGLQGSGKTTT----AAKLAR--YFKK-KGLKVGLVAADTYR 135 (437)
T ss_pred EEEEECCCCCcHHHH----HHHHHH--HHHH-cCCeEEEecCCCCC
Confidence 457899999999999 555552 3333 455655 5555544
No 180
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=94.62 E-value=0.015 Score=59.88 Aligned_cols=16 Identities=6% Similarity=-0.095 Sum_probs=14.1
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+-.+|+|||||||||+
T Consensus 53 ~slLL~GPpGtGKTTL 68 (725)
T PRK13341 53 GSLILYGPPGVGKTTL 68 (725)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3468899999999999
No 181
>KOG1801|consensus
Probab=94.62 E-value=0.028 Score=58.85 Aligned_cols=58 Identities=19% Similarity=0.072 Sum_probs=45.3
Q ss_pred CCCCCHHHHHHHHHHHh-------CCCeEEEcCCCC--CcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 131 LPDLNRSQVYAVKHAIQ-------RPLSLIQGMNQR--SNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~-------~~~tLIqGPPGT--GKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
...|+.+|..++...+. .++.+|+||||| |||.| ++.+.. .+. ....++++|+|||.+
T Consensus 224 ~~~l~~~~~~~~~~~l~~~~~~~~~~~~~v~~~~~~~~~~~~t----~~~~~~--~~~-~~~~~~~~~s~~~~~ 290 (827)
T KOG1801|consen 224 FTKLSRDQEPLIRGVLSQRNCEWEVSISLVVGRPGTASGKFKT----VAQLLN--VLL-GLDCQMLVCSLSNSN 290 (827)
T ss_pred hcccchhhHHHHhhccCccccccccceeeeeCCCCccccceec----cchHHH--HHH-hcccceeEeeccccc
Confidence 45799999899888884 268999999999 99999 555542 222 245789999999994
No 182
>PRK08939 primosomal protein DnaI; Reviewed
Probab=94.60 E-value=0.0088 Score=55.46 Aligned_cols=43 Identities=21% Similarity=0.134 Sum_probs=29.2
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCce-EecCCCCcccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSN-LNHRPSGANKLSQ 199 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~ki-LvcAPSN~arl~~ 199 (266)
-.+|+||||||||+. +.+|.+ .+.+ .+.++ .+.+|+=...++.
T Consensus 158 gl~L~G~~G~GKThL----a~Aia~--~l~~-~g~~v~~~~~~~l~~~lk~ 201 (306)
T PRK08939 158 GLYLYGDFGVGKSYL----LAAIAN--ELAK-KGVSSTLLHFPEFIRELKN 201 (306)
T ss_pred eEEEECCCCCCHHHH----HHHHHH--HHHH-cCCCEEEEEHHHHHHHHHH
Confidence 368999999999999 677774 3333 34554 4667755555555
No 183
>PRK04328 hypothetical protein; Provisional
Probab=94.59 E-value=0.013 Score=52.50 Aligned_cols=36 Identities=11% Similarity=0.084 Sum_probs=23.5
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
..++||.||||||||+. ...++. ...+ .+.+++.++
T Consensus 23 gs~ili~G~pGsGKT~l----~~~fl~--~~~~-~ge~~lyis 58 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIF----SQQFLW--NGLQ-MGEPGVYVA 58 (249)
T ss_pred CcEEEEEcCCCCCHHHH----HHHHHH--HHHh-cCCcEEEEE
Confidence 35789999999999998 444442 2122 355665554
No 184
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.59 E-value=0.015 Score=57.49 Aligned_cols=14 Identities=14% Similarity=0.081 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|++|||||||||+
T Consensus 39 ~Lf~GppGtGKTTl 52 (504)
T PRK14963 39 YLFSGPRGVGKTTT 52 (504)
T ss_pred EEEECCCCCCHHHH
Confidence 39999999999999
No 185
>KOG0741|consensus
Probab=94.57 E-value=0.012 Score=58.22 Aligned_cols=14 Identities=21% Similarity=0.176 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+.||||||||..
T Consensus 259 iLLyGPPGTGKTLi 272 (744)
T KOG0741|consen 259 ILLYGPPGTGKTLI 272 (744)
T ss_pred EEEECCCCCChhHH
Confidence 48899999999988
No 186
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=94.57 E-value=0.034 Score=56.15 Aligned_cols=53 Identities=9% Similarity=-0.070 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..+.+.|++|+..++...=.++..|.|+|||.+- .+. .+. ....++|.+|+-+
T Consensus 24 ~~~r~~Q~~ai~~il~g~dvlv~apTGsGKTl~y------~lp--al~--~~g~tlVisPl~s 76 (607)
T PRK11057 24 QQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCY------QIP--ALV--LDGLTLVVSPLIS 76 (607)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCchHHHHH------HHH--HHH--cCCCEEEEecHHH
Confidence 4677999999999998877899999999999761 121 121 2356888888765
No 187
>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=94.54 E-value=0.0097 Score=49.90 Aligned_cols=16 Identities=19% Similarity=0.285 Sum_probs=14.8
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
++.+|.||||+||||.
T Consensus 4 ~ii~i~G~~GsGKsTl 19 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQ 19 (188)
T ss_pred cEEEEECCCCCCHHHH
Confidence 6788999999999999
No 188
>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=94.53 E-value=0.013 Score=50.42 Aligned_cols=16 Identities=13% Similarity=0.046 Sum_probs=15.1
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+++|.||||+|||+.
T Consensus 13 ~i~~i~G~~GsGKT~l 28 (209)
T TIGR02237 13 TITQIYGPPGSGKTNI 28 (209)
T ss_pred eEEEEECCCCCCHHHH
Confidence 5789999999999999
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=94.52 E-value=0.0083 Score=50.83 Aligned_cols=15 Identities=13% Similarity=-0.009 Sum_probs=12.4
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.+|+|+||+||||.+
T Consensus 2 i~iTG~pG~GKTTll 16 (168)
T PF03266_consen 2 IFITGPPGVGKTTLL 16 (168)
T ss_dssp EEEES-TTSSHHHHH
T ss_pred EEEECcCCCCHHHHH
Confidence 379999999999994
No 190
>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=94.52 E-value=0.017 Score=42.20 Aligned_cols=33 Identities=18% Similarity=0.172 Sum_probs=23.8
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
.+|.|.+|+||||+ ...+. ..+.+ .+.++++..
T Consensus 2 ~~~~g~~G~Gktt~----~~~l~--~~l~~-~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTL----AANLA--AALAK-RGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHH----HHHHH--HHHHH-CCCeEEEEC
Confidence 57889999999999 55555 34443 467777766
No 191
>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=94.52 E-value=0.022 Score=52.90 Aligned_cols=30 Identities=20% Similarity=0.177 Sum_probs=22.9
Q ss_pred CHHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 135 NRSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 135 N~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
++...+.+..++.+ +..|++||||+|||++
T Consensus 19 ~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~ 52 (355)
T TIGR02397 19 QEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSI 52 (355)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 46666677766653 2468999999999999
No 192
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.50 E-value=0.022 Score=55.97 Aligned_cols=24 Identities=13% Similarity=0.182 Sum_probs=17.9
Q ss_pred HHHHHHhC-CC---eEEEcCCCCCcceE
Q psy4476 141 AVKHAIQR-PL---SLIQGMNQRSNGLH 164 (266)
Q Consensus 141 AV~~aL~~-~~---tLIqGPPGTGKTtT 164 (266)
.++.++.+ ++ .|++|||||||||+
T Consensus 29 ~L~~~i~~~ri~ha~Lf~GP~GtGKTTl 56 (484)
T PRK14956 29 ALQNALKSGKIGHAYIFFGPRGVGKTTI 56 (484)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34455543 33 59999999999999
No 193
>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=94.50 E-value=0.015 Score=54.67 Aligned_cols=22 Identities=23% Similarity=0.188 Sum_probs=19.0
Q ss_pred CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.+.+|.||+|.||||| +.+++
T Consensus 122 ~g~ili~G~tGSGKTT~----l~al~ 143 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTT----LASMI 143 (343)
T ss_pred CcEEEEECCCCCCHHHH----HHHHH
Confidence 47899999999999999 66666
No 194
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=94.46 E-value=0.025 Score=52.06 Aligned_cols=16 Identities=13% Similarity=-0.047 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+-.|+.||||.||||.
T Consensus 53 DHvLl~GPPGlGKTTL 68 (332)
T COG2255 53 DHVLLFGPPGLGKTTL 68 (332)
T ss_pred CeEEeeCCCCCcHHHH
Confidence 4589999999999998
No 195
>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=94.43 E-value=0.028 Score=53.55 Aligned_cols=23 Identities=26% Similarity=0.193 Sum_probs=19.5
Q ss_pred hCCCeEEEcCCCCCcceEeCccccccc
Q psy4476 147 QRPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 147 ~~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.+.||.||+|+||||+ +.+++
T Consensus 148 ~~GlilI~G~TGSGKTT~----l~al~ 170 (372)
T TIGR02525 148 AAGLGLICGETGSGKSTL----AASIY 170 (372)
T ss_pred cCCEEEEECCCCCCHHHH----HHHHH
Confidence 357899999999999999 66665
No 196
>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=94.42 E-value=0.015 Score=45.23 Aligned_cols=14 Identities=14% Similarity=-0.019 Sum_probs=12.7
Q ss_pred EEEcCCCCCcceEe
Q psy4476 152 LIQGMNQRSNGLHH 165 (266)
Q Consensus 152 LIqGPPGTGKTtTi 165 (266)
.|+||||+|||+.+
T Consensus 2 ~i~G~~G~GKS~l~ 15 (107)
T PF00910_consen 2 WIYGPPGIGKSTLA 15 (107)
T ss_pred EEECCCCCCHHHHH
Confidence 58999999999994
No 197
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=94.41 E-value=0.007 Score=50.18 Aligned_cols=13 Identities=15% Similarity=0.128 Sum_probs=10.5
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
+|.|+|||||||+
T Consensus 3 ~i~G~~stGKTTL 15 (163)
T PF13521_consen 3 VITGGPSTGKTTL 15 (163)
T ss_dssp EEE--TTSHHHHH
T ss_pred EEECCCCCCHHHH
Confidence 7999999999999
No 198
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=94.41 E-value=0.03 Score=54.45 Aligned_cols=35 Identities=14% Similarity=-0.055 Sum_probs=22.3
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
-.+|+||||+|||+. +.+|.+ .......+.+++..
T Consensus 132 ~l~lyG~~G~GKTHL----l~ai~~-~l~~~~~~~~v~yi 166 (440)
T PRK14088 132 PLFIYGGVGLGKTHL----LQSIGN-YVVQNEPDLRVMYI 166 (440)
T ss_pred eEEEEcCCCCcHHHH----HHHHHH-HHHHhCCCCeEEEE
Confidence 479999999999999 555653 22111123466644
No 199
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=94.41 E-value=0.018 Score=53.93 Aligned_cols=35 Identities=20% Similarity=0.112 Sum_probs=24.5
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRP 191 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAP 191 (266)
+.|+-|-.||||||| ++.|.+ .+. ..+++|++.|-
T Consensus 141 Vil~vGVNG~GKTTT----IaKLA~--~l~-~~g~~VllaA~ 175 (340)
T COG0552 141 VILFVGVNGVGKTTT----IAKLAK--YLK-QQGKSVLLAAG 175 (340)
T ss_pred EEEEEecCCCchHhH----HHHHHH--HHH-HCCCeEEEEec
Confidence 457899999999999 666663 223 35677665553
No 200
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.41 E-value=0.015 Score=53.20 Aligned_cols=38 Identities=11% Similarity=-0.108 Sum_probs=23.8
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhc-cCCceE-ecCCCC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL-RNKSNL-NHRPSG 193 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~-~~~kiL-vcAPSN 193 (266)
+.+|.||+|+||||| ++.+.. .+... ++.+|. +++.+-
T Consensus 196 vi~~vGptGvGKTTt----~~kLa~--~~~~~~g~~~V~li~~D~~ 235 (282)
T TIGR03499 196 VIALVGPTGVGKTTT----LAKLAA--RFVLEHGNKKVALITTDTY 235 (282)
T ss_pred EEEEECCCCCCHHHH----HHHHHH--HHHHHcCCCeEEEEECCcc
Confidence 567889999999999 555552 23222 235655 555553
No 201
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=94.39 E-value=0.012 Score=53.73 Aligned_cols=14 Identities=14% Similarity=0.145 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|..||||||||.+
T Consensus 154 VLFyGppGTGKTm~ 167 (368)
T COG1223 154 VLFYGPPGTGKTMM 167 (368)
T ss_pred eEEECCCCccHHHH
Confidence 57899999999999
No 202
>KOG0987|consensus
Probab=94.37 E-value=0.062 Score=53.66 Aligned_cols=60 Identities=20% Similarity=0.137 Sum_probs=40.9
Q ss_pred CCCCHHHHHHHH---HHHh-C--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcccccc
Q psy4476 132 PDLNRSQVYAVK---HAIQ-R--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGANKLSQ 199 (266)
Q Consensus 132 ~~LN~sQ~~AV~---~aL~-~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~arl~~ 199 (266)
..||++|+.... .++. . ++.. .|++|||||.. ...++. .+ +.++.++++.|+|+.|.+-.
T Consensus 116 ~~l~~eqk~v~d~~~~~v~~~~g~~ff-~g~~gtgKt~l----~~t~~~--~~-~~~g~~~~~v~~s~ia~~~l 181 (540)
T KOG0987|consen 116 KKLTPEQKRVYDAILEAVENNLGGVFF-YGFGGTGKTYL----LKTLIA--AL-RSRGKIVLNVASSGIAALLL 181 (540)
T ss_pred hhcCHHHHHHHHHHHHHHhccccceee-eccCCccceee----HHHHHH--HH-hcCCceEEEeeecchhhhhc
Confidence 469999996655 2332 2 4555 89999999999 555552 22 23477888889999864444
No 203
>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=94.35 E-value=0.016 Score=63.19 Aligned_cols=56 Identities=9% Similarity=-0.149 Sum_probs=39.4
Q ss_pred CCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 134 LNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 134 LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
+++.|++||.. ...-.||.+++|||||+|+++.+..++ .......+||+.+=||+|
T Consensus 2 ~t~~Q~~ai~~--~~~~~lv~A~AGsGKT~~lv~r~~~~~----~~~~~~~~il~~tFt~~a 57 (1232)
T TIGR02785 2 WTDEQWQAIYT--RGQNILVSASAGSGKTAVLVERIIKKI----LRGVDIDRLLVVTFTNAA 57 (1232)
T ss_pred CCHHHHHHHhC--CCCCEEEEecCCCcHHHHHHHHHHHHH----hcCCCHhhEEEEeccHHH
Confidence 67999999983 345679999999999999644322211 111123579999999985
No 204
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.34 E-value=0.016 Score=56.15 Aligned_cols=20 Identities=10% Similarity=0.077 Sum_probs=16.2
Q ss_pred CeEEEcCCCCCcceEeCccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.+|.||+|+||||| ++.+.
T Consensus 225 vi~lvGptGvGKTTt----aaKLA 244 (432)
T PRK12724 225 VVFFVGPTGSGKTTS----IAKLA 244 (432)
T ss_pred EEEEECCCCCCHHHH----HHHHH
Confidence 467899999999999 55554
No 205
>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=94.34 E-value=0.028 Score=49.43 Aligned_cols=21 Identities=14% Similarity=0.020 Sum_probs=17.6
Q ss_pred CeEEEcCCCCCcceEeCcccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
..+|+||+|+|||+. +.+|.+
T Consensus 36 ~l~l~G~~G~GKTHL----L~Ai~~ 56 (219)
T PF00308_consen 36 PLFLYGPSGLGKTHL----LQAIAN 56 (219)
T ss_dssp EEEEEESTTSSHHHH----HHHHHH
T ss_pred ceEEECCCCCCHHHH----HHHHHH
Confidence 468999999999998 667764
No 206
>PHA02624 large T antigen; Provisional
Probab=94.33 E-value=0.025 Score=56.96 Aligned_cols=30 Identities=17% Similarity=0.132 Sum_probs=22.3
Q ss_pred HHHHHHHh----CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 140 YAVKHAIQ----RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 140 ~AV~~aL~----~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.|++..+. ++..||.||||||||+. +.+|+
T Consensus 419 ~~lk~~l~giPKk~~il~~GPpnTGKTtf----~~sLl 452 (647)
T PHA02624 419 DILKLIVENVPKRRYWLFKGPVNSGKTTL----AAALL 452 (647)
T ss_pred HHHHHHHhcCCCCeEEEEECCCCCCHHHH----HHHHH
Confidence 44444443 35889999999999999 66666
No 207
>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=94.32 E-value=0.015 Score=57.05 Aligned_cols=17 Identities=18% Similarity=0.286 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..++||.||||||||+.
T Consensus 21 g~~~Li~G~pGsGKT~l 37 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLF 37 (484)
T ss_pred CeEEEEEcCCCCCHHHH
Confidence 35789999999999999
No 208
>KOG1970|consensus
Probab=94.26 E-value=0.014 Score=57.82 Aligned_cols=19 Identities=11% Similarity=0.139 Sum_probs=16.9
Q ss_pred CCCeEEEcCCCCCcceEeC
Q psy4476 148 RPLSLIQGMNQRSNGLHHQ 166 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv 166 (266)
+.+.||+||+|.||||||-
T Consensus 110 ~~iLLltGPsGcGKSTtvk 128 (634)
T KOG1970|consen 110 SRILLLTGPSGCGKSTTVK 128 (634)
T ss_pred ceEEEEeCCCCCCchhHHH
Confidence 4689999999999999953
No 209
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=94.25 E-value=0.033 Score=54.09 Aligned_cols=21 Identities=24% Similarity=0.059 Sum_probs=17.2
Q ss_pred CeEEEcCCCCCcceEeCcccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
..+|+||||||||+. +.+|.+
T Consensus 150 ~l~l~G~~G~GKThL----~~ai~~ 170 (450)
T PRK00149 150 PLFIYGGVGLGKTHL----LHAIGN 170 (450)
T ss_pred eEEEECCCCCCHHHH----HHHHHH
Confidence 478999999999999 555653
No 210
>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=94.20 E-value=0.018 Score=55.87 Aligned_cols=38 Identities=5% Similarity=-0.001 Sum_probs=25.5
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN~ 194 (266)
+.++.||||+||||| ++.+.. .+.+ .+.+|+ |++-+.+
T Consensus 102 vi~lvG~~GvGKTTt----aaKLA~--~l~~-~G~kV~lV~~D~~R 140 (429)
T TIGR01425 102 VIMFVGLQGSGKTTT----CTKLAY--YYQR-KGFKPCLVCADTFR 140 (429)
T ss_pred EEEEECCCCCCHHHH----HHHHHH--HHHH-CCCCEEEEcCcccc
Confidence 557899999999999 555552 2333 455654 6666655
No 211
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=94.16 E-value=0.022 Score=56.47 Aligned_cols=15 Identities=13% Similarity=0.124 Sum_probs=14.0
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..|++|||||||||+
T Consensus 45 a~Lf~Gp~G~GKTT~ 59 (507)
T PRK06645 45 GYLLTGIRGVGKTTS 59 (507)
T ss_pred eEEEECCCCCCHHHH
Confidence 578999999999999
No 212
>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=94.16 E-value=0.027 Score=49.94 Aligned_cols=16 Identities=19% Similarity=0.150 Sum_probs=14.7
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
...||.|+|||||||.
T Consensus 13 ~~~liyG~~G~GKtt~ 28 (220)
T TIGR01618 13 NMYLIYGKPGTGKTST 28 (220)
T ss_pred cEEEEECCCCCCHHHH
Confidence 4689999999999999
No 213
>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=94.15 E-value=0.018 Score=55.04 Aligned_cols=21 Identities=24% Similarity=0.059 Sum_probs=17.1
Q ss_pred CeEEEcCCCCCcceEeCcccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
..+|+||||||||+. +.+|.+
T Consensus 138 ~l~l~G~~G~GKThL----~~ai~~ 158 (405)
T TIGR00362 138 PLFIYGGVGLGKTHL----LHAIGN 158 (405)
T ss_pred eEEEECCCCCcHHHH----HHHHHH
Confidence 468999999999999 556653
No 214
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.13 E-value=0.02 Score=50.43 Aligned_cols=40 Identities=13% Similarity=0.106 Sum_probs=27.0
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..+.+|.||||||||+. ..+++. ...+ .+.+++...=...
T Consensus 25 g~~~~i~G~~GsGKt~l----~~~~~~--~~~~-~g~~~~y~~~e~~ 64 (234)
T PRK06067 25 PSLILIEGDHGTGKSVL----SQQFVY--GALK-QGKKVYVITTENT 64 (234)
T ss_pred CcEEEEECCCCCChHHH----HHHHHH--HHHh-CCCEEEEEEcCCC
Confidence 35789999999999999 555552 2222 4567776655554
No 215
>PRK14701 reverse gyrase; Provisional
Probab=94.13 E-value=0.035 Score=61.85 Aligned_cols=55 Identities=11% Similarity=-0.051 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+.+-|+.++..+++..-.++++|.|+|||+..+ +.++ ... ..+.++||.+||-.
T Consensus 79 ~pt~iQ~~~i~~il~G~d~li~APTGsGKTl~~~--~~al----~~~-~~g~~aLVl~PTre 133 (1638)
T PRK14701 79 EFWSIQKTWAKRILRGKSFSIVAPTGMGKSTFGA--FIAL----FLA-LKGKKCYIILPTTL 133 (1638)
T ss_pred CCCHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHH--HHHH----HHH-hcCCeEEEEECHHH
Confidence 4678999999999998778999999999999621 1111 111 24578999999976
No 216
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=94.12 E-value=0.012 Score=56.07 Aligned_cols=15 Identities=13% Similarity=0.153 Sum_probs=13.7
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..+|+||||||||..
T Consensus 150 gllL~GPPGcGKTll 164 (413)
T PLN00020 150 ILGIWGGKGQGKSFQ 164 (413)
T ss_pred EEEeeCCCCCCHHHH
Confidence 468999999999998
No 217
>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=94.12 E-value=0.018 Score=52.95 Aligned_cols=33 Identities=15% Similarity=0.044 Sum_probs=22.2
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEe
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLN 188 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLv 188 (266)
.+..|.||||+||||+ +..+. ..+.+ .+.++.+
T Consensus 35 ~~i~i~G~~G~GKttl----~~~l~--~~~~~-~~~~v~~ 67 (300)
T TIGR00750 35 HRVGITGTPGAGKSTL----LEALG--MELRR-RGLKVAV 67 (300)
T ss_pred eEEEEECCCCCCHHHH----HHHHH--HHHHH-CCCeEEE
Confidence 5678899999999999 55555 23333 3556544
No 218
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=94.11 E-value=0.019 Score=51.42 Aligned_cols=40 Identities=3% Similarity=-0.194 Sum_probs=26.6
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCC
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSG 193 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN 193 (266)
..+++|.||||+|||+. +.+++ .......+.+|+...--.
T Consensus 30 g~~~~i~g~~G~GKT~l----~~~~~--~~~~~~~g~~vl~iS~E~ 69 (271)
T cd01122 30 GELIILTAGTGVGKTTF----LREYA--LDLITQHGVRVGTISLEE 69 (271)
T ss_pred CcEEEEEcCCCCCHHHH----HHHHH--HHHHHhcCceEEEEEccc
Confidence 46899999999999999 44444 222222256777665433
No 219
>CHL00195 ycf46 Ycf46; Provisional
Probab=94.10 E-value=0.013 Score=57.75 Aligned_cols=14 Identities=21% Similarity=0.408 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+.||||||||.+
T Consensus 262 ILL~GPpGTGKTll 275 (489)
T CHL00195 262 LLLVGIQGTGKSLT 275 (489)
T ss_pred EEEECCCCCcHHHH
Confidence 68999999999998
No 220
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=94.10 E-value=0.017 Score=46.89 Aligned_cols=15 Identities=7% Similarity=0.248 Sum_probs=13.5
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+||||+
T Consensus 1 li~l~G~~GsGKST~ 15 (150)
T cd02021 1 IIVVMGVSGSGKSTV 15 (150)
T ss_pred CEEEEcCCCCCHHHH
Confidence 457899999999999
No 221
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.07 E-value=0.037 Score=51.47 Aligned_cols=51 Identities=10% Similarity=0.021 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 136 RSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+....++..|+. ..-.++-||||||||+. +..+. ..+. ......-|.|...
T Consensus 30 ~~~~~~~l~a~~~~~~vll~G~PG~gKT~l----a~~lA--~~l~--~~~~~i~~t~~l~ 81 (329)
T COG0714 30 EEVIELALLALLAGGHVLLEGPPGVGKTLL----ARALA--RALG--LPFVRIQCTPDLL 81 (329)
T ss_pred HHHHHHHHHHHHcCCCEEEECCCCccHHHH----HHHHH--HHhC--CCeEEEecCCCCC
Confidence 445555555554 57889999999999999 55444 2222 2345666777665
No 222
>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=94.06 E-value=0.0069 Score=65.48 Aligned_cols=85 Identities=13% Similarity=0.110 Sum_probs=52.8
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhc-cCCceEecCCCCc-----ccccc--c-ccccCccccccccccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL-RNKSNLNHRPSGA-----NKLSQ--G-HLSQGNNSQEITQPYSQVMS 220 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~-~~~kiLvcAPSN~-----arl~~--g-~~~~g~~~~~i~~~~~~~~~ 220 (266)
+-+|.|+||||||+++ +..|. +.+... .+.++.++-|+-. .|+.. | .-..+...-|+||+.+-|++
T Consensus 3 l~fi~G~aGSGKT~~l---~~ri~--~~l~~~~~~~~~illVPeq~TF~~e~rl~~~~~~~~~~~v~V~SF~rLa~~ilr 77 (1158)
T TIGR02773 3 LRFIYGRAGTGKSTFC---IDEIK--QKIKENPLGKPIILIVPDQMTFQMEQALLNDIELNGSLRAQVLSFSRLAWRVFQ 77 (1158)
T ss_pred eEEEEeCCCCChHHHH---HHHHH--HHHhhCCCCCcEEEEcCCcccHHHHHHHHHhccccCeEEEEEeeeHHHHHHHHH
Confidence 5689999999999996 34444 233221 2567777777765 35554 1 11223335689998877888
Q ss_pred CCCCcccCC-CCCCcceeee
Q psy4476 221 QGGGFSLSQ-ADLSQDSLMM 239 (266)
Q Consensus 221 ~~g~~~~~~-~~~~~d~~~~ 239 (266)
..||+.... .+..+..++.
T Consensus 78 ~~~~~~~~~ld~~g~~~ll~ 97 (1158)
T TIGR02773 78 ETGGLTRTFLTQAGKEMMIR 97 (1158)
T ss_pred HcCCcccccccHHHHHHHHH
Confidence 888766543 4444444443
No 223
>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=94.05 E-value=0.007 Score=49.39 Aligned_cols=15 Identities=13% Similarity=0.178 Sum_probs=10.5
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.||+|+||+|||+.+
T Consensus 2 vLleg~PG~GKT~la 16 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLA 16 (131)
T ss_dssp EEEES---HHHHHHH
T ss_pred EeeECCCccHHHHHH
Confidence 489999999999993
No 224
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=94.03 E-value=0.029 Score=45.56 Aligned_cols=13 Identities=8% Similarity=0.171 Sum_probs=11.8
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
-.+||||||||.+
T Consensus 57 SfHG~tGtGKn~v 69 (127)
T PF06309_consen 57 SFHGWTGTGKNFV 69 (127)
T ss_pred EeecCCCCcHHHH
Confidence 3699999999999
No 225
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=94.02 E-value=0.014 Score=52.88 Aligned_cols=37 Identities=19% Similarity=0.095 Sum_probs=22.3
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCc--eEecCCCCc
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKS--NLNHRPSGA 194 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~k--iLvcAPSN~ 194 (266)
-=|+||||.||+|. +.+++. .+.+ .++| ||.+=||-.
T Consensus 32 iGiTG~PGaGKSTl----i~~l~~--~~~~-~g~~VaVlAVDPSSp 70 (266)
T PF03308_consen 32 IGITGPPGAGKSTL----IDALIR--ELRE-RGKRVAVLAVDPSSP 70 (266)
T ss_dssp EEEEE-TTSSHHHH----HHHHHH--HHHH-TT--EEEEEE-GGGG
T ss_pred EEeeCCCCCcHHHH----HHHHHH--HHhh-cCCceEEEEECCCCC
Confidence 34799999999999 666663 3332 4556 666677743
No 226
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=94.02 E-value=0.011 Score=49.48 Aligned_cols=23 Identities=22% Similarity=0.157 Sum_probs=18.8
Q ss_pred hCCCeEEEcCCCCCcceEeCccccccc
Q psy4476 147 QRPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 147 ~~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
..++++|.||.||||||+ +.+|.
T Consensus 18 ~~g~~vi~G~Ng~GKSti----l~ai~ 40 (202)
T PF13476_consen 18 SPGLNVIYGPNGSGKSTI----LEAIR 40 (202)
T ss_dssp -SEEEEEEESTTSSHHHH----HHHHH
T ss_pred CCCcEEEECCCCCCHHHH----HHHHH
Confidence 457899999999999999 55554
No 227
>PHA02244 ATPase-like protein
Probab=94.02 E-value=0.029 Score=53.53 Aligned_cols=27 Identities=4% Similarity=0.057 Sum_probs=19.6
Q ss_pred HHHHHHHHHhC-CCeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR-PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~-~~tLIqGPPGTGKTtT 164 (266)
....+..++.. .-.+|.||||||||+.
T Consensus 108 ~~~ri~r~l~~~~PVLL~GppGtGKTtL 135 (383)
T PHA02244 108 ETADIAKIVNANIPVFLKGGAGSGKNHI 135 (383)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCCHHHH
Confidence 34455555654 3468899999999999
No 228
>PRK05642 DNA replication initiation factor; Validated
Probab=93.97 E-value=0.023 Score=50.38 Aligned_cols=21 Identities=10% Similarity=-0.037 Sum_probs=17.1
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+..+|+||+|||||+. +.+|.
T Consensus 46 ~~l~l~G~~G~GKTHL----l~a~~ 66 (234)
T PRK05642 46 SLIYLWGKDGVGRSHL----LQAAC 66 (234)
T ss_pred CeEEEECCCCCCHHHH----HHHHH
Confidence 4578999999999999 55555
No 229
>PRK14531 adenylate kinase; Provisional
Probab=93.91 E-value=0.021 Score=48.42 Aligned_cols=14 Identities=21% Similarity=0.256 Sum_probs=13.1
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 5 i~i~G~pGsGKsT~ 18 (183)
T PRK14531 5 LLFLGPPGAGKGTQ 18 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999999
No 230
>KOG3347|consensus
Probab=93.91 E-value=0.022 Score=47.87 Aligned_cols=16 Identities=19% Similarity=0.256 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
|=-||+|-|||||||+
T Consensus 8 PNILvtGTPG~GKstl 23 (176)
T KOG3347|consen 8 PNILVTGTPGTGKSTL 23 (176)
T ss_pred CCEEEeCCCCCCchhH
Confidence 5569999999999999
No 231
>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=93.89 E-value=0.021 Score=55.48 Aligned_cols=40 Identities=10% Similarity=0.035 Sum_probs=26.0
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCce-EecCCCCcc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSN-LNHRPSGAN 195 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~ki-LvcAPSN~a 195 (266)
+.++.||||+||||| ++.+.. .+....+.+| +|++.+.+.
T Consensus 101 vi~~vG~~GsGKTTt----aakLA~--~l~~~~g~kV~lV~~D~~R~ 141 (428)
T TIGR00959 101 VILMVGLQGSGKTTT----CGKLAY--YLKKKQGKKVLLVACDLYRP 141 (428)
T ss_pred EEEEECCCCCcHHHH----HHHHHH--HHHHhCCCeEEEEeccccch
Confidence 567899999999999 555542 2221234554 577776663
No 232
>PF13173 AAA_14: AAA domain
Probab=93.85 E-value=0.017 Score=46.04 Aligned_cols=17 Identities=12% Similarity=0.180 Sum_probs=15.8
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
+++.+|.||.|+||||.
T Consensus 2 ~~~~~l~G~R~vGKTtl 18 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTL 18 (128)
T ss_pred CCeEEEECCCCCCHHHH
Confidence 47889999999999999
No 233
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=93.84 E-value=0.056 Score=55.66 Aligned_cols=57 Identities=19% Similarity=0.061 Sum_probs=43.5
Q ss_pred CCCCCHHHHHHHHHHHhC----CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQR----PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+.||..|..|+..+..+ ..+|++|-+|.|||-+ -..++. ..+. .++.+|+--|-=+
T Consensus 196 ~~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEv----Yl~~i~-~~L~--~GkqvLvLVPEI~ 256 (730)
T COG1198 196 WLALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEV----YLEAIA-KVLA--QGKQVLVLVPEIA 256 (730)
T ss_pred ccccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHH----HHHHHH-HHHH--cCCEEEEEecccc
Confidence 468999999999999865 6789999999999988 333331 1222 4688999888654
No 234
>KOG0738|consensus
Probab=93.84 E-value=0.024 Score=54.25 Aligned_cols=15 Identities=20% Similarity=0.089 Sum_probs=13.0
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
=.|..||||||||..
T Consensus 247 gvLm~GPPGTGKTlL 261 (491)
T KOG0738|consen 247 GVLMVGPPGTGKTLL 261 (491)
T ss_pred eeeeeCCCCCcHHHH
Confidence 368899999999976
No 235
>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=93.79 E-value=0.015 Score=50.45 Aligned_cols=15 Identities=7% Similarity=0.149 Sum_probs=13.3
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.+|+|+||.||||.|
T Consensus 1 ~vv~G~pGsGKSt~i 15 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLI 15 (234)
T ss_pred CEEEcCCCCCHHHHH
Confidence 379999999999993
No 236
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=93.77 E-value=0.027 Score=50.62 Aligned_cols=40 Identities=20% Similarity=0.047 Sum_probs=27.0
Q ss_pred eEEEcCCCCCcceEeCcccccccc--chhhhhccCCceEecCCCCc
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGN--SANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~--~~~~~~~~~~kiLvcAPSN~ 194 (266)
+||-||||+||||. +..|.. +.-++.+..+||-+.--+|-
T Consensus 140 tLiigpP~~GKTTl----LRdiaR~~s~g~~~~l~kkv~IiDersE 181 (308)
T COG3854 140 TLIIGPPQVGKTTL----LRDIARLLSDGINQFLPKKVGIIDERSE 181 (308)
T ss_pred eEEecCCCCChHHH----HHHHHHHhhccccccCCceEEEEeccch
Confidence 89999999999999 444431 12233446678777766654
No 237
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.75 E-value=0.025 Score=54.79 Aligned_cols=39 Identities=10% Similarity=-0.060 Sum_probs=24.6
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhh-hccCCce-EecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTN-RLRNKSN-LNHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~-~~~~~ki-LvcAPSN~ 194 (266)
+.++.||+|+||||| ++.|.. .+. ...+.+| ++++.+.+
T Consensus 223 ~i~~vGptGvGKTTt----~~kLA~--~~~~~~~g~~V~li~~D~~r 263 (424)
T PRK05703 223 VVALVGPTGVGKTTT----LAKLAA--RYALLYGKKKVALITLDTYR 263 (424)
T ss_pred EEEEECCCCCCHHHH----HHHHHH--HHHHhcCCCeEEEEECCccH
Confidence 567889999999999 555542 222 2234554 46666654
No 238
>PRK13768 GTPase; Provisional
Probab=93.75 E-value=0.023 Score=51.08 Aligned_cols=32 Identities=3% Similarity=-0.028 Sum_probs=21.7
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEe
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLN 188 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLv 188 (266)
+.+|.||+|+||||+ +..+. ..+.. .+.++++
T Consensus 4 ~i~v~G~~G~GKTt~----~~~~~--~~l~~-~g~~v~~ 35 (253)
T PRK13768 4 IVFFLGTAGSGKTTL----TKALS--DWLEE-QGYDVAI 35 (253)
T ss_pred EEEEECCCCccHHHH----HHHHH--HHHHh-cCCceEE
Confidence 568999999999999 44444 22332 4567665
No 239
>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=93.74 E-value=0.077 Score=53.26 Aligned_cols=53 Identities=11% Similarity=-0.035 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..+++.|.+|+..++...=.++.-|.|+|||.+- .+. .+. ....++|.+|+-+
T Consensus 12 ~~fr~~Q~~~i~~il~g~dvlv~~PTG~GKTl~y------~lp--al~--~~g~~lVisPl~s 64 (591)
T TIGR01389 12 DDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCY------QVP--ALL--LKGLTVVISPLIS 64 (591)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEEcCCCccHhHHH------HHH--HHH--cCCcEEEEcCCHH
Confidence 4688999999999998777899999999999882 121 111 3456788889875
No 240
>PHA00547 hypothetical protein
Probab=93.74 E-value=0.051 Score=49.59 Aligned_cols=29 Identities=24% Similarity=0.226 Sum_probs=22.7
Q ss_pred HHHHHHHHHHhCCCeEEEcCCCCCcceEe
Q psy4476 137 SQVYAVKHAIQRPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 137 sQ~~AV~~aL~~~~tLIqGPPGTGKTtTi 165 (266)
.|.+-|+.+-++|+++|+||-|||||+.+
T Consensus 64 ~~~k~VK~ik~spis~i~G~LGsGKTlLM 92 (337)
T PHA00547 64 NAFRLVNFIWDNPLSVIIGKLGTGKTLLL 92 (337)
T ss_pred HHHHHHHHHhcCCceEEeccCCCchhHHH
Confidence 34444555567899999999999999983
No 241
>KOG0731|consensus
Probab=93.74 E-value=0.027 Score=57.96 Aligned_cols=15 Identities=20% Similarity=0.175 Sum_probs=13.5
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.|+.||||||||...
T Consensus 347 vLL~GPPGTGKTLLA 361 (774)
T KOG0731|consen 347 VLLVGPPGTGKTLLA 361 (774)
T ss_pred eEEECCCCCcHHHHH
Confidence 699999999999873
No 242
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=93.71 E-value=0.055 Score=50.80 Aligned_cols=31 Identities=13% Similarity=0.071 Sum_probs=22.9
Q ss_pred HHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 139 VYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 139 ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.++.|+. +.-.+|.||+|+||||+ +.+++
T Consensus 150 ~~~L~~~v~~~~nili~G~tgSGKTTl----l~aL~ 181 (332)
T PRK13900 150 KEFLEHAVISKKNIIISGGTSTGKTTF----TNAAL 181 (332)
T ss_pred HHHHHHHHHcCCcEEEECCCCCCHHHH----HHHHH
Confidence 345555555 46789999999999999 55555
No 243
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=93.71 E-value=0.045 Score=44.79 Aligned_cols=34 Identities=12% Similarity=0.072 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHh-----CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 136 RSQVYAVKHAIQ-----RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 136 ~sQ~~AV~~aL~-----~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.+-+++...+. ..+.++.|+.|+||||. +.+++
T Consensus 5 ~~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl----~~~l~ 43 (133)
T TIGR00150 5 EKAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTL----VQGLL 43 (133)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHH----HHHHH
Confidence 344444444443 35788999999999999 55555
No 244
>KOG1533|consensus
Probab=93.70 E-value=0.04 Score=49.54 Aligned_cols=37 Identities=11% Similarity=0.159 Sum_probs=23.0
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCc--eEecCCCCc
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKS--NLNHRPSGA 194 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~k--iLvcAPSN~ 194 (266)
-+|.||||.||||- ..+.. +.+.. .+.+ |..--|-|-
T Consensus 5 qvVIGPPgSGKsTY----c~g~~--~fls~-~gr~~~vVNLDPaNd 43 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTY----CNGMS--QFLSA-IGRPVAVVNLDPAND 43 (290)
T ss_pred eEEEcCCCCCccch----hhhHH--HHHHH-hCCceEEEecCCccc
Confidence 37899999999999 44433 22322 3333 455566665
No 245
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=93.69 E-value=0.041 Score=60.93 Aligned_cols=71 Identities=15% Similarity=0.067 Sum_probs=54.7
Q ss_pred CCCHHHHHHHHHHHhC--CCeEEEcCCC-CCcceEeCccccccccchhhhhccCCceEecCCCCcc--cccccccccCcc
Q psy4476 133 DLNRSQVYAVKHAIQR--PLSLIQGMNQ-RSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN--KLSQGHLSQGNN 207 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~--~~tLIqGPPG-TGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a--rl~~g~~~~g~~ 207 (266)
.+|..|..||..+|.. .|.+|.|.=| ||||++ +.+++. .....+.+|.+-||++.+ -|.+ ..|..
T Consensus 281 ~~~~~q~~Av~~il~dr~~v~iv~~~GgAtGKtt~----l~~l~~---~a~~~G~~V~~lApt~~a~~~L~e---~~gi~ 350 (1623)
T PRK14712 281 PRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRER----VAELVM---MAREQGREVQIIAADRRSQMNLKQ---DERLS 350 (1623)
T ss_pred ccchhHHHHHHHHhcCCCceEEEEecccccccHHH----HHHHHH---HHHhCCcEEEEEeCCHHHHHHHHh---ccCCC
Confidence 4788999999999974 4667766666 999999 555552 233368899999999984 5666 67889
Q ss_pred cccccc
Q psy4476 208 SQEITQ 213 (266)
Q Consensus 208 ~~~i~~ 213 (266)
+.|+++
T Consensus 351 a~Tva~ 356 (1623)
T PRK14712 351 GELITG 356 (1623)
T ss_pred chhhhh
Confidence 999996
No 246
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.67 E-value=0.039 Score=52.82 Aligned_cols=28 Identities=4% Similarity=0.167 Sum_probs=19.8
Q ss_pred HHHHHHHHHHhC-CC---eEEEcCCCCCcceE
Q psy4476 137 SQVYAVKHAIQR-PL---SLIQGMNQRSNGLH 164 (266)
Q Consensus 137 sQ~~AV~~aL~~-~~---tLIqGPPGTGKTtT 164 (266)
.-++.+..++.+ ++ .|++||||+||||+
T Consensus 23 ~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~ 54 (397)
T PRK14955 23 HITRTIQNSLRMGRVGHGYIFSGLRGVGKTTA 54 (397)
T ss_pred HHHHHHHHHHHhCCcceeEEEECCCCCCHHHH
Confidence 334445566654 33 67899999999999
No 247
>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=93.66 E-value=0.025 Score=47.66 Aligned_cols=14 Identities=21% Similarity=0.316 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 2 I~i~G~pGsGKst~ 15 (194)
T cd01428 2 ILLLGPPGSGKGTQ 15 (194)
T ss_pred EEEECCCCCCHHHH
Confidence 47999999999998
No 248
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=93.58 E-value=0.04 Score=51.83 Aligned_cols=15 Identities=13% Similarity=0.031 Sum_probs=14.1
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
=.||.||||||||+.
T Consensus 31 ~vLl~G~pG~gKT~l 45 (334)
T PRK13407 31 GVLVFGDRGTGKSTA 45 (334)
T ss_pred cEEEEcCCCCCHHHH
Confidence 489999999999999
No 249
>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=93.57 E-value=0.027 Score=49.15 Aligned_cols=17 Identities=6% Similarity=0.069 Sum_probs=15.4
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..+.+|.||||+|||+.
T Consensus 20 G~~~~i~G~~G~GKT~l 36 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIF 36 (229)
T ss_pred CeEEEEECCCCCChHHH
Confidence 35789999999999999
No 250
>PRK08233 hypothetical protein; Provisional
Probab=93.56 E-value=0.018 Score=47.94 Aligned_cols=15 Identities=7% Similarity=0.034 Sum_probs=13.5
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+..|.||||+||||.
T Consensus 5 iI~I~G~~GsGKtTl 19 (182)
T PRK08233 5 IITIAAVSGGGKTTL 19 (182)
T ss_pred EEEEECCCCCCHHHH
Confidence 567899999999999
No 251
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.50 E-value=0.045 Score=54.29 Aligned_cols=29 Identities=17% Similarity=0.160 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
+.=.++++.++.. ...|++|||||||||+
T Consensus 22 ~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~ 54 (509)
T PRK14958 22 APVVRALSNALDQQYLHHAYLFTGTRGVGKTTI 54 (509)
T ss_pred HHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHH
Confidence 3344566677753 2358999999999999
No 252
>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=93.50 E-value=0.024 Score=50.90 Aligned_cols=46 Identities=11% Similarity=0.048 Sum_probs=28.6
Q ss_pred HHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 138 QVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 138 Q~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
..+.+..++. +...+|.||+|+||||+ +.+++. .+.. ...+|.+.-
T Consensus 116 ~~~~l~~~v~~~~~ili~G~tGSGKTT~----l~all~--~i~~-~~~~iv~iE 162 (270)
T PF00437_consen 116 IAEFLRSAVRGRGNILISGPTGSGKTTL----LNALLE--EIPP-EDERIVTIE 162 (270)
T ss_dssp HHHHHHHCHHTTEEEEEEESTTSSHHHH----HHHHHH--HCHT-TTSEEEEEE
T ss_pred HHHHHhhccccceEEEEECCCccccchH----HHHHhh--hccc-cccceEEec
Confidence 3344444443 46789999999999999 666663 2222 125655544
No 253
>PRK14532 adenylate kinase; Provisional
Probab=93.50 E-value=0.028 Score=47.53 Aligned_cols=14 Identities=14% Similarity=0.266 Sum_probs=12.7
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 3 i~~~G~pGsGKsT~ 16 (188)
T PRK14532 3 LILFGPPAAGKGTQ 16 (188)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999999
No 254
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.50 E-value=0.048 Score=51.26 Aligned_cols=30 Identities=13% Similarity=0.058 Sum_probs=22.1
Q ss_pred CHHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 135 NRSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 135 N~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
++...+++..++.+ +..|++||||+|||++
T Consensus 22 ~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~ 55 (367)
T PRK14970 22 QSHITNTLLNAIENNHLAQALLFCGPRGVGKTTC 55 (367)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34455666666653 2578999999999998
No 255
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=93.49 E-value=0.025 Score=53.10 Aligned_cols=20 Identities=15% Similarity=0.094 Sum_probs=16.3
Q ss_pred CeEEEcCCCCCcceEeCccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.-|.||||+||||. +..++
T Consensus 58 ~igi~G~~GaGKSTl----~~~l~ 77 (332)
T PRK09435 58 RIGITGVPGVGKSTF----IEALG 77 (332)
T ss_pred EEEEECCCCCCHHHH----HHHHH
Confidence 456899999999999 55555
No 256
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.48 E-value=0.061 Score=55.25 Aligned_cols=55 Identities=4% Similarity=-0.072 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHh----CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 136 RSQVYAVKHAIQ----RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~AV~~aL~----~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+.|++....+.. +...+|..|.|||||..+ +.+.+. +........||..|..|..
T Consensus 13 ~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlsl---L~~aL~-~~~~~~~~~kIiy~sRThs 71 (705)
T TIGR00604 13 PEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISL---LSLILA-YQQEKPEVRKIIYASRTHS 71 (705)
T ss_pred HHHHHHHHHHHHHhccCCceEEeCCCCCCccHHH---HHHHHH-HHHhccccccEEEEcccch
Confidence 789988776653 478999999999999774 333331 2211112368999999998
No 257
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.47 E-value=0.038 Score=55.23 Aligned_cols=26 Identities=15% Similarity=0.204 Sum_probs=19.0
Q ss_pred HHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 139 VYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 139 ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
...+..++.. + ..|++|||||||||+
T Consensus 25 v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTl 54 (546)
T PRK14957 25 LNSLVHALETQKVHHAYLFTGTRGVGKTTL 54 (546)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 3345556653 3 368999999999999
No 258
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.47 E-value=0.044 Score=54.06 Aligned_cols=29 Identities=14% Similarity=0.082 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
+.-.+.++.++.. + -.|++|||||||||+
T Consensus 19 e~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ 51 (491)
T PRK14964 19 DVLVRILRNAFTLNKIPQSILLVGASGVGKTTC 51 (491)
T ss_pred HHHHHHHHHHHHcCCCCceEEEECCCCccHHHH
Confidence 3444555566543 2 468999999999999
No 259
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.46 E-value=0.034 Score=56.63 Aligned_cols=26 Identities=19% Similarity=0.176 Sum_probs=19.7
Q ss_pred HHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 139 VYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 139 ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
.++++.++.+ ...|+.|||||||||+
T Consensus 24 v~~L~~aI~~grl~HAyLF~GPpGvGKTTl 53 (702)
T PRK14960 24 SRALSSALERGRLHHAYLFTGTRGVGKTTI 53 (702)
T ss_pred HHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 5556666653 2459999999999999
No 260
>PRK03839 putative kinase; Provisional
Probab=93.45 E-value=0.028 Score=47.32 Aligned_cols=14 Identities=14% Similarity=0.000 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 3 I~l~G~pGsGKsT~ 16 (180)
T PRK03839 3 IAITGTPGVGKTTV 16 (180)
T ss_pred EEEECCCCCCHHHH
Confidence 47889999999998
No 261
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.44 E-value=0.033 Score=58.41 Aligned_cols=23 Identities=13% Similarity=0.147 Sum_probs=17.3
Q ss_pred HHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 142 VKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 142 V~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
++.++.+ ...|++|||||||||+
T Consensus 28 LknaI~~~rl~HAyLFtGPpGtGKTTL 54 (944)
T PRK14949 28 LTNALTQQRLHHAYLFTGTRGVGKTSL 54 (944)
T ss_pred HHHHHHhCCCCeEEEEECCCCCCHHHH
Confidence 4455543 2458999999999999
No 262
>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=93.43 E-value=0.034 Score=39.76 Aligned_cols=14 Identities=14% Similarity=0.052 Sum_probs=12.6
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-.|.|+||+||||.
T Consensus 2 i~i~G~~gsGKst~ 15 (69)
T cd02019 2 IAITGGSGSGKSTV 15 (69)
T ss_pred EEEECCCCCCHHHH
Confidence 46889999999999
No 263
>KOG0733|consensus
Probab=93.38 E-value=0.021 Score=57.38 Aligned_cols=14 Identities=14% Similarity=0.078 Sum_probs=13.1
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+|||||+|||..
T Consensus 226 vLlHGPPGCGKT~l 239 (802)
T KOG0733|consen 226 VLLHGPPGCGKTSL 239 (802)
T ss_pred eeeeCCCCccHHHH
Confidence 58999999999998
No 264
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.34 E-value=0.025 Score=48.01 Aligned_cols=13 Identities=15% Similarity=0.181 Sum_probs=12.0
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
-|.||||+||||+
T Consensus 4 tIsG~pGsG~TTv 16 (179)
T COG1102 4 TISGLPGSGKTTV 16 (179)
T ss_pred EeccCCCCChhHH
Confidence 5889999999998
No 265
>KOG0727|consensus
Probab=93.33 E-value=0.061 Score=49.04 Aligned_cols=30 Identities=17% Similarity=0.211 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHhCC----------------CeEEEcCCCCCcceEe
Q psy4476 136 RSQVYAVKHAIQRP----------------LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 136 ~sQ~~AV~~aL~~~----------------~tLIqGPPGTGKTtTi 165 (266)
+-|++-|+.|..-| =.|..||||||||..+
T Consensus 161 d~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~ 206 (408)
T KOG0727|consen 161 DVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLA 206 (408)
T ss_pred hhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHH
Confidence 45777777665311 2588999999999763
No 266
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.31 E-value=0.049 Score=54.23 Aligned_cols=29 Identities=17% Similarity=0.179 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
+.-.+++..++.+ + ..|++|||||||||+
T Consensus 22 ~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~ 54 (527)
T PRK14969 22 EHVVRALTNALEQQRLHHAYLFTGTRGVGKTTL 54 (527)
T ss_pred HHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHH
Confidence 4445566666653 3 358999999999998
No 267
>PRK08118 topology modulation protein; Reviewed
Probab=93.30 E-value=0.031 Score=47.02 Aligned_cols=14 Identities=7% Similarity=0.114 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 4 I~I~G~~GsGKSTl 17 (167)
T PRK08118 4 IILIGSGGSGKSTL 17 (167)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999998
No 268
>PRK01184 hypothetical protein; Provisional
Probab=93.28 E-value=0.031 Score=47.09 Aligned_cols=15 Identities=20% Similarity=0.266 Sum_probs=13.3
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+||||.
T Consensus 3 ~i~l~G~~GsGKsT~ 17 (184)
T PRK01184 3 IIGVVGMPGSGKGEF 17 (184)
T ss_pred EEEEECCCCCCHHHH
Confidence 457899999999997
No 269
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.25 E-value=0.048 Score=55.43 Aligned_cols=32 Identities=13% Similarity=0.206 Sum_probs=24.2
Q ss_pred CCHHHHHHHHHHHhC--------CCeEEEcCCCCCcceEe
Q psy4476 134 LNRSQVYAVKHAIQR--------PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 134 LN~sQ~~AV~~aL~~--------~~tLIqGPPGTGKTtTi 165 (266)
.++.+...|+.++.. .+.+|.||||+||||++
T Consensus 88 ~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~ 127 (637)
T TIGR00602 88 VHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTI 127 (637)
T ss_pred CcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHH
Confidence 456666677777642 35899999999999993
No 270
>CHL00176 ftsH cell division protein; Validated
Probab=93.25 E-value=0.025 Score=57.56 Aligned_cols=14 Identities=21% Similarity=0.207 Sum_probs=13.3
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+.||||||||++
T Consensus 219 VLL~GPpGTGKT~L 232 (638)
T CHL00176 219 VLLVGPPGTGKTLL 232 (638)
T ss_pred EEEECCCCCCHHHH
Confidence 69999999999999
No 271
>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=93.16 E-value=0.035 Score=48.46 Aligned_cols=39 Identities=3% Similarity=-0.061 Sum_probs=26.4
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+.+|.||||+|||+. ...++. ...+ .+.+++..+-...
T Consensus 17 ~~~li~G~~G~GKt~~----~~~~~~--~~~~-~g~~~~y~s~e~~ 55 (224)
T TIGR03880 17 HVIVVIGEYGTGKTTF----SLQFLY--QGLK-NGEKAMYISLEER 55 (224)
T ss_pred eEEEEECCCCCCHHHH----HHHHHH--HHHh-CCCeEEEEECCCC
Confidence 5789999999999998 444442 2122 3567776666555
No 272
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=93.13 E-value=0.059 Score=51.78 Aligned_cols=14 Identities=14% Similarity=0.142 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|++||||+|||++
T Consensus 39 ~Lf~Gp~G~GKt~l 52 (394)
T PRK07940 39 WLFTGPPGSGRSVA 52 (394)
T ss_pred EEEECCCCCcHHHH
Confidence 68999999999999
No 273
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=93.12 E-value=0.052 Score=51.25 Aligned_cols=32 Identities=9% Similarity=-0.018 Sum_probs=23.2
Q ss_pred HHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 138 QVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 138 Q~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
...-+..++. +.-.+|.||+|+||||+ +.+++
T Consensus 151 ~~~~l~~~v~~~~nilI~G~tGSGKTTl----l~aLl 183 (344)
T PRK13851 151 LEAFLHACVVGRLTMLLCGPTGSGKTTM----SKTLI 183 (344)
T ss_pred HHHHHHHHHHcCCeEEEECCCCccHHHH----HHHHH
Confidence 3444555555 46789999999999999 55555
No 274
>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=93.11 E-value=0.025 Score=47.44 Aligned_cols=16 Identities=13% Similarity=0.096 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||||+||||+
T Consensus 2 ~~~~i~G~sGsGKttl 17 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTL 17 (179)
T ss_pred cEEEEECCCCCCHHHH
Confidence 3578999999999999
No 275
>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=93.07 E-value=0.029 Score=46.26 Aligned_cols=13 Identities=8% Similarity=0.217 Sum_probs=11.9
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
+|.||||+||||.
T Consensus 2 ~l~G~~GsGKSTl 14 (163)
T TIGR01313 2 VLMGVAGSGKSTI 14 (163)
T ss_pred EEECCCCCCHHHH
Confidence 5789999999988
No 276
>PRK00131 aroK shikimate kinase; Reviewed
Probab=93.05 E-value=0.034 Score=45.79 Aligned_cols=16 Identities=13% Similarity=0.169 Sum_probs=14.1
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
...+|.||||+||||+
T Consensus 5 ~~i~l~G~~GsGKstl 20 (175)
T PRK00131 5 PNIVLIGFMGAGKSTI 20 (175)
T ss_pred CeEEEEcCCCCCHHHH
Confidence 4568899999999999
No 277
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=93.03 E-value=0.025 Score=55.38 Aligned_cols=31 Identities=16% Similarity=0.149 Sum_probs=21.7
Q ss_pred CHHHHHHHHHHHhC------------CCeEEEcCCCCCcceEe
Q psy4476 135 NRSQVYAVKHAIQR------------PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 135 N~sQ~~AV~~aL~~------------~~tLIqGPPGTGKTtTi 165 (266)
-+..+++|...+.+ ...|+.||||||||.+.
T Consensus 251 k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lA 293 (494)
T COG0464 251 KEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLA 293 (494)
T ss_pred HHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHH
Confidence 34566666665531 13689999999999993
No 278
>PRK06762 hypothetical protein; Provisional
Probab=93.01 E-value=0.036 Score=45.87 Aligned_cols=16 Identities=19% Similarity=0.237 Sum_probs=14.0
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.|+||+||||.
T Consensus 3 ~li~i~G~~GsGKST~ 18 (166)
T PRK06762 3 TLIIIRGNSGSGKTTI 18 (166)
T ss_pred eEEEEECCCCCCHHHH
Confidence 3568899999999998
No 279
>PRK09087 hypothetical protein; Validated
Probab=93.01 E-value=0.067 Score=47.32 Aligned_cols=18 Identities=11% Similarity=0.167 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
.+..+|+||+|+|||+.+
T Consensus 44 ~~~l~l~G~~GsGKThLl 61 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLA 61 (226)
T ss_pred CCeEEEECCCCCCHHHHH
Confidence 356899999999999983
No 280
>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=92.97 E-value=0.11 Score=53.65 Aligned_cols=53 Identities=13% Similarity=-0.012 Sum_probs=39.8
Q ss_pred CCCCHHHHHHHHHHHhC---CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 132 PDLNRSQVYAVKHAIQR---PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..|=+.|++|+...+.+ +-.+|.-|+|+|||.+. ..++ .+ ..+++||.+|+..
T Consensus 254 ~~LRpYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlva----i~aa-----~~-l~k~tLILvps~~ 309 (732)
T TIGR00603 254 TQIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVG----VTAA-----CT-VKKSCLVLCTSAV 309 (732)
T ss_pred CCcCHHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHH----HHHH-----HH-hCCCEEEEeCcHH
Confidence 35778999999988864 36799999999999993 2222 22 2468999999875
No 281
>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=92.92 E-value=0.063 Score=54.38 Aligned_cols=27 Identities=26% Similarity=0.208 Sum_probs=20.2
Q ss_pred HHHHH---HHHHh-CCCeEEEcCCCCCcceE
Q psy4476 138 QVYAV---KHAIQ-RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV---~~aL~-~~~tLIqGPPGTGKTtT 164 (266)
|.+|+ +.++. +...++.||||||||+.
T Consensus 23 ~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~l 53 (608)
T TIGR00764 23 QEEAVEIIKKAAKQKRNVLLIGEPGVGKSML 53 (608)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCCCCCHHHH
Confidence 45544 44443 46889999999999999
No 282
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=92.91 E-value=0.069 Score=52.21 Aligned_cols=29 Identities=14% Similarity=0.020 Sum_probs=20.1
Q ss_pred HHHHHHHHHh-CCCeEEEcCCCCCcceEeC
Q psy4476 138 QVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQ 166 (266)
Q Consensus 138 Q~~AV~~aL~-~~~tLIqGPPGTGKTtTiv 166 (266)
=|.|+.-|.. ..=.|+.||||||||.+..
T Consensus 187 AKrAleiAAAGgHnLl~~GpPGtGKTmla~ 216 (490)
T COG0606 187 AKRALEIAAAGGHNLLLVGPPGTGKTMLAS 216 (490)
T ss_pred HHHHHHHHHhcCCcEEEecCCCCchHHhhh
Confidence 3455554444 3445788999999999953
No 283
>PRK14527 adenylate kinase; Provisional
Probab=92.89 E-value=0.041 Score=46.88 Aligned_cols=16 Identities=13% Similarity=0.247 Sum_probs=14.6
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||||+||||.
T Consensus 7 ~~i~i~G~pGsGKsT~ 22 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQ 22 (191)
T ss_pred cEEEEECCCCCCHHHH
Confidence 5789999999999998
No 284
>PLN02200 adenylate kinase family protein
Probab=92.88 E-value=0.039 Score=49.12 Aligned_cols=15 Identities=13% Similarity=0.368 Sum_probs=13.8
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+||||.
T Consensus 45 ii~I~G~PGSGKsT~ 59 (234)
T PLN02200 45 ITFVLGGPGSGKGTQ 59 (234)
T ss_pred EEEEECCCCCCHHHH
Confidence 568899999999999
No 285
>PRK14528 adenylate kinase; Provisional
Probab=92.84 E-value=0.041 Score=47.03 Aligned_cols=14 Identities=14% Similarity=0.249 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 4 i~i~G~pGsGKtt~ 17 (186)
T PRK14528 4 IIFMGPPGAGKGTQ 17 (186)
T ss_pred EEEECCCCCCHHHH
Confidence 58899999999999
No 286
>PRK04040 adenylate kinase; Provisional
Probab=92.83 E-value=0.04 Score=47.41 Aligned_cols=15 Identities=7% Similarity=0.153 Sum_probs=13.8
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.|+||+||||.
T Consensus 4 ~i~v~G~pG~GKtt~ 18 (188)
T PRK04040 4 VVVVTGVPGVGKTTV 18 (188)
T ss_pred EEEEEeCCCCCHHHH
Confidence 568999999999999
No 287
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=92.83 E-value=0.05 Score=52.59 Aligned_cols=15 Identities=20% Similarity=0.131 Sum_probs=13.7
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
-.|+.||||||||+.
T Consensus 110 ~iLl~Gp~GtGKT~l 124 (412)
T PRK05342 110 NILLIGPTGSGKTLL 124 (412)
T ss_pred eEEEEcCCCCCHHHH
Confidence 478999999999998
No 288
>PRK13766 Hef nuclease; Provisional
Probab=92.81 E-value=0.12 Score=53.29 Aligned_cols=55 Identities=9% Similarity=-0.025 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
++=+.|++++..|+.+ =+||..|.|+|||.+ ...++. ..+ ...+.++|+.+|+..
T Consensus 15 ~~r~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~----a~~~i~-~~l-~~~~~~vLvl~Pt~~ 69 (773)
T PRK13766 15 EARLYQQLLAATALKK-NTLVVLPTGLGKTAI----ALLVIA-ERL-HKKGGKVLILAPTKP 69 (773)
T ss_pred CccHHHHHHHHHHhcC-CeEEEcCCCccHHHH----HHHHHH-HHH-HhCCCeEEEEeCcHH
Confidence 4557899999999988 469999999999987 222221 122 224679999999964
No 289
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=92.81 E-value=0.046 Score=44.16 Aligned_cols=16 Identities=25% Similarity=0.237 Sum_probs=13.8
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.-.+|+|+|||||+++
T Consensus 22 ~pvli~GE~GtGK~~~ 37 (138)
T PF14532_consen 22 SPVLITGEPGTGKSLL 37 (138)
T ss_dssp S-EEEECCTTSSHHHH
T ss_pred CcEEEEcCCCCCHHHH
Confidence 4569999999999998
No 290
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=92.71 E-value=0.085 Score=51.44 Aligned_cols=34 Identities=9% Similarity=-0.085 Sum_probs=23.0
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
..+|+||||+|||+. ..+|.+ .+.. .+.+++.+.
T Consensus 143 pl~L~G~~G~GKTHL----l~Ai~~--~l~~-~~~~v~yi~ 176 (445)
T PRK12422 143 PIYLFGPEGSGKTHL----MQAAVH--ALRE-SGGKILYVR 176 (445)
T ss_pred eEEEEcCCCCCHHHH----HHHHHH--HHHH-cCCCEEEee
Confidence 468999999999999 566663 2222 346666443
No 291
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.69 E-value=0.075 Score=53.56 Aligned_cols=28 Identities=11% Similarity=0.043 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 137 SQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 137 sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
.-.+.++.++.+ + ..|++|||||||||+
T Consensus 20 ~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~ 51 (584)
T PRK14952 20 HVTEPLSSALDAGRINHAYLFSGPRGCGKTSS 51 (584)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 334445555553 2 468999999999999
No 292
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.69 E-value=0.043 Score=52.65 Aligned_cols=21 Identities=10% Similarity=0.042 Sum_probs=16.7
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.++-||+|+||||| ++.+.
T Consensus 175 ~vi~lvGptGvGKTTT----~aKLA 195 (388)
T PRK12723 175 RVFILVGPTGVGKTTT----IAKLA 195 (388)
T ss_pred eEEEEECCCCCCHHHH----HHHHH
Confidence 3578899999999999 55554
No 293
>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=92.67 E-value=0.071 Score=47.68 Aligned_cols=29 Identities=14% Similarity=0.127 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhC-----CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-----~~tLIqGPPGTGKTtT 164 (266)
+...+.|...|.. .+..|+|+||+|||+.
T Consensus 2 e~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~L 35 (287)
T PF00931_consen 2 EKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTL 35 (287)
T ss_dssp HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHH
T ss_pred HHHHHHHHHHhhCCCCCeEEEEEEcCCcCCccee
Confidence 3567778777753 4678999999999999
No 294
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=92.65 E-value=0.067 Score=54.51 Aligned_cols=27 Identities=19% Similarity=0.170 Sum_probs=20.4
Q ss_pred HHHHHHHHHhC-CC---eEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR-PL---SLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~-~~---tLIqGPPGTGKTtT 164 (266)
=..+++.++.+ ++ .|++||||+||||+
T Consensus 24 vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTl 54 (647)
T PRK07994 24 VLTALANALDLGRLHHAYLFSGTRGVGKTTI 54 (647)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34456666653 44 68999999999999
No 295
>PRK14530 adenylate kinase; Provisional
Probab=92.64 E-value=0.048 Score=47.43 Aligned_cols=17 Identities=24% Similarity=0.421 Sum_probs=14.6
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
++..+|.||||+||||.
T Consensus 3 ~~~I~i~G~pGsGKsT~ 19 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQ 19 (215)
T ss_pred CCEEEEECCCCCCHHHH
Confidence 34568899999999999
No 296
>PF13479 AAA_24: AAA domain
Probab=92.64 E-value=0.042 Score=47.96 Aligned_cols=14 Identities=21% Similarity=0.085 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+|||++
T Consensus 6 ~lIyG~~G~GKTt~ 19 (213)
T PF13479_consen 6 ILIYGPPGSGKTTL 19 (213)
T ss_pred EEEECCCCCCHHHH
Confidence 58999999999999
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=92.64 E-value=0.045 Score=52.17 Aligned_cols=36 Identities=17% Similarity=0.050 Sum_probs=23.2
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+..||.||||||||.. ..+|. +..+.++--|+=|++
T Consensus 51 r~iLiaGppGtGKTAl----A~~ia------~eLG~~~PF~~isgS 86 (398)
T PF06068_consen 51 RAILIAGPPGTGKTAL----AMAIA------KELGEDVPFVSISGS 86 (398)
T ss_dssp -EEEEEE-TTSSHHHH----HHHHH------HHCTTTS-EEEEEGG
T ss_pred cEEEEeCCCCCCchHH----HHHHH------HHhCCCCCeeEcccc
Confidence 5679999999999998 33333 234567777776666
No 298
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=92.63 E-value=0.11 Score=55.00 Aligned_cols=56 Identities=11% Similarity=-0.008 Sum_probs=40.3
Q ss_pred CCCHHHHH---HHHHHHhC-CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVY---AVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~---AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..=+.|.+ +|..++.. ...+|.-|+|||||..=. ++++. .++..+++|+|+++|..
T Consensus 257 e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYL--lpa~~----~a~~~~~~vvIsT~T~~ 316 (928)
T PRK08074 257 EKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYL--LPAAY----FAKKKEEPVVISTYTIQ 316 (928)
T ss_pred cCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHH--HHHHH----HhhccCCeEEEEcCCHH
Confidence 34467887 88888874 678899999999998721 33332 12235689999999887
No 299
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=92.61 E-value=0.07 Score=53.87 Aligned_cols=29 Identities=10% Similarity=-0.050 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
+.-.+.+..++.+ + ..|++||||||||++
T Consensus 22 e~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTl 54 (605)
T PRK05896 22 ELIKKILVNAILNNKLTHAYIFSGPRGIGKTSI 54 (605)
T ss_pred HHHHHHHHHHHHcCCCCceEEEECCCCCCHHHH
Confidence 3344555666643 2 358999999999999
No 300
>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=92.60 E-value=0.037 Score=48.02 Aligned_cols=18 Identities=11% Similarity=-0.060 Sum_probs=16.1
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..++.|.||||+|||+..
T Consensus 19 g~v~~I~G~~GsGKT~l~ 36 (226)
T cd01393 19 GRITEIFGEFGSGKTQLC 36 (226)
T ss_pred CcEEEEeCCCCCChhHHH
Confidence 468999999999999993
No 301
>PRK13947 shikimate kinase; Provisional
Probab=92.60 E-value=0.038 Score=45.79 Aligned_cols=14 Identities=7% Similarity=0.062 Sum_probs=12.7
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-+|.||||+||||+
T Consensus 4 I~l~G~~GsGKst~ 17 (171)
T PRK13947 4 IVLIGFMGTGKTTV 17 (171)
T ss_pred EEEEcCCCCCHHHH
Confidence 47899999999999
No 302
>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=92.59 E-value=0.047 Score=51.07 Aligned_cols=17 Identities=12% Similarity=0.018 Sum_probs=15.6
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
.+++|.||||||||+..
T Consensus 56 ~iteI~G~~GsGKTtLa 72 (321)
T TIGR02012 56 RIIEIYGPESSGKTTLA 72 (321)
T ss_pred eEEEEECCCCCCHHHHH
Confidence 58999999999999993
No 303
>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=92.58 E-value=0.036 Score=49.40 Aligned_cols=75 Identities=11% Similarity=0.092 Sum_probs=42.6
Q ss_pred CHHHHHHHHHHHhCC-CeEEEcCCCCCcceEeCccccccccchhhhhccCCc--eEecCCCCc----ccccccccccCcc
Q psy4476 135 NRSQVYAVKHAIQRP-LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKS--NLNHRPSGA----NKLSQGHLSQGNN 207 (266)
Q Consensus 135 N~sQ~~AV~~aL~~~-~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~k--iLvcAPSN~----arl~~g~~~~g~~ 207 (266)
.+.=-.++..|+... ...+.||+|||||.| +.++. +.-++. +..|.+.-- .|+.-|...+|.=
T Consensus 18 t~r~~~~l~~al~~~~~~~~~GpagtGKtet----ik~La------~~lG~~~~vfnc~~~~~~~~l~ril~G~~~~GaW 87 (231)
T PF12774_consen 18 TDRCFLTLTQALSLNLGGALSGPAGTGKTET----IKDLA------RALGRFVVVFNCSEQMDYQSLSRILKGLAQSGAW 87 (231)
T ss_dssp HHHHHHHHHHHHCTTTEEEEESSTTSSHHHH----HHHHH------HCTT--EEEEETTSSS-HHHHHHHHHHHHHHT-E
T ss_pred HHHHHHHHHHHhccCCCCCCcCCCCCCchhH----HHHHH------HHhCCeEEEecccccccHHHHHHHHHHHhhcCch
Confidence 333345666677654 468899999999999 44433 222333 556777654 3555576667742
Q ss_pred --cccccccccccc
Q psy4476 208 --SQEITQPYSQVM 219 (266)
Q Consensus 208 --~~~i~~~~~~~~ 219 (266)
=..+||+..+|+
T Consensus 88 ~cfdefnrl~~~vL 101 (231)
T PF12774_consen 88 LCFDEFNRLSEEVL 101 (231)
T ss_dssp EEEETCCCSSHHHH
T ss_pred hhhhhhhhhhHHHH
Confidence 113555544333
No 304
>PRK02496 adk adenylate kinase; Provisional
Probab=92.57 E-value=0.046 Score=46.13 Aligned_cols=14 Identities=14% Similarity=0.228 Sum_probs=12.9
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 4 i~i~G~pGsGKst~ 17 (184)
T PRK02496 4 LIFLGPPGAGKGTQ 17 (184)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999998
No 305
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=92.57 E-value=0.095 Score=57.06 Aligned_cols=51 Identities=12% Similarity=0.069 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCC
Q psy4476 136 RSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPS 192 (266)
Q Consensus 136 ~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPS 192 (266)
...++.|..++. +.+.+|.|++|+||||- +..++. ........+|.++-|-
T Consensus 76 ~~~r~~Il~ai~~~~VviI~GeTGSGKTTq----lPq~ll--e~g~g~~g~I~~TQPR 127 (1294)
T PRK11131 76 SQKKQDILEAIRDHQVVIVAGETGSGKTTQ----LPKICL--ELGRGVKGLIGHTQPR 127 (1294)
T ss_pred HHHHHHHHHHHHhCCeEEEECCCCCCHHHH----HHHHHH--HcCCCCCCceeeCCCc
Confidence 346777888885 68999999999999997 666652 2222122367777783
No 306
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=92.57 E-value=0.1 Score=47.05 Aligned_cols=30 Identities=17% Similarity=0.025 Sum_probs=21.5
Q ss_pred HHHHHHHHHHH-h------CCCeEEEcCCCCCcceEe
Q psy4476 136 RSQVYAVKHAI-Q------RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 136 ~sQ~~AV~~aL-~------~~~tLIqGPPGTGKTtTi 165 (266)
+.|++++..=. + ..=.|++|++|||||++|
T Consensus 33 e~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlV 69 (249)
T PF05673_consen 33 ERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLV 69 (249)
T ss_pred HHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHH
Confidence 45777775332 1 234799999999999994
No 307
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.56 E-value=0.047 Score=52.67 Aligned_cols=38 Identities=8% Similarity=-0.113 Sum_probs=24.3
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec-CCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH-RPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc-APSN~ 194 (266)
+.+|-||+|+||||| ++.|. ..+.. .+.+|.++ |-+.+
T Consensus 243 vI~LVGptGvGKTTT----iaKLA--~~L~~-~GkkVglI~aDt~R 281 (436)
T PRK11889 243 TIALIGPTGVGKTTT----LAKMA--WQFHG-KKKTVGFITTDHSR 281 (436)
T ss_pred EEEEECCCCCcHHHH----HHHHH--HHHHH-cCCcEEEEecCCcc
Confidence 558999999999999 55554 23332 45666544 43443
No 308
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=92.55 E-value=0.082 Score=50.31 Aligned_cols=62 Identities=18% Similarity=0.079 Sum_probs=45.7
Q ss_pred CCCCCCCHHHHHHHHHHHhC--CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 129 PNLPDLNRSQVYAVKHAIQR--PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 129 ~~~~~LN~sQ~~AV~~aL~~--~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+.....|..|+-|+..-|.. ++.-+-|+-|||||-.. .++-++ +.+.+..-.||+|..|+=.
T Consensus 224 wGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLA---LaAgle-qv~e~~~y~KiiVtRp~vp 287 (436)
T COG1875 224 WGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLA---LAAGLE-QVLERKRYRKIIVTRPTVP 287 (436)
T ss_pred hccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHH---HHHHHH-HHHHHhhhceEEEecCCcC
Confidence 34567899999999998876 45666899999999884 344443 3344445679999999754
No 309
>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=92.52 E-value=0.056 Score=48.55 Aligned_cols=43 Identities=12% Similarity=0.077 Sum_probs=29.4
Q ss_pred HhCCC-eEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 146 IQRPL-SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 146 L~~~~-tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
+..++ .+|-||+|+|||+. +..|+. .+.. .-..|.+++|.+..
T Consensus 10 ~~~~fr~viIG~sGSGKT~l----i~~lL~--~~~~-~f~~I~l~t~~~n~ 53 (241)
T PF04665_consen 10 LKDPFRMVIIGKSGSGKTTL----IKSLLY--YLRH-KFDHIFLITPEYNN 53 (241)
T ss_pred cCCCceEEEECCCCCCHHHH----HHHHHH--hhcc-cCCEEEEEecCCch
Confidence 44565 56899999999999 455552 2222 22678899996654
No 310
>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=92.50 E-value=0.059 Score=52.24 Aligned_cols=16 Identities=13% Similarity=-0.085 Sum_probs=14.0
Q ss_pred CeEEEcCCCCCcceEe
Q psy4476 150 LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTi 165 (266)
-.|+.||||||||+..
T Consensus 49 ~ILLiGppG~GKT~lA 64 (441)
T TIGR00390 49 NILMIGPTGVGKTEIA 64 (441)
T ss_pred eEEEECCCCCCHHHHH
Confidence 4689999999999993
No 311
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.48 E-value=0.087 Score=51.44 Aligned_cols=35 Identities=9% Similarity=-0.114 Sum_probs=22.4
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
..+|+||||||||+. +.+|.+ +......+.+|+..
T Consensus 143 pl~i~G~~G~GKTHL----l~Ai~~-~l~~~~~~~~v~yv 177 (450)
T PRK14087 143 PLFIYGESGMGKTHL----LKAAKN-YIESNFSDLKVSYM 177 (450)
T ss_pred ceEEECCCCCcHHHH----HHHHHH-HHHHhCCCCeEEEE
Confidence 468999999999999 566663 22222234566533
No 312
>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=92.48 E-value=0.05 Score=50.62 Aligned_cols=39 Identities=8% Similarity=-0.078 Sum_probs=27.0
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+|++|.|+|||.+. ...++. .+.+....++++++|+-+
T Consensus 2 vvi~apTGsGKT~~~---~~~~l~--~~~~~~~~~ii~v~P~~~ 40 (358)
T TIGR01587 2 LVIEAPTGYGKTEAA---LLWALH--SIKSQKADRVIIALPTRA 40 (358)
T ss_pred EEEEeCCCCCHHHHH---HHHHHH--HHhhCCCCeEEEEeehHH
Confidence 689999999999993 222221 222234579999999876
No 313
>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=92.47 E-value=0.04 Score=45.05 Aligned_cols=12 Identities=25% Similarity=0.340 Sum_probs=11.3
Q ss_pred EEcCCCCCcceE
Q psy4476 153 IQGMNQRSNGLH 164 (266)
Q Consensus 153 IqGPPGTGKTtT 164 (266)
|.||||+||||.
T Consensus 1 i~G~PgsGK~t~ 12 (151)
T PF00406_consen 1 ILGPPGSGKGTQ 12 (151)
T ss_dssp EEESTTSSHHHH
T ss_pred CcCCCCCChHHH
Confidence 689999999999
No 314
>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=92.42 E-value=0.06 Score=51.74 Aligned_cols=16 Identities=19% Similarity=0.138 Sum_probs=14.2
Q ss_pred CeEEEcCCCCCcceEe
Q psy4476 150 LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTi 165 (266)
..||.|-||||||+.-
T Consensus 12 TLLIKG~PGTGKTtfa 27 (484)
T PF07088_consen 12 TLLIKGEPGTGKTTFA 27 (484)
T ss_pred EEEEecCCCCCceeee
Confidence 4589999999999994
No 315
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=92.42 E-value=0.083 Score=53.77 Aligned_cols=28 Identities=21% Similarity=0.221 Sum_probs=21.1
Q ss_pred HHHHHH---HHHh-CCCeEEEcCCCCCcceEe
Q psy4476 138 QVYAVK---HAIQ-RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 138 Q~~AV~---~aL~-~~~tLIqGPPGTGKTtTi 165 (266)
|.+|+. .++. ++..+|.||||||||+..
T Consensus 36 q~~a~~~L~~~~~~~~~~l~~G~~G~GKttla 67 (637)
T PRK13765 36 QEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLA 67 (637)
T ss_pred hHHHHHHHHHHHHhCCeEEEECCCCCcHHHHH
Confidence 555554 3333 578999999999999994
No 316
>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=92.40 E-value=0.054 Score=44.77 Aligned_cols=32 Identities=13% Similarity=-0.047 Sum_probs=20.9
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
..+.|++|+||||+ +..+. ..+.. .+.++++.
T Consensus 2 i~~~G~~GsGKTt~----~~~l~--~~~~~-~g~~v~ii 33 (148)
T cd03114 2 IGITGVPGAGKSTL----IDALI--TALRA-RGKRVAVL 33 (148)
T ss_pred EEEECCCCCcHHHH----HHHHH--HHHHH-CCCEEEEE
Confidence 45779999999999 44444 22332 45666553
No 317
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=92.37 E-value=0.039 Score=56.93 Aligned_cols=15 Identities=20% Similarity=0.091 Sum_probs=13.5
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
-.||+||||||||+.
T Consensus 214 giLL~GppGtGKT~l 228 (733)
T TIGR01243 214 GVLLYGPPGTGKTLL 228 (733)
T ss_pred eEEEECCCCCChHHH
Confidence 368999999999988
No 318
>KOG0962|consensus
Probab=92.35 E-value=0.049 Score=58.66 Aligned_cols=18 Identities=33% Similarity=0.414 Sum_probs=16.7
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
+|+|||-||.||||||+|
T Consensus 27 sPlTLIvG~NG~GKTTiI 44 (1294)
T KOG0962|consen 27 SPLTLIVGANGTGKTTII 44 (1294)
T ss_pred CCeeeEecCCCCCchhHH
Confidence 689999999999999993
No 319
>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=92.33 E-value=0.052 Score=47.05 Aligned_cols=14 Identities=14% Similarity=0.256 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 2 I~i~G~pGsGKsT~ 15 (210)
T TIGR01351 2 LVLLGPPGSGKGTQ 15 (210)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999998
No 320
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=92.29 E-value=0.05 Score=46.20 Aligned_cols=15 Identities=13% Similarity=0.005 Sum_probs=13.3
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
..|+||||.||||.+
T Consensus 8 i~ITG~PGvGKtTl~ 22 (179)
T COG1618 8 IFITGRPGVGKTTLV 22 (179)
T ss_pred EEEeCCCCccHHHHH
Confidence 379999999999994
No 321
>PRK07261 topology modulation protein; Provisional
Probab=92.27 E-value=0.053 Score=45.75 Aligned_cols=14 Identities=14% Similarity=0.088 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 3 i~i~G~~GsGKSTl 16 (171)
T PRK07261 3 IAIIGYSGSGKSTL 16 (171)
T ss_pred EEEEcCCCCCHHHH
Confidence 47999999999999
No 322
>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=92.27 E-value=0.13 Score=53.40 Aligned_cols=59 Identities=12% Similarity=-0.009 Sum_probs=44.1
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
...+.+.|.+|+..++...=.+++-|.|+|||..- ...+++ .+.+.++.++|+-+|+-+
T Consensus 34 ~~~p~~~Q~~ai~~il~G~nvvv~apTGSGKTla~---~LPiL~--~l~~~~~~~aL~l~Ptra 92 (742)
T TIGR03817 34 IHRPWQHQARAAELAHAGRHVVVATGTASGKSLAY---QLPVLS--ALADDPRATALYLAPTKA 92 (742)
T ss_pred CCcCCHHHHHHHHHHHCCCCEEEECCCCCcHHHHH---HHHHHH--HHhhCCCcEEEEEcChHH
Confidence 45688999999999998777899999999999872 112231 222224568999999987
No 323
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=92.26 E-value=0.041 Score=50.02 Aligned_cols=16 Identities=13% Similarity=-0.049 Sum_probs=14.4
Q ss_pred CeEEEcCCCCCcceEe
Q psy4476 150 LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTi 165 (266)
..|+.||||||||+++
T Consensus 26 alL~~Gp~G~Gktt~a 41 (325)
T COG0470 26 ALLFYGPPGVGKTTAA 41 (325)
T ss_pred eeeeeCCCCCCHHHHH
Confidence 4799999999999993
No 324
>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=92.25 E-value=0.058 Score=45.75 Aligned_cols=24 Identities=21% Similarity=0.282 Sum_probs=17.9
Q ss_pred HHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 141 AVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 141 AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
++..++.+ ...|+.||||+|||++
T Consensus 3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~ 30 (188)
T TIGR00678 3 QLKRALEKGRLAHAYLFAGPEGVGKELL 30 (188)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34555542 3478999999999999
No 325
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.24 E-value=0.054 Score=53.37 Aligned_cols=21 Identities=10% Similarity=0.029 Sum_probs=16.8
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.++-||+|.||||| ++.|.
T Consensus 257 ~Vi~LvGpnGvGKTTT----iaKLA 277 (484)
T PRK06995 257 GVFALMGPTGVGKTTT----TAKLA 277 (484)
T ss_pred cEEEEECCCCccHHHH----HHHHH
Confidence 3677899999999999 55554
No 326
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=92.21 E-value=0.13 Score=53.84 Aligned_cols=54 Identities=11% Similarity=0.031 Sum_probs=39.0
Q ss_pred CCCHHHHH---HHHHHHhC-CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVY---AVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~---AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..-+.|.+ ||..++.. ...+|+.|+|||||..-. +.. +....+.+++|.+||-.
T Consensus 245 e~R~~Q~~ma~~V~~~l~~~~~~~~eA~tGtGKT~ayl--lp~------l~~~~~~~vvI~t~T~~ 302 (820)
T PRK07246 245 EERPKQESFAKLVGEDFHDGPASFIEAQTGIGKTYGYL--LPL------LAQSDQRQIIVSVPTKI 302 (820)
T ss_pred ccCHHHHHHHHHHHHHHhCCCcEEEECCCCCcHHHHHH--HHH------HHhcCCCcEEEEeCcHH
Confidence 56678988 88888875 678899999999998831 111 11223578888888765
No 327
>KOG0734|consensus
Probab=92.16 E-value=0.042 Score=54.54 Aligned_cols=14 Identities=21% Similarity=0.207 Sum_probs=12.9
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+.||||||||..
T Consensus 340 VLLvGPPGTGKTlL 353 (752)
T KOG0734|consen 340 VLLVGPPGTGKTLL 353 (752)
T ss_pred eEEeCCCCCchhHH
Confidence 58999999999988
No 328
>KOG0328|consensus
Probab=92.16 E-value=0.19 Score=46.36 Aligned_cols=57 Identities=11% Similarity=0.100 Sum_probs=40.7
Q ss_pred CCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhh-hccCCceEecCCCCc
Q psy4476 133 DLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTN-RLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~-~~~~~kiLvcAPSN~ 194 (266)
+-+.-|+.||..+|..+=.+.|.-.|||||.|. ..+++. .+. ..+...+|+.+||--
T Consensus 49 kPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~---si~vlq--~~d~~~r~tQ~lilsPTRE 106 (400)
T KOG0328|consen 49 KPSAIQQRAIPQILKGRDVIAQAQSGTGKTATF---SISVLQ--SLDISVRETQALILSPTRE 106 (400)
T ss_pred CchHHHhhhhhhhhcccceEEEecCCCCceEEE---Eeeeee--ecccccceeeEEEecChHH
Confidence 345779999999999877789999999999995 334442 221 124456888888753
No 329
>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=92.13 E-value=0.12 Score=54.22 Aligned_cols=55 Identities=13% Similarity=0.027 Sum_probs=38.9
Q ss_pred CCCHHHHH---HHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 133 DLNRSQVY---AVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 133 ~LN~sQ~~---AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
..-+.|.+ +|..++. ....+|..|+|||||..-. ++++. ... .+++|++++||..
T Consensus 245 ~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayL--lp~~~----~~~-~~~~vvi~t~t~~ 303 (850)
T TIGR01407 245 EYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYL--LPALY----YAI-TEKPVVISTNTKV 303 (850)
T ss_pred ccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHH--HHHHH----Hhc-CCCeEEEEeCcHH
Confidence 46678997 5666665 4678899999999998831 22222 112 4679999999987
No 330
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.13 E-value=0.054 Score=52.78 Aligned_cols=17 Identities=18% Similarity=0.098 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..+++|.||||+||||.
T Consensus 80 Gs~~lI~G~pG~GKTtL 96 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTL 96 (446)
T ss_pred CEEEEEECCCCCCHHHH
Confidence 35889999999999999
No 331
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=92.12 E-value=0.093 Score=53.08 Aligned_cols=30 Identities=10% Similarity=0.189 Sum_probs=22.2
Q ss_pred CHHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 135 NRSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 135 N~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
++.-.+.+..++.+ .-.|++|||||||||+
T Consensus 29 q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~ 62 (598)
T PRK09111 29 QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTT 62 (598)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHH
Confidence 35555666666653 2468999999999999
No 332
>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=92.10 E-value=0.061 Score=45.16 Aligned_cols=16 Identities=6% Similarity=0.154 Sum_probs=14.6
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
++.++.||||+||||.
T Consensus 3 ~~i~l~G~~gsGKst~ 18 (175)
T cd00227 3 RIIILNGGSSAGKSSI 18 (175)
T ss_pred CEEEEECCCCCCHHHH
Confidence 5678999999999999
No 333
>KOG0736|consensus
Probab=92.09 E-value=0.064 Score=55.24 Aligned_cols=14 Identities=21% Similarity=0.183 Sum_probs=12.5
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|..||||||||..
T Consensus 708 ILLYGPPGTGKTLl 721 (953)
T KOG0736|consen 708 ILLYGPPGTGKTLL 721 (953)
T ss_pred eEEECCCCCchHHH
Confidence 47899999999987
No 334
>KOG0652|consensus
Probab=92.09 E-value=0.067 Score=49.01 Aligned_cols=14 Identities=21% Similarity=0.209 Sum_probs=12.5
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|..||||||||..
T Consensus 208 vLmYGPPGTGKTlm 221 (424)
T KOG0652|consen 208 VLMYGPPGTGKTLM 221 (424)
T ss_pred eEeeCCCCCcHHHH
Confidence 68899999999975
No 335
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.04 E-value=0.078 Score=53.79 Aligned_cols=27 Identities=19% Similarity=0.169 Sum_probs=19.5
Q ss_pred HHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
=.++++.++.+ + ..|++|||||||||+
T Consensus 24 vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtl 54 (618)
T PRK14951 24 VVQALTNALTQQRLHHAYLFTGTRGVGKTTV 54 (618)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 33455556643 2 468999999999999
No 336
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.074 Score=54.32 Aligned_cols=21 Identities=19% Similarity=0.249 Sum_probs=18.9
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
++.+.-||||+|||.. ..+|.
T Consensus 351 pILcLVGPPGVGKTSL----gkSIA 371 (782)
T COG0466 351 PILCLVGPPGVGKTSL----GKSIA 371 (782)
T ss_pred cEEEEECCCCCCchhH----HHHHH
Confidence 7889999999999999 77776
No 337
>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=92.04 E-value=0.11 Score=49.02 Aligned_cols=48 Identities=10% Similarity=0.106 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhCC--CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 137 SQVYAVKHAIQRP--LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 137 sQ~~AV~~aL~~~--~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.|.+|+..+...+ ..+|..|+|+|||..- ++ ..+. ...+.++.+|+++
T Consensus 1 hQ~~~~~~~~~~~~~~~~i~apTGsGKT~~~------~~--~~l~--~~~~~~~~~P~~a 50 (357)
T TIGR03158 1 HQVATFEALQSKDADIIFNTAPTGAGKTLAW------LT--PLLH--GENDTIALYPTNA 50 (357)
T ss_pred CHHHHHHHHHcCCCCEEEEECCCCCCHHHHH------HH--HHHH--cCCCEEEEeChHH
Confidence 3899999998754 6899999999999872 22 1222 3457888899987
No 338
>PRK00279 adk adenylate kinase; Reviewed
Probab=92.03 E-value=0.059 Score=46.87 Aligned_cols=14 Identities=14% Similarity=0.271 Sum_probs=12.9
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 3 I~v~G~pGsGKsT~ 16 (215)
T PRK00279 3 LILLGPPGAGKGTQ 16 (215)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999998
No 339
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.97 E-value=0.1 Score=52.60 Aligned_cols=29 Identities=17% Similarity=0.191 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhC-CC---eEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-PL---SLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~~---tLIqGPPGTGKTtT 164 (266)
+.-.+.++.++.+ ++ .|++||||+|||++
T Consensus 22 ~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtl 54 (585)
T PRK14950 22 EHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTST 54 (585)
T ss_pred HHHHHHHHHHHHhCCCceEEEEECCCCCCHHHH
Confidence 3344445556653 44 48999999999999
No 340
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=91.92 E-value=0.062 Score=52.99 Aligned_cols=38 Identities=11% Similarity=0.002 Sum_probs=24.3
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCC
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRP 191 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAP 191 (266)
..+.||.|+||||||+. ...+++ ...+..+.+++..+=
T Consensus 31 Gs~~li~G~pGsGKT~l----~~qf~~--~~~~~~ge~~lyis~ 68 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLF----ALQFLV--NGIKRFDEPGVFVTF 68 (509)
T ss_pred CcEEEEEeCCCCCHHHH----HHHHHH--HHHHhcCCCEEEEEc
Confidence 36789999999999999 444442 222212566654443
No 341
>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=91.83 E-value=0.073 Score=50.46 Aligned_cols=22 Identities=18% Similarity=0.126 Sum_probs=19.2
Q ss_pred CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+.+.+|.||+|+||||| +.+++
T Consensus 134 ~glilI~GpTGSGKTTt----L~aLl 155 (358)
T TIGR02524 134 EGIVFITGATGSGKSTL----LAAII 155 (358)
T ss_pred CCEEEEECCCCCCHHHH----HHHHH
Confidence 57999999999999999 56665
No 342
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=91.81 E-value=0.097 Score=52.57 Aligned_cols=29 Identities=17% Similarity=0.162 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
+.-.+.++.++.+ . ..|++||||||||++
T Consensus 22 e~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~ 54 (563)
T PRK06647 22 DFVVETLKHSIESNKIANAYIFSGPRGVGKTSS 54 (563)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 4444556666653 2 468999999999999
No 343
>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=91.80 E-value=0.064 Score=49.33 Aligned_cols=18 Identities=6% Similarity=-0.014 Sum_probs=16.0
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..+++|.||||+|||+..
T Consensus 95 g~i~ei~G~~g~GKT~l~ 112 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQIC 112 (310)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 468999999999999993
No 344
>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=91.80 E-value=0.061 Score=51.27 Aligned_cols=17 Identities=18% Similarity=0.083 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..+.+|.||||+||||.
T Consensus 82 GslvLI~G~pG~GKStL 98 (372)
T cd01121 82 GSVILIGGDPGIGKSTL 98 (372)
T ss_pred CeEEEEEeCCCCCHHHH
Confidence 36889999999999999
No 345
>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=91.76 E-value=0.066 Score=46.73 Aligned_cols=18 Identities=11% Similarity=-0.036 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..++.|.||||+|||+..
T Consensus 19 g~i~~i~G~~GsGKT~l~ 36 (235)
T cd01123 19 GSITEIFGEFGSGKTQLC 36 (235)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 368899999999999993
No 346
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=91.75 E-value=0.087 Score=54.55 Aligned_cols=27 Identities=22% Similarity=0.206 Sum_probs=19.6
Q ss_pred HHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
=++.++.++.+ ...|++|||||||||+
T Consensus 24 Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTl 54 (830)
T PRK07003 24 VVRALTHALDGGRLHHAYLFTGTRGVGKTTL 54 (830)
T ss_pred HHHHHHHHHhcCCCCeEEEEECCCCCCHHHH
Confidence 34455555653 3468999999999999
No 347
>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=91.75 E-value=0.07 Score=50.02 Aligned_cols=18 Identities=11% Similarity=-0.001 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..++.|.||||+|||+..
T Consensus 55 G~iteI~Gp~GsGKTtLa 72 (325)
T cd00983 55 GRIIEIYGPESSGKTTLA 72 (325)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 358999999999999983
No 348
>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=91.75 E-value=0.076 Score=42.41 Aligned_cols=14 Identities=14% Similarity=0.071 Sum_probs=12.9
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-.|.||||+||||.
T Consensus 2 I~i~G~~GsGKst~ 15 (147)
T cd02020 2 IAIDGPAGSGKSTV 15 (147)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999999
No 349
>CHL00095 clpC Clp protease ATP binding subunit
Probab=91.74 E-value=0.094 Score=54.88 Aligned_cols=29 Identities=10% Similarity=0.092 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
+.+.+.+..+|.+ +-.++.||||||||++
T Consensus 185 ~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal 216 (821)
T CHL00095 185 EKEIERVIQILGRRTKNNPILIGEPGVGKTAI 216 (821)
T ss_pred HHHHHHHHHHHcccccCCeEEECCCCCCHHHH
Confidence 4566677777753 4568999999999999
No 350
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=91.74 E-value=0.073 Score=50.55 Aligned_cols=16 Identities=19% Similarity=-0.029 Sum_probs=14.2
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+-.||-||||||||-.
T Consensus 66 rgiLi~GppgTGKTAl 81 (450)
T COG1224 66 RGILIVGPPGTGKTAL 81 (450)
T ss_pred cEEEEECCCCCcHHHH
Confidence 4569999999999988
No 351
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=91.71 E-value=0.13 Score=47.53 Aligned_cols=33 Identities=15% Similarity=0.203 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHHHh-----------CCCeEEEcCCCCCcceE
Q psy4476 132 PDLNRSQVYAVKHAIQ-----------RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~-----------~~~tLIqGPPGTGKTtT 164 (266)
..|++.|++++...+. ....+|.|+||+||||+
T Consensus 106 ~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~I~l~G~~GsGKStv 149 (309)
T PRK08154 106 EQASPAQLARVRDALSGMLGAGRRAARRRRIALIGLRGAGKSTL 149 (309)
T ss_pred hcCCHHHHHHHHHHHHHHHhhhhhccCCCEEEEECCCCCCHHHH
Confidence 4799999999887763 13567899999999999
No 352
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.67 E-value=0.1 Score=53.16 Aligned_cols=29 Identities=21% Similarity=0.232 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
+.-.+.++.++.+ ...|++|||||||||+
T Consensus 22 e~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTL 54 (700)
T PRK12323 22 EHVVRALTHALEQQRLHHAYLFTGTRGVGKTTL 54 (700)
T ss_pred HHHHHHHHHHHHhCCCceEEEEECCCCCCHHHH
Confidence 3344556666653 2469999999999999
No 353
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=91.65 E-value=0.052 Score=56.43 Aligned_cols=16 Identities=13% Similarity=0.096 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+..++.||||||||++
T Consensus 348 ~~lll~GppG~GKT~l 363 (775)
T TIGR00763 348 PILCLVGPPGVGKTSL 363 (775)
T ss_pred ceEEEECCCCCCHHHH
Confidence 4688999999999999
No 354
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=91.63 E-value=0.078 Score=47.16 Aligned_cols=15 Identities=13% Similarity=0.302 Sum_probs=13.4
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+-+|.|+||+||||.
T Consensus 1 LIvl~G~pGSGKST~ 15 (249)
T TIGR03574 1 LIILTGLPGVGKSTF 15 (249)
T ss_pred CEEEEcCCCCCHHHH
Confidence 357899999999999
No 355
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.58 E-value=0.11 Score=52.28 Aligned_cols=29 Identities=14% Similarity=0.105 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
+.-.+.+..++.+ ...|++||||||||++
T Consensus 22 ~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~ 54 (576)
T PRK14965 22 EHVSRTLQNAIDTGRVAHAFLFTGARGVGKTST 54 (576)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 4455666677653 2458999999999999
No 356
>PRK07667 uridine kinase; Provisional
Probab=91.58 E-value=0.078 Score=45.49 Aligned_cols=15 Identities=13% Similarity=0.257 Sum_probs=13.6
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+--|.||||+||||.
T Consensus 19 iIgI~G~~gsGKStl 33 (193)
T PRK07667 19 ILGIDGLSRSGKTTF 33 (193)
T ss_pred EEEEECCCCCCHHHH
Confidence 567899999999998
No 357
>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=91.56 E-value=0.056 Score=55.78 Aligned_cols=14 Identities=21% Similarity=0.180 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|+.||||||||+.
T Consensus 490 iLL~GppGtGKT~l 503 (733)
T TIGR01243 490 VLLFGPPGTGKTLL 503 (733)
T ss_pred EEEECCCCCCHHHH
Confidence 48899999999998
No 358
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.54 E-value=0.077 Score=50.93 Aligned_cols=39 Identities=8% Similarity=0.011 Sum_probs=24.9
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCce-EecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSN-LNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~ki-LvcAPSN~ 194 (266)
.+.+|.||.|+||||| ++.|.. .+.+ .+.+| ++++.+-+
T Consensus 207 ~ii~lvGptGvGKTTt----~akLA~--~l~~-~g~~V~lItaDtyR 246 (407)
T PRK12726 207 RIISLIGQTGVGKTTT----LVKLGW--QLLK-QNRTVGFITTDTFR 246 (407)
T ss_pred eEEEEECCCCCCHHHH----HHHHHH--HHHH-cCCeEEEEeCCccC
Confidence 4678999999999999 455442 2222 34555 46665554
No 359
>KOG0742|consensus
Probab=91.53 E-value=0.082 Score=51.13 Aligned_cols=15 Identities=13% Similarity=0.126 Sum_probs=13.2
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.+..||||||||...
T Consensus 387 ilfyGPPGTGKTm~A 401 (630)
T KOG0742|consen 387 ILFYGPPGTGKTMFA 401 (630)
T ss_pred eeeeCCCCCCchHHH
Confidence 588999999999983
No 360
>COG1137 YhbG ABC-type (unclassified) transport system, ATPase component [General function prediction only]
Probab=91.52 E-value=0.16 Score=44.79 Aligned_cols=55 Identities=13% Similarity=0.012 Sum_probs=31.8
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcccccccccccCcccccccc---cccccccCCCC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGANKLSQGHLSQGNNSQEITQ---PYSQVMSQGGG 224 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~arl~~g~~~~g~~~~~i~~---~~~~~~~~~g~ 224 (266)
+.=+-||.|.||||+ --.|+ . ++.|.--+-+.. ....+...||+ +++.|+||+-.
T Consensus 32 iVGLLGPNGAGKTT~----Fymi~--G-----------lv~~d~G~i~ld---~~diT~lPm~~RArlGigYLpQE~S 89 (243)
T COG1137 32 IVGLLGPNGAGKTTT----FYMIV--G-----------LVRPDSGKILLD---DEDITKLPMHKRARLGIGYLPQEAS 89 (243)
T ss_pred EEEEECCCCCCceeE----EEEEE--E-----------EEecCCceEEEC---CcccccCChHHHhhcCcccccccch
Confidence 444689999999999 32222 1 223332233333 22334445665 88888998743
No 361
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=91.49 E-value=0.061 Score=49.81 Aligned_cols=39 Identities=18% Similarity=0.198 Sum_probs=25.8
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCc--eEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKS--NLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~k--iLvcAPSN~ 194 (266)
.+-=|+|+||.||+|. +-+++ ..+.+ .+.| ||..=||--
T Consensus 52 ~viGITG~PGaGKSTl----i~~L~--~~l~~-~G~rVaVlAVDPSSp 92 (323)
T COG1703 52 HVIGITGVPGAGKSTL----IEALG--RELRE-RGHRVAVLAVDPSSP 92 (323)
T ss_pred cEEEecCCCCCchHHH----HHHHH--HHHHH-CCcEEEEEEECCCCC
Confidence 3556899999999999 55555 23433 5566 555556643
No 362
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.49 E-value=0.075 Score=45.45 Aligned_cols=14 Identities=21% Similarity=0.114 Sum_probs=12.9
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|-||||.||||-
T Consensus 3 iiilG~pGaGK~T~ 16 (178)
T COG0563 3 ILILGPPGAGKSTL 16 (178)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999999
No 363
>PRK12608 transcription termination factor Rho; Provisional
Probab=91.47 E-value=0.077 Score=50.69 Aligned_cols=15 Identities=13% Similarity=0.071 Sum_probs=13.8
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.+|.|||||||||.+
T Consensus 136 ~LIvG~pGtGKTTLl 150 (380)
T PRK12608 136 GLIVAPPRAGKTVLL 150 (380)
T ss_pred EEEECCCCCCHHHHH
Confidence 599999999999994
No 364
>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=91.45 E-value=0.11 Score=48.93 Aligned_cols=16 Identities=6% Similarity=0.005 Sum_probs=14.2
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.-.+|.|||||||||.
T Consensus 26 g~vli~G~~G~gKttl 41 (337)
T TIGR02030 26 GGVMVMGDRGTGKSTA 41 (337)
T ss_pred CeEEEEcCCCCCHHHH
Confidence 3478999999999999
No 365
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.44 E-value=0.1 Score=51.53 Aligned_cols=24 Identities=13% Similarity=0.134 Sum_probs=17.1
Q ss_pred HHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 141 AVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 141 AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
.++.++.+ ...|+.|||||||||+
T Consensus 27 ~L~~~i~~~~i~hayLf~Gp~G~GKTtl 54 (486)
T PRK14953 27 ILKNAVKLQRVSHAYIFAGPRGTGKTTI 54 (486)
T ss_pred HHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 44455543 3458899999999888
No 366
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=91.43 E-value=0.1 Score=53.77 Aligned_cols=29 Identities=17% Similarity=0.133 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
+...+.++.++.. + ..|++||||||||++
T Consensus 24 e~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~ 56 (725)
T PRK07133 24 DHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSV 56 (725)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHH
Confidence 3445556666653 3 458999999999999
No 367
>PRK13764 ATPase; Provisional
Probab=91.40 E-value=0.074 Score=53.73 Aligned_cols=22 Identities=14% Similarity=0.126 Sum_probs=18.5
Q ss_pred CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+...||.||||+||||+ +.+++
T Consensus 257 ~~~ILIsG~TGSGKTTl----l~AL~ 278 (602)
T PRK13764 257 AEGILIAGAPGAGKSTF----AQALA 278 (602)
T ss_pred CCEEEEECCCCCCHHHH----HHHHH
Confidence 45679999999999999 66666
No 368
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=91.38 E-value=0.08 Score=49.03 Aligned_cols=18 Identities=6% Similarity=-0.034 Sum_probs=16.1
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..+++|.||||+|||+..
T Consensus 102 g~vtei~G~~GsGKT~l~ 119 (317)
T PRK04301 102 QSITEFYGEFGSGKTQIC 119 (317)
T ss_pred CcEEEEECCCCCCHhHHH
Confidence 468999999999999993
No 369
>PRK05541 adenylylsulfate kinase; Provisional
Probab=91.37 E-value=0.078 Score=44.40 Aligned_cols=15 Identities=13% Similarity=0.175 Sum_probs=13.7
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+||||.
T Consensus 9 ~I~i~G~~GsGKst~ 23 (176)
T PRK05541 9 VIWITGLAGSGKTTI 23 (176)
T ss_pred EEEEEcCCCCCHHHH
Confidence 568899999999999
No 370
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=91.34 E-value=0.11 Score=49.28 Aligned_cols=27 Identities=11% Similarity=0.010 Sum_probs=19.2
Q ss_pred HHHHHHHHHhC-C--CeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR-P--LSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~-~--~tLIqGPPGTGKTtT 164 (266)
-+.|+..++-+ . =.||.||+|||||++
T Consensus 25 ~k~al~~~~~~p~~~~vli~G~~GtGKs~~ 54 (350)
T CHL00081 25 MKLALILNVIDPKIGGVMIMGDRGTGKSTT 54 (350)
T ss_pred HHHHHHHhccCCCCCeEEEEcCCCCCHHHH
Confidence 45555554433 2 368999999999999
No 371
>PRK00625 shikimate kinase; Provisional
Probab=91.33 E-value=0.064 Score=45.60 Aligned_cols=14 Identities=7% Similarity=0.121 Sum_probs=12.7
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-+|.|+||+||||+
T Consensus 3 I~LiG~pGsGKTT~ 16 (173)
T PRK00625 3 IFLCGLPTVGKTSF 16 (173)
T ss_pred EEEECCCCCCHHHH
Confidence 46889999999999
No 372
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=91.31 E-value=0.062 Score=53.65 Aligned_cols=18 Identities=6% Similarity=-0.077 Sum_probs=14.8
Q ss_pred EEEcCCCCCcceEeCccccccc
Q psy4476 152 LIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 152 LIqGPPGTGKTtTiv~~i~~Ii 173 (266)
-|-|||||||||. +.+++
T Consensus 73 avvGPpGtGKsTL----irSlV 90 (1077)
T COG5192 73 AVVGPPGTGKSTL----IRSLV 90 (1077)
T ss_pred EeecCCCCChhHH----HHHHH
Confidence 3889999999999 55555
No 373
>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=91.30 E-value=0.13 Score=52.38 Aligned_cols=50 Identities=8% Similarity=0.051 Sum_probs=33.8
Q ss_pred HHHHHHHhC-CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 140 YAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 140 ~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
++|..++.+ ...+|..|.|||||...+ ++++. +. ....+.+|+|++||..
T Consensus 7 ~~i~~al~~~~~lliEA~TGtGKTlAYL--lpal~--~~-~~~~~~rvlIstpT~~ 57 (636)
T TIGR03117 7 LNCLTSLRQKRIGMLEASTGVGKTLAMI--MAALT--ML-KERPDQKIAIAVPTLA 57 (636)
T ss_pred HHHHHHHhcCCeEEEEcCCCCcHHHHHH--HHHHH--HH-HhccCceEEEECCcHH
Confidence 456666654 688999999999997731 22222 11 1123689999999986
No 374
>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=91.30 E-value=0.099 Score=53.02 Aligned_cols=16 Identities=6% Similarity=-0.033 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
...+|.|||||||||.
T Consensus 176 ~~vlL~Gp~GtGKTTL 191 (615)
T TIGR02903 176 QHIILYGPPGVGKTTA 191 (615)
T ss_pred CeEEEECCCCCCHHHH
Confidence 3579999999999999
No 375
>PRK00889 adenylylsulfate kinase; Provisional
Probab=91.29 E-value=0.081 Score=44.26 Aligned_cols=16 Identities=6% Similarity=0.034 Sum_probs=14.2
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.|+||+||||+
T Consensus 5 ~~i~~~G~~GsGKST~ 20 (175)
T PRK00889 5 VTVWFTGLSGAGKTTI 20 (175)
T ss_pred eEEEEECCCCCCHHHH
Confidence 3668899999999999
No 376
>PRK06547 hypothetical protein; Provisional
Probab=91.28 E-value=0.089 Score=44.66 Aligned_cols=16 Identities=19% Similarity=0.117 Sum_probs=14.0
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||||+||||+
T Consensus 16 ~~i~i~G~~GsGKTt~ 31 (172)
T PRK06547 16 ITVLIDGRSGSGKTTL 31 (172)
T ss_pred EEEEEECCCCCCHHHH
Confidence 3567889999999999
No 377
>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=91.26 E-value=0.08 Score=51.77 Aligned_cols=17 Identities=24% Similarity=0.126 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..+++|.|+||+||||.
T Consensus 94 GsvilI~G~pGsGKTTL 110 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTL 110 (454)
T ss_pred CeEEEEEcCCCCCHHHH
Confidence 36899999999999999
No 378
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=91.25 E-value=0.051 Score=45.84 Aligned_cols=41 Identities=15% Similarity=0.051 Sum_probs=25.2
Q ss_pred CCCeEEEcCCCCCcceEeCccccccccchhhhh---------ccCCceEecCCCCc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR---------LRNKSNLNHRPSGA 194 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~---------~~~~kiLvcAPSN~ 194 (266)
..+++|.||||+|||+.+ ..++. .+.. ..+.+||....-+.
T Consensus 32 g~l~~i~g~~g~GKT~~~----~~l~~--~~~~g~~~~g~~~~~~~~Vl~i~~E~~ 81 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLA----LQLAA--ALATGRPFLGELPPRPGRVLYISLEDS 81 (193)
T ss_dssp TSEEEEEECSTSSHHHHH----HHHHH--HHHT---TT---------EEEEESSS-
T ss_pred CeEEEEEeCCCCCHHHHH----HHHHH--HHHhCCccCCcccccCceEEEEeccCC
Confidence 468999999999999994 33332 1111 13467888877776
No 379
>KOG3928|consensus
Probab=91.25 E-value=0.11 Score=50.11 Aligned_cols=36 Identities=14% Similarity=0.067 Sum_probs=23.5
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.|+.|+||||||-+ ++..++ .+. .++-+++.+|...
T Consensus 182 ~vL~Ge~GtGKSia----L~qa~h---~a~-~~~wlIlhip~a~ 217 (461)
T KOG3928|consen 182 FVLDGEPGTGKSIA----LAQAVH---YAA-DQKWLILHIPYAE 217 (461)
T ss_pred EEEeCCCCCchhhH----HHHHHH---HHh-cCCeEEEECCcHH
Confidence 69999999999999 444442 222 2345666666543
No 380
>PF12846 AAA_10: AAA-like domain
Probab=91.23 E-value=0.11 Score=46.34 Aligned_cols=39 Identities=21% Similarity=0.223 Sum_probs=27.6
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+-++|.|++|+|||++ +..++. .+.+ .+.++++-=|.+-
T Consensus 2 ~h~~i~G~tGsGKT~~----~~~l~~--~~~~-~g~~~~i~D~~g~ 40 (304)
T PF12846_consen 2 PHTLILGKTGSGKTTL----LKNLLE--QLIR-RGPRVVIFDPKGD 40 (304)
T ss_pred CeEEEECCCCCcHHHH----HHHHHH--HHHH-cCCCEEEEcCCch
Confidence 4579999999999999 455552 3333 4577777777655
No 381
>PHA02774 E1; Provisional
Probab=91.21 E-value=0.089 Score=52.86 Aligned_cols=30 Identities=13% Similarity=0.122 Sum_probs=21.2
Q ss_pred HHHHHHHhC----CCeEEEcCCCCCcceEeCccccccc
Q psy4476 140 YAVKHAIQR----PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 140 ~AV~~aL~~----~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.|++.-|.. .-.+|+||||||||+. ..+|+
T Consensus 422 ~~lk~~l~~~PKknciv~~GPP~TGKS~f----a~sL~ 455 (613)
T PHA02774 422 TALKDFLKGIPKKNCLVIYGPPDTGKSMF----CMSLI 455 (613)
T ss_pred HHHHHHHhcCCcccEEEEECCCCCCHHHH----HHHHH
Confidence 344444442 3679999999999999 55555
No 382
>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=91.19 E-value=0.099 Score=43.57 Aligned_cols=34 Identities=9% Similarity=-0.057 Sum_probs=22.9
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCC
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRP 191 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAP 191 (266)
..|.||+|+||||+ +..++. .+.. .+.+|.+.-+
T Consensus 2 i~i~G~~gsGKTtl----~~~l~~--~l~~-~G~~V~viK~ 35 (155)
T TIGR00176 2 LQIVGPKNSGKTTL----IERLVK--ALKA-RGYRVATIKH 35 (155)
T ss_pred EEEECCCCCCHHHH----HHHHHH--HHHh-cCCeEEEEec
Confidence 46889999999999 566662 3332 4567665543
No 383
>PTZ00088 adenylate kinase 1; Provisional
Probab=91.13 E-value=0.083 Score=46.99 Aligned_cols=14 Identities=14% Similarity=0.207 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 9 Ivl~G~PGsGK~T~ 22 (229)
T PTZ00088 9 IVLFGAPGVGKGTF 22 (229)
T ss_pred EEEECCCCCCHHHH
Confidence 67899999999998
No 384
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=91.11 E-value=0.13 Score=51.52 Aligned_cols=27 Identities=19% Similarity=0.171 Sum_probs=19.5
Q ss_pred HHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
-.+.++.++.. ...|+.||||||||++
T Consensus 24 v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~ 54 (559)
T PRK05563 24 ITKTLKNAIKQGKISHAYLFSGPRGTGKTSA 54 (559)
T ss_pred HHHHHHHHHHcCCCCeEEEEECCCCCCHHHH
Confidence 34455555542 3468899999999999
No 385
>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=91.08 E-value=0.17 Score=50.48 Aligned_cols=27 Identities=19% Similarity=0.111 Sum_probs=18.8
Q ss_pred HHHHHHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
..++++.++.. .-.||.||||||||+.
T Consensus 73 ~i~~l~~al~~~~~~~vLi~Ge~GtGKt~l 102 (531)
T TIGR02902 73 GIKALKAALCGPNPQHVIIYGPPGVGKTAA 102 (531)
T ss_pred HHHHHHHHHhCCCCceEEEECCCCCCHHHH
Confidence 34444444432 3468999999999999
No 386
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=91.07 E-value=0.063 Score=45.60 Aligned_cols=16 Identities=13% Similarity=0.083 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||+|+||||+
T Consensus 3 ~~i~l~G~sGsGKsTl 18 (186)
T PRK10078 3 KLIWLMGPSGSGKDSL 18 (186)
T ss_pred cEEEEECCCCCCHHHH
Confidence 3678999999999999
No 387
>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=90.99 E-value=0.1 Score=44.12 Aligned_cols=16 Identities=13% Similarity=0.314 Sum_probs=14.2
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+-+|.|+||+||||.
T Consensus 4 ~~IvieG~~GsGKsT~ 19 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQ 19 (195)
T ss_pred eEEEEECCCCCCHHHH
Confidence 3568999999999999
No 388
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=90.99 E-value=0.083 Score=47.96 Aligned_cols=16 Identities=13% Similarity=0.163 Sum_probs=13.8
Q ss_pred CeEEEcCCCCCcceEe
Q psy4476 150 LSLIQGMNQRSNGLHH 165 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTi 165 (266)
+.++.||||+||||..
T Consensus 4 liil~G~pGSGKSTla 19 (300)
T PHA02530 4 IILTVGVPGSGKSTWA 19 (300)
T ss_pred EEEEEcCCCCCHHHHH
Confidence 5678999999999993
No 389
>PRK10865 protein disaggregation chaperone; Provisional
Probab=90.96 E-value=0.1 Score=54.83 Aligned_cols=16 Identities=6% Similarity=-0.068 Sum_probs=14.8
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+..++.||||||||++
T Consensus 200 ~n~lL~G~pGvGKT~l 215 (857)
T PRK10865 200 NNPVLIGEPGVGKTAI 215 (857)
T ss_pred CceEEECCCCCCHHHH
Confidence 5789999999999999
No 390
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.96 E-value=0.13 Score=52.29 Aligned_cols=15 Identities=13% Similarity=0.069 Sum_probs=13.6
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
-.|++||||||||++
T Consensus 40 a~Lf~Gp~G~GKttl 54 (620)
T PRK14948 40 AYLFTGPRGTGKTSS 54 (620)
T ss_pred eEEEECCCCCChHHH
Confidence 358999999999999
No 391
>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=90.96 E-value=0.094 Score=46.82 Aligned_cols=57 Identities=16% Similarity=0.054 Sum_probs=37.5
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcccccccccccCcccccccccccccccCC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGANKLSQGHLSQGNNSQEITQPYSQVMSQG 222 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~arl~~g~~~~g~~~~~i~~~~~~~~~~~ 222 (266)
.+..+-||.|.||||+ +.+|. .. .+....+|... |...|+...-.+-|.++.++||.
T Consensus 30 eiv~llG~NGaGKTTl----Lkti~--Gl-~~~~~G~I~~~----------G~dit~~p~~~r~r~Gi~~VPeg 86 (237)
T COG0410 30 EIVALLGRNGAGKTTL----LKTIM--GL-VRPRSGRIIFD----------GEDITGLPPHERARLGIAYVPEG 86 (237)
T ss_pred CEEEEECCCCCCHHHH----HHHHh--CC-CCCCCeeEEEC----------CeecCCCCHHHHHhCCeEeCccc
Confidence 6788999999999999 66665 22 22223344443 66677766555677666677853
No 392
>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=90.95 E-value=0.067 Score=47.82 Aligned_cols=17 Identities=12% Similarity=0.198 Sum_probs=13.2
Q ss_pred EEcCCCCCcceEeCccccccc
Q psy4476 153 IQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 153 IqGPPGTGKTtTiv~~i~~Ii 173 (266)
|.||||+||||- +.++.
T Consensus 1 ViGpaGSGKTT~----~~~~~ 17 (238)
T PF03029_consen 1 VIGPAGSGKTTF----CKGLS 17 (238)
T ss_dssp -EESTTSSHHHH----HHHHH
T ss_pred CCCCCCCCHHHH----HHHHH
Confidence 679999999999 55544
No 393
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.94 E-value=0.12 Score=52.45 Aligned_cols=23 Identities=4% Similarity=0.161 Sum_probs=17.4
Q ss_pred HHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 142 VKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 142 V~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
++.++.+ . -.|++|||||||||+
T Consensus 28 L~~~i~~~ri~ha~Lf~Gp~GvGKttl 54 (620)
T PRK14954 28 IQNSLRMDRVGHGYIFSGLRGVGKTTA 54 (620)
T ss_pred HHHHHHcCCCCeeEEEECCCCCCHHHH
Confidence 4555543 3 367899999999999
No 394
>PHA03311 helicase-primase subunit BBLF4; Provisional
Probab=90.87 E-value=0.074 Score=54.55 Aligned_cols=56 Identities=16% Similarity=0.080 Sum_probs=40.2
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcccccc-cccccCccc--ccccc-cccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGANKLSQ-GHLSQGNNS--QEITQ-PYSQ 217 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~arl~~-g~~~~g~~~--~~i~~-~~~~ 217 (266)
..+|+|--||||||. +.. +.+ ..+.+++|||..|++-- |+|+...++ +|||+ .+|.
T Consensus 73 ~~~itG~AGsGKst~----i~~------l~~--~l~cvitg~T~vAAqN~~~~L~~a~S~~~~TI~~~Fgf~ 132 (828)
T PHA03311 73 VYLITGTAGAGKSTS----IQT------LNE--NLDCVITGATRVAAQNLSAKLSRATSAYINTIFQEFGFK 132 (828)
T ss_pred EEEEecCCCCChHHH----HHH------HHH--hcCEEEEcchHHHHHhhhcccccccccccccHHHHhCCC
Confidence 358999999999999 332 222 23889999999976555 466655544 49998 7763
No 395
>PRK14526 adenylate kinase; Provisional
Probab=90.81 E-value=0.091 Score=46.09 Aligned_cols=14 Identities=14% Similarity=0.133 Sum_probs=12.7
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 3 i~l~G~pGsGKsT~ 16 (211)
T PRK14526 3 LVFLGPPGSGKGTI 16 (211)
T ss_pred EEEECCCCCCHHHH
Confidence 46899999999998
No 396
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=90.72 E-value=0.22 Score=51.31 Aligned_cols=53 Identities=19% Similarity=0.092 Sum_probs=38.7
Q ss_pred HHHHH---HHHHHHhC------CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 136 RSQVY---AVKHAIQR------PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 136 ~sQ~~---AV~~aL~~------~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
+.|.+ +|..++.. ...+|..|.|||||.-= ++++|. +++..++||+|.+.|.+
T Consensus 28 ~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaY--LlPai~----~A~~~~k~vVIST~T~~ 89 (697)
T PRK11747 28 AGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSY--LLAGIP----IARAEKKKLVISTATVA 89 (697)
T ss_pred HHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHH--HHHHHH----HHHHcCCeEEEEcCCHH
Confidence 67887 88888875 68899999999999762 133333 22235688999888876
No 397
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=90.69 E-value=0.22 Score=47.00 Aligned_cols=33 Identities=15% Similarity=0.077 Sum_probs=29.6
Q ss_pred CCCCHHHHHHHHHHHhCC-CeEEEcCCCCCcceE
Q psy4476 132 PDLNRSQVYAVKHAIQRP-LSLIQGMNQRSNGLH 164 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~~-~tLIqGPPGTGKTtT 164 (266)
..+++.|...+..|+... =.||.|+-|+||||+
T Consensus 156 gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTl 189 (355)
T COG4962 156 GTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTL 189 (355)
T ss_pred CCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHH
Confidence 578999999999999876 469999999999999
No 398
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=90.67 E-value=0.1 Score=49.24 Aligned_cols=17 Identities=12% Similarity=-0.015 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..++.|.||||||||+.
T Consensus 126 G~ItEI~G~~GsGKTql 142 (344)
T PLN03187 126 RCITEAFGEFRSGKTQL 142 (344)
T ss_pred CeEEEEecCCCCChhHH
Confidence 36899999999999998
No 399
>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=90.67 E-value=0.081 Score=45.12 Aligned_cols=27 Identities=11% Similarity=0.119 Sum_probs=20.9
Q ss_pred HHHHHHHHHh---CCCeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQ---RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~---~~~tLIqGPPGTGKTtT 164 (266)
..+.+...+. ....+|.||.|+|||+.
T Consensus 7 el~~l~~~l~~~~~~~~~l~G~rg~GKTsL 36 (234)
T PF01637_consen 7 ELEKLKELLESGPSQHILLYGPRGSGKTSL 36 (234)
T ss_dssp HHHHHHHCHHH--SSEEEEEESTTSSHHHH
T ss_pred HHHHHHHHHHhhcCcEEEEEcCCcCCHHHH
Confidence 3455566664 36889999999999999
No 400
>COG3911 Predicted ATPase [General function prediction only]
Probab=90.66 E-value=0.069 Score=44.92 Aligned_cols=16 Identities=6% Similarity=-0.049 Sum_probs=15.0
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
++.+|+|.||.||||.
T Consensus 10 ~~fIltGgpGaGKTtL 25 (183)
T COG3911 10 KRFILTGGPGAGKTTL 25 (183)
T ss_pred eEEEEeCCCCCcHHHH
Confidence 5889999999999999
No 401
>KOG0729|consensus
Probab=90.62 E-value=0.12 Score=47.52 Aligned_cols=14 Identities=21% Similarity=0.216 Sum_probs=12.6
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.|..||||||||..
T Consensus 214 vllygppgtgktl~ 227 (435)
T KOG0729|consen 214 VLLYGPPGTGKTLC 227 (435)
T ss_pred eEEeCCCCCchhHH
Confidence 58899999999976
No 402
>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=90.62 E-value=0.073 Score=44.48 Aligned_cols=16 Identities=19% Similarity=0.135 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||+|+||||.
T Consensus 2 ~ii~l~G~~GsGKsTl 17 (180)
T TIGR03263 2 LLIVISGPSGVGKSTL 17 (180)
T ss_pred cEEEEECCCCCCHHHH
Confidence 4678999999999998
No 403
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=90.60 E-value=0.12 Score=45.76 Aligned_cols=17 Identities=18% Similarity=0.346 Sum_probs=14.6
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
++.+++|+||.||||..
T Consensus 2 pLiIlTGyPgsGKTtfa 18 (261)
T COG4088 2 PLIILTGYPGSGKTTFA 18 (261)
T ss_pred ceEEEecCCCCCchHHH
Confidence 46678999999999984
No 404
>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=90.59 E-value=0.11 Score=48.33 Aligned_cols=17 Identities=6% Similarity=-0.034 Sum_probs=15.6
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..++.|.||||+|||+.
T Consensus 96 G~iteI~G~~GsGKTql 112 (313)
T TIGR02238 96 MSITEVFGEFRCGKTQL 112 (313)
T ss_pred CeEEEEECCCCCCcCHH
Confidence 36899999999999998
No 405
>PRK09354 recA recombinase A; Provisional
Probab=90.58 E-value=0.11 Score=49.26 Aligned_cols=18 Identities=11% Similarity=0.014 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..+++|.||||||||+..
T Consensus 60 G~IteI~G~~GsGKTtLa 77 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLA 77 (349)
T ss_pred CeEEEEECCCCCCHHHHH
Confidence 358999999999999983
No 406
>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=90.58 E-value=0.08 Score=45.20 Aligned_cols=15 Identities=13% Similarity=0.003 Sum_probs=13.4
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+..|.||+|+||||+
T Consensus 1 iigi~G~~GsGKSTl 15 (198)
T cd02023 1 IIGIAGGSGSGKTTV 15 (198)
T ss_pred CEEEECCCCCCHHHH
Confidence 357899999999999
No 407
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=90.57 E-value=0.14 Score=51.64 Aligned_cols=17 Identities=6% Similarity=0.042 Sum_probs=15.5
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
+++.++.||||+|||+.
T Consensus 103 ~~IL~LvGPpG~GKSsL 119 (644)
T PRK15455 103 KQILYLLGPVGGGKSSL 119 (644)
T ss_pred CceEEEecCCCCCchHH
Confidence 36889999999999998
No 408
>PRK08356 hypothetical protein; Provisional
Probab=90.54 E-value=0.099 Score=44.78 Aligned_cols=15 Identities=7% Similarity=-0.055 Sum_probs=13.5
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+||||.
T Consensus 7 ~i~~~G~~gsGK~t~ 21 (195)
T PRK08356 7 IVGVVGKIAAGKTTV 21 (195)
T ss_pred EEEEECCCCCCHHHH
Confidence 457899999999999
No 409
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=90.53 E-value=0.19 Score=50.90 Aligned_cols=55 Identities=15% Similarity=0.022 Sum_probs=38.3
Q ss_pred CCHHHHHHHHH---HHhC-CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 134 LNRSQVYAVKH---AIQR-PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 134 LN~sQ~~AV~~---aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.=+.|++.+.. |+.+ ...+|++|.|||||.-.+ +++|. ..+..+++|.+|++|+.
T Consensus 16 ~r~~Q~~~~~~v~~a~~~~~~~~iEapTGtGKTl~yL--~~al~----~~~~~~~~viist~t~~ 74 (654)
T COG1199 16 PRPEQREMAEAVAEALKGGEGLLIEAPTGTGKTLAYL--LPALA----YAREEGKKVIISTRTKA 74 (654)
T ss_pred CCHHHHHHHHHHHHHHcCCCcEEEECCCCccHHHHHH--HHHHH----HHHHcCCcEEEECCCHH
Confidence 44678876654 4554 569999999999998842 33333 22224589999999997
No 410
>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=90.52 E-value=0.08 Score=48.27 Aligned_cols=17 Identities=12% Similarity=-0.019 Sum_probs=14.7
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
.-.|+.||||||||.+|
T Consensus 34 ~pvLl~G~~GtGKT~li 50 (272)
T PF12775_consen 34 RPVLLVGPSGTGKTSLI 50 (272)
T ss_dssp EEEEEESSTTSSHHHHH
T ss_pred CcEEEECCCCCchhHHH
Confidence 45699999999999993
No 411
>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=90.52 E-value=0.077 Score=44.15 Aligned_cols=17 Identities=12% Similarity=0.278 Sum_probs=15.3
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
|+++|.|++|+||||.+
T Consensus 1 p~~~l~G~~GsGKTtl~ 17 (158)
T cd03112 1 PVTVLTGFLGAGKTTLL 17 (158)
T ss_pred CEEEEEECCCCCHHHHH
Confidence 57899999999999993
No 412
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=90.49 E-value=0.15 Score=52.27 Aligned_cols=29 Identities=17% Similarity=0.187 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
+.-.++++.++.. + ..|++|||||||||+
T Consensus 22 e~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTl 54 (709)
T PRK08691 22 EHVVKALQNALDEGRLHHAYLLTGTRGVGKTTI 54 (709)
T ss_pred HHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHH
Confidence 3344455566653 3 358999999999999
No 413
>COG1112 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]
Probab=90.46 E-value=0.84 Score=46.67 Aligned_cols=117 Identities=19% Similarity=0.064 Sum_probs=63.6
Q ss_pred eeeccccc------chHHHHHHHHHHHhHHhccchHHHHHHHHcCCCCchhhhhccCCCCCCCCCCCCCCHHHHHHHHHH
Q psy4476 72 FCGPSFWK------STSFDRMQLALRKFAVDDQSVSAYIYHRLLGHNVDEVLFRCHLPKHFSAPNLPDLNRSQVYAVKHA 145 (266)
Q Consensus 72 ~~v~~~~n------~~t~~R~~~aL~~l~~~e~~~~~~L~~~l~g~~~~~~~~~~~~~~~~~~~~~~~LN~sQ~~AV~~a 145 (266)
.+++...+ ...++++...+..+..........+.+...+.......... ... .......++..|..++..+
T Consensus 210 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~~~~~ 286 (767)
T COG1112 210 VRVDIVENLLELSESILLRRELELLSKFALILKRLLESLFEILRGKDLPIKLLDV--ELE-LVEINKELDNEQKLAVKRL 286 (767)
T ss_pred eEEEehhhccccchhHHHHhhhhhhHHHhhcccchhhhHHHHhhccccccccCCc--cee-eeccchhccchhHHHHHHH
Confidence 44555544 66777877777666544333333333332222111100000 011 1112356888899999888
Q ss_pred Hh-CCCeEE-EcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcc
Q psy4476 146 IQ-RPLSLI-QGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGAN 195 (266)
Q Consensus 146 L~-~~~tLI-qGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~a 195 (266)
+. .+..++ .||||||||... . +.+.+ .........+++.|+|+|.+
T Consensus 287 ~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~--~~~~~~~~~~~~~~~~~~~~ 334 (767)
T COG1112 287 LSLNDLFLIHQGPFGTGKTRSV-T-ILELI--IELLENNKLKILPTAESNAA 334 (767)
T ss_pred hcccceeEeecCCCCCCcchHH-H-HHHHH--HHHHHhcccceEEecCcccc
Confidence 76 455555 599999999942 0 22222 11222236789999999995
No 414
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=90.41 E-value=0.11 Score=50.12 Aligned_cols=15 Identities=13% Similarity=0.071 Sum_probs=13.4
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.+|.||||+||||.+
T Consensus 172 ~lIvgppGvGKTTLa 186 (416)
T PRK09376 172 GLIVAPPKAGKTVLL 186 (416)
T ss_pred EEEeCCCCCChhHHH
Confidence 689999999999873
No 415
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=90.36 E-value=0.28 Score=46.16 Aligned_cols=56 Identities=9% Similarity=-0.059 Sum_probs=43.0
Q ss_pred CCCCCHHHHHHHHHHHhCCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCC
Q psy4476 131 LPDLNRSQVYAVKHAIQRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRP 191 (266)
Q Consensus 131 ~~~LN~sQ~~AV~~aL~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAP 191 (266)
....++.|+.=++++..+.+.+=.||-|||||..-+ +.-+ ..+.+..-.||++.-|
T Consensus 126 I~~kt~~Q~~y~eai~~~di~fGiGpAGTGKTyLav---a~av--~al~~~~v~rIiLtRP 181 (348)
T COG1702 126 IIPKTPGQNMYPEAIEEHDIVFGIGPAGTGKTYLAV---AKAV--DALGAGQVRRIILTRP 181 (348)
T ss_pred eEecChhHHHHHHHHHhcCeeeeecccccCChhhhH---HhHh--hhhhhcccceeeecCc
Confidence 356889999999999999999999999999999942 2212 2333333468999999
No 416
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=90.35 E-value=0.15 Score=52.59 Aligned_cols=23 Identities=13% Similarity=0.053 Sum_probs=17.1
Q ss_pred HHHHHhC---CCeEEEcCCCCCcceE
Q psy4476 142 VKHAIQR---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 142 V~~aL~~---~~tLIqGPPGTGKTtT 164 (266)
+..+|.+ +=.|+.||||||||++
T Consensus 194 ~~~~L~~~~~~n~lL~G~pG~GKT~l 219 (731)
T TIGR02639 194 TIQVLCRRKKNNPLLVGEPGVGKTAI 219 (731)
T ss_pred HHHHHhcCCCCceEEECCCCCCHHHH
Confidence 4444543 3468999999999999
No 417
>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=90.32 E-value=0.11 Score=41.94 Aligned_cols=13 Identities=15% Similarity=0.171 Sum_probs=12.3
Q ss_pred EEEcCCCCCcceE
Q psy4476 152 LIQGMNQRSNGLH 164 (266)
Q Consensus 152 LIqGPPGTGKTtT 164 (266)
+|.||||+||||.
T Consensus 3 ~l~G~~GsGKstl 15 (154)
T cd00464 3 VLIGMMGAGKTTV 15 (154)
T ss_pred EEEcCCCCCHHHH
Confidence 6889999999999
No 418
>PRK13949 shikimate kinase; Provisional
Probab=90.32 E-value=0.094 Score=44.21 Aligned_cols=14 Identities=7% Similarity=0.026 Sum_probs=12.7
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-+|.||||+||||+
T Consensus 4 I~liG~~GsGKstl 17 (169)
T PRK13949 4 IFLVGYMGAGKTTL 17 (169)
T ss_pred EEEECCCCCCHHHH
Confidence 46889999999999
No 419
>PTZ00301 uridine kinase; Provisional
Probab=90.32 E-value=0.098 Score=45.92 Aligned_cols=15 Identities=13% Similarity=0.069 Sum_probs=13.3
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+--|-||||.||||.
T Consensus 5 iIgIaG~SgSGKTTl 19 (210)
T PTZ00301 5 VIGISGASGSGKSSL 19 (210)
T ss_pred EEEEECCCcCCHHHH
Confidence 456899999999999
No 420
>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=90.30 E-value=0.078 Score=51.27 Aligned_cols=15 Identities=20% Similarity=0.131 Sum_probs=13.8
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
-.||.||||||||++
T Consensus 118 ~iLL~GP~GsGKT~l 132 (413)
T TIGR00382 118 NILLIGPTGSGKTLL 132 (413)
T ss_pred eEEEECCCCcCHHHH
Confidence 478999999999999
No 421
>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=90.27 E-value=0.13 Score=43.75 Aligned_cols=14 Identities=14% Similarity=0.026 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-.|.|+||+||||.
T Consensus 2 i~i~G~sgsGKttl 15 (179)
T cd02028 2 VGIAGPSGSGKTTF 15 (179)
T ss_pred EEEECCCCCCHHHH
Confidence 57899999999999
No 422
>KOG0990|consensus
Probab=90.22 E-value=0.1 Score=48.82 Aligned_cols=17 Identities=18% Similarity=0.090 Sum_probs=15.0
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
|-.|--||||||||+|+
T Consensus 63 Ph~L~YgPPGtGktsti 79 (360)
T KOG0990|consen 63 PHLLFYGPPGTGKTSTI 79 (360)
T ss_pred CcccccCCCCCCCCCch
Confidence 56788999999999995
No 423
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=90.08 E-value=0.16 Score=49.54 Aligned_cols=15 Identities=13% Similarity=0.162 Sum_probs=13.7
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..|++||||||||++
T Consensus 41 a~Lf~Gp~G~GKtt~ 55 (451)
T PRK06305 41 AYLFSGIRGTGKTTL 55 (451)
T ss_pred EEEEEcCCCCCHHHH
Confidence 468899999999999
No 424
>PRK15453 phosphoribulokinase; Provisional
Probab=90.04 E-value=0.13 Score=47.34 Aligned_cols=17 Identities=12% Similarity=0.239 Sum_probs=15.2
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
.++-.|.|+||+||||+
T Consensus 5 ~piI~ItG~SGsGKTTv 21 (290)
T PRK15453 5 HPIIAVTGSSGAGTTTV 21 (290)
T ss_pred CcEEEEECCCCCCHHHH
Confidence 36778999999999999
No 425
>PRK10865 protein disaggregation chaperone; Provisional
Probab=90.01 E-value=0.15 Score=53.79 Aligned_cols=15 Identities=13% Similarity=-0.095 Sum_probs=13.7
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
..++.||||||||++
T Consensus 600 ~~Lf~Gp~G~GKT~l 614 (857)
T PRK10865 600 SFLFLGPTGVGKTEL 614 (857)
T ss_pred eEEEECCCCCCHHHH
Confidence 468999999999999
No 426
>PRK05480 uridine/cytidine kinase; Provisional
Probab=90.00 E-value=0.085 Score=45.49 Aligned_cols=16 Identities=13% Similarity=-0.051 Sum_probs=14.2
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+..|.||||+||||.
T Consensus 7 ~iI~I~G~sGsGKTTl 22 (209)
T PRK05480 7 IIIGIAGGSGSGKTTV 22 (209)
T ss_pred EEEEEECCCCCCHHHH
Confidence 3568999999999999
No 427
>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=89.93 E-value=0.075 Score=45.44 Aligned_cols=14 Identities=14% Similarity=-0.035 Sum_probs=12.6
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
--|.||||+||||+
T Consensus 2 IgI~G~sgSGKTTl 15 (194)
T PF00485_consen 2 IGIAGPSGSGKTTL 15 (194)
T ss_dssp EEEEESTTSSHHHH
T ss_pred EEEECCCCCCHHHH
Confidence 35899999999999
No 428
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=89.91 E-value=0.18 Score=48.92 Aligned_cols=15 Identities=13% Similarity=-0.073 Sum_probs=13.6
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
-.|+.||||+|||+.
T Consensus 52 ~ILliGp~G~GKT~L 66 (443)
T PRK05201 52 NILMIGPTGVGKTEI 66 (443)
T ss_pred eEEEECCCCCCHHHH
Confidence 468999999999998
No 429
>PRK05439 pantothenate kinase; Provisional
Probab=89.88 E-value=0.12 Score=48.12 Aligned_cols=15 Identities=13% Similarity=0.029 Sum_probs=13.3
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+..|.||||+||||+
T Consensus 88 iIgIaG~~gsGKSTl 102 (311)
T PRK05439 88 IIGIAGSVAVGKSTT 102 (311)
T ss_pred EEEEECCCCCCHHHH
Confidence 356899999999999
No 430
>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=89.86 E-value=0.14 Score=43.35 Aligned_cols=15 Identities=13% Similarity=0.257 Sum_probs=14.0
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+++|.||||+|||+.
T Consensus 1 ~~li~G~~~sGKS~~ 15 (169)
T cd00544 1 IILVTGGARSGKSRF 15 (169)
T ss_pred CEEEECCCCCCHHHH
Confidence 479999999999999
No 431
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=89.85 E-value=0.11 Score=44.88 Aligned_cols=32 Identities=13% Similarity=0.162 Sum_probs=21.9
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
++++ |-.|+||||+ .+.+. +.+.+ .++|||+.
T Consensus 3 iav~-gKGGvGKTt~----~~nLA--~~la~-~G~rvLli 34 (212)
T cd02117 3 IAIY-GKGGIGKSTT----SQNLS--AALAE-MGKKVLQV 34 (212)
T ss_pred EEEE-CCCcCcHHHH----HHHHH--HHHHH-CCCcEEEE
Confidence 3455 9999999999 44444 34444 57788865
No 432
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=89.84 E-value=0.18 Score=46.63 Aligned_cols=31 Identities=13% Similarity=-0.001 Sum_probs=22.7
Q ss_pred HHHHHHHHhC-CCeEEEcCCCCCcceEeCccccccc
Q psy4476 139 VYAVKHAIQR-PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 139 ~~AV~~aL~~-~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+.+..++.. ...+|.||+|+||||. +.+++
T Consensus 134 ~~~l~~~v~~~~~ili~G~tGsGKTTl----l~al~ 165 (308)
T TIGR02788 134 KEFLRLAIASRKNIIISGGTGSGKTTF----LKSLV 165 (308)
T ss_pred HHHHHHHhhCCCEEEEECCCCCCHHHH----HHHHH
Confidence 3445556654 6789999999999999 55555
No 433
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=89.84 E-value=0.14 Score=48.35 Aligned_cols=15 Identities=13% Similarity=0.277 Sum_probs=13.9
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
++++.|+||.||||.
T Consensus 1 ~~~l~Gl~GaGKST~ 15 (340)
T TIGR03575 1 LCVLCGLPAAGKSTL 15 (340)
T ss_pred CeEEECCCCCCHHHH
Confidence 578999999999999
No 434
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=89.82 E-value=0.13 Score=46.46 Aligned_cols=17 Identities=12% Similarity=-0.044 Sum_probs=14.7
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
...+|.||||+||||.+
T Consensus 17 qr~~I~G~~G~GKTTLl 33 (249)
T cd01128 17 QRGLIVAPPKAGKTTLL 33 (249)
T ss_pred CEEEEECCCCCCHHHHH
Confidence 46799999999999873
No 435
>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=89.76 E-value=0.13 Score=43.55 Aligned_cols=16 Identities=25% Similarity=0.185 Sum_probs=13.7
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.-.||+|++||||+..
T Consensus 23 ~pVlI~GE~GtGK~~l 38 (168)
T PF00158_consen 23 LPVLITGETGTGKELL 38 (168)
T ss_dssp S-EEEECSTTSSHHHH
T ss_pred CCEEEEcCCCCcHHHH
Confidence 3568999999999999
No 436
>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=89.74 E-value=0.091 Score=45.15 Aligned_cols=18 Identities=22% Similarity=0.421 Sum_probs=12.9
Q ss_pred hCC-CeEEEcCCCCCcceE
Q psy4476 147 QRP-LSLIQGMNQRSNGLH 164 (266)
Q Consensus 147 ~~~-~tLIqGPPGTGKTtT 164 (266)
.+| +.+|-||||+|||++
T Consensus 13 ~~P~~~i~aG~~GsGKSt~ 31 (199)
T PF06414_consen 13 EKPTLIIIAGQPGSGKSTL 31 (199)
T ss_dssp SS-EEEEEES-TTSTTHHH
T ss_pred cCCEEEEEeCCCCCCHHHH
Confidence 345 456779999999999
No 437
>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=89.73 E-value=0.13 Score=45.38 Aligned_cols=17 Identities=6% Similarity=-0.115 Sum_probs=15.2
Q ss_pred CCeEEEcCCCCCcceEe
Q psy4476 149 PLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTi 165 (266)
.+++|.||||+|||+..
T Consensus 2 ~~~ll~g~~G~GKS~la 18 (239)
T cd01125 2 YVSALVAPGGTGKSSLL 18 (239)
T ss_pred ceeEEEcCCCCCHHHHH
Confidence 36899999999999994
No 438
>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=89.70 E-value=0.18 Score=45.04 Aligned_cols=53 Identities=19% Similarity=0.147 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhC-------------CCeEEEcCCCCCcceEeCccccccccchhhhhc---cCCceEecCCCCc
Q psy4476 137 SQVYAVKHAIQR-------------PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRL---RNKSNLNHRPSGA 194 (266)
Q Consensus 137 sQ~~AV~~aL~~-------------~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~---~~~kiLvcAPSN~ 194 (266)
.|++||...+.+ .=.++-=.+|+|||.++ .+++. +..... +.+++||++|+..
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~----i~~~~-~l~~~~~~~~~~~~LIv~P~~l 69 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITA----IALIS-YLKNEFPQRGEKKTLIVVPSSL 69 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHH----HHHHH-HHHHCCTTSS-S-EEEEE-TTT
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhh----hhhhh-hhhhccccccccceeEeeccch
Confidence 488999887643 23577779999999994 33331 111111 1235999999966
No 439
>PRK06217 hypothetical protein; Validated
Probab=89.64 E-value=0.094 Score=44.41 Aligned_cols=14 Identities=14% Similarity=0.062 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-+|.|+||+||||.
T Consensus 4 I~i~G~~GsGKSTl 17 (183)
T PRK06217 4 IHITGASGSGTTTL 17 (183)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999999
No 440
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=89.64 E-value=0.13 Score=46.24 Aligned_cols=33 Identities=12% Similarity=0.041 Sum_probs=23.4
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
+.++.|.||+||||+ .+++. ..+.+ .++|+|+.
T Consensus 2 ~~~~~gkgG~GKtt~----a~~la--~~~a~-~g~~vLlv 34 (254)
T cd00550 2 YIFFGGKGGVGKTTI----SAATA--VRLAE-QGKKVLLV 34 (254)
T ss_pred EEEEECCCCchHHHH----HHHHH--HHHHH-CCCCceEE
Confidence 567899999999999 55554 23344 56787764
No 441
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=89.61 E-value=0.18 Score=47.13 Aligned_cols=18 Identities=22% Similarity=0.112 Sum_probs=15.3
Q ss_pred hCCCeEEEcCCCCCcceE
Q psy4476 147 QRPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 147 ~~~~tLIqGPPGTGKTtT 164 (266)
...-.||+|+|||||++.
T Consensus 21 ~~~pVLI~GE~GtGK~~l 38 (329)
T TIGR02974 21 LDRPVLIIGERGTGKELI 38 (329)
T ss_pred CCCCEEEECCCCChHHHH
Confidence 345579999999999998
No 442
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=89.59 E-value=0.15 Score=40.46 Aligned_cols=30 Identities=17% Similarity=0.083 Sum_probs=19.8
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceE
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL 187 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL 187 (266)
.+++|.||+|||+. ...+. ..+.+ .+.+|+
T Consensus 2 i~~~GkgG~GKTt~----a~~la--~~l~~-~g~~V~ 31 (116)
T cd02034 2 IAITGKGGVGKTTI----AALLA--RYLAE-KGKPVL 31 (116)
T ss_pred EEEECCCCCCHHHH----HHHHH--HHHHH-CCCcEE
Confidence 47899999999999 44444 23333 455654
No 443
>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=89.58 E-value=0.34 Score=50.80 Aligned_cols=31 Identities=6% Similarity=-0.154 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHHHhC-CCeEEEcCCCCCcceE
Q psy4476 134 LNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 134 LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtT 164 (266)
..+.|++++..++.. ...+++-|.|||||.+
T Consensus 16 PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa 47 (844)
T TIGR02621 16 PFPWQLSLAERFVAGQPPESCSTPTGLGKTSI 47 (844)
T ss_pred CCHHHHHHHHHHHcCCCcceEecCCCCcccHH
Confidence 568999999999975 4788899999999986
No 444
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=89.52 E-value=0.14 Score=50.47 Aligned_cols=39 Identities=15% Similarity=0.203 Sum_probs=26.5
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+++|.||||+|||+. ...++. ...+ .+.+++..+-...
T Consensus 274 ~~~li~G~~G~GKT~l----~~~~~~--~~~~-~g~~~~yis~e~~ 312 (509)
T PRK09302 274 SIILVSGATGTGKTLL----ASKFAE--AACR-RGERCLLFAFEES 312 (509)
T ss_pred cEEEEEcCCCCCHHHH----HHHHHH--HHHh-CCCcEEEEEecCC
Confidence 5789999999999999 444442 2222 4567777655544
No 445
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=89.49 E-value=0.14 Score=43.41 Aligned_cols=15 Identities=20% Similarity=0.284 Sum_probs=13.9
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.||||+|||+.
T Consensus 3 ~ili~G~~~sGKS~~ 17 (170)
T PRK05800 3 LILVTGGARSGKSRF 17 (170)
T ss_pred EEEEECCCCccHHHH
Confidence 469999999999999
No 446
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.49 E-value=0.24 Score=50.31 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=18.7
Q ss_pred HHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 139 VYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 139 ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
+.-++.++.+ +..|++||||||||++
T Consensus 25 ~~~L~~ai~~~ri~ha~Lf~GPpG~GKTti 54 (624)
T PRK14959 25 KAILSRAAQENRVAPAYLFSGTRGVGKTTI 54 (624)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHH
Confidence 4444555543 3467899999999999
No 447
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=89.44 E-value=0.32 Score=51.02 Aligned_cols=51 Identities=10% Similarity=-0.040 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHh-CCCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCC
Q psy4476 136 RSQVYAVKHAIQ-RPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPS 192 (266)
Q Consensus 136 ~sQ~~AV~~aL~-~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPS 192 (266)
...+..+..|+. +.+.+|.||||.||||- +..++. ..-...+.+|.+.-|=
T Consensus 52 ~~~~~~i~~ai~~~~vvii~getGsGKTTq----lP~~ll--e~g~~~~g~I~~tQPR 103 (845)
T COG1643 52 TAVRDEILKAIEQNQVVIIVGETGSGKTTQ----LPQFLL--EEGLGIAGKIGCTQPR 103 (845)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCChHHH----HHHHHH--hhhcccCCeEEecCch
Confidence 457888888886 68999999999999999 565552 1111234567666663
No 448
>PLN02674 adenylate kinase
Probab=89.42 E-value=0.14 Score=46.06 Aligned_cols=16 Identities=13% Similarity=0.181 Sum_probs=13.8
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.-.+|.||||+||||.
T Consensus 32 ~~i~l~G~PGsGKgT~ 47 (244)
T PLN02674 32 KRLILIGPPGSGKGTQ 47 (244)
T ss_pred ceEEEECCCCCCHHHH
Confidence 3468899999999998
No 449
>KOG0737|consensus
Probab=89.39 E-value=0.13 Score=48.76 Aligned_cols=15 Identities=13% Similarity=0.126 Sum_probs=13.3
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.|..||||||||...
T Consensus 130 iLL~GPpG~GKTmlA 144 (386)
T KOG0737|consen 130 ILLYGPPGTGKTMLA 144 (386)
T ss_pred ceecCCCCchHHHHH
Confidence 589999999999874
No 450
>PRK14738 gmk guanylate kinase; Provisional
Probab=89.38 E-value=0.098 Score=45.39 Aligned_cols=16 Identities=19% Similarity=0.146 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||||+||||+
T Consensus 14 ~~ivi~GpsG~GK~tl 29 (206)
T PRK14738 14 LLVVISGPSGVGKDAV 29 (206)
T ss_pred eEEEEECcCCCCHHHH
Confidence 4678999999999998
No 451
>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=89.36 E-value=0.2 Score=52.62 Aligned_cols=16 Identities=6% Similarity=-0.068 Sum_probs=14.7
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+-.++.||||||||+.
T Consensus 195 ~n~lL~G~pGvGKT~l 210 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAI 210 (852)
T ss_pred CceEEEcCCCCCHHHH
Confidence 5678999999999999
No 452
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=89.34 E-value=0.21 Score=49.93 Aligned_cols=27 Identities=11% Similarity=0.124 Sum_probs=19.6
Q ss_pred HHHHHHHHHhC-C---CeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQR-P---LSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~~-~---~tLIqGPPGTGKTtT 164 (266)
-.+.+..++.+ + ..|++||||||||++
T Consensus 22 v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~ 52 (535)
T PRK08451 22 VSKTLSLALDNNRLAHAYLFSGLRGSGKTSS 52 (535)
T ss_pred HHHHHHHHHHcCCCCeeEEEECCCCCcHHHH
Confidence 34555556653 3 458999999999999
No 453
>PRK06761 hypothetical protein; Provisional
Probab=89.27 E-value=0.11 Score=47.80 Aligned_cols=16 Identities=19% Similarity=0.301 Sum_probs=14.6
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
++.+|.||||+||||+
T Consensus 4 ~lIvI~G~~GsGKTTl 19 (282)
T PRK06761 4 KLIIIEGLPGFGKSTT 19 (282)
T ss_pred cEEEEECCCCCCHHHH
Confidence 4678999999999999
No 454
>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=89.25 E-value=0.16 Score=41.68 Aligned_cols=15 Identities=7% Similarity=0.209 Sum_probs=13.3
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+.+|.|+||+||||.
T Consensus 1 ~i~i~G~~GsGKSTl 15 (149)
T cd02027 1 VIWLTGLSGSGKSTI 15 (149)
T ss_pred CEEEEcCCCCCHHHH
Confidence 357899999999998
No 455
>PLN02459 probable adenylate kinase
Probab=89.23 E-value=0.15 Score=46.39 Aligned_cols=14 Identities=14% Similarity=0.097 Sum_probs=12.5
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 32 ii~~G~PGsGK~T~ 45 (261)
T PLN02459 32 WVFLGCPGVGKGTY 45 (261)
T ss_pred EEEECCCCCCHHHH
Confidence 46689999999999
No 456
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=89.19 E-value=0.15 Score=44.32 Aligned_cols=16 Identities=13% Similarity=0.183 Sum_probs=14.3
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.|+||+||||.
T Consensus 4 ~~i~i~G~~G~GKst~ 19 (197)
T PRK12339 4 TIHFIGGIPGVGKTSI 19 (197)
T ss_pred eEEEEECCCCCCHHHH
Confidence 3678999999999998
No 457
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=89.17 E-value=0.23 Score=49.18 Aligned_cols=28 Identities=14% Similarity=0.012 Sum_probs=21.1
Q ss_pred HHHHHHHHHHhC-CCeEEEcCCCCCcceE
Q psy4476 137 SQVYAVKHAIQR-PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 137 sQ~~AV~~aL~~-~~tLIqGPPGTGKTtT 164 (266)
.-++|+..++.. ...+|.||||||||+.
T Consensus 199 ~~~~al~~aa~~g~~vlliG~pGsGKTtl 227 (499)
T TIGR00368 199 HAKRALEIAAAGGHNLLLFGPPGSGKTML 227 (499)
T ss_pred HHHhhhhhhccCCCEEEEEecCCCCHHHH
Confidence 345555555544 6789999999999999
No 458
>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=89.10 E-value=0.17 Score=53.32 Aligned_cols=27 Identities=11% Similarity=0.150 Sum_probs=19.6
Q ss_pred HHHHHHHHHh---C---CCeEEEcCCCCCcceE
Q psy4476 138 QVYAVKHAIQ---R---PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 138 Q~~AV~~aL~---~---~~tLIqGPPGTGKTtT 164 (266)
|..-|...+. + +-.++.||||+|||++
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal 224 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAV 224 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHH
Confidence 4445555542 2 4568999999999999
No 459
>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=89.09 E-value=0.16 Score=48.94 Aligned_cols=40 Identities=10% Similarity=0.002 Sum_probs=25.6
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
.+.+|-|+||+|||+. ...++. ......+.+|+....-..
T Consensus 196 ~l~vi~g~pg~GKT~~----~l~~a~--~~a~~~g~~vl~~SlEm~ 235 (434)
T TIGR00665 196 DLIILAARPSMGKTAF----ALNIAE--NAAIKEGKPVAFFSLEMS 235 (434)
T ss_pred eEEEEEeCCCCChHHH----HHHHHH--HHHHhCCCeEEEEeCcCC
Confidence 5899999999999999 444442 222223456766554443
No 460
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=88.95 E-value=0.16 Score=51.35 Aligned_cols=22 Identities=18% Similarity=0.074 Sum_probs=18.0
Q ss_pred CCeEEEcCCCCCcceEeCcccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
+..+|+||+|||||+. +.+|.+
T Consensus 315 NpL~LyG~sGsGKTHL----L~AIa~ 336 (617)
T PRK14086 315 NPLFIYGESGLGKTHL----LHAIGH 336 (617)
T ss_pred CcEEEECCCCCCHHHH----HHHHHH
Confidence 3469999999999999 666664
No 461
>KOG0739|consensus
Probab=88.93 E-value=0.18 Score=47.03 Aligned_cols=30 Identities=20% Similarity=0.241 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHh-------------CCC--eEEEcCCCCCcceEe
Q psy4476 136 RSQVYAVKHAIQ-------------RPL--SLIQGMNQRSNGLHH 165 (266)
Q Consensus 136 ~sQ~~AV~~aL~-------------~~~--tLIqGPPGTGKTtTi 165 (266)
++-++|++.|+- .|. .|+.|||||||+...
T Consensus 139 E~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLA 183 (439)
T KOG0739|consen 139 EGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLA 183 (439)
T ss_pred hhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHH
Confidence 567788887741 122 588999999998763
No 462
>PRK06696 uridine kinase; Validated
Probab=88.93 E-value=0.16 Score=44.40 Aligned_cols=20 Identities=10% Similarity=0.187 Sum_probs=16.3
Q ss_pred CeEEEcCCCCCcceEeCccccccc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
+-.|.||||+||||. ...|.
T Consensus 24 iI~I~G~sgsGKSTl----A~~L~ 43 (223)
T PRK06696 24 RVAIDGITASGKTTF----ADELA 43 (223)
T ss_pred EEEEECCCCCCHHHH----HHHHH
Confidence 567899999999999 55555
No 463
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=88.91 E-value=0.23 Score=46.32 Aligned_cols=41 Identities=17% Similarity=0.058 Sum_probs=24.7
Q ss_pred hCCCeEEEcCCCCCcceEeCccccccccchhhhh-ccCCceEecCCCC
Q psy4476 147 QRPLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR-LRNKSNLNHRPSG 193 (266)
Q Consensus 147 ~~~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~-~~~~kiLvcAPSN 193 (266)
...-.+|+|.|||||++. ..+|- ..-.+ ....-++-|+.-+
T Consensus 28 ~~~pVlI~GE~GtGK~~l----A~~iH--~~s~r~~~pfv~v~c~~~~ 69 (326)
T PRK11608 28 LDKPVLIIGERGTGKELI----ASRLH--YLSSRWQGPFISLNCAALN 69 (326)
T ss_pred CCCCEEEECCCCCcHHHH----HHHHH--HhCCccCCCeEEEeCCCCC
Confidence 345679999999999999 44433 11111 1123467777643
No 464
>KOG1942|consensus
Probab=88.89 E-value=0.18 Score=46.88 Aligned_cols=16 Identities=13% Similarity=0.057 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
+-.||-||||||||-.
T Consensus 65 ravLlaGppgtGKTAl 80 (456)
T KOG1942|consen 65 RAVLLAGPPGTGKTAL 80 (456)
T ss_pred cEEEEecCCCCchhHH
Confidence 5679999999999988
No 465
>PRK14529 adenylate kinase; Provisional
Probab=88.89 E-value=0.16 Score=45.05 Aligned_cols=14 Identities=36% Similarity=0.432 Sum_probs=12.6
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.||||+||||.
T Consensus 3 I~l~G~PGsGK~T~ 16 (223)
T PRK14529 3 ILIFGPNGSGKGTQ 16 (223)
T ss_pred EEEECCCCCCHHHH
Confidence 36799999999998
No 466
>COG4889 Predicted helicase [General function prediction only]
Probab=88.88 E-value=0.81 Score=48.21 Aligned_cols=52 Identities=17% Similarity=0.012 Sum_probs=33.9
Q ss_pred CCCCHHHHHHHHHHHhC-----CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCC
Q psy4476 132 PDLNRSQVYAVKHAIQR-----PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSG 193 (266)
Q Consensus 132 ~~LN~sQ~~AV~~aL~~-----~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN 193 (266)
..+-+.|..|+..|+.. +=-||- -||||||.|- ..|.+ .+.+ .+||.-+||=
T Consensus 160 kk~R~hQq~Aid~a~~~F~~n~RGkLIM-AcGTGKTfTs----LkisE--ala~---~~iL~LvPSI 216 (1518)
T COG4889 160 KKPRPHQQTAIDAAKEGFSDNDRGKLIM-ACGTGKTFTS----LKISE--ALAA---ARILFLVPSI 216 (1518)
T ss_pred CCCChhHHHHHHHHHhhcccccCCcEEE-ecCCCccchH----HHHHH--HHhh---hheEeecchH
Confidence 46779999999999962 334565 5899999993 23331 2221 4666666654
No 467
>PTZ00202 tuzin; Provisional
Probab=88.83 E-value=0.31 Score=47.89 Aligned_cols=29 Identities=10% Similarity=0.218 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhC------CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR------PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~------~~tLIqGPPGTGKTtT 164 (266)
+.+..++..+|.. .+.+|.||+|+||||.
T Consensus 268 eaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTL 302 (550)
T PTZ00202 268 EAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSL 302 (550)
T ss_pred HHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHH
Confidence 4567777777742 4889999999999999
No 468
>PRK14737 gmk guanylate kinase; Provisional
Probab=88.67 E-value=0.12 Score=44.42 Aligned_cols=16 Identities=13% Similarity=0.115 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||+|+||||.
T Consensus 5 ~~ivl~GpsG~GK~tl 20 (186)
T PRK14737 5 KLFIISSVAGGGKSTI 20 (186)
T ss_pred eEEEEECCCCCCHHHH
Confidence 4678899999999999
No 469
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=88.60 E-value=0.19 Score=43.88 Aligned_cols=34 Identities=12% Similarity=0.055 Sum_probs=23.0
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
+.++.|.||+||||+ ...+. ..+.+ .+.|++++.
T Consensus 1 ~~~~~g~~g~Gkt~~----~~~la--~~~a~-~g~~~~l~~ 34 (217)
T cd02035 1 VIFFTGKGGVGKTTI----AAATA--VRLAE-EGKKVLLVS 34 (217)
T ss_pred CEEEeCCCCchHHHH----HHHHH--HHHHH-CCCcEEEEE
Confidence 357899999999999 55544 23444 467776643
No 470
>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=88.57 E-value=0.11 Score=41.12 Aligned_cols=16 Identities=19% Similarity=0.165 Sum_probs=15.0
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+..|.||+|+||||.
T Consensus 12 ~~~~i~G~nGsGKStL 27 (137)
T PF00005_consen 12 EIVAIVGPNGSGKSTL 27 (137)
T ss_dssp SEEEEEESTTSSHHHH
T ss_pred CEEEEEccCCCccccc
Confidence 5789999999999999
No 471
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=88.54 E-value=0.22 Score=51.03 Aligned_cols=16 Identities=25% Similarity=0.223 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.-.+|+|+||||||+.
T Consensus 400 ~pVLI~GE~GTGK~~l 415 (686)
T PRK15429 400 STVLILGETGTGKELI 415 (686)
T ss_pred CCEEEECCCCcCHHHH
Confidence 4679999999999998
No 472
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=88.52 E-value=0.22 Score=49.43 Aligned_cols=17 Identities=18% Similarity=0.261 Sum_probs=14.9
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..-.+|+|+||||||++
T Consensus 219 ~~pvli~Ge~GtGK~~l 235 (534)
T TIGR01817 219 NSTVLLRGESGTGKELI 235 (534)
T ss_pred CCCEEEECCCCccHHHH
Confidence 34569999999999999
No 473
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=88.48 E-value=0.15 Score=45.31 Aligned_cols=33 Identities=9% Similarity=0.093 Sum_probs=22.9
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEec
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNH 189 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvc 189 (266)
.++++ |--|+||||+ .+.+. +.+.+ .++|||+.
T Consensus 3 ~iav~-~KGGvGKTT~----~~nLA--~~La~-~G~kVlli 35 (270)
T cd02040 3 QIAIY-GKGGIGKSTT----TQNLS--AALAE-MGKKVMIV 35 (270)
T ss_pred EEEEE-eCCcCCHHHH----HHHHH--HHHHh-CCCeEEEE
Confidence 35677 8999999999 44444 34454 67788864
No 474
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=88.44 E-value=0.17 Score=42.78 Aligned_cols=14 Identities=7% Similarity=-0.140 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
-.|+|+||+||||.
T Consensus 2 i~itG~~gsGKst~ 15 (179)
T cd02022 2 IGLTGGIGSGKSTV 15 (179)
T ss_pred EEEECCCCCCHHHH
Confidence 46899999999999
No 475
>CHL00206 ycf2 Ycf2; Provisional
Probab=88.43 E-value=0.13 Score=57.75 Aligned_cols=15 Identities=13% Similarity=0.042 Sum_probs=13.5
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.|+.||||||||..+
T Consensus 1633 ILLiGPPGTGKTlLA 1647 (2281)
T CHL00206 1633 ILVIGSIGTGRSYLV 1647 (2281)
T ss_pred eEEECCCCCCHHHHH
Confidence 589999999999993
No 476
>PRK00300 gmk guanylate kinase; Provisional
Probab=88.38 E-value=0.14 Score=43.75 Aligned_cols=16 Identities=13% Similarity=0.139 Sum_probs=14.5
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+.+|.||+|+||||.
T Consensus 6 ~~i~i~G~sGsGKstl 21 (205)
T PRK00300 6 LLIVLSGPSGAGKSTL 21 (205)
T ss_pred CEEEEECCCCCCHHHH
Confidence 4678999999999998
No 477
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=88.36 E-value=0.14 Score=43.05 Aligned_cols=15 Identities=20% Similarity=0.242 Sum_probs=0.0
Q ss_pred CeEEEcCCCCCcceE
Q psy4476 150 LSLIQGMNQRSNGLH 164 (266)
Q Consensus 150 ~tLIqGPPGTGKTtT 164 (266)
+++|.||.|+|||+.
T Consensus 1 i~viiG~N~sGKS~i 15 (303)
T PF13304_consen 1 INVIIGPNGSGKSNI 15 (303)
T ss_dssp ---------------
T ss_pred CCccccccccccccc
Confidence 578999999999999
No 478
>PTZ00035 Rad51 protein; Provisional
Probab=88.35 E-value=0.19 Score=47.18 Aligned_cols=18 Identities=6% Similarity=-0.012 Sum_probs=15.9
Q ss_pred CCCeEEEcCCCCCcceEe
Q psy4476 148 RPLSLIQGMNQRSNGLHH 165 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTi 165 (266)
..++.|.||||+|||+..
T Consensus 118 G~iteI~G~~GsGKT~l~ 135 (337)
T PTZ00035 118 GSITELFGEFRTGKTQLC 135 (337)
T ss_pred CeEEEEECCCCCchhHHH
Confidence 468999999999999993
No 479
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=88.33 E-value=0.15 Score=44.21 Aligned_cols=17 Identities=24% Similarity=0.229 Sum_probs=15.7
Q ss_pred CCCeEEEcCCCCCcceE
Q psy4476 148 RPLSLIQGMNQRSNGLH 164 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtT 164 (266)
..+.+|.||+|.||||.
T Consensus 25 g~~~~ltGpNg~GKSTl 41 (199)
T cd03283 25 KNGILITGSNMSGKSTF 41 (199)
T ss_pred CcEEEEECCCCCChHHH
Confidence 36899999999999999
No 480
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=88.33 E-value=0.2 Score=49.98 Aligned_cols=40 Identities=8% Similarity=-0.017 Sum_probs=24.1
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhcc-CCce-EecCCCCc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLR-NKSN-LNHRPSGA 194 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~-~~ki-LvcAPSN~ 194 (266)
.+..|.||+|+||||| +..|.. .+.... +.+| ++.+.+.+
T Consensus 351 ~vIaLVGPtGvGKTTt----aakLAa--~la~~~~gkkVaLIdtDtyR 392 (559)
T PRK12727 351 GVIALVGPTGAGKTTT----IAKLAQ--RFAAQHAPRDVALVTTDTQR 392 (559)
T ss_pred CEEEEECCCCCCHHHH----HHHHHH--HHHHhcCCCceEEEeccccc
Confidence 4667889999999999 555542 222212 3455 45555533
No 481
>PRK13695 putative NTPase; Provisional
Probab=88.32 E-value=0.13 Score=43.09 Aligned_cols=14 Identities=14% Similarity=-0.116 Sum_probs=12.8
Q ss_pred eEEEcCCCCCcceE
Q psy4476 151 SLIQGMNQRSNGLH 164 (266)
Q Consensus 151 tLIqGPPGTGKTtT 164 (266)
.+|.|+||+||||.
T Consensus 3 i~ltG~~G~GKTTl 16 (174)
T PRK13695 3 IGITGPPGVGKTTL 16 (174)
T ss_pred EEEECCCCCCHHHH
Confidence 47899999999999
No 482
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.30 E-value=0.2 Score=52.00 Aligned_cols=21 Identities=10% Similarity=0.033 Sum_probs=16.8
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.+..+-||.|+||||| ++.|.
T Consensus 186 ~Vi~lVGpnGvGKTTT----iaKLA 206 (767)
T PRK14723 186 GVLALVGPTGVGKTTT----TAKLA 206 (767)
T ss_pred eEEEEECCCCCcHHHH----HHHHH
Confidence 3678899999999999 55444
No 483
>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=88.29 E-value=0.14 Score=49.85 Aligned_cols=15 Identities=7% Similarity=-0.055 Sum_probs=13.0
Q ss_pred eEEEcCCCCCcceEe
Q psy4476 151 SLIQGMNQRSNGLHH 165 (266)
Q Consensus 151 tLIqGPPGTGKTtTi 165 (266)
.++.||||||||++.
T Consensus 212 li~lGp~GTGKThla 226 (449)
T TIGR02688 212 LIELGPKGTGKSYIY 226 (449)
T ss_pred EEEECCCCCCHHHHH
Confidence 577899999999984
No 484
>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=88.29 E-value=0.11 Score=44.88 Aligned_cols=22 Identities=23% Similarity=0.141 Sum_probs=18.7
Q ss_pred CCCeEEEcCCCCCcceEeCccccccc
Q psy4476 148 RPLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 148 ~~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
..+++|.||.|+|||+. +.+|.
T Consensus 24 ~~~~~i~G~NGsGKS~i----leAi~ 45 (220)
T PF02463_consen 24 PGLNVIVGPNGSGKSNI----LEAIE 45 (220)
T ss_dssp SSEEEEEESTTSSHHHH----HHHHH
T ss_pred CCCEEEEcCCCCCHHHH----HHHHH
Confidence 46899999999999999 66664
No 485
>KOG2004|consensus
Probab=88.29 E-value=0.22 Score=51.17 Aligned_cols=26 Identities=15% Similarity=0.073 Sum_probs=20.9
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhh
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNR 180 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~ 180 (266)
++.+..||||.|||.+ ..+|. ..++|
T Consensus 439 kIlCf~GPPGVGKTSI----~kSIA--~ALnR 464 (906)
T KOG2004|consen 439 KILCFVGPPGVGKTSI----AKSIA--RALNR 464 (906)
T ss_pred cEEEEeCCCCCCcccH----HHHHH--HHhCC
Confidence 7889999999999999 77776 34443
No 486
>KOG0726|consensus
Probab=88.24 E-value=0.43 Score=44.50 Aligned_cols=29 Identities=24% Similarity=0.418 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHhCCC----------------eEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQRPL----------------SLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~~~----------------tLIqGPPGTGKTtT 164 (266)
++|.+-|+.+..-|+ .++.|+||||||..
T Consensus 191 e~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLL 235 (440)
T KOG0726|consen 191 ESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLL 235 (440)
T ss_pred HHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHH
Confidence 678888888763221 35689999999977
No 487
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=88.18 E-value=0.33 Score=45.72 Aligned_cols=31 Identities=10% Similarity=0.030 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHHhC-CCeEEEcCCCCCcceE
Q psy4476 134 LNRSQVYAVKHAIQR-PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 134 LN~sQ~~AV~~aL~~-~~tLIqGPPGTGKTtT 164 (266)
+++.+.+-++.++.. ...+|.||+|+||||+
T Consensus 163 ~~~~~~~~L~~~v~~~~~ili~G~tGsGKTTl 194 (340)
T TIGR03819 163 FPPGVARLLRAIVAARLAFLISGGTGSGKTTL 194 (340)
T ss_pred CCHHHHHHHHHHHhCCCeEEEECCCCCCHHHH
Confidence 567777777777764 5779999999999999
No 488
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=88.11 E-value=0.17 Score=41.43 Aligned_cols=22 Identities=14% Similarity=0.104 Sum_probs=17.7
Q ss_pred CCeEEEcCCCCCcceEeCcccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
|+..|.||.|+||||. +..|++
T Consensus 1 pvv~VvG~~~sGKTTl----~~~Li~ 22 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTL----IRKLIN 22 (140)
T ss_dssp -EEEEEESTTSSHHHH----HHHHHH
T ss_pred CEEEEECCCCCCHHHH----HHHHHH
Confidence 4568999999999999 666764
No 489
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=88.09 E-value=0.23 Score=41.49 Aligned_cols=37 Identities=11% Similarity=0.217 Sum_probs=22.6
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceE-ecCCCC
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNL-NHRPSG 193 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiL-vcAPSN 193 (266)
+-+|-||+|+||||. +..+. ..+.. .+.++. +.-|..
T Consensus 2 ~I~ieG~~GsGKtT~----~~~L~--~~l~~-~g~~v~~~~~~~~ 39 (200)
T cd01672 2 FIVFEGIDGAGKTTL----IELLA--ERLEA-RGYEVVLTREPGG 39 (200)
T ss_pred EEEEECCCCCCHHHH----HHHHH--HHHHH-cCCeEEEEeCCCC
Confidence 457899999999999 55544 23332 344444 334543
No 490
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=88.03 E-value=0.22 Score=46.64 Aligned_cols=29 Identities=14% Similarity=-0.031 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhC----CCeEEEcCCCCCcceE
Q psy4476 136 RSQVYAVKHAIQR----PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 136 ~sQ~~AV~~aL~~----~~tLIqGPPGTGKTtT 164 (266)
+||..+.+..+.+ .-.|++||||+|||++
T Consensus 6 PWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~ 38 (328)
T PRK05707 6 PWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRAL 38 (328)
T ss_pred CCcHHHHHHHHHCCCcceeeeeECCCCCCHHHH
Confidence 4555555555543 3468999999999999
No 491
>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=88.03 E-value=0.18 Score=44.76 Aligned_cols=16 Identities=19% Similarity=0.133 Sum_probs=13.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
++.+|.||+|||||..
T Consensus 2 ~v~~i~GpT~tGKt~~ 17 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTAL 17 (233)
T ss_dssp EEEEEE-STTSSHHHH
T ss_pred cEEEEECCCCCChhHH
Confidence 3679999999999999
No 492
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=88.03 E-value=0.17 Score=53.47 Aligned_cols=24 Identities=21% Similarity=0.070 Sum_probs=20.7
Q ss_pred hCCCeEEEcCCCCCcceEeCcccccccc
Q psy4476 147 QRPLSLIQGMNQRSNGLHHQPGGAGIGN 174 (266)
Q Consensus 147 ~~~~tLIqGPPGTGKTtTiv~~i~~Ii~ 174 (266)
..++++|.||.|.||||. +-+|.+
T Consensus 24 ~~gi~lI~G~nGsGKSSI----ldAI~~ 47 (908)
T COG0419 24 DSGIFLIVGPNGAGKSSI----LDAITF 47 (908)
T ss_pred CCCeEEEECCCCCcHHHH----HHHHHH
Confidence 358999999999999999 777773
No 493
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=87.99 E-value=0.17 Score=48.26 Aligned_cols=38 Identities=16% Similarity=0.138 Sum_probs=25.9
Q ss_pred CeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 150 LSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 150 ~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
=++|.|.||||||++ +..++. .+. .++.+..|.-|.+-
T Consensus 17 ~~li~G~~GsGKT~~----i~~ll~--~~~-~~g~~~iI~D~kg~ 54 (386)
T PF10412_consen 17 HILIIGATGSGKTQA----IRHLLD--QIR-ARGDRAIIYDPKGE 54 (386)
T ss_dssp -EEEEE-TTSSHHHH----HHHHHH--HHH-HTT-EEEEEEETTH
T ss_pred cEEEECCCCCCHHHH----HHHHHH--HHH-HcCCEEEEEECCch
Confidence 479999999999998 555663 222 24678888888876
No 494
>PRK13975 thymidylate kinase; Provisional
Probab=87.83 E-value=0.21 Score=42.28 Aligned_cols=16 Identities=6% Similarity=0.297 Sum_probs=14.1
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+-+|.||||+||||.
T Consensus 3 ~~I~ieG~~GsGKtT~ 18 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQ 18 (196)
T ss_pred eEEEEECCCCCCHHHH
Confidence 3568899999999999
No 495
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=87.74 E-value=0.18 Score=45.97 Aligned_cols=35 Identities=11% Similarity=0.189 Sum_probs=18.8
Q ss_pred CCeEEEcCCCCCcceEeCccccccccchhhhhccCCceEecC
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHR 190 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcA 190 (266)
|+.+|.|.||+||||. ...|.. .+.. .+.++.+..
T Consensus 2 pLiil~G~P~SGKTt~----a~~L~~--~~~~-~~~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTR----AKELKK--YLEE-KGKEVVIIS 36 (270)
T ss_dssp -EEEEE--TTSSHHHH----HHHHHH--HHHH-TT--EEEE-
T ss_pred EEEEEEcCCCCcHHHH----HHHHHH--HHHh-cCCEEEEEc
Confidence 5678999999999988 555552 3333 344554443
No 496
>KOG0732|consensus
Probab=87.71 E-value=0.18 Score=53.73 Aligned_cols=42 Identities=24% Similarity=0.256 Sum_probs=29.8
Q ss_pred eEEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCcccccc
Q psy4476 151 SLIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGANKLSQ 199 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~arl~~ 199 (266)
.|.+||||||||.. ..++. ..... .+.||..-.=.+++.|+-
T Consensus 302 vL~~GppGTGkTl~----araLa--~~~s~-~~~kisffmrkgaD~lsk 343 (1080)
T KOG0732|consen 302 VLFHGPPGTGKTLM----ARALA--AACSR-GNRKISFFMRKGADCLSK 343 (1080)
T ss_pred eeecCCCCCchhHH----HHhhh--hhhcc-cccccchhhhcCchhhcc
Confidence 68899999999988 55554 23333 567788877778765554
No 497
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=87.71 E-value=0.24 Score=45.89 Aligned_cols=21 Identities=10% Similarity=-0.034 Sum_probs=17.2
Q ss_pred CCeEEEcCCCCCcceEeCccccccc
Q psy4476 149 PLSLIQGMNQRSNGLHHQPGGAGIG 173 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtTiv~~i~~Ii 173 (266)
.-.+|.|++|||||++ +..++
T Consensus 24 ~r~vL~G~~GsGKS~~----L~q~~ 44 (309)
T PF10236_consen 24 NRYVLTGERGSGKSVL----LAQAV 44 (309)
T ss_pred eEEEEECCCCCCHHHH----HHHHH
Confidence 3468999999999999 55555
No 498
>PRK00698 tmk thymidylate kinase; Validated
Probab=87.71 E-value=0.26 Score=41.82 Aligned_cols=16 Identities=13% Similarity=0.281 Sum_probs=14.4
Q ss_pred CCeEEEcCCCCCcceE
Q psy4476 149 PLSLIQGMNQRSNGLH 164 (266)
Q Consensus 149 ~~tLIqGPPGTGKTtT 164 (266)
.+-+|.||+|+||||.
T Consensus 4 ~~I~ieG~~gsGKsT~ 19 (205)
T PRK00698 4 MFITIEGIDGAGKSTQ 19 (205)
T ss_pred eEEEEECCCCCCHHHH
Confidence 4678999999999999
No 499
>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=87.55 E-value=0.16 Score=50.35 Aligned_cols=36 Identities=19% Similarity=-0.007 Sum_probs=25.5
Q ss_pred EEEcCCCCCcceEeCccccccccchhhhhccCCceEecCCCCc
Q psy4476 152 LIQGMNQRSNGLHHQPGGAGIGNSANTNRLRNKSNLNHRPSGA 194 (266)
Q Consensus 152 LIqGPPGTGKTtTiv~~i~~Ii~~~~~~~~~~~kiLvcAPSN~ 194 (266)
||+||.|+|||.+- ..++. ..+. .++++|+.+|+-+
T Consensus 1 LL~g~TGsGKT~v~----l~~i~-~~l~--~g~~vLvlvP~i~ 36 (505)
T TIGR00595 1 LLFGVTGSGKTEVY----LQAIE-KVLA--LGKSVLVLVPEIA 36 (505)
T ss_pred CccCCCCCCHHHHH----HHHHH-HHHH--cCCeEEEEeCcHH
Confidence 68999999999983 22221 1222 4678999999986
No 500
>PRK12678 transcription termination factor Rho; Provisional
Probab=87.54 E-value=0.21 Score=50.34 Aligned_cols=16 Identities=19% Similarity=0.050 Sum_probs=14.3
Q ss_pred eEEEcCCCCCcceEeC
Q psy4476 151 SLIQGMNQRSNGLHHQ 166 (266)
Q Consensus 151 tLIqGPPGTGKTtTiv 166 (266)
.||.||||||||+++.
T Consensus 419 ~LIvgpp~aGKTtLL~ 434 (672)
T PRK12678 419 GLIVSPPKAGKTTILQ 434 (672)
T ss_pred eEEeCCCCCCHHHHHH
Confidence 6999999999999854
Done!