Query 040110
Match_columns 348
No_of_seqs 221 out of 2167
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 05:14:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040110.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040110hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4658 Apoptotic ATPase [Sign 100.0 1.5E-50 3.4E-55 416.0 18.9 253 85-348 161-462 (889)
2 PF00931 NB-ARC: NB-ARC domain 100.0 8.5E-43 1.8E-47 321.5 4.1 240 87-334 1-284 (287)
3 PLN03210 Resistant to P. syrin 100.0 2.2E-30 4.7E-35 278.3 18.1 226 83-333 185-467 (1153)
4 PRK00411 cdc6 cell division co 99.0 4.3E-09 9.3E-14 101.5 12.3 123 78-207 26-150 (394)
5 TIGR02928 orc1/cdc6 family rep 98.9 1.3E-08 2.8E-13 97.1 11.8 123 77-207 10-141 (365)
6 PF13401 AAA_22: AAA domain; P 98.8 1.1E-08 2.5E-13 82.6 8.0 114 111-232 3-125 (131)
7 PF05729 NACHT: NACHT domain 98.8 2.3E-08 5E-13 83.8 9.6 113 113-235 1-132 (166)
8 PF13173 AAA_14: AAA domain 98.7 4.2E-08 9E-13 79.3 6.9 102 112-237 2-103 (128)
9 cd00009 AAA The AAA+ (ATPases 98.7 2E-07 4.2E-12 75.9 10.9 123 85-234 1-131 (151)
10 TIGR03015 pepcterm_ATPase puta 98.7 5.1E-07 1.1E-11 82.3 13.6 96 111-214 42-144 (269)
11 cd01128 rho_factor Transcripti 98.6 7.4E-08 1.6E-12 86.6 7.5 103 95-206 4-114 (249)
12 PF13191 AAA_16: AAA ATPase do 98.6 7E-08 1.5E-12 82.6 6.1 48 83-136 1-48 (185)
13 PF01637 Arch_ATPase: Archaeal 98.6 7.2E-08 1.6E-12 85.4 5.4 43 84-135 1-43 (234)
14 PTZ00202 tuzin; Provisional 98.5 2E-06 4.3E-11 81.9 14.2 100 83-202 263-368 (550)
15 PRK09376 rho transcription ter 98.5 2.4E-07 5.1E-12 87.4 5.9 101 95-206 157-267 (416)
16 COG2256 MGS1 ATPase related to 98.4 6.4E-07 1.4E-11 83.7 8.1 110 83-235 31-145 (436)
17 PRK04841 transcriptional regul 98.4 2.5E-06 5.4E-11 90.9 13.5 134 82-233 14-162 (903)
18 COG2909 MalT ATP-dependent tra 98.4 2.8E-06 6.1E-11 86.0 12.4 195 110-313 35-285 (894)
19 COG1474 CDC6 Cdc6-related prot 98.4 1.1E-06 2.4E-11 83.4 9.1 120 77-207 12-135 (366)
20 KOG2028 ATPase related to the 98.3 1.8E-06 3.9E-11 79.6 7.6 101 109-235 159-263 (554)
21 TIGR00767 rho transcription te 98.3 2.9E-06 6.3E-11 80.5 8.8 90 114-206 170-266 (415)
22 PTZ00112 origin recognition co 98.2 8.3E-06 1.8E-10 83.5 10.7 124 77-207 750-881 (1164)
23 PRK00080 ruvB Holliday junctio 98.2 8.9E-06 1.9E-10 76.5 9.7 49 83-135 26-74 (328)
24 TIGR02903 spore_lon_C ATP-depe 98.2 6E-05 1.3E-09 76.6 15.6 142 83-234 155-335 (615)
25 PRK13342 recombination factor 98.1 6.2E-06 1.3E-10 80.1 8.1 106 83-228 13-124 (413)
26 PRK12402 replication factor C 98.1 1.6E-05 3.4E-10 74.9 9.8 44 83-135 16-59 (337)
27 PF05621 TniB: Bacterial TniB 98.1 0.0001 2.2E-09 67.4 13.6 219 83-323 35-283 (302)
28 PRK11331 5-methylcytosine-spec 98.0 5.6E-06 1.2E-10 79.7 5.3 107 83-207 176-284 (459)
29 PRK05564 DNA polymerase III su 98.0 6E-05 1.3E-09 70.4 12.1 123 83-234 5-134 (313)
30 smart00382 AAA ATPases associa 98.0 4.7E-05 1E-09 61.0 10.0 87 113-207 3-90 (148)
31 PF00004 AAA: ATPase family as 98.0 2.4E-05 5.1E-10 62.8 8.2 21 115-135 1-21 (132)
32 PRK07003 DNA polymerase III su 98.0 3.3E-05 7.1E-10 78.6 10.7 137 83-234 17-160 (830)
33 TIGR03420 DnaA_homol_Hda DnaA 98.0 1.4E-05 3E-10 70.9 6.6 48 95-150 27-74 (226)
34 KOG2543 Origin recognition com 98.0 3.6E-05 7.9E-10 71.6 9.2 115 83-208 7-128 (438)
35 TIGR00635 ruvB Holliday juncti 98.0 9.7E-06 2.1E-10 75.4 5.2 49 83-135 5-53 (305)
36 PRK14961 DNA polymerase III su 97.9 8.8E-05 1.9E-09 70.8 11.5 45 83-135 17-61 (363)
37 PRK06893 DNA replication initi 97.9 1.3E-05 2.8E-10 71.5 5.2 36 113-150 40-75 (229)
38 PRK13341 recombination factor 97.9 3.4E-05 7.3E-10 79.4 8.4 52 83-142 29-80 (725)
39 PRK08116 hypothetical protein; 97.9 4.6E-05 9.9E-10 69.6 7.8 101 114-233 116-221 (268)
40 PRK14960 DNA polymerase III su 97.9 9.1E-05 2E-09 74.5 10.4 45 83-135 16-60 (702)
41 PRK04195 replication factor C 97.9 6.8E-05 1.5E-09 74.3 9.5 119 83-232 15-139 (482)
42 PRK00440 rfc replication facto 97.9 0.00016 3.4E-09 67.5 11.3 44 83-135 18-61 (319)
43 PHA02544 44 clamp loader, smal 97.8 7.3E-05 1.6E-09 69.9 8.9 118 83-234 22-142 (316)
44 PLN03025 replication factor C 97.8 9.7E-05 2.1E-09 69.2 9.6 122 83-232 14-138 (319)
45 PRK14949 DNA polymerase III su 97.8 9.1E-05 2E-09 76.7 9.7 46 83-136 17-62 (944)
46 PRK14957 DNA polymerase III su 97.8 0.00012 2.7E-09 72.8 10.4 124 83-236 17-163 (546)
47 PF04665 Pox_A32: Poxvirus A32 97.8 6.4E-05 1.4E-09 66.9 7.4 35 114-150 15-49 (241)
48 PRK12323 DNA polymerase III su 97.8 0.00018 3.9E-09 72.3 11.0 146 83-238 17-170 (700)
49 TIGR01242 26Sp45 26S proteasom 97.8 6.1E-05 1.3E-09 71.9 7.3 55 83-142 123-184 (364)
50 PRK14963 DNA polymerase III su 97.8 1.5E-05 3.2E-10 79.0 3.0 133 83-231 15-154 (504)
51 PRK10536 hypothetical protein; 97.8 0.00013 2.9E-09 65.4 8.7 53 83-146 56-108 (262)
52 PRK14962 DNA polymerase III su 97.7 0.00024 5.3E-09 69.9 11.0 45 83-135 15-59 (472)
53 PF05496 RuvB_N: Holliday junc 97.7 5.5E-05 1.2E-09 66.2 5.3 54 83-142 25-78 (233)
54 PRK14958 DNA polymerase III su 97.7 0.0003 6.5E-09 69.9 11.2 45 83-135 17-61 (509)
55 PRK08118 topology modulation p 97.7 2.1E-05 4.5E-10 66.6 2.5 34 114-147 3-37 (167)
56 PRK06645 DNA polymerase III su 97.7 0.0004 8.6E-09 68.8 11.5 143 83-237 22-173 (507)
57 PRK14969 DNA polymerase III su 97.7 0.00046 9.9E-09 69.0 11.8 45 83-135 17-61 (527)
58 PRK14951 DNA polymerase III su 97.7 0.00033 7.1E-09 70.9 10.8 45 83-135 17-61 (618)
59 PRK08691 DNA polymerase III su 97.7 0.00036 7.8E-09 70.8 10.9 45 83-135 17-61 (709)
60 PRK14964 DNA polymerase III su 97.6 0.00047 1E-08 67.9 10.9 127 83-238 14-162 (491)
61 PRK14955 DNA polymerase III su 97.6 0.00042 9.1E-09 67.0 10.4 145 83-236 17-171 (397)
62 TIGR02881 spore_V_K stage V sp 97.6 0.00014 3E-09 66.2 6.7 25 111-135 41-65 (261)
63 PRK08181 transposase; Validate 97.6 0.00019 4.1E-09 65.4 7.4 71 114-206 108-178 (269)
64 PRK12377 putative replication 97.6 0.00029 6.3E-09 63.4 8.5 72 113-205 102-173 (248)
65 PRK08727 hypothetical protein; 97.6 0.00013 2.8E-09 65.2 6.1 35 113-149 42-76 (233)
66 PRK07994 DNA polymerase III su 97.6 0.00032 6.9E-09 71.1 9.4 139 83-236 17-163 (647)
67 COG1373 Predicted ATPase (AAA+ 97.6 0.00056 1.2E-08 66.0 10.7 109 95-238 27-136 (398)
68 TIGR00678 holB DNA polymerase 97.6 0.0014 3E-08 56.5 11.8 40 194-233 95-136 (188)
69 CHL00095 clpC Clp protease ATP 97.5 0.00021 4.5E-09 75.3 7.8 44 83-135 180-223 (821)
70 PRK07940 DNA polymerase III su 97.5 0.00057 1.2E-08 65.7 10.1 50 83-135 6-59 (394)
71 PRK08084 DNA replication initi 97.5 0.00018 4E-09 64.3 6.2 36 113-150 46-81 (235)
72 PRK03992 proteasome-activating 97.5 0.00024 5.3E-09 68.4 7.3 50 83-135 132-188 (389)
73 TIGR02397 dnaX_nterm DNA polym 97.5 0.0011 2.4E-08 62.9 11.7 45 83-135 15-59 (355)
74 PRK14956 DNA polymerase III su 97.5 0.00027 5.9E-09 69.0 7.5 141 83-238 19-167 (484)
75 PRK05896 DNA polymerase III su 97.5 0.00064 1.4E-08 68.2 10.1 45 83-135 17-61 (605)
76 PRK07261 topology modulation p 97.5 0.00029 6.3E-09 59.8 6.7 66 114-206 2-68 (171)
77 PRK10865 protein disaggregatio 97.5 0.00029 6.4E-09 74.3 7.9 44 83-135 179-222 (857)
78 PRK12608 transcription termina 97.5 0.00099 2.1E-08 63.0 10.6 104 95-205 121-230 (380)
79 TIGR02639 ClpA ATP-dependent C 97.5 0.00031 6.6E-09 73.2 7.9 44 83-135 183-226 (731)
80 PRK14970 DNA polymerase III su 97.5 0.00093 2E-08 63.9 10.5 45 83-135 18-62 (367)
81 PRK05642 DNA replication initi 97.4 0.00034 7.4E-09 62.5 6.9 37 112-150 45-81 (234)
82 PF05673 DUF815: Protein of un 97.4 0.00075 1.6E-08 60.0 8.6 122 83-238 28-156 (249)
83 PRK14952 DNA polymerase III su 97.4 0.0012 2.6E-08 66.5 10.9 45 83-135 14-58 (584)
84 PRK06526 transposase; Provisio 97.4 0.00038 8.2E-09 63.0 6.5 23 113-135 99-121 (254)
85 PRK14950 DNA polymerase III su 97.4 0.0015 3.2E-08 66.4 11.3 134 83-231 17-158 (585)
86 PRK07764 DNA polymerase III su 97.4 0.0012 2.5E-08 69.2 10.7 46 83-136 16-61 (824)
87 PRK09111 DNA polymerase III su 97.4 0.0013 2.7E-08 66.6 10.5 45 83-135 25-69 (598)
88 PRK07952 DNA replication prote 97.4 0.0031 6.7E-08 56.6 11.9 76 112-207 99-174 (244)
89 cd01120 RecA-like_NTPases RecA 97.4 0.0019 4.1E-08 53.4 10.0 40 114-155 1-40 (165)
90 cd01393 recA_like RecA is a b 97.3 0.0021 4.5E-08 56.9 10.7 94 110-206 17-125 (226)
91 TIGR03346 chaperone_ClpB ATP-d 97.3 0.00045 9.8E-09 73.1 7.4 44 83-135 174-217 (852)
92 PF00308 Bac_DnaA: Bacterial d 97.3 0.00061 1.3E-08 60.3 7.1 102 111-234 33-141 (219)
93 PRK14954 DNA polymerase III su 97.3 0.0016 3.4E-08 66.1 10.8 45 83-135 17-61 (620)
94 PRK07471 DNA polymerase III su 97.3 0.0019 4.1E-08 61.6 10.7 45 83-135 20-64 (365)
95 PRK09361 radB DNA repair and r 97.3 0.0009 1.9E-08 59.3 8.0 90 110-205 21-117 (225)
96 COG0470 HolB ATPase involved i 97.3 0.0019 4.2E-08 60.2 10.6 122 84-232 3-148 (325)
97 TIGR03345 VI_ClpV1 type VI sec 97.3 0.00051 1.1E-08 72.4 7.1 44 83-135 188-231 (852)
98 cd01131 PilT Pilus retraction 97.3 0.00077 1.7E-08 58.7 7.2 112 113-238 2-114 (198)
99 PRK00771 signal recognition pa 97.3 0.0064 1.4E-07 59.2 14.1 91 110-204 93-184 (437)
100 TIGR02880 cbbX_cfxQ probable R 97.3 0.0016 3.4E-08 60.1 9.5 22 114-135 60-81 (284)
101 COG3903 Predicted ATPase [Gene 97.3 0.00011 2.4E-09 69.3 1.8 195 110-318 12-258 (414)
102 PRK09183 transposase/IS protei 97.3 0.00072 1.6E-08 61.4 7.0 23 113-135 103-125 (259)
103 CHL00181 cbbX CbbX; Provisiona 97.3 0.003 6.4E-08 58.3 11.1 22 114-135 61-82 (287)
104 PTZ00454 26S protease regulato 97.3 0.00078 1.7E-08 64.9 7.5 50 83-135 146-202 (398)
105 TIGR03346 chaperone_ClpB ATP-d 97.3 0.00078 1.7E-08 71.3 8.0 136 83-232 566-717 (852)
106 TIGR02237 recomb_radB DNA repa 97.3 0.0012 2.6E-08 57.8 7.9 93 109-205 9-107 (209)
107 PRK05541 adenylylsulfate kinas 97.2 0.00059 1.3E-08 58.1 5.8 36 111-148 6-41 (176)
108 PRK08939 primosomal protein Dn 97.2 0.0011 2.4E-08 61.7 8.0 98 112-231 156-259 (306)
109 cd01123 Rad51_DMC1_radA Rad51_ 97.2 0.0024 5.3E-08 56.8 10.0 96 109-205 16-125 (235)
110 PRK09087 hypothetical protein; 97.2 0.0013 2.8E-08 58.5 8.1 24 112-135 44-67 (226)
111 PRK14959 DNA polymerase III su 97.2 0.0022 4.7E-08 64.8 10.4 46 83-136 17-62 (624)
112 TIGR03345 VI_ClpV1 type VI sec 97.2 0.00056 1.2E-08 72.1 6.5 50 83-135 567-619 (852)
113 TIGR00362 DnaA chromosomal rep 97.2 0.0014 3E-08 63.6 8.9 99 112-232 136-241 (405)
114 PF13207 AAA_17: AAA domain; P 97.2 0.00024 5.1E-09 56.3 2.9 22 114-135 1-22 (121)
115 PRK14088 dnaA chromosomal repl 97.2 0.0013 2.8E-08 64.4 8.6 73 113-206 131-205 (440)
116 TIGR02639 ClpA ATP-dependent C 97.2 0.00095 2.1E-08 69.6 8.0 118 83-218 455-578 (731)
117 PHA00729 NTP-binding motif con 97.2 0.0012 2.7E-08 58.1 7.4 25 111-135 16-40 (226)
118 PF02562 PhoH: PhoH-like prote 97.2 0.00079 1.7E-08 58.6 6.1 123 95-233 10-156 (205)
119 PF01695 IstB_IS21: IstB-like 97.2 0.00023 5.1E-09 60.8 2.7 73 113-207 48-120 (178)
120 PRK06921 hypothetical protein; 97.2 0.0022 4.8E-08 58.4 9.2 37 112-150 117-154 (266)
121 PRK00149 dnaA chromosomal repl 97.2 0.0019 4.1E-08 63.5 9.3 73 112-206 148-222 (450)
122 PRK14087 dnaA chromosomal repl 97.2 0.0013 2.8E-08 64.6 8.0 103 113-233 142-249 (450)
123 smart00763 AAA_PrkA PrkA AAA d 97.2 0.0002 4.4E-09 67.3 2.2 51 83-136 52-102 (361)
124 TIGR03689 pup_AAA proteasome A 97.2 0.0017 3.7E-08 64.3 8.6 50 83-135 183-239 (512)
125 PRK14965 DNA polymerase III su 97.1 0.0037 8E-08 63.3 11.1 45 83-135 17-61 (576)
126 cd01133 F1-ATPase_beta F1 ATP 97.1 0.0025 5.3E-08 58.0 8.7 92 114-207 71-175 (274)
127 cd03247 ABCC_cytochrome_bd The 97.1 0.0032 7E-08 53.6 9.0 23 113-135 29-51 (178)
128 PRK14953 DNA polymerase III su 97.1 0.0058 1.3E-07 60.5 12.0 45 83-135 17-61 (486)
129 PF00448 SRP54: SRP54-type pro 97.1 0.0013 2.8E-08 57.2 6.5 57 112-170 1-58 (196)
130 TIGR03499 FlhF flagellar biosy 97.1 0.0024 5.2E-08 58.8 8.7 86 111-203 193-280 (282)
131 PRK04296 thymidine kinase; Pro 97.1 0.0013 2.8E-08 56.8 6.6 115 113-236 3-119 (190)
132 PRK09112 DNA polymerase III su 97.1 0.0048 1E-07 58.5 10.8 45 83-135 24-68 (351)
133 CHL00095 clpC Clp protease ATP 97.1 0.00093 2E-08 70.5 6.6 135 83-232 510-661 (821)
134 TIGR00602 rad24 checkpoint pro 97.1 0.0011 2.5E-08 67.1 7.0 49 83-135 85-133 (637)
135 PRK11034 clpA ATP-dependent Cl 97.1 0.0011 2.3E-08 68.9 6.8 44 83-135 187-230 (758)
136 CHL00176 ftsH cell division pr 97.1 0.0016 3.5E-08 66.3 7.8 53 83-135 184-239 (638)
137 TIGR00959 ffh signal recogniti 97.1 0.0079 1.7E-07 58.4 12.2 26 110-135 97-122 (428)
138 PRK08903 DnaA regulatory inact 97.1 0.0021 4.6E-08 57.0 7.7 24 112-135 42-65 (227)
139 COG1484 DnaC DNA replication p 97.1 0.0016 3.4E-08 59.0 6.9 75 111-206 104-178 (254)
140 PRK06835 DNA replication prote 97.0 0.0019 4.1E-08 60.6 7.5 35 113-149 184-218 (329)
141 cd01394 radB RadB. The archaea 97.0 0.0052 1.1E-07 54.1 10.0 90 110-205 17-113 (218)
142 PRK06620 hypothetical protein; 97.0 0.0012 2.7E-08 58.1 5.8 23 113-135 45-67 (214)
143 PRK10865 protein disaggregatio 97.0 0.0017 3.6E-08 68.8 7.7 50 83-135 569-621 (857)
144 PF13177 DNA_pol3_delta2: DNA 97.0 0.0055 1.2E-07 51.5 9.5 114 95-234 7-143 (162)
145 COG1875 NYN ribonuclease and A 97.0 0.0015 3.3E-08 60.8 6.3 136 84-233 226-388 (436)
146 PRK07667 uridine kinase; Provi 97.0 0.00081 1.8E-08 58.3 4.3 38 94-135 3-40 (193)
147 TIGR02640 gas_vesic_GvpN gas v 97.0 0.0082 1.8E-07 54.6 11.0 42 114-160 23-64 (262)
148 PRK14971 DNA polymerase III su 97.0 0.0063 1.4E-07 62.0 11.0 45 83-135 18-62 (614)
149 PRK06305 DNA polymerase III su 97.0 0.0059 1.3E-07 60.0 10.5 45 83-135 18-62 (451)
150 PRK12422 chromosomal replicati 97.0 0.0041 8.9E-08 60.9 9.4 73 112-206 141-213 (445)
151 PF00485 PRK: Phosphoribulokin 97.0 0.0033 7.1E-08 54.4 7.8 84 114-199 1-87 (194)
152 COG2607 Predicted ATPase (AAA+ 97.0 0.0034 7.3E-08 55.3 7.6 123 83-239 61-190 (287)
153 PRK08451 DNA polymerase III su 96.9 0.0098 2.1E-07 59.3 11.9 45 83-135 15-59 (535)
154 PRK14086 dnaA chromosomal repl 96.9 0.0025 5.5E-08 64.1 7.7 96 113-232 315-419 (617)
155 PRK04301 radA DNA repair and r 96.9 0.0064 1.4E-07 56.9 9.9 96 110-206 100-209 (317)
156 PRK06696 uridine kinase; Valid 96.9 0.00063 1.4E-08 60.3 3.0 43 87-135 3-45 (223)
157 KOG0989 Replication factor C, 96.9 0.0035 7.7E-08 57.1 7.5 124 83-230 37-166 (346)
158 PRK07133 DNA polymerase III su 96.9 0.0082 1.8E-07 61.7 10.9 45 83-135 19-63 (725)
159 TIGR02012 tigrfam_recA protein 96.9 0.003 6.5E-08 58.9 7.2 89 110-205 53-143 (321)
160 PRK14974 cell division protein 96.9 0.0091 2E-07 56.2 10.5 92 111-206 139-233 (336)
161 PRK11889 flhF flagellar biosyn 96.9 0.012 2.5E-07 56.3 11.1 101 111-217 240-346 (436)
162 COG0542 clpA ATP-binding subun 96.9 0.0023 4.9E-08 65.8 6.8 122 83-219 492-619 (786)
163 PRK05703 flhF flagellar biosyn 96.9 0.014 3E-07 56.8 11.9 86 112-204 221-308 (424)
164 TIGR01243 CDC48 AAA family ATP 96.9 0.0031 6.7E-08 65.9 7.9 50 83-135 179-235 (733)
165 PRK14948 DNA polymerase III su 96.8 0.01 2.2E-07 60.5 11.4 136 83-231 17-159 (620)
166 KOG2227 Pre-initiation complex 96.8 0.005 1.1E-07 59.1 8.4 115 83-206 151-267 (529)
167 COG0572 Udk Uridine kinase [Nu 96.8 0.0024 5.2E-08 55.8 5.8 26 110-135 6-31 (218)
168 TIGR01817 nifA Nif-specific re 96.8 0.03 6.5E-07 56.4 14.5 46 83-135 197-242 (534)
169 cd03115 SRP The signal recogni 96.8 0.0092 2E-07 50.5 9.4 22 114-135 2-23 (173)
170 PRK05563 DNA polymerase III su 96.8 0.016 3.5E-07 58.5 12.5 45 83-135 17-61 (559)
171 cd00983 recA RecA is a bacter 96.8 0.003 6.4E-08 59.0 6.7 89 110-205 53-143 (325)
172 PRK10867 signal recognition pa 96.8 0.0052 1.1E-07 59.7 8.7 26 110-135 98-123 (433)
173 KOG0744 AAA+-type ATPase [Post 96.8 0.0043 9.4E-08 56.9 7.4 82 111-206 176-261 (423)
174 PRK06067 flagellar accessory p 96.8 0.013 2.9E-07 52.1 10.7 93 108-205 21-130 (234)
175 PRK06647 DNA polymerase III su 96.8 0.014 3.1E-07 58.7 11.9 45 83-135 17-61 (563)
176 PRK09354 recA recombinase A; P 96.8 0.0037 8E-08 58.8 7.2 89 110-205 58-148 (349)
177 TIGR01425 SRP54_euk signal rec 96.8 0.026 5.6E-07 54.7 13.0 26 110-135 98-123 (429)
178 cd03223 ABCD_peroxisomal_ALDP 96.8 0.018 3.9E-07 48.5 10.7 114 112-236 27-151 (166)
179 PRK14722 flhF flagellar biosyn 96.8 0.016 3.4E-07 55.3 11.2 89 111-205 136-225 (374)
180 cd03214 ABC_Iron-Siderophores_ 96.8 0.021 4.5E-07 48.7 11.0 120 113-236 26-161 (180)
181 TIGR01359 UMP_CMP_kin_fam UMP- 96.7 0.0074 1.6E-07 51.5 8.2 22 114-135 1-22 (183)
182 cd03238 ABC_UvrA The excision 96.7 0.012 2.7E-07 50.1 9.4 116 112-237 21-153 (176)
183 cd03216 ABC_Carb_Monos_I This 96.7 0.0079 1.7E-07 50.5 7.9 113 113-236 27-145 (163)
184 PRK11034 clpA ATP-dependent Cl 96.7 0.0027 5.9E-08 65.9 6.0 50 83-135 459-511 (758)
185 PF13671 AAA_33: AAA domain; P 96.7 0.012 2.5E-07 47.9 8.6 22 114-135 1-22 (143)
186 TIGR01241 FtsH_fam ATP-depende 96.7 0.004 8.7E-08 62.0 6.9 53 83-135 56-111 (495)
187 TIGR02236 recomb_radA DNA repa 96.7 0.016 3.4E-07 54.1 10.4 96 110-206 93-203 (310)
188 COG0466 Lon ATP-dependent Lon 96.7 0.00072 1.6E-08 67.9 1.4 55 83-142 324-378 (782)
189 COG1618 Predicted nucleotide k 96.7 0.0015 3.4E-08 54.0 3.1 25 112-136 5-29 (179)
190 cd03221 ABCF_EF-3 ABCF_EF-3 E 96.6 0.023 5E-07 46.6 10.1 101 113-236 27-130 (144)
191 KOG0741 AAA+-type ATPase [Post 96.6 0.0088 1.9E-07 58.4 8.5 106 108-240 534-658 (744)
192 PLN00020 ribulose bisphosphate 96.6 0.0055 1.2E-07 57.8 6.9 27 109-135 145-171 (413)
193 PTZ00361 26 proteosome regulat 96.6 0.0016 3.4E-08 63.4 3.4 55 83-142 184-245 (438)
194 PLN03186 DNA repair protein RA 96.6 0.016 3.5E-07 54.7 10.1 107 95-206 110-229 (342)
195 COG0468 RecA RecA/RadA recombi 96.6 0.013 2.9E-07 53.4 9.3 94 108-206 56-152 (279)
196 COG0593 DnaA ATPase involved i 96.6 0.0057 1.2E-07 58.6 7.1 100 111-233 112-218 (408)
197 PRK12726 flagellar biosynthesi 96.6 0.045 9.7E-07 52.1 12.8 101 110-216 204-310 (407)
198 TIGR01243 CDC48 AAA family ATP 96.6 0.0084 1.8E-07 62.6 8.7 50 83-135 454-510 (733)
199 PRK12727 flagellar biosynthesi 96.6 0.0099 2.1E-07 58.8 8.6 89 111-205 349-438 (559)
200 KOG0991 Replication factor C, 96.6 0.0035 7.5E-08 55.1 4.8 44 83-135 28-71 (333)
201 PRK12724 flagellar biosynthesi 96.6 0.0073 1.6E-07 58.1 7.4 25 111-135 222-246 (432)
202 cd02025 PanK Pantothenate kina 96.6 0.0095 2.1E-07 52.7 7.7 22 114-135 1-22 (220)
203 PHA02774 E1; Provisional 96.5 0.012 2.7E-07 58.5 9.1 37 110-150 432-468 (613)
204 PRK05480 uridine/cytidine kina 96.5 0.0024 5.2E-08 55.9 3.8 26 110-135 4-29 (209)
205 PRK15429 formate hydrogenlyase 96.5 0.027 5.9E-07 58.4 12.1 46 83-135 377-422 (686)
206 PRK06547 hypothetical protein; 96.5 0.0033 7.2E-08 53.4 4.5 27 109-135 12-38 (172)
207 PF08423 Rad51: Rad51; InterP 96.5 0.014 3E-07 52.9 8.8 94 111-205 37-143 (256)
208 PF13238 AAA_18: AAA domain; P 96.5 0.0018 3.8E-08 51.5 2.7 21 115-135 1-21 (129)
209 PRK08233 hypothetical protein; 96.5 0.0023 5.1E-08 54.4 3.5 24 112-135 3-26 (182)
210 COG1419 FlhF Flagellar GTP-bin 96.5 0.013 2.9E-07 55.7 8.7 101 111-218 202-308 (407)
211 TIGR00064 ftsY signal recognit 96.5 0.013 2.9E-07 53.6 8.6 92 110-205 70-164 (272)
212 TIGR00763 lon ATP-dependent pr 96.5 0.0026 5.7E-08 66.7 4.4 55 83-142 321-375 (775)
213 PRK08058 DNA polymerase III su 96.5 0.024 5.2E-07 53.3 10.5 45 83-135 6-51 (329)
214 PLN03187 meiotic recombination 96.5 0.028 6.1E-07 53.0 10.7 96 109-205 123-231 (344)
215 PRK04040 adenylate kinase; Pro 96.5 0.0083 1.8E-07 51.7 6.6 24 112-135 2-25 (188)
216 PTZ00301 uridine kinase; Provi 96.5 0.0034 7.5E-08 55.1 4.2 24 112-135 3-26 (210)
217 TIGR02238 recomb_DMC1 meiotic 96.5 0.026 5.5E-07 52.7 10.3 96 109-205 93-201 (313)
218 cd03281 ABC_MSH5_euk MutS5 hom 96.4 0.013 2.7E-07 51.7 7.8 122 112-239 29-160 (213)
219 TIGR00235 udk uridine kinase. 96.4 0.0031 6.6E-08 55.2 3.8 26 110-135 4-29 (207)
220 KOG1969 DNA replication checkp 96.4 0.012 2.7E-07 59.4 8.3 77 109-207 323-399 (877)
221 CHL00195 ycf46 Ycf46; Provisio 96.4 0.014 3.1E-07 57.7 8.8 50 83-135 229-282 (489)
222 PRK15455 PrkA family serine pr 96.4 0.0012 2.6E-08 65.5 1.2 50 83-135 77-126 (644)
223 PRK12723 flagellar biosynthesi 96.4 0.028 6.2E-07 53.9 10.6 102 110-218 172-281 (388)
224 cd02027 APSK Adenosine 5'-phos 96.4 0.026 5.7E-07 46.6 9.1 22 114-135 1-22 (149)
225 TIGR03877 thermo_KaiC_1 KaiC d 96.4 0.028 6.1E-07 50.2 10.0 94 108-206 17-137 (237)
226 KOG2004 Mitochondrial ATP-depe 96.4 0.0027 5.9E-08 63.8 3.6 72 80-159 409-480 (906)
227 COG4608 AppF ABC-type oligopep 96.4 0.023 4.9E-07 51.2 9.1 123 112-238 39-175 (268)
228 PRK08972 fliI flagellum-specif 96.4 0.015 3.3E-07 56.3 8.6 90 113-206 163-263 (444)
229 COG0541 Ffh Signal recognition 96.4 0.076 1.6E-06 50.9 13.0 42 95-136 80-124 (451)
230 TIGR02239 recomb_RAD51 DNA rep 96.4 0.019 4.2E-07 53.6 9.0 106 95-205 83-201 (316)
231 cd03228 ABCC_MRP_Like The MRP 96.4 0.03 6.5E-07 47.3 9.4 24 112-135 28-51 (171)
232 KOG0735 AAA+-type ATPase [Post 96.4 0.012 2.6E-07 59.4 7.7 72 112-205 431-504 (952)
233 cd03246 ABCC_Protease_Secretio 96.4 0.019 4E-07 48.7 8.1 23 113-135 29-51 (173)
234 COG1121 ZnuC ABC-type Mn/Zn tr 96.3 0.049 1.1E-06 48.9 10.9 124 113-238 31-204 (254)
235 cd03230 ABC_DR_subfamily_A Thi 96.3 0.031 6.7E-07 47.3 9.3 23 113-135 27-49 (173)
236 PF13604 AAA_30: AAA domain; P 96.3 0.0067 1.4E-07 52.7 5.3 102 112-229 18-127 (196)
237 PRK06762 hypothetical protein; 96.3 0.0032 6.8E-08 52.9 3.2 23 113-135 3-25 (166)
238 PRK08533 flagellar accessory p 96.3 0.036 7.8E-07 49.4 10.1 54 111-169 23-76 (230)
239 COG0563 Adk Adenylate kinase a 96.3 0.01 2.3E-07 50.6 6.3 22 114-135 2-23 (178)
240 TIGR02858 spore_III_AA stage I 96.3 0.08 1.7E-06 48.3 12.4 119 112-237 111-233 (270)
241 PRK09270 nucleoside triphospha 96.3 0.021 4.6E-07 50.8 8.5 27 109-135 30-56 (229)
242 PRK05707 DNA polymerase III su 96.3 0.046 9.9E-07 51.4 11.0 24 112-135 22-45 (328)
243 COG2884 FtsE Predicted ATPase 96.3 0.039 8.4E-07 47.2 9.3 124 112-238 28-202 (223)
244 PTZ00035 Rad51 protein; Provis 96.3 0.054 1.2E-06 51.1 11.4 107 95-206 105-224 (337)
245 TIGR01420 pilT_fam pilus retra 96.2 0.012 2.7E-07 55.6 6.9 114 112-238 122-235 (343)
246 cd02019 NK Nucleoside/nucleoti 96.2 0.0038 8.3E-08 44.4 2.6 22 114-135 1-22 (69)
247 COG1102 Cmk Cytidylate kinase 96.2 0.0081 1.7E-07 49.8 4.8 45 114-171 2-46 (179)
248 PF14532 Sigma54_activ_2: Sigm 96.2 0.0043 9.2E-08 50.6 3.3 22 114-135 23-44 (138)
249 KOG2228 Origin recognition com 96.2 0.014 3E-07 54.0 6.7 146 83-236 25-185 (408)
250 cd01121 Sms Sms (bacterial rad 96.2 0.023 4.9E-07 54.3 8.6 88 110-205 80-168 (372)
251 PRK00889 adenylylsulfate kinas 96.2 0.032 6.9E-07 47.3 8.7 24 112-135 4-27 (175)
252 COG2255 RuvB Holliday junction 96.2 0.0022 4.8E-08 57.8 1.5 49 83-135 27-75 (332)
253 PRK12597 F0F1 ATP synthase sub 96.2 0.023 4.9E-07 55.6 8.5 91 114-205 145-247 (461)
254 KOG1514 Origin recognition com 96.2 0.04 8.8E-07 55.6 10.2 139 80-230 394-546 (767)
255 PRK03839 putative kinase; Prov 96.1 0.0041 8.9E-08 53.0 3.0 22 114-135 2-23 (180)
256 PRK14527 adenylate kinase; Pro 96.1 0.016 3.6E-07 49.9 6.8 25 111-135 5-29 (191)
257 PTZ00088 adenylate kinase 1; P 96.1 0.0087 1.9E-07 53.3 5.1 21 115-135 9-29 (229)
258 smart00534 MUTSac ATPase domai 96.1 0.0037 8.1E-08 53.7 2.7 21 114-134 1-21 (185)
259 TIGR01360 aden_kin_iso1 adenyl 96.1 0.0046 9.9E-08 52.9 3.2 25 111-135 2-26 (188)
260 PRK06002 fliI flagellum-specif 96.1 0.037 8E-07 53.9 9.6 91 113-206 166-265 (450)
261 TIGR00554 panK_bact pantothena 96.1 0.021 4.5E-07 52.6 7.6 80 109-195 59-141 (290)
262 cd00267 ABC_ATPase ABC (ATP-bi 96.1 0.036 7.8E-07 46.0 8.5 113 113-237 26-144 (157)
263 PRK14721 flhF flagellar biosyn 96.1 0.037 8E-07 53.6 9.5 25 111-135 190-214 (420)
264 COG1223 Predicted ATPase (AAA+ 96.1 0.0043 9.3E-08 55.3 2.8 53 83-135 122-174 (368)
265 PRK05022 anaerobic nitric oxid 96.1 0.067 1.4E-06 53.5 11.7 46 83-135 188-233 (509)
266 PRK10787 DNA-binding ATP-depen 96.1 0.0087 1.9E-07 62.6 5.5 50 83-135 323-372 (784)
267 cd01122 GP4d_helicase GP4d_hel 96.1 0.085 1.9E-06 48.0 11.5 52 112-166 30-81 (271)
268 KOG0733 Nuclear AAA ATPase (VC 96.1 0.016 3.5E-07 57.5 6.9 97 83-206 191-293 (802)
269 PRK09280 F0F1 ATP synthase sub 96.0 0.032 7E-07 54.5 8.8 91 114-205 146-248 (463)
270 cd01135 V_A-ATPase_B V/A-type 96.0 0.047 1E-06 49.7 9.3 94 114-207 71-178 (276)
271 cd03217 ABC_FeS_Assembly ABC-t 96.0 0.037 8.1E-07 48.0 8.5 23 113-135 27-49 (200)
272 cd02023 UMPK Uridine monophosp 96.0 0.0044 9.5E-08 53.7 2.6 22 114-135 1-22 (198)
273 cd03222 ABC_RNaseL_inhibitor T 96.0 0.065 1.4E-06 45.7 9.7 23 113-135 26-48 (177)
274 PRK04328 hypothetical protein; 96.0 0.029 6.3E-07 50.6 7.9 91 110-205 21-138 (249)
275 PRK07399 DNA polymerase III su 96.0 0.033 7.1E-07 52.0 8.5 45 83-135 5-49 (314)
276 cd02021 GntK Gluconate kinase 96.0 0.078 1.7E-06 43.5 9.9 22 114-135 1-22 (150)
277 TIGR03878 thermo_KaiC_2 KaiC d 96.0 0.042 9.2E-07 49.9 9.0 95 109-205 33-141 (259)
278 PRK13543 cytochrome c biogenes 96.0 0.13 2.8E-06 45.1 11.8 23 113-135 38-60 (214)
279 COG1703 ArgK Putative periplas 96.0 0.0065 1.4E-07 55.3 3.4 63 95-161 38-100 (323)
280 PRK13531 regulatory ATPase Rav 96.0 0.0054 1.2E-07 60.0 3.1 42 83-135 21-62 (498)
281 PRK00131 aroK shikimate kinase 96.0 0.0064 1.4E-07 51.2 3.3 24 112-135 4-27 (175)
282 cd03283 ABC_MutS-like MutS-lik 95.9 0.066 1.4E-06 46.5 9.7 23 113-135 26-48 (199)
283 COG1116 TauB ABC-type nitrate/ 95.9 0.046 1E-06 48.6 8.6 93 113-206 30-159 (248)
284 TIGR02322 phosphon_PhnN phosph 95.9 0.0063 1.4E-07 51.8 3.2 22 114-135 3-24 (179)
285 PRK14723 flhF flagellar biosyn 95.9 0.04 8.7E-07 57.0 9.4 59 112-170 185-244 (767)
286 cd03282 ABC_MSH4_euk MutS4 hom 95.9 0.0081 1.7E-07 52.5 3.8 119 112-238 29-156 (204)
287 TIGR03881 KaiC_arch_4 KaiC dom 95.9 0.066 1.4E-06 47.4 9.8 116 110-232 18-165 (229)
288 PRK05439 pantothenate kinase; 95.9 0.037 8E-07 51.5 8.3 81 109-196 83-166 (311)
289 PRK08927 fliI flagellum-specif 95.9 0.039 8.4E-07 53.6 8.7 90 113-206 159-259 (442)
290 cd03369 ABCC_NFT1 Domain 2 of 95.9 0.12 2.6E-06 45.0 11.2 23 113-135 35-57 (207)
291 cd03285 ABC_MSH2_euk MutS2 hom 95.9 0.0072 1.6E-07 53.6 3.4 23 111-133 29-51 (222)
292 PRK10416 signal recognition pa 95.9 0.042 9.1E-07 51.4 8.6 27 110-136 112-138 (318)
293 PRK00625 shikimate kinase; Pro 95.9 0.0063 1.4E-07 51.7 2.9 22 114-135 2-23 (173)
294 cd01129 PulE-GspE PulE/GspE Th 95.9 0.02 4.4E-07 52.1 6.4 111 111-238 79-189 (264)
295 PRK06936 type III secretion sy 95.9 0.043 9.3E-07 53.3 8.8 90 113-206 163-263 (439)
296 PRK00279 adk adenylate kinase; 95.9 0.022 4.9E-07 50.0 6.4 22 114-135 2-23 (215)
297 KOG1051 Chaperone HSP104 and r 95.9 0.057 1.2E-06 56.5 10.2 117 83-217 563-684 (898)
298 PF00154 RecA: recA bacterial 95.8 0.04 8.8E-07 51.3 8.2 90 110-206 51-142 (322)
299 PF07728 AAA_5: AAA domain (dy 95.8 0.015 3.2E-07 47.2 4.8 42 115-161 2-43 (139)
300 PRK10733 hflB ATP-dependent me 95.8 0.029 6.3E-07 57.7 7.9 22 114-135 187-208 (644)
301 PF03308 ArgK: ArgK protein; 95.8 0.0074 1.6E-07 54.1 3.1 61 95-159 16-76 (266)
302 cd03215 ABC_Carb_Monos_II This 95.8 0.079 1.7E-06 45.2 9.5 23 113-135 27-49 (182)
303 KOG0734 AAA+-type ATPase conta 95.8 0.039 8.4E-07 54.1 8.1 55 83-137 305-362 (752)
304 PF01583 APS_kinase: Adenylyls 95.8 0.0057 1.2E-07 50.9 2.2 34 113-148 3-36 (156)
305 TIGR03263 guanyl_kin guanylate 95.8 0.008 1.7E-07 51.1 3.2 23 113-135 2-24 (180)
306 PF00625 Guanylate_kin: Guanyl 95.8 0.012 2.5E-07 50.5 4.2 36 112-149 2-37 (183)
307 KOG0924 mRNA splicing factor A 95.8 0.059 1.3E-06 54.2 9.3 122 111-238 370-515 (1042)
308 PRK08149 ATP synthase SpaL; Va 95.7 0.047 1E-06 52.9 8.6 90 113-206 152-252 (428)
309 PRK10923 glnG nitrogen regulat 95.7 0.092 2E-06 51.8 10.9 46 83-135 139-184 (469)
310 TIGR00455 apsK adenylylsulfate 95.7 0.062 1.3E-06 45.9 8.6 25 111-135 17-41 (184)
311 PRK06217 hypothetical protein; 95.7 0.0086 1.9E-07 51.3 3.2 23 114-136 3-25 (183)
312 PRK14738 gmk guanylate kinase; 95.7 0.012 2.7E-07 51.4 4.2 27 109-135 10-36 (206)
313 TIGR03305 alt_F1F0_F1_bet alte 95.7 0.041 8.8E-07 53.6 8.1 92 114-206 140-243 (449)
314 cd02024 NRK1 Nicotinamide ribo 95.7 0.0071 1.5E-07 52.1 2.6 22 114-135 1-22 (187)
315 COG1124 DppF ABC-type dipeptid 95.7 0.014 3E-07 51.7 4.4 124 113-238 34-207 (252)
316 COG0542 clpA ATP-binding subun 95.7 0.02 4.3E-07 59.1 6.1 44 83-135 171-214 (786)
317 KOG1532 GTPase XAB1, interacts 95.7 0.009 2E-07 53.6 3.2 59 109-169 16-85 (366)
318 PRK06995 flhF flagellar biosyn 95.7 0.05 1.1E-06 53.6 8.7 59 112-170 256-315 (484)
319 cd01125 repA Hexameric Replica 95.7 0.063 1.4E-06 48.0 8.8 22 114-135 3-24 (239)
320 cd00227 CPT Chloramphenicol (C 95.7 0.0082 1.8E-07 51.0 2.9 23 113-135 3-25 (175)
321 COG2842 Uncharacterized ATPase 95.7 0.18 4E-06 46.0 11.5 115 83-217 73-189 (297)
322 PRK13765 ATP-dependent proteas 95.7 0.0079 1.7E-07 61.3 3.2 75 83-170 32-106 (637)
323 PRK10751 molybdopterin-guanine 95.7 0.012 2.6E-07 49.9 3.7 25 111-135 5-29 (173)
324 cd00071 GMPK Guanosine monopho 95.7 0.0099 2.1E-07 48.4 3.1 21 115-135 2-22 (137)
325 TIGR03498 FliI_clade3 flagella 95.7 0.058 1.3E-06 52.3 8.8 91 113-206 141-241 (418)
326 TIGR02974 phageshock_pspF psp 95.7 0.038 8.2E-07 52.0 7.4 44 85-135 2-45 (329)
327 PF06745 KaiC: KaiC; InterPro 95.7 0.012 2.6E-07 52.1 3.9 93 109-205 16-125 (226)
328 PRK13947 shikimate kinase; Pro 95.6 0.0087 1.9E-07 50.4 2.9 22 114-135 3-24 (171)
329 PRK11608 pspF phage shock prot 95.6 0.037 8.1E-07 52.0 7.4 46 83-135 7-52 (326)
330 PRK14528 adenylate kinase; Pro 95.6 0.037 8.1E-07 47.5 6.8 23 113-135 2-24 (186)
331 cd01132 F1_ATPase_alpha F1 ATP 95.6 0.076 1.6E-06 48.3 8.9 98 114-215 71-182 (274)
332 PF00006 ATP-synt_ab: ATP synt 95.6 0.044 9.6E-07 48.2 7.2 87 114-206 17-116 (215)
333 cd02028 UMPK_like Uridine mono 95.6 0.0089 1.9E-07 51.1 2.7 22 114-135 1-22 (179)
334 PF12775 AAA_7: P-loop contain 95.6 0.012 2.6E-07 53.8 3.7 34 95-135 23-56 (272)
335 PRK05800 cobU adenosylcobinami 95.6 0.059 1.3E-06 45.6 7.6 83 114-204 3-85 (170)
336 cd03287 ABC_MSH3_euk MutS3 hom 95.6 0.12 2.6E-06 45.7 9.9 108 111-238 30-159 (222)
337 cd02020 CMPK Cytidine monophos 95.6 0.0092 2E-07 48.7 2.6 22 114-135 1-22 (147)
338 PRK11388 DNA-binding transcrip 95.6 0.089 1.9E-06 54.2 10.3 46 83-135 326-371 (638)
339 PRK13948 shikimate kinase; Pro 95.5 0.013 2.8E-07 50.3 3.5 26 110-135 8-33 (182)
340 PRK03846 adenylylsulfate kinas 95.5 0.014 3E-07 50.7 3.8 26 110-135 22-47 (198)
341 PF00910 RNA_helicase: RNA hel 95.5 0.0078 1.7E-07 46.8 2.0 21 115-135 1-21 (107)
342 PRK05922 type III secretion sy 95.5 0.12 2.6E-06 50.2 10.5 89 114-206 159-258 (434)
343 TIGR02788 VirB11 P-type DNA tr 95.5 0.034 7.3E-07 51.9 6.6 114 112-237 144-257 (308)
344 COG0396 sufC Cysteine desulfur 95.5 0.18 3.8E-06 44.5 10.4 126 113-240 31-211 (251)
345 PRK00300 gmk guanylate kinase; 95.5 0.012 2.6E-07 51.1 3.4 24 112-135 5-28 (205)
346 TIGR01351 adk adenylate kinase 95.5 0.038 8.3E-07 48.4 6.6 21 115-135 2-22 (210)
347 PF13481 AAA_25: AAA domain; P 95.5 0.021 4.6E-07 49.0 4.9 90 114-205 34-151 (193)
348 PF08433 KTI12: Chromatin asso 95.5 0.015 3.2E-07 53.1 3.8 23 113-135 2-24 (270)
349 PRK09099 type III secretion sy 95.5 0.073 1.6E-06 51.9 8.8 91 113-206 164-264 (441)
350 cd03243 ABC_MutS_homologs The 95.5 0.098 2.1E-06 45.5 8.9 22 113-134 30-51 (202)
351 PRK15453 phosphoribulokinase; 95.5 0.097 2.1E-06 47.8 9.0 82 110-194 3-89 (290)
352 PRK13949 shikimate kinase; Pro 95.5 0.013 2.8E-07 49.6 3.2 22 114-135 3-24 (169)
353 cd00544 CobU Adenosylcobinamid 95.4 0.049 1.1E-06 46.1 6.7 79 115-204 2-82 (169)
354 PF07726 AAA_3: ATPase family 95.4 0.0077 1.7E-07 48.2 1.6 27 115-143 2-28 (131)
355 PF03193 DUF258: Protein of un 95.4 0.02 4.3E-07 47.9 4.2 32 95-135 27-58 (161)
356 KOG3347 Predicted nucleotide k 95.4 0.021 4.6E-07 46.7 4.1 67 114-194 9-75 (176)
357 cd01130 VirB11-like_ATPase Typ 95.4 0.1 2.2E-06 44.7 8.8 96 112-215 25-120 (186)
358 PRK11823 DNA repair protein Ra 95.4 0.047 1E-06 53.6 7.4 88 110-205 78-166 (446)
359 PRK10078 ribose 1,5-bisphospho 95.4 0.013 2.9E-07 50.2 3.2 22 114-135 4-25 (186)
360 cd01428 ADK Adenylate kinase ( 95.4 0.086 1.9E-06 45.1 8.4 21 115-135 2-22 (194)
361 COG1066 Sms Predicted ATP-depe 95.4 0.045 9.9E-07 52.1 6.9 86 112-206 93-179 (456)
362 PTZ00185 ATPase alpha subunit; 95.4 0.14 2.9E-06 50.6 10.3 93 114-206 191-300 (574)
363 TIGR01041 ATP_syn_B_arch ATP s 95.4 0.05 1.1E-06 53.3 7.4 93 114-206 143-249 (458)
364 PF14516 AAA_35: AAA-like doma 95.4 0.13 2.7E-06 48.6 10.0 113 83-207 12-139 (331)
365 COG1428 Deoxynucleoside kinase 95.4 0.014 3E-07 50.6 3.1 25 112-136 4-28 (216)
366 PRK10820 DNA-binding transcrip 95.4 0.13 2.9E-06 51.5 10.6 46 83-135 205-250 (520)
367 TIGR01313 therm_gnt_kin carboh 95.4 0.01 2.2E-07 49.6 2.3 21 115-135 1-21 (163)
368 PLN02200 adenylate kinase fami 95.4 0.018 3.8E-07 51.5 3.9 27 109-135 40-66 (234)
369 PRK05688 fliI flagellum-specif 95.4 0.077 1.7E-06 51.8 8.5 90 113-206 169-269 (451)
370 TIGR01039 atpD ATP synthase, F 95.4 0.09 1.9E-06 51.3 8.9 92 114-206 145-248 (461)
371 PRK14526 adenylate kinase; Pro 95.4 0.037 8E-07 48.6 5.8 21 115-135 3-23 (211)
372 TIGR00150 HI0065_YjeE ATPase, 95.3 0.015 3.3E-07 47.0 3.1 25 112-136 22-46 (133)
373 COG0467 RAD55 RecA-superfamily 95.3 0.02 4.4E-07 51.9 4.3 91 110-205 21-134 (260)
374 PRK14737 gmk guanylate kinase; 95.3 0.018 3.9E-07 49.6 3.7 25 111-135 3-27 (186)
375 PRK07594 type III secretion sy 95.3 0.1 2.2E-06 50.8 9.2 90 113-206 156-256 (433)
376 PRK15064 ABC transporter ATP-b 95.3 0.29 6.3E-06 49.2 13.0 23 113-135 28-50 (530)
377 cd00561 CobA_CobO_BtuR ATP:cor 95.3 0.13 2.7E-06 43.0 8.6 120 113-234 3-139 (159)
378 PRK09519 recA DNA recombinatio 95.3 0.063 1.4E-06 55.8 8.1 89 110-205 58-148 (790)
379 TIGR01818 ntrC nitrogen regula 95.3 0.19 4.2E-06 49.4 11.5 213 83-323 135-378 (463)
380 PRK12678 transcription termina 95.3 0.031 6.7E-07 55.7 5.6 105 95-206 404-514 (672)
381 TIGR01040 V-ATPase_V1_B V-type 95.3 0.066 1.4E-06 52.1 7.8 93 114-206 143-258 (466)
382 TIGR00764 lon_rel lon-related 95.3 0.026 5.6E-07 57.5 5.3 74 83-170 19-93 (608)
383 cd00464 SK Shikimate kinase (S 95.3 0.014 3E-07 48.1 2.9 21 115-135 2-22 (154)
384 cd01136 ATPase_flagellum-secre 95.3 0.17 3.8E-06 47.3 10.4 90 113-206 70-170 (326)
385 PRK12339 2-phosphoglycerate ki 95.3 0.017 3.6E-07 50.2 3.4 24 112-135 3-26 (197)
386 PRK06793 fliI flagellum-specif 95.3 0.27 5.9E-06 47.8 11.9 121 113-238 157-291 (432)
387 TIGR02868 CydC thiol reductant 95.3 0.18 3.8E-06 50.7 11.2 24 112-135 361-384 (529)
388 PF08477 Miro: Miro-like prote 95.3 0.017 3.6E-07 45.3 3.1 23 115-137 2-24 (119)
389 cd03284 ABC_MutS1 MutS1 homolo 95.2 0.033 7.1E-07 49.1 5.2 22 113-134 31-52 (216)
390 PRK14530 adenylate kinase; Pro 95.2 0.015 3.2E-07 51.2 3.0 22 114-135 5-26 (215)
391 TIGR02655 circ_KaiC circadian 95.2 0.11 2.3E-06 51.7 9.3 92 109-205 260-363 (484)
392 COG0003 ArsA Predicted ATPase 95.2 0.029 6.3E-07 52.4 5.0 47 112-160 2-48 (322)
393 PF05970 PIF1: PIF1-like helic 95.2 0.03 6.5E-07 53.5 5.2 25 111-135 21-45 (364)
394 cd00820 PEPCK_HprK Phosphoenol 95.2 0.019 4.1E-07 44.6 3.1 22 112-133 15-36 (107)
395 cd01672 TMPK Thymidine monopho 95.2 0.038 8.2E-07 47.4 5.4 22 114-135 2-23 (200)
396 TIGR00416 sms DNA repair prote 95.2 0.093 2E-06 51.6 8.6 99 95-205 81-180 (454)
397 PF03205 MobB: Molybdopterin g 95.2 0.017 3.7E-07 47.3 2.9 39 113-152 1-39 (140)
398 PF08298 AAA_PrkA: PrkA AAA do 95.2 0.012 2.7E-07 55.0 2.3 50 83-135 62-111 (358)
399 COG1936 Predicted nucleotide k 95.2 0.017 3.6E-07 48.5 2.8 20 114-133 2-21 (180)
400 PLN02318 phosphoribulokinase/u 95.1 0.021 4.5E-07 57.2 3.9 27 109-135 62-88 (656)
401 PRK05057 aroK shikimate kinase 95.1 0.019 4.2E-07 48.7 3.2 23 113-135 5-27 (172)
402 TIGR03575 selen_PSTK_euk L-ser 95.1 0.062 1.3E-06 50.6 6.9 22 115-136 2-23 (340)
403 TIGR00390 hslU ATP-dependent p 95.1 0.043 9.4E-07 52.8 5.8 55 83-142 13-75 (441)
404 PRK13946 shikimate kinase; Pro 95.1 0.019 4.2E-07 49.2 3.2 24 112-135 10-33 (184)
405 PRK11147 ABC transporter ATPas 95.1 0.34 7.3E-06 49.9 12.8 23 113-135 30-52 (635)
406 PRK07721 fliI flagellum-specif 95.1 0.11 2.5E-06 50.6 8.8 91 112-205 158-258 (438)
407 PRK05973 replicative DNA helic 95.1 0.13 2.8E-06 46.0 8.5 48 112-163 64-111 (237)
408 COG0464 SpoVK ATPases of the A 95.0 0.052 1.1E-06 54.1 6.6 100 83-206 243-346 (494)
409 PRK13975 thymidylate kinase; P 95.0 0.021 4.5E-07 49.3 3.3 24 113-136 3-26 (196)
410 COG3640 CooC CO dehydrogenase 95.0 0.034 7.5E-07 49.0 4.5 41 114-155 2-42 (255)
411 COG2019 AdkA Archaeal adenylat 95.0 0.024 5.3E-07 47.3 3.4 48 112-171 4-51 (189)
412 COG1222 RPT1 ATP-dependent 26S 95.0 0.02 4.3E-07 53.5 3.1 128 83-238 152-305 (406)
413 PF00158 Sigma54_activat: Sigm 95.0 0.042 9E-07 46.5 4.9 44 85-135 2-45 (168)
414 PRK04182 cytidylate kinase; Pr 95.0 0.02 4.4E-07 48.4 3.0 22 114-135 2-23 (180)
415 PF03266 NTPase_1: NTPase; In 95.0 0.02 4.4E-07 48.4 2.9 21 115-135 2-22 (168)
416 PRK07196 fliI flagellum-specif 94.9 0.094 2E-06 51.0 7.7 91 112-206 155-256 (434)
417 COG0194 Gmk Guanylate kinase [ 94.9 0.024 5.3E-07 48.2 3.3 23 113-135 5-27 (191)
418 PLN02348 phosphoribulokinase 94.9 0.027 5.9E-07 53.7 3.9 27 109-135 46-72 (395)
419 TIGR00073 hypB hydrogenase acc 94.9 0.026 5.6E-07 49.4 3.5 27 109-135 19-45 (207)
420 PTZ00494 tuzin-like protein; P 94.9 0.32 7E-06 47.2 10.9 74 83-170 372-445 (664)
421 COG1117 PstB ABC-type phosphat 94.9 0.1 2.2E-06 45.6 6.9 26 110-135 31-56 (253)
422 TIGR01287 nifH nitrogenase iro 94.9 0.02 4.4E-07 52.3 2.9 23 113-135 1-23 (275)
423 TIGR01069 mutS2 MutS2 family p 94.8 0.019 4.1E-07 60.1 2.9 25 111-135 321-345 (771)
424 COG1126 GlnQ ABC-type polar am 94.8 0.031 6.7E-07 48.8 3.7 123 113-238 29-201 (240)
425 PF13086 AAA_11: AAA domain; P 94.8 0.035 7.5E-07 48.7 4.2 52 114-165 19-75 (236)
426 PF13521 AAA_28: AAA domain; P 94.8 0.02 4.3E-07 47.9 2.6 21 115-135 2-22 (163)
427 cd00984 DnaB_C DnaB helicase C 94.8 0.18 4E-06 44.9 9.0 49 112-163 13-61 (242)
428 PRK09825 idnK D-gluconate kina 94.8 0.024 5.2E-07 48.3 3.1 23 113-135 4-26 (176)
429 PRK13236 nitrogenase reductase 94.8 0.028 6E-07 52.1 3.7 27 109-135 3-29 (296)
430 PRK15115 response regulator Gl 94.8 0.34 7.3E-06 47.4 11.5 46 83-135 135-180 (444)
431 KOG0736 Peroxisome assembly fa 94.8 0.11 2.4E-06 53.1 7.9 97 83-206 673-775 (953)
432 PF03029 ATP_bind_1: Conserved 94.8 0.025 5.3E-07 50.7 3.1 32 117-150 1-32 (238)
433 COG5635 Predicted NTPase (NACH 94.8 0.052 1.1E-06 57.5 6.1 116 113-237 223-352 (824)
434 TIGR02546 III_secr_ATP type II 94.8 0.27 5.9E-06 47.8 10.6 90 113-206 146-246 (422)
435 COG0237 CoaE Dephospho-CoA kin 94.8 0.027 5.8E-07 49.0 3.3 24 112-135 2-25 (201)
436 CHL00059 atpA ATP synthase CF1 94.8 0.12 2.5E-06 50.8 7.9 89 114-206 143-244 (485)
437 COG0488 Uup ATPase components 94.8 0.28 6E-06 49.1 10.7 111 115-229 351-493 (530)
438 KOG2170 ATPase of the AAA+ sup 94.8 0.11 2.3E-06 47.6 7.0 50 83-135 83-133 (344)
439 TIGR02173 cyt_kin_arch cytidyl 94.8 0.027 5.8E-07 47.3 3.1 22 114-135 2-23 (171)
440 COG1157 FliI Flagellar biosynt 94.7 0.14 3E-06 48.9 8.1 88 114-205 165-263 (441)
441 PRK13894 conjugal transfer ATP 94.7 0.16 3.5E-06 47.5 8.6 100 112-224 148-247 (319)
442 TIGR00041 DTMP_kinase thymidyl 94.7 0.064 1.4E-06 46.1 5.6 23 113-135 4-26 (195)
443 cd02029 PRK_like Phosphoribulo 94.7 0.07 1.5E-06 48.3 5.8 81 114-196 1-85 (277)
444 PRK14532 adenylate kinase; Pro 94.7 0.024 5.1E-07 48.7 2.7 21 115-135 3-23 (188)
445 PRK13545 tagH teichoic acids e 94.7 0.38 8.3E-06 48.0 11.4 23 113-135 51-73 (549)
446 PF00005 ABC_tran: ABC transpo 94.7 0.026 5.6E-07 45.5 2.8 23 113-135 12-34 (137)
447 TIGR03497 FliI_clade2 flagella 94.7 0.1 2.2E-06 50.5 7.4 90 113-206 138-238 (413)
448 COG1100 GTPase SAR1 and relate 94.7 0.025 5.3E-07 49.5 2.9 24 113-136 6-29 (219)
449 PLN02796 D-glycerate 3-kinase 94.7 0.082 1.8E-06 49.7 6.4 26 110-135 98-123 (347)
450 TIGR00750 lao LAO/AO transport 94.7 0.045 9.8E-07 50.8 4.8 37 95-135 21-57 (300)
451 PRK09435 membrane ATPase/prote 94.7 0.05 1.1E-06 51.1 5.0 37 95-135 43-79 (332)
452 TIGR03375 type_I_sec_LssB type 94.7 0.33 7E-06 50.6 11.5 23 113-135 492-514 (694)
453 PRK13230 nitrogenase reductase 94.6 0.028 6E-07 51.6 3.2 23 113-135 2-24 (279)
454 PRK06731 flhF flagellar biosyn 94.6 0.46 9.9E-06 43.4 11.0 101 111-217 74-180 (270)
455 PRK06761 hypothetical protein; 94.6 0.059 1.3E-06 49.4 5.3 24 113-136 4-27 (282)
456 KOG0733 Nuclear AAA ATPase (VC 94.6 0.11 2.3E-06 51.9 7.2 103 112-238 545-662 (802)
457 PF03969 AFG1_ATPase: AFG1-lik 94.6 0.11 2.5E-06 49.4 7.4 107 111-238 61-172 (362)
458 PRK08769 DNA polymerase III su 94.6 0.39 8.5E-06 44.9 10.8 24 112-135 26-49 (319)
459 PRK10463 hydrogenase nickel in 94.6 0.049 1.1E-06 50.0 4.7 92 109-206 101-195 (290)
460 cd01134 V_A-ATPase_A V/A-type 94.6 0.25 5.4E-06 46.6 9.3 47 114-164 159-206 (369)
461 cd02117 NifH_like This family 94.6 0.028 6E-07 49.3 3.0 23 113-135 1-23 (212)
462 TIGR02782 TrbB_P P-type conjug 94.6 0.18 3.8E-06 46.8 8.4 90 113-214 133-223 (299)
463 PRK08356 hypothetical protein; 94.6 0.037 8E-07 47.9 3.7 21 113-133 6-26 (195)
464 CHL00081 chlI Mg-protoporyphyr 94.6 0.031 6.8E-07 52.8 3.5 44 83-135 18-61 (350)
465 PRK08472 fliI flagellum-specif 94.6 0.15 3.2E-06 49.6 8.2 23 113-135 158-180 (434)
466 TIGR03496 FliI_clade1 flagella 94.6 0.24 5.3E-06 48.0 9.6 90 113-206 138-238 (411)
467 cd04139 RalA_RalB RalA/RalB su 94.6 0.036 7.7E-07 45.7 3.5 23 114-136 2-24 (164)
468 TIGR02524 dot_icm_DotB Dot/Icm 94.6 0.083 1.8E-06 50.3 6.4 117 112-237 134-251 (358)
469 TIGR00176 mobB molybdopterin-g 94.6 0.026 5.7E-07 47.0 2.6 33 114-147 1-33 (155)
470 TIGR02030 BchI-ChlI magnesium 94.6 0.034 7.5E-07 52.4 3.7 44 83-135 5-48 (337)
471 TIGR02902 spore_lonB ATP-depen 94.6 0.051 1.1E-06 54.5 5.2 44 83-135 66-109 (531)
472 TIGR01026 fliI_yscN ATPase Fli 94.6 0.11 2.5E-06 50.7 7.4 89 113-205 164-263 (440)
473 cd03227 ABC_Class2 ABC-type Cl 94.6 0.21 4.6E-06 41.7 8.2 20 113-132 22-41 (162)
474 smart00072 GuKc Guanylate kina 94.6 0.039 8.5E-07 47.2 3.8 23 113-135 3-25 (184)
475 PRK09302 circadian clock prote 94.6 0.19 4.1E-06 50.3 9.2 91 110-205 271-373 (509)
476 PRK13409 putative ATPase RIL; 94.6 0.28 6E-06 50.0 10.4 125 113-238 366-519 (590)
477 TIGR03574 selen_PSTK L-seryl-t 94.6 0.024 5.3E-07 51.0 2.6 21 115-135 2-22 (249)
478 PHA02530 pseT polynucleotide k 94.5 0.03 6.5E-07 51.8 3.2 23 113-135 3-25 (300)
479 COG1643 HrpA HrpA-like helicas 94.5 0.18 3.9E-06 52.9 9.1 139 87-238 51-210 (845)
480 PF02374 ArsA_ATPase: Anion-tr 94.5 0.034 7.3E-07 51.8 3.5 22 113-134 2-23 (305)
481 PF13245 AAA_19: Part of AAA d 94.5 0.038 8.3E-07 40.1 3.1 22 112-133 10-31 (76)
482 PF06309 Torsin: Torsin; Inte 94.5 0.057 1.2E-06 43.1 4.3 50 83-135 26-76 (127)
483 PRK08699 DNA polymerase III su 94.5 0.39 8.5E-06 45.1 10.6 25 111-135 20-44 (325)
484 KOG0743 AAA+-type ATPase [Post 94.5 0.22 4.7E-06 48.1 8.8 21 115-135 238-258 (457)
485 COG0714 MoxR-like ATPases [Gen 94.5 0.044 9.6E-07 51.5 4.3 64 83-162 25-88 (329)
486 PRK03731 aroL shikimate kinase 94.5 0.031 6.8E-07 47.1 2.9 22 114-135 4-25 (171)
487 COG3638 ABC-type phosphate/pho 94.5 0.083 1.8E-06 46.7 5.5 23 113-135 31-53 (258)
488 TIGR01967 DEAH_box_HrpA ATP-de 94.5 0.28 6.1E-06 53.8 10.7 129 95-234 73-222 (1283)
489 COG3267 ExeA Type II secretory 94.5 0.45 9.8E-06 42.6 10.1 100 109-214 48-152 (269)
490 cd02022 DPCK Dephospho-coenzym 94.5 0.028 6.1E-07 47.9 2.6 21 114-134 1-21 (179)
491 PRK13695 putative NTPase; Prov 94.4 0.036 7.8E-07 46.9 3.2 22 114-135 2-23 (174)
492 COG1136 SalX ABC-type antimicr 94.4 0.035 7.6E-07 49.0 3.2 53 185-238 150-208 (226)
493 CHL00060 atpB ATP synthase CF1 94.4 0.13 2.9E-06 50.5 7.4 92 114-206 163-273 (494)
494 cd02040 NifH NifH gene encodes 94.4 0.031 6.8E-07 50.7 3.0 23 113-135 2-24 (270)
495 cd01124 KaiC KaiC is a circadi 94.4 0.037 8.1E-07 47.1 3.3 44 115-162 2-45 (187)
496 PRK01184 hypothetical protein; 94.4 0.035 7.6E-07 47.4 3.1 22 113-135 2-23 (184)
497 PF01926 MMR_HSR1: 50S ribosom 94.4 0.036 7.7E-07 43.4 2.9 21 115-135 2-22 (116)
498 cd03116 MobB Molybdenum is an 94.4 0.04 8.7E-07 46.1 3.4 23 113-135 2-24 (159)
499 PRK10875 recD exonuclease V su 94.4 0.091 2E-06 53.5 6.5 52 112-163 167-219 (615)
500 TIGR01447 recD exodeoxyribonuc 94.4 0.1 2.2E-06 52.9 6.8 23 113-135 161-183 (586)
No 1
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=100.00 E-value=1.5e-50 Score=415.95 Aligned_cols=253 Identities=26% Similarity=0.425 Sum_probs=223.6
Q ss_pred cccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCcc-ccCCcceeEEEEeCCCCCHHHHHHHH
Q 040110 85 LGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNF-VKFYFDCHAWVRVSNFYNFKRILDDI 163 (348)
Q Consensus 85 vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~-~~~~F~~~~wv~~~~~~~~~~~~~~i 163 (348)
||.+..+ +.+++.|. .++..+++|+||||+||||||++++|+.. ++++|+.++||++|+.++...++++|
T Consensus 161 VG~e~~~---~kl~~~L~------~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~I 231 (889)
T KOG4658|consen 161 VGLETML---EKLWNRLM------EDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTI 231 (889)
T ss_pred ccHHHHH---HHHHHHhc------cCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHH
Confidence 9999999 99999999 33348999999999999999999999987 99999999999999999999999999
Q ss_pred HHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh-cc--
Q 040110 164 MKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILTS-IE-- 240 (348)
Q Consensus 164 ~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~-~~-- 240 (348)
+..++.... ........++...|.+.|+++||||||||||+..+|+.+..++|...+||||++|||+..||.. +.
T Consensus 232 l~~l~~~~~--~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~ 309 (889)
T KOG4658|consen 232 LERLGLLDE--EWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVD 309 (889)
T ss_pred HHHhccCCc--ccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCC
Confidence 999988543 2333344789999999999999999999999999999999999999899999999999999998 33
Q ss_pred ----cC---------------------------------CCCc-CCCC-cccccCccccCC-HHHHHHHHHHhCCCCCCC
Q 040110 241 ----LE---------------------------------NGEK-NRHD-SALVGGPLIRIK-HETWQFFILHYGSTPLEN 280 (348)
Q Consensus 241 ----l~---------------------------------~~~C-~Lp~-~~~ig~~L~~~~-~~~w~~~~~~~~~~~~~~ 280 (348)
++ ..+| |||+ ++++|+.|+.+. ..+|+++.+.+.+.....
T Consensus 310 ~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~ 389 (889)
T KOG4658|consen 310 YPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAAD 389 (889)
T ss_pred ccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCC
Confidence 22 4677 9999 999999999999 779999999987762222
Q ss_pred CC-CCcchhccc-cccCCCChhHHHHHhHhccCCCCceecHHHHHHHHHhcCCCCC---CCChHHHHHhhhcC
Q 040110 281 ET-EGPSVGLKL-VSLSELPFPLIVCCLYFCVFPTDIELTTRQLCRLWTAEGLRPG---NYDSEKMAEEYLKQ 348 (348)
Q Consensus 281 ~~-~~~~i~~~l-~s~~~Lp~~lk~cf~y~a~fp~~~~i~~~~Li~~W~aeG~i~~---~~~~e~~~~~y~~e 348 (348)
.+ ..+.+...+ +||+.||.++|+||+|||+||+||.|++++||.+|+|||||.+ +.+.++.|..|+.|
T Consensus 390 ~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~ 462 (889)
T KOG4658|consen 390 FSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEE 462 (889)
T ss_pred CCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHH
Confidence 22 234665666 9999999889999999999999999999999999999999998 77889999999864
No 2
>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=100.00 E-value=8.5e-43 Score=321.54 Aligned_cols=240 Identities=30% Similarity=0.418 Sum_probs=191.8
Q ss_pred cccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 040110 87 LQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKS 166 (348)
Q Consensus 87 r~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~ 166 (348)
||.++ ++|.+.|. ...++.++|+|+||||+||||||.+++++..++++|+.++|+.+++..+...++..|+.+
T Consensus 1 re~~~---~~l~~~L~----~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~ 73 (287)
T PF00931_consen 1 REKEI---EKLKDWLL----DNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQ 73 (287)
T ss_dssp -HHHH---HHHHHHHH----TTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHH
T ss_pred CHHHH---HHHHHHhh----CCCCCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccc
Confidence 67778 99999999 334789999999999999999999999888889999999999999999999999999999
Q ss_pred hCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh-------c
Q 040110 167 LMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILTS-------I 239 (348)
Q Consensus 167 l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~-------~ 239 (348)
++..... .....+..++...+++.|+++++||||||||+...|+.+...++....||+||||||+..++.. +
T Consensus 74 l~~~~~~-~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~ 152 (287)
T PF00931_consen 74 LGEPDSS-ISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVI 152 (287)
T ss_dssp HTCC-ST-SSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEE
T ss_pred ccccccc-cccccccccccccchhhhccccceeeeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence 9987432 1245688889999999999999999999999999999998888877789999999999998865 3
Q ss_pred ccC---------------------------------CCCc-CCCC-cccccCccccCC-HHHHHHHHHHhCCCCCCCCCC
Q 040110 240 ELE---------------------------------NGEK-NRHD-SALVGGPLIRIK-HETWQFFILHYGSTPLENETE 283 (348)
Q Consensus 240 ~l~---------------------------------~~~C-~Lp~-~~~ig~~L~~~~-~~~w~~~~~~~~~~~~~~~~~ 283 (348)
+++ ...| |+|+ ++++|+.|+.+. ..+|+.+++.+..........
T Consensus 153 ~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~ 232 (287)
T PF00931_consen 153 ELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDY 232 (287)
T ss_dssp ECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGS
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 333 2456 9999 999999996654 778999888866551222223
Q ss_pred Ccchhccc-cccCCCChhHHHHHhHhccCCCCceecHHHHHHHHHhcCCCCC
Q 040110 284 GPSVGLKL-VSLSELPFPLIVCCLYFCVFPTDIELTTRQLCRLWTAEGLRPG 334 (348)
Q Consensus 284 ~~~i~~~l-~s~~~Lp~~lk~cf~y~a~fp~~~~i~~~~Li~~W~aeG~i~~ 334 (348)
...+...+ +||+.||+++|+||+|||+||+++.|+++.|+++|+|||||++
T Consensus 233 ~~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~ 284 (287)
T PF00931_consen 233 DRSVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISS 284 (287)
T ss_dssp CHHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred cccccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence 46676777 9999999999999999999999999999999999999999975
No 3
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.97 E-value=2.2e-30 Score=278.25 Aligned_cols=226 Identities=17% Similarity=0.200 Sum_probs=175.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe---CCC------
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV---SNF------ 153 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~---~~~------ 153 (348)
.+|||+..+ +++..+|. ...+.+++++|+||||+||||||+++|+. +..+|+..+|+.. +..
T Consensus 185 ~~vG~~~~l---~~l~~lL~----l~~~~~~vvgI~G~gGiGKTTLA~~l~~~--l~~~F~g~vfv~~~~v~~~~~~~~~ 255 (1153)
T PLN03210 185 DFVGIEDHI---AKMSSLLH----LESEEVRMVGIWGSSGIGKTTIARALFSR--LSRQFQSSVFIDRAFISKSMEIYSS 255 (1153)
T ss_pred cccchHHHH---HHHHHHHc----cccCceEEEEEEcCCCCchHHHHHHHHHH--HhhcCCeEEEeeccccccchhhccc
Confidence 899999999 99999887 44567899999999999999999999998 8889998887742 111
Q ss_pred -----CC-HHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEE
Q 040110 154 -----YN-FKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRAL 227 (348)
Q Consensus 154 -----~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIl 227 (348)
++ ...++.+++..+.... ...... ...+++.|+++|+||||||||+..+|+.+.....+.++||+||
T Consensus 256 ~~~~~~~~~~~l~~~~l~~il~~~---~~~~~~----~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrII 328 (1153)
T PLN03210 256 ANPDDYNMKLHLQRAFLSEILDKK---DIKIYH----LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRII 328 (1153)
T ss_pred ccccccchhHHHHHHHHHHHhCCC---CcccCC----HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEE
Confidence 11 1234455555543321 111111 2457888999999999999999999999988777777899999
Q ss_pred EEeCChhhhhh------cccC--------------------------------CCCc-CCCC-cccccCccccCCHHHHH
Q 040110 228 ITVGPHNILTS------IELE--------------------------------NGEK-NRHD-SALVGGPLIRIKHETWQ 267 (348)
Q Consensus 228 vTTR~~~v~~~------~~l~--------------------------------~~~C-~Lp~-~~~ig~~L~~~~~~~w~ 267 (348)
||||+..++.. |.++ ...| |||+ ++++|+.|+.++.++|+
T Consensus 329 iTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~ 408 (1153)
T PLN03210 329 VITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWM 408 (1153)
T ss_pred EEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHH
Confidence 99999999864 3333 2456 9999 99999999998899999
Q ss_pred HHHHHhCCCCCCCCCCCcchhccc-cccCCCCh-hHHHHHhHhccCCCCceecHHHHHHHHHhcCCCC
Q 040110 268 FFILHYGSTPLENETEGPSVGLKL-VSLSELPF-PLIVCCLYFCVFPTDIELTTRQLCRLWTAEGLRP 333 (348)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~i~~~l-~s~~~Lp~-~lk~cf~y~a~fp~~~~i~~~~Li~~W~aeG~i~ 333 (348)
.+++++... .. ..|...+ +||++|++ ..|.||+++|+||.+..++ .+..|+|++...
T Consensus 409 ~~l~~L~~~-~~-----~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~ 467 (1153)
T PLN03210 409 DMLPRLRNG-LD-----GKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLD 467 (1153)
T ss_pred HHHHHHHhC-cc-----HHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCC
Confidence 999998654 21 3465677 99999987 4999999999999987654 477788876543
No 4
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=98.99 E-value=4.3e-09 Score=101.47 Aligned_cols=123 Identities=16% Similarity=0.172 Sum_probs=86.7
Q ss_pred ccccCcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHH
Q 040110 78 EEICDALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFK 157 (348)
Q Consensus 78 ~~~~~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~ 157 (348)
.+.++.++||+++. ++|...|... ........+.|+|++|+|||++++.++++.......-..+++++....+..
T Consensus 26 ~~~P~~l~~Re~e~---~~l~~~l~~~--~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~ 100 (394)
T PRK00411 26 DYVPENLPHREEQI---EELAFALRPA--LRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRY 100 (394)
T ss_pred CCcCCCCCCHHHHH---HHHHHHHHHH--hCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHH
Confidence 34445899999999 9999988521 112233456799999999999999999873222212245667777777888
Q ss_pred HHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhc--CCeEEEEEeCCCCh
Q 040110 158 RILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT--NKKYFTVLDDVWIE 207 (348)
Q Consensus 158 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVLDdv~~~ 207 (348)
.++..|+.++..... .....+..++...+.+.+. ++..+||||+++..
T Consensus 101 ~~~~~i~~~l~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l 150 (394)
T PRK00411 101 AIFSEIARQLFGHPP--PSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL 150 (394)
T ss_pred HHHHHHHHHhcCCCC--CCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence 999999999976311 1223456777788888775 35689999999763
No 5
>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=98.89 E-value=1.3e-08 Score=97.06 Aligned_cols=123 Identities=17% Similarity=0.132 Sum_probs=84.8
Q ss_pred cccccCcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCcccc-CC--c-ceeEEEEeCC
Q 040110 77 TEEICDALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVK-FY--F-DCHAWVRVSN 152 (348)
Q Consensus 77 ~~~~~~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~-~~--F-~~~~wv~~~~ 152 (348)
+.+.++.++||+.++ ++|...|.+.- .......+.|+|++|+|||++++.+++..... .. . -..+|+++..
T Consensus 10 ~~~~p~~l~gRe~e~---~~l~~~l~~~~--~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~ 84 (365)
T TIGR02928 10 PDYVPDRIVHRDEQI---EELAKALRPIL--RGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQI 84 (365)
T ss_pred CCCCCCCCCCcHHHH---HHHHHHHHHHH--cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCC
Confidence 445556899999999 99999986311 12234467899999999999999999762110 11 1 1356777777
Q ss_pred CCCHHHHHHHHHHHhC---CCCCccccCCCCHHHHHHHHHHHhc--CCeEEEEEeCCCCh
Q 040110 153 FYNFKRILDDIMKSLM---PTSSWLKIMGKDYKSEKTILRDYLT--NKKYFTVLDDVWIE 207 (348)
Q Consensus 153 ~~~~~~~~~~i~~~l~---~~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVLDdv~~~ 207 (348)
..+...++..|+.++. ... .....+..+....+.+.+. +++++||||+++..
T Consensus 85 ~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L 141 (365)
T TIGR02928 85 LDTLYQVLVELANQLRGSGEEV---PTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL 141 (365)
T ss_pred CCCHHHHHHHHHHHHhhcCCCC---CCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence 7778889999999984 221 1122345566666766663 46889999999765
No 6
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.84 E-value=1.1e-08 Score=82.57 Aligned_cols=114 Identities=14% Similarity=0.191 Sum_probs=79.0
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCC-----cceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFY-----FDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEK 185 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~-----F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~ 185 (348)
+.+++.|+|.+|+|||++++.+.+. .... -..++|+.+....+...+...|+..++... ....+..++.
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~----~~~~~~~~l~ 76 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQ--LNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPL----KSRQTSDELR 76 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHH--HHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SS----SSTS-HHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHH--hHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccc----cccCCHHHHH
Confidence 3457889999999999999999887 3221 235679998888899999999999999873 2345778888
Q ss_pred HHHHHHhcCCe-EEEEEeCCCCh---hhHHHHHhhCCCCCCCcEEEEEeCC
Q 040110 186 TILRDYLTNKK-YFTVLDDVWIE---KIWDDLREALPDNQIGSRALITVGP 232 (348)
Q Consensus 186 ~~l~~~L~~kr-~LlVLDdv~~~---~~~~~l~~~l~~~~~gskIlvTTR~ 232 (348)
+.+.+.+...+ .+||+|++... ..++.+.... + ..+.++|+..+.
T Consensus 77 ~~~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~-~-~~~~~vvl~G~~ 125 (131)
T PF13401_consen 77 SLLIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLL-N-ESNIKVVLVGTP 125 (131)
T ss_dssp HHHHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHT-C-SCBEEEEEEESS
T ss_pred HHHHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHH-h-CCCCeEEEEECh
Confidence 88888887654 59999999654 2334443333 3 556677776554
No 7
>PF05729 NACHT: NACHT domain
Probab=98.82 E-value=2.3e-08 Score=83.84 Aligned_cols=113 Identities=19% Similarity=0.229 Sum_probs=67.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCC----cceeEEEEeCCCCCHH---HHHHHHHHHhCCCCCccccCCCCHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFY----FDCHAWVRVSNFYNFK---RILDDIMKSLMPTSSWLKIMGKDYKSEK 185 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~----F~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~~ 185 (348)
+++.|+|.+|+||||+++.++........ +...+|+......... .+...|..+..... .....
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-------~~~~~-- 71 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-------APIEE-- 71 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-------hhhHH--
Confidence 47889999999999999999876332222 4456677665443322 34444444443321 11111
Q ss_pred HHHHHHh-cCCeEEEEEeCCCChhh---------HHHHH-hhCCC-CCCCcEEEEEeCChhh
Q 040110 186 TILRDYL-TNKKYFTVLDDVWIEKI---------WDDLR-EALPD-NQIGSRALITVGPHNI 235 (348)
Q Consensus 186 ~~l~~~L-~~kr~LlVLDdv~~~~~---------~~~l~-~~l~~-~~~gskIlvTTR~~~v 235 (348)
.+...+ ..++++||||++++... +..+. ..++. ..++++++||||....
T Consensus 72 -~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~ 132 (166)
T PF05729_consen 72 -LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAF 132 (166)
T ss_pred -HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChH
Confidence 222222 56899999999975421 22222 22332 2468999999998777
No 8
>PF13173 AAA_14: AAA domain
Probab=98.70 E-value=4.2e-08 Score=79.34 Aligned_cols=102 Identities=14% Similarity=0.237 Sum_probs=69.9
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
.+++.|.|+.|+|||||+++++.+.. ....+++++.......... +.+ ..+.+.+.
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~--------------------~~~-~~~~~~~~ 57 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLA--------------------DPD-LLEYFLEL 57 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHh--------------------hhh-hHHHHHHh
Confidence 35789999999999999999997733 2235666655433221100 000 23334444
Q ss_pred hcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhh
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILT 237 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~ 237 (348)
...++.+++||++....+|......+.+..+..+|++|+.+.....
T Consensus 58 ~~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~ 103 (128)
T PF13173_consen 58 IKPGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLS 103 (128)
T ss_pred hccCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHh
Confidence 4457889999999998888888777776556689999999877764
No 9
>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=98.69 E-value=2e-07 Score=75.87 Aligned_cols=123 Identities=15% Similarity=0.089 Sum_probs=69.4
Q ss_pred cccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 040110 85 LGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIM 164 (348)
Q Consensus 85 vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~ 164 (348)
+|++... +.+...+. ......+.|+|++|+|||++++.+++... ..-..++++..............+.
T Consensus 1 ~~~~~~~---~~i~~~~~------~~~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~ 69 (151)
T cd00009 1 VGQEEAI---EALREALE------LPPPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFG 69 (151)
T ss_pred CchHHHH---HHHHHHHh------CCCCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhh
Confidence 3667777 78888776 22445788999999999999999998832 2223455665443332211111000
Q ss_pred HHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh-----hhHHHHHhhCCCC---CCCcEEEEEeCChh
Q 040110 165 KSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE-----KIWDDLREALPDN---QIGSRALITVGPHN 234 (348)
Q Consensus 165 ~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~-----~~~~~l~~~l~~~---~~gskIlvTTR~~~ 234 (348)
.. ............+..++++||++.. ..+..+...+... ..+..||+||....
T Consensus 70 ~~----------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 70 HF----------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred hh----------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 00 0011112223456789999999853 2233333333221 35778888887654
No 10
>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=98.65 E-value=5.1e-07 Score=82.32 Aligned_cols=96 Identities=17% Similarity=0.222 Sum_probs=62.8
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
+..++.|+|++|+|||||++.+++..... .+ ..+|+ +....+..+++..|+..++.+.. ..+.......+..
T Consensus 42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~-----~~~~~~~~~~l~~ 113 (269)
T TIGR03015 42 REGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKL-VNTRVDAEDLLRMVAADFGLETE-----GRDKAALLRELED 113 (269)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCC-----CCCHHHHHHHHHH
Confidence 34578899999999999999999883321 11 22233 33455778899999998877522 2233333333333
Q ss_pred H----h-cCCeEEEEEeCCCCh--hhHHHHH
Q 040110 191 Y----L-TNKKYFTVLDDVWIE--KIWDDLR 214 (348)
Q Consensus 191 ~----L-~~kr~LlVLDdv~~~--~~~~~l~ 214 (348)
. + .+++.+||+||++.. ..++.+.
T Consensus 114 ~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~ 144 (269)
T TIGR03015 114 FLIEQFAAGKRALLVVDEAQNLTPELLEELR 144 (269)
T ss_pred HHHHHHhCCCCeEEEEECcccCCHHHHHHHH
Confidence 2 2 568899999999875 3455554
No 11
>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=98.64 E-value=7.4e-08 Score=86.63 Aligned_cols=103 Identities=10% Similarity=-0.022 Sum_probs=67.2
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC--CCHHHHHHHH-----HHHh
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF--YNFKRILDDI-----MKSL 167 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i-----~~~l 167 (348)
.+.++.+.+- . .-..++|+|++|+|||||++.++++.... +|+..+|+.+.++ .++.++++.+ +..+
T Consensus 4 ~~~id~~~~i----~-~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~ 77 (249)
T cd01128 4 TRVVDLFAPI----G-KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTF 77 (249)
T ss_pred hhheeeeccc----C-CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecC
Confidence 3455666521 1 22367899999999999999999985444 8999999997766 7999999999 3333
Q ss_pred CCCCCccccCCCCHHHHHHHHHHH-hcCCeEEEEEeCCCC
Q 040110 168 MPTSSWLKIMGKDYKSEKTILRDY-LTNKKYFTVLDDVWI 206 (348)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVLDdv~~ 206 (348)
+.+. .....-..........+ -.+++.+|++|++..
T Consensus 78 ~~~~---~~~~~~~~~~~~~a~~~~~~G~~vll~iDei~r 114 (249)
T cd01128 78 DEPP---ERHVQVAEMVLEKAKRLVEHGKDVVILLDSITR 114 (249)
T ss_pred CCCH---HHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHH
Confidence 3210 00001111222333332 247899999999954
No 12
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=98.61 E-value=7e-08 Score=82.57 Aligned_cols=48 Identities=15% Similarity=0.233 Sum_probs=32.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.||||+++. +++...|. . ......+.+.|+|.+|+|||+|.++++...
T Consensus 1 ~fvgR~~e~---~~l~~~l~-~--~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~ 48 (185)
T PF13191_consen 1 QFVGREEEI---ERLRDLLD-A--AQSGSPRNLLLTGESGSGKTSLLRALLDRL 48 (185)
T ss_dssp --TT-HHHH---HHHHHTTG-G--TSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred CCCCHHHHH---HHHHHHHH-H--HHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 489999999 99999994 1 224455789999999999999999998883
No 13
>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=98.57 E-value=7.2e-08 Score=85.38 Aligned_cols=43 Identities=21% Similarity=0.383 Sum_probs=35.3
Q ss_pred ccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 84 LLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 84 ~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
|+||+.++ +.|.+++. ......+.|+|+.|+|||+|++.+.+.
T Consensus 1 F~gR~~el---~~l~~~l~------~~~~~~~~l~G~rg~GKTsLl~~~~~~ 43 (234)
T PF01637_consen 1 FFGREKEL---EKLKELLE------SGPSQHILLYGPRGSGKTSLLKEFINE 43 (234)
T ss_dssp S-S-HHHH---HHHHHCHH------H--SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred CCCHHHHH---HHHHHHHH------hhcCcEEEEEcCCcCCHHHHHHHHHHH
Confidence 79999999 99999887 334567889999999999999999987
No 14
>PTZ00202 tuzin; Provisional
Probab=98.54 E-value=2e-06 Score=81.91 Aligned_cols=100 Identities=13% Similarity=0.137 Sum_probs=69.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.|+||+.++ ..|...|... +....+++.|+|++|+|||||++.+..... + ..++++.. +..+++..
T Consensus 263 ~FVGReaEl---a~Lr~VL~~~---d~~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eElLr~ 328 (550)
T PTZ00202 263 QFVSREAEE---SWVRQVLRRL---DTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDTLRS 328 (550)
T ss_pred CCCCcHHHH---HHHHHHHhcc---CCCCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHHHHH
Confidence 999999999 9999888622 223456899999999999999999987632 2 23333222 67999999
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHh-----c-CCeEEEEEe
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYL-----T-NKKYFTVLD 202 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L-----~-~kr~LlVLD 202 (348)
++.+|+.+.. ....++...|.+.| . +++.+||+-
T Consensus 329 LL~ALGV~p~------~~k~dLLrqIqeaLl~~~~e~GrtPVLII~ 368 (550)
T PTZ00202 329 VVKALGVPNV------EACGDLLDFISEACRRAKKMNGETPLLVLK 368 (550)
T ss_pred HHHHcCCCCc------ccHHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence 9999997421 22244445555444 2 556666653
No 15
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=98.46 E-value=2.4e-07 Score=87.37 Aligned_cols=101 Identities=11% Similarity=0.056 Sum_probs=66.8
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC--CHHHHHHHHHHHhCCCCC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY--NFKRILDDIMKSLMPTSS 172 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~ 172 (348)
-++++++.+- ..+- ..+|+|++|+||||||+.+|+..... +|+.++||.+.+.. .+.++++.+...+-....
T Consensus 157 ~rvID~l~PI----GkGQ-R~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~ 230 (416)
T PRK09376 157 TRIIDLIAPI----GKGQ-RGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTF 230 (416)
T ss_pred eeeeeeeccc----ccCc-eEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECC
Confidence 4667777632 2222 46789999999999999999984444 89999999998887 788888888643222211
Q ss_pred ccccCCCCHH-------HHHHHHHHH-hcCCeEEEEEeCCCC
Q 040110 173 WLKIMGKDYK-------SEKTILRDY-LTNKKYFTVLDDVWI 206 (348)
Q Consensus 173 ~~~~~~~~~~-------~~~~~l~~~-L~~kr~LlVLDdv~~ 206 (348)
+.... .....-..+ -.++++||++|++..
T Consensus 231 -----d~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR 267 (416)
T PRK09376 231 -----DEPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSITR 267 (416)
T ss_pred -----CCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHH
Confidence 11111 111112222 257899999999953
No 16
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=98.44 E-value=6.4e-07 Score=83.68 Aligned_cols=110 Identities=19% Similarity=0.194 Sum_probs=68.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|-...+ .++++ ...+.-..+||++|+||||||+.+... ....|. .++-..+-.+
T Consensus 31 HLlg~~~~l---rr~v~---------~~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f~-----~~sAv~~gvk---- 87 (436)
T COG2256 31 HLLGEGKPL---RRAVE---------AGHLHSMILWGPPGTGKTTLARLIAGT--TNAAFE-----ALSAVTSGVK---- 87 (436)
T ss_pred hhhCCCchH---HHHHh---------cCCCceeEEECCCCCCHHHHHHHHHHh--hCCceE-----EeccccccHH----
Confidence 667776666 66665 334555668999999999999999987 555552 2222222111
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHH-HHHhcCCeEEEEEeCCCC--hhhHHHHHhhCCCCCCCcEEEE--EeCChhh
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTIL-RDYLTNKKYFTVLDDVWI--EKIWDDLREALPDNQIGSRALI--TVGPHNI 235 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l-~~~L~~kr~LlVLDdv~~--~~~~~~l~~~l~~~~~gskIlv--TTR~~~v 235 (348)
++....+.- +....+++.+|.+|.|.. ..+-+.|... ..+|.-|+| ||.|..-
T Consensus 88 -----------------dlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~---vE~G~iilIGATTENPsF 145 (436)
T COG2256 88 -----------------DLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPH---VENGTIILIGATTENPSF 145 (436)
T ss_pred -----------------HHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhh---hcCCeEEEEeccCCCCCe
Confidence 222222222 222347899999999963 3444555444 456888887 8887653
No 17
>PRK04841 transcriptional regulator MalT; Provisional
Probab=98.43 E-value=2.5e-06 Score=90.87 Aligned_cols=134 Identities=13% Similarity=0.096 Sum_probs=82.6
Q ss_pred CcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHH
Q 040110 82 DALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRIL 160 (348)
Q Consensus 82 ~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~ 160 (348)
..+|-|+... +.+-. ....+++.|.|++|.||||++.+..+. ++.++|+++... .+...+.
T Consensus 14 ~~~~~R~rl~---~~l~~---------~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~ 75 (903)
T PRK04841 14 HNTVVRERLL---AKLSG---------ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFA 75 (903)
T ss_pred cccCcchHHH---HHHhc---------ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHH
Confidence 3677777666 44432 235678999999999999999998754 226889999644 4666777
Q ss_pred HHHHHHhCCCCCc--c-------ccCCCCHHHHHHHHHHHhc--CCeEEEEEeCCCCh--hhHH-HHHhhCCCCCCCcEE
Q 040110 161 DDIMKSLMPTSSW--L-------KIMGKDYKSEKTILRDYLT--NKKYFTVLDDVWIE--KIWD-DLREALPDNQIGSRA 226 (348)
Q Consensus 161 ~~i~~~l~~~~~~--~-------~~~~~~~~~~~~~l~~~L~--~kr~LlVLDdv~~~--~~~~-~l~~~l~~~~~gskI 226 (348)
..++..+...... + .....+...+...+...+. +.+++|||||+... .... .+...+.....+.++
T Consensus 76 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~l 155 (903)
T PRK04841 76 SYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTL 155 (903)
T ss_pred HHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEE
Confidence 7777777422111 0 0111233334444444443 57899999999653 2222 232222333446688
Q ss_pred EEEeCCh
Q 040110 227 LITVGPH 233 (348)
Q Consensus 227 lvTTR~~ 233 (348)
|||||..
T Consensus 156 v~~sR~~ 162 (903)
T PRK04841 156 VVLSRNL 162 (903)
T ss_pred EEEeCCC
Confidence 8999984
No 18
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=98.41 E-value=2.8e-06 Score=86.02 Aligned_cols=195 Identities=20% Similarity=0.156 Sum_probs=116.3
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCcc---------ccCCC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWL---------KIMGK 179 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~---------~~~~~ 179 (348)
.+.+.+.|..+.|.|||||+.+.... ... =..+.|.+++.. .++..+..-++..++...+.. .....
T Consensus 35 ~~~RL~li~APAGfGKttl~aq~~~~--~~~-~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~ 111 (894)
T COG2909 35 NDYRLILISAPAGFGKTTLLAQWREL--AAD-GAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYV 111 (894)
T ss_pred CCceEEEEeCCCCCcHHHHHHHHHHh--cCc-ccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccc
Confidence 46789999999999999999998763 222 236899998655 578888888888887432210 11223
Q ss_pred CHHHHHHHHHHHhcC--CeEEEEEeCCCC---h---hhHHHHHhhCCCCCCCcEEEEEeCChhhhhh---------cccC
Q 040110 180 DYKSEKTILRDYLTN--KKYFTVLDDVWI---E---KIWDDLREALPDNQIGSRALITVGPHNILTS---------IELE 242 (348)
Q Consensus 180 ~~~~~~~~l~~~L~~--kr~LlVLDdv~~---~---~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~---------~~l~ 242 (348)
+...+...+..-|.+ ++.+|||||..- . ..+..+....| .+-..+||||++.-... ..++
T Consensus 112 ~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P---~~l~lvv~SR~rP~l~la~lRlr~~llEi~ 188 (894)
T COG2909 112 SLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAP---ENLTLVVTSRSRPQLGLARLRLRDELLEIG 188 (894)
T ss_pred cHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCC---CCeEEEEEeccCCCCcccceeehhhHHhcC
Confidence 444455555555543 689999999642 2 23444444444 46789999999875554 2222
Q ss_pred -------CCCc--------CCCC-cccccCccccCCHHHHHHHHHHhCCCCCC-C------CCCC----cchhccc--cc
Q 040110 243 -------NGEK--------NRHD-SALVGGPLIRIKHETWQFFILHYGSTPLE-N------ETEG----PSVGLKL--VS 293 (348)
Q Consensus 243 -------~~~C--------~Lp~-~~~ig~~L~~~~~~~w~~~~~~~~~~~~~-~------~~~~----~~i~~~l--~s 293 (348)
.++| ++|+ ...+..+... .+-|-..++-..-. .. + .+.+ ..+..-+ --
T Consensus 189 ~~~Lrf~~eE~~~fl~~~~~l~Ld~~~~~~L~~~--teGW~~al~L~aLa-~~~~~~~~q~~~~LsG~~~~l~dYL~eeV 265 (894)
T COG2909 189 SEELRFDTEEAAAFLNDRGSLPLDAADLKALYDR--TEGWAAALQLIALA-LRNNTSAEQSLRGLSGAASHLSDYLVEEV 265 (894)
T ss_pred hHhhcCChHHHHHHHHHcCCCCCChHHHHHHHhh--cccHHHHHHHHHHH-ccCCCcHHHHhhhccchHHHHHHHHHHHH
Confidence 2222 4665 2222222222 34444443331100 11 0 0111 1232333 55
Q ss_pred cCCCChhHHHHHhHhccCCC
Q 040110 294 LSELPFPLIVCCLYFCVFPT 313 (348)
Q Consensus 294 ~~~Lp~~lk~cf~y~a~fp~ 313 (348)
++.||+++|..++-||+++.
T Consensus 266 ld~Lp~~l~~FLl~~svl~~ 285 (894)
T COG2909 266 LDRLPPELRDFLLQTSVLSR 285 (894)
T ss_pred HhcCCHHHHHHHHHHHhHHH
Confidence 88999999999999999876
No 19
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.1e-06 Score=83.45 Aligned_cols=120 Identities=19% Similarity=0.181 Sum_probs=90.9
Q ss_pred cccccCcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcc--eeEEEEeCCCC
Q 040110 77 TEEICDALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD--CHAWVRVSNFY 154 (348)
Q Consensus 77 ~~~~~~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~--~~~wv~~~~~~ 154 (348)
+.+.++.+.+|+.++ +.+...|.+.- ....+.-+.|+|.+|+|||+.++.+.+. +..... ..++|++-...
T Consensus 12 ~~~iP~~l~~Re~ei---~~l~~~l~~~~--~~~~p~n~~iyG~~GTGKT~~~~~v~~~--l~~~~~~~~~~yINc~~~~ 84 (366)
T COG1474 12 EDYIPEELPHREEEI---NQLASFLAPAL--RGERPSNIIIYGPTGTGKTATVKFVMEE--LEESSANVEVVYINCLELR 84 (366)
T ss_pred CCCCcccccccHHHH---HHHHHHHHHHh--cCCCCccEEEECCCCCCHhHHHHHHHHH--HHhhhccCceEEEeeeeCC
Confidence 455566899999999 99998886431 1112223778999999999999999988 443322 26889998889
Q ss_pred CHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC--CeEEEEEeCCCCh
Q 040110 155 NFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN--KKYFTVLDDVWIE 207 (348)
Q Consensus 155 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~--kr~LlVLDdv~~~ 207 (348)
+..+++..|+++++.. ........+....+.+.+.. +.+++|||++...
T Consensus 85 t~~~i~~~i~~~~~~~----p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L 135 (366)
T COG1474 85 TPYQVLSKILNKLGKV----PLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDAL 135 (366)
T ss_pred CHHHHHHHHHHHcCCC----CCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhh
Confidence 9999999999999733 33355667788888888854 7899999999754
No 20
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=98.31 E-value=1.8e-06 Score=79.63 Aligned_cols=101 Identities=21% Similarity=0.200 Sum_probs=63.8
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
.....-+.+||++|+||||||+.+.+..+... ..||..|-.....+-++.|+++-...
T Consensus 159 q~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~~------------------ 216 (554)
T KOG2028|consen 159 QNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQNE------------------ 216 (554)
T ss_pred cCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHHH------------------
Confidence 34555677899999999999999998843333 55676665443333334444332211
Q ss_pred HHHhcCCeEEEEEeCCCC--hhhHHHHHhhCCCCCCCcEEEE--EeCChhh
Q 040110 189 RDYLTNKKYFTVLDDVWI--EKIWDDLREALPDNQIGSRALI--TVGPHNI 235 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~~--~~~~~~l~~~l~~~~~gskIlv--TTR~~~v 235 (348)
..+.++|.+|.+|.|.. ..+-+ ..||...+|+.++| ||.+.+-
T Consensus 217 -~~l~krkTilFiDEiHRFNksQQD---~fLP~VE~G~I~lIGATTENPSF 263 (554)
T KOG2028|consen 217 -KSLTKRKTILFIDEIHRFNKSQQD---TFLPHVENGDITLIGATTENPSF 263 (554)
T ss_pred -HhhhcceeEEEeHHhhhhhhhhhh---cccceeccCceEEEecccCCCcc
Confidence 12456899999999942 22322 34555677887777 7877653
No 21
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=98.29 E-value=2.9e-06 Score=80.47 Aligned_cols=90 Identities=9% Similarity=-0.046 Sum_probs=61.0
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC--CCHHHHHHHHHHHhCCCCCccccCCCCH----HHHHHH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF--YNFKRILDDIMKSLMPTSSWLKIMGKDY----KSEKTI 187 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~----~~~~~~ 187 (348)
.++|+|++|+|||||++.+++..... +|+..+|+.+.+. .++.++++.+...+-..... .+.... ....+.
T Consensus 170 ~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d--~p~~~~~~va~~v~e~ 246 (415)
T TIGR00767 170 RGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFD--EPASRHVQVAEMVIEK 246 (415)
T ss_pred EEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCC--CChHHHHHHHHHHHHH
Confidence 57899999999999999999984333 7999999998866 78999999995544332211 011111 112222
Q ss_pred HHHH-hcCCeEEEEEeCCCC
Q 040110 188 LRDY-LTNKKYFTVLDDVWI 206 (348)
Q Consensus 188 l~~~-L~~kr~LlVLDdv~~ 206 (348)
...+ -.+++++|++|++..
T Consensus 247 Ae~~~~~GkdVVLlIDEitR 266 (415)
T TIGR00767 247 AKRLVEHKKDVVILLDSITR 266 (415)
T ss_pred HHHHHHcCCCeEEEEEChhH
Confidence 2222 257899999999954
No 22
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.22 E-value=8.3e-06 Score=83.53 Aligned_cols=124 Identities=11% Similarity=-0.003 Sum_probs=82.0
Q ss_pred cccccCcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccc---cCCcc--eeEEEEeC
Q 040110 77 TEEICDALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFV---KFYFD--CHAWVRVS 151 (348)
Q Consensus 77 ~~~~~~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~---~~~F~--~~~wv~~~ 151 (348)
+.++++.+.||+++. ++|...|.+.- .+.....++-|+|++|+|||++++.|.+.... ....+ ..++|++.
T Consensus 750 ~DYVPD~LPhREeEI---eeLasfL~paI-kgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm 825 (1164)
T PTZ00112 750 LDVVPKYLPCREKEI---KEVHGFLESGI-KQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM 825 (1164)
T ss_pred cccCCCcCCChHHHH---HHHHHHHHHHH-hcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence 345556899999999 99998886321 11233357789999999999999999876311 11122 35677776
Q ss_pred CCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC---CeEEEEEeCCCCh
Q 040110 152 NFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN---KKYFTVLDDVWIE 207 (348)
Q Consensus 152 ~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~---kr~LlVLDdv~~~ 207 (348)
.-.+...++..|..+|....+ .......+....+...+.. ...+||||+++..
T Consensus 826 ~Lstp~sIYqvI~qqL~g~~P---~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L 881 (1164)
T PTZ00112 826 NVVHPNAAYQVLYKQLFNKKP---PNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL 881 (1164)
T ss_pred ccCCHHHHHHHHHHHHcCCCC---CccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence 667788889999988854321 1223344555556555522 2468999999743
No 23
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=98.18 E-value=8.9e-06 Score=76.54 Aligned_cols=49 Identities=20% Similarity=0.243 Sum_probs=37.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|+|++... +.+..++.... ........+.++|++|+|||+||+.+++.
T Consensus 26 ~~vG~~~~~---~~l~~~l~~~~-~~~~~~~~~ll~GppG~GKT~la~~ia~~ 74 (328)
T PRK00080 26 EFIGQEKVK---ENLKIFIEAAK-KRGEALDHVLLYGPPGLGKTTLANIIANE 74 (328)
T ss_pred HhcCcHHHH---HHHHHHHHHHH-hcCCCCCcEEEECCCCccHHHHHHHHHHH
Confidence 899999999 88777664210 11233456779999999999999999988
No 24
>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=98.15 E-value=6e-05 Score=76.62 Aligned_cols=142 Identities=13% Similarity=0.091 Sum_probs=83.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc---ceeEEEEeCC---CCCH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF---DCHAWVRVSN---FYNF 156 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F---~~~~wv~~~~---~~~~ 156 (348)
.++|++..+ ..+.+.+. ......+.|+|++|+||||||+.+++.......+ ...-|+.+.. ..+.
T Consensus 155 ~iiGqs~~~---~~l~~~ia------~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~ 225 (615)
T TIGR02903 155 EIVGQERAI---KALLAKVA------SPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDP 225 (615)
T ss_pred hceeCcHHH---HHHHHHHh------cCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCH
Confidence 789999999 88887776 2234468899999999999999998774333332 1233444432 1122
Q ss_pred HHHHHHH---------------HHHhCCCCCc--------------cccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh
Q 040110 157 KRILDDI---------------MKSLMPTSSW--------------LKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE 207 (348)
Q Consensus 157 ~~~~~~i---------------~~~l~~~~~~--------------~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~ 207 (348)
..+...+ +...+..... ......+ ...+..+.+.+.+++++++.|+.|..
T Consensus 226 ~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld-~~~Q~~Ll~~Le~~~v~~~~~~~~~~ 304 (615)
T TIGR02903 226 REVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELD-PLLQNKLLKVLEDKRVEFSSSYYDPD 304 (615)
T ss_pred HHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCC-HHHHHHHHHHHhhCeEEeecceeccC
Confidence 2221111 1111211000 0111122 33567888888888988887777654
Q ss_pred --hhHHHHHhhCCCCCCCcEEEE--EeCChh
Q 040110 208 --KIWDDLREALPDNQIGSRALI--TVGPHN 234 (348)
Q Consensus 208 --~~~~~l~~~l~~~~~gskIlv--TTR~~~ 234 (348)
..|+.+...+....+...|++ ||++..
T Consensus 305 ~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~ 335 (615)
T TIGR02903 305 DPNVPKYIKKLFEEGAPADFVLIGATTRDPE 335 (615)
T ss_pred CcccchhhhhhcccCccceEEEEEecccccc
Confidence 457777766666555555666 666543
No 25
>PRK13342 recombination factor protein RarA; Reviewed
Probab=98.15 E-value=6.2e-06 Score=80.09 Aligned_cols=106 Identities=18% Similarity=0.203 Sum_probs=61.8
Q ss_pred cccccccccccHHH---HHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 83 ALLGLQSKIINLRN---LHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 83 ~~vGr~~~~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.+||++..+ .. +..++. ......+.++|++|+||||||+.+++. ....| +.++......+-
T Consensus 13 d~vGq~~~v---~~~~~L~~~i~------~~~~~~ilL~GppGtGKTtLA~~ia~~--~~~~~-----~~l~a~~~~~~~ 76 (413)
T PRK13342 13 EVVGQEHLL---GPGKPLRRMIE------AGRLSSMILWGPPGTGKTTLARIIAGA--TDAPF-----EALSAVTSGVKD 76 (413)
T ss_pred HhcCcHHHh---CcchHHHHHHH------cCCCceEEEECCCCCCHHHHHHHHHHH--hCCCE-----EEEecccccHHH
Confidence 688887775 44 666665 233446778999999999999999987 33333 222211111111
Q ss_pred HHHHHHHhCCCCCccccCCCCHHHHHHHHHHH-hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEE
Q 040110 160 LDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY-LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALI 228 (348)
Q Consensus 160 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlv 228 (348)
++.++ +..... ..+++.+|++|+++.. .+.+.+...+.. |+.+++
T Consensus 77 ir~ii---------------------~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI 124 (413)
T PRK13342 77 LREVI---------------------EEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLI 124 (413)
T ss_pred HHHHH---------------------HHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEE
Confidence 12222 222111 1357889999999864 455566555533 455555
No 26
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=98.11 E-value=1.6e-05 Score=74.94 Aligned_cols=44 Identities=18% Similarity=0.289 Sum_probs=36.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|++... +.+..++. .+..+.+.++|++|+||||+|+.+.+.
T Consensus 16 ~~~g~~~~~---~~L~~~~~------~~~~~~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 16 DILGQDEVV---ERLSRAVD------SPNLPHLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred HhcCCHHHH---HHHHHHHh------CCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 689999999 99988887 223335779999999999999998876
No 27
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=98.07 E-value=0.0001 Score=67.38 Aligned_cols=219 Identities=11% Similarity=0.029 Sum_probs=131.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCcccc-----CCcceeEEEEeCCCCCHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVK-----FYFDCHAWVRVSNFYNFK 157 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~-----~~F~~~~wv~~~~~~~~~ 157 (348)
..+|-..-...+++|.++|.. .......-+.|+|.+|.|||+++++..+..-.. ..+ .++.|.+....+..
T Consensus 35 rWIgY~~A~~~L~~L~~Ll~~---P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~-PVv~vq~P~~p~~~ 110 (302)
T PF05621_consen 35 RWIGYPRAKEALDRLEELLEY---PKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERI-PVVYVQMPPEPDER 110 (302)
T ss_pred CeecCHHHHHHHHHHHHHHhC---CcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccc-cEEEEecCCCCChH
Confidence 577766555445777777763 234556678999999999999999988653111 111 46667788889999
Q ss_pred HHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC-CeEEEEEeCCCCh---------hhHHHHHhhCCCCCCCcEEE
Q 040110 158 RILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN-KKYFTVLDDVWIE---------KIWDDLREALPDNQIGSRAL 227 (348)
Q Consensus 158 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~~~---------~~~~~l~~~l~~~~~gskIl 227 (348)
.+...|+.+++.+.. ...+...+.......|+. +--+||+|.+.+. ..++.+ ..+.+.-.=+-|.
T Consensus 111 ~~Y~~IL~~lgaP~~----~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~L-K~L~NeL~ipiV~ 185 (302)
T PF05621_consen 111 RFYSAILEALGAPYR----PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNAL-KFLGNELQIPIVG 185 (302)
T ss_pred HHHHHHHHHhCcccC----CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHH-HHHhhccCCCeEE
Confidence 999999999999843 344555666666666655 5668889999763 122222 3333323345566
Q ss_pred EEeCChhhhhh--------cccCCCCcCCCCcccccCccccCCHHHHHHHHHHhCCC-CCCCCCCC--cchhccc-cccC
Q 040110 228 ITVGPHNILTS--------IELENGEKNRHDSALVGGPLIRIKHETWQFFILHYGST-PLENETEG--PSVGLKL-VSLS 295 (348)
Q Consensus 228 vTTR~~~v~~~--------~~l~~~~C~Lp~~~~ig~~L~~~~~~~w~~~~~~~~~~-~~~~~~~~--~~i~~~l-~s~~ 295 (348)
|-|+.---+-. |..- .|| ..+. .+++..++..+... .+.....+ ..++..| ...+
T Consensus 186 vGt~~A~~al~~D~QLa~RF~~~----~Lp-------~W~~--d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~ 252 (302)
T PF05621_consen 186 VGTREAYRALRTDPQLASRFEPF----ELP-------RWEL--DEEFRRLLASFERALPLRKPSNLASPELARRIHERSE 252 (302)
T ss_pred eccHHHHHHhccCHHHHhccCCc----cCC-------CCCC--CcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcC
Confidence 66654333222 2222 111 2222 56667777765433 12222222 3455566 6666
Q ss_pred CCChhHHHHHhHhccC---CCCceecHHHHH
Q 040110 296 ELPFPLIVCCLYFCVF---PTDIELTTRQLC 323 (348)
Q Consensus 296 ~Lp~~lk~cf~y~a~f---p~~~~i~~~~Li 323 (348)
|+-.++.+.+..+|+. ...-.|+.+.|-
T Consensus 253 G~iG~l~~ll~~aA~~AI~sG~E~It~~~l~ 283 (302)
T PF05621_consen 253 GLIGELSRLLNAAAIAAIRSGEERITREILD 283 (302)
T ss_pred CchHHHHHHHHHHHHHHHhcCCceecHHHHh
Confidence 7877877777777665 333446666554
No 28
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.04 E-value=5.6e-06 Score=79.74 Aligned_cols=107 Identities=14% Similarity=0.145 Sum_probs=71.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.+++.+... +.+...|. ..+.+.++|++|+|||++|+.+++.......|+.+.||.+++.++..+++.-
T Consensus 176 d~~i~e~~l---e~l~~~L~--------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G 244 (459)
T PRK11331 176 DLFIPETTI---ETILKRLT--------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQG 244 (459)
T ss_pred cccCCHHHH---HHHHHHHh--------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcc
Confidence 677888888 99999888 1235778999999999999999988544557778889999999887776542
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhc--CCeEEEEEeCCCCh
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLT--NKKYFTVLDDVWIE 207 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVLDdv~~~ 207 (348)
+. .... .. .....-..+.+..... .++++||+|++...
T Consensus 245 ~r----P~~v--gy-~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa 284 (459)
T PRK11331 245 YR----PNGV--GF-RRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA 284 (459)
T ss_pred cC----CCCC--Ce-EecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence 21 1100 00 0001112223333332 36899999999654
No 29
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=98.04 E-value=6e-05 Score=70.45 Aligned_cols=123 Identities=11% Similarity=0.133 Sum_probs=77.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc----cccCCcceeEEEE-eCCCCCHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN----FVKFYFDCHAWVR-VSNFYNFK 157 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~----~~~~~F~~~~wv~-~~~~~~~~ 157 (348)
+++|.+... +.+.+.+. . ..-.....++|+.|+||||+|..+++.. ....|.|...|.. -+....+.
T Consensus 5 ~i~g~~~~~---~~l~~~~~----~-~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~ 76 (313)
T PRK05564 5 TIIGHENIK---NRIKNSII----K-NRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVD 76 (313)
T ss_pred hccCcHHHH---HHHHHHHH----c-CCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHH
Confidence 578888888 88888886 2 2233466789999999999999988742 1234556555544 23333433
Q ss_pred HHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCC--ChhhHHHHHhhCCCCCCCcEEEEEeCChh
Q 040110 158 RILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVW--IEKIWDDLREALPDNQIGSRALITVGPHN 234 (348)
Q Consensus 158 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~--~~~~~~~l~~~l~~~~~gskIlvTTR~~~ 234 (348)
+ ++++...+... -..+++-++|+|+++ +...++.+...+.....++.+|++|.+.+
T Consensus 77 ~-ir~~~~~~~~~--------------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~ 134 (313)
T PRK05564 77 D-IRNIIEEVNKK--------------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLE 134 (313)
T ss_pred H-HHHHHHHHhcC--------------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChH
Confidence 3 23333333221 011344455556554 55788999999887777888888886654
No 30
>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=98.04 E-value=4.7e-05 Score=61.01 Aligned_cols=87 Identities=10% Similarity=-0.045 Sum_probs=48.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
..+.|+|++|+||||+++.++.. .......++.+..+........... ...... .............+....
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-----~~~~~~~~~~~~~~~~~~ 74 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGEDILEEVLDQLL-LIIVGG-----KKASGSGELRLRLALALA 74 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCEEccccCHHHHH-hhhhhc-----cCCCCCHHHHHHHHHHHH
Confidence 46889999999999999999988 3333233455544433222111111 111111 111222333334444444
Q ss_pred cCC-eEEEEEeCCCCh
Q 040110 193 TNK-KYFTVLDDVWIE 207 (348)
Q Consensus 193 ~~k-r~LlVLDdv~~~ 207 (348)
... ..++++|++...
T Consensus 75 ~~~~~~viiiDei~~~ 90 (148)
T smart00382 75 RKLKPDVLILDEITSL 90 (148)
T ss_pred HhcCCCEEEEECCccc
Confidence 444 499999999875
No 31
>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=98.04 E-value=2.4e-05 Score=62.82 Aligned_cols=21 Identities=19% Similarity=0.270 Sum_probs=19.7
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.|+|++|+|||++|+.+++.
T Consensus 1 ill~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhh
Confidence 568999999999999999998
No 32
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=98.03 E-value=3.3e-05 Score=78.56 Aligned_cols=137 Identities=13% Similarity=0.156 Sum_probs=71.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
++||.+..+ +.|.+++. .+. -...+.++|..|+||||+|+.+.+.......++ +..+..=.....
T Consensus 17 EVIGQe~Vv---~~L~~aL~----~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-------~~PCG~C~sCr~ 81 (830)
T PRK07003 17 SLVGQEHVV---RALTHALD----GGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-------SQPCGVCRACRE 81 (830)
T ss_pred HHcCcHHHH---HHHHHHHh----cCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-------CCCCcccHHHHH
Confidence 799999999 99999887 222 234556899999999999998877632221111 001111011111
Q ss_pred HHHHhCCCCCcc-ccCCCCHHHHHHHHHHH----hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeCChh
Q 040110 163 IMKSLMPTSSWL-KIMGKDYKSEKTILRDY----LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVGPHN 234 (348)
Q Consensus 163 i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~----L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR~~~ 234 (348)
|...-.....+. ..+....+++...+... ..++.-++|||++... ..++.++..+-......++|+||.+..
T Consensus 82 I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~ 160 (830)
T PRK07003 82 IDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQ 160 (830)
T ss_pred HhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChh
Confidence 111000000000 00111222222222221 1245568889999764 457777777655445677777666543
No 33
>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=98.00 E-value=1.4e-05 Score=70.87 Aligned_cols=48 Identities=8% Similarity=0.040 Sum_probs=32.7
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
+.+.+++. ......+.|+|++|+|||+||+.+++. ........+++++
T Consensus 27 ~~l~~~~~------~~~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~ 74 (226)
T TIGR03420 27 AALRQLAA------GKGDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPL 74 (226)
T ss_pred HHHHHHHh------cCCCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeH
Confidence 66666654 234557889999999999999999877 3222233455543
No 34
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=97.98 E-value=3.6e-05 Score=71.64 Aligned_cols=115 Identities=17% Similarity=0.255 Sum_probs=81.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.+.+|+.+. ..+..++... +..-++.+-|+|-.|.|||.+.+++++.. .. ..+|+++-..++..-++..
T Consensus 7 ~v~~Re~qi---~~L~~Llg~~---~~~~PS~~~iyG~sgTGKT~~~r~~l~~~--n~---~~vw~n~~ecft~~~lle~ 75 (438)
T KOG2543|consen 7 NVPCRESQI---RRLKSLLGNN---SCTIPSIVHIYGHSGTGKTYLVRQLLRKL--NL---ENVWLNCVECFTYAILLEK 75 (438)
T ss_pred CccchHHHH---HHHHHHhCCC---CcccceeEEEeccCCCchhHHHHHHHhhc--CC---cceeeehHHhccHHHHHHH
Confidence 788999999 9999999832 22345667899999999999999999984 22 4689999999999999999
Q ss_pred HHHHhCCCCCccccCC---CCHHHHHHHHHH--Hhc--CCeEEEEEeCCCChh
Q 040110 163 IMKSLMPTSSWLKIMG---KDYKSEKTILRD--YLT--NKKYFTVLDDVWIEK 208 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~---~~~~~~~~~l~~--~L~--~kr~LlVLDdv~~~~ 208 (348)
|+.+++....+..... .........+.+ ... ++.++|||||++.-.
T Consensus 76 IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lr 128 (438)
T KOG2543|consen 76 ILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALR 128 (438)
T ss_pred HHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhh
Confidence 9999963322101111 222333333333 222 358999999997643
No 35
>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=97.96 E-value=9.7e-06 Score=75.37 Aligned_cols=49 Identities=18% Similarity=0.272 Sum_probs=37.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|+|++..+ +.|..++.... ........+.++|++|+|||+||+.+++.
T Consensus 5 ~~iG~~~~~---~~l~~~l~~~~-~~~~~~~~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 5 EFIGQEKVK---EQLQLFIEAAK-MRQEALDHLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred HHcCHHHHH---HHHHHHHHHHH-hcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 689999999 88888775211 11223445778999999999999999987
No 36
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.94 E-value=8.8e-05 Score=70.79 Aligned_cols=45 Identities=22% Similarity=0.389 Sum_probs=36.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.+.+.+. .+ .-...+.++|+.|+||||+|+.+++.
T Consensus 17 ~iiGq~~~~---~~l~~~~~----~~-~~~h~~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 17 DIIGQKHIV---TAISNGLS----LG-RIHHAWLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred hccChHHHH---HHHHHHHH----cC-CCCeEEEEecCCCCCHHHHHHHHHHH
Confidence 789999999 88888887 21 22345678999999999999999876
No 37
>PRK06893 DNA replication initiation factor; Validated
Probab=97.93 E-value=1.3e-05 Score=71.52 Aligned_cols=36 Identities=8% Similarity=0.128 Sum_probs=27.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
+.+.|+|++|+|||+|++.+++. .......+.|+++
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~ 75 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPL 75 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeH
Confidence 46789999999999999999987 3333334566654
No 38
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=97.90 E-value=3.4e-05 Score=79.45 Aligned_cols=52 Identities=19% Similarity=0.242 Sum_probs=35.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
.|+|.+..+.....+.+.+. ......+.++|++|+||||||+.+++. ...+|
T Consensus 29 d~vGQe~ii~~~~~L~~~i~------~~~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f 80 (725)
T PRK13341 29 EFVGQDHILGEGRLLRRAIK------ADRVGSLILYGPPGVGKTTLARIIANH--TRAHF 80 (725)
T ss_pred HhcCcHHHhhhhHHHHHHHh------cCCCceEEEECCCCCCHHHHHHHHHHH--hcCcc
Confidence 68888876611123555555 234445678999999999999999987 44444
No 39
>PRK08116 hypothetical protein; Validated
Probab=97.87 E-value=4.6e-05 Score=69.56 Aligned_cols=101 Identities=21% Similarity=0.252 Sum_probs=57.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhc
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT 193 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~ 193 (348)
-+.++|..|+|||.||.++++. +...-..+++++ ..+++..+...+.... ..+..+ +.+.+.
T Consensus 116 gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~------~~~ll~~i~~~~~~~~------~~~~~~----~~~~l~ 177 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVN------FPQLLNRIKSTYKSSG------KEDENE----IIRSLV 177 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHHhccc------cccHHH----HHHHhc
Confidence 4778999999999999999998 433323455654 4556666665554321 112222 333444
Q ss_pred CCeEEEEEeCCCC--hhhHH--HHHhhCCC-CCCCcEEEEEeCCh
Q 040110 194 NKKYFTVLDDVWI--EKIWD--DLREALPD-NQIGSRALITVGPH 233 (348)
Q Consensus 194 ~kr~LlVLDdv~~--~~~~~--~l~~~l~~-~~~gskIlvTTR~~ 233 (348)
+-. ||||||+-. ..+|. .+...+-. -.++..+|+||...
T Consensus 178 ~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~ 221 (268)
T PRK08116 178 NAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS 221 (268)
T ss_pred CCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 434 899999942 23332 22222111 12456688888743
No 40
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.87 E-value=9.1e-05 Score=74.53 Aligned_cols=45 Identities=27% Similarity=0.343 Sum_probs=37.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.|.+++. .+. -...+.++|+.|+||||+|+.+++.
T Consensus 16 dVIGQe~vv---~~L~~aI~----~gr-l~HAyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 16 ELVGQNHVS---RALSSALE----RGR-LHHAYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred HhcCcHHHH---HHHHHHHH----cCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 799999999 99999887 222 2356678999999999999998876
No 41
>PRK04195 replication factor C large subunit; Provisional
Probab=97.86 E-value=6.8e-05 Score=74.31 Aligned_cols=119 Identities=12% Similarity=0.157 Sum_probs=70.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+... +.+.+|+..-. .....+.+.|+|++|+||||+|..+++. .. |+ .+-++.+...+ ...+..
T Consensus 15 dlvg~~~~~---~~l~~~l~~~~--~g~~~~~lLL~GppG~GKTtla~ala~e--l~--~~-~ielnasd~r~-~~~i~~ 83 (482)
T PRK04195 15 DVVGNEKAK---EQLREWIESWL--KGKPKKALLLYGPPGVGKTSLAHALAND--YG--WE-VIELNASDQRT-ADVIER 83 (482)
T ss_pred HhcCCHHHH---HHHHHHHHHHh--cCCCCCeEEEECCCCCCHHHHHHHHHHH--cC--CC-EEEEccccccc-HHHHHH
Confidence 799999999 99998886211 1122567889999999999999999988 32 22 23334443322 223333
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh------hhHHHHHhhCCCCCCCcEEEEEeCC
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE------KIWDDLREALPDNQIGSRALITVGP 232 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~------~~~~~l~~~l~~~~~gskIlvTTR~ 232 (348)
++.......+ ....++-+||||+++.. ..+..+...+.. .++.||+|+.+
T Consensus 84 ~i~~~~~~~s------------------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~ 139 (482)
T PRK04195 84 VAGEAATSGS------------------LFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTAND 139 (482)
T ss_pred HHHHhhccCc------------------ccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccC
Confidence 3332221100 01136789999999763 235555555442 23446666543
No 42
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.85 E-value=0.00016 Score=67.53 Aligned_cols=44 Identities=14% Similarity=0.211 Sum_probs=36.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|++... +.+..++. ....+.+.++|.+|+||||+|+.+++.
T Consensus 18 ~~~g~~~~~---~~l~~~i~------~~~~~~~ll~G~~G~GKt~~~~~l~~~ 61 (319)
T PRK00440 18 EIVGQEEIV---ERLKSYVK------EKNMPHLLFAGPPGTGKTTAALALARE 61 (319)
T ss_pred HhcCcHHHH---HHHHHHHh------CCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 689999999 99999887 223334689999999999999999876
No 43
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=97.84 E-value=7.3e-05 Score=69.87 Aligned_cols=118 Identities=15% Similarity=0.104 Sum_probs=68.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+... +.+..++. . .....++.++|++|+||||+|+.+++. .... ...++.+. ... ..++.
T Consensus 22 ~~~~~~~~~---~~l~~~~~----~-~~~~~~lll~G~~G~GKT~la~~l~~~--~~~~---~~~i~~~~-~~~-~~i~~ 86 (316)
T PHA02544 22 ECILPAADK---ETFKSIVK----K-GRIPNMLLHSPSPGTGKTTVAKALCNE--VGAE---VLFVNGSD-CRI-DFVRN 86 (316)
T ss_pred HhcCcHHHH---HHHHHHHh----c-CCCCeEEEeeCcCCCCHHHHHHHHHHH--hCcc---ceEeccCc-ccH-HHHHH
Confidence 789999999 99998887 2 223457777999999999999999886 3221 23333333 111 11111
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh---hhHHHHHhhCCCCCCCcEEEEEeCChh
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE---KIWDDLREALPDNQIGSRALITVGPHN 234 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~~~~gskIlvTTR~~~ 234 (348)
.+..+... ..+.+.+-++|+|++... ...+.+...+.....++++|+||....
T Consensus 87 ~l~~~~~~-------------------~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~ 142 (316)
T PHA02544 87 RLTRFAST-------------------VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKN 142 (316)
T ss_pred HHHHHHHh-------------------hcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChh
Confidence 11111100 001134567889999754 223334433433445678888886543
No 44
>PLN03025 replication factor C subunit; Provisional
Probab=97.83 E-value=9.7e-05 Score=69.24 Aligned_cols=122 Identities=10% Similarity=0.092 Sum_probs=66.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcc-eeEEEEeCCCCCHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD-CHAWVRVSNFYNFKRILD 161 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~ 161 (348)
+++|.+... +.|.+++. ......+.++|++|+||||+|..+++... ...|. ..+-++.+...+.. ..+
T Consensus 14 ~~~g~~~~~---~~L~~~~~------~~~~~~lll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~eln~sd~~~~~-~vr 82 (319)
T PLN03025 14 DIVGNEDAV---SRLQVIAR------DGNMPNLILSGPPGTGKTTSILALAHELL-GPNYKEAVLELNASDDRGID-VVR 82 (319)
T ss_pred HhcCcHHHH---HHHHHHHh------cCCCceEEEECCCCCCHHHHHHHHHHHHh-cccCccceeeecccccccHH-HHH
Confidence 788988888 88877766 22333466899999999999999987621 11222 12222223222221 222
Q ss_pred HHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeCC
Q 040110 162 DIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVGP 232 (348)
Q Consensus 162 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR~ 232 (348)
++++.+..... . .-.++.-++|||+++.- ...+.+...+......++++++|..
T Consensus 83 ~~i~~~~~~~~----~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~ 138 (319)
T PLN03025 83 NKIKMFAQKKV----T-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNT 138 (319)
T ss_pred HHHHHHHhccc----c-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCC
Confidence 22222211100 0 00135678999999754 3344555444333445677776644
No 45
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.82 E-value=9.1e-05 Score=76.74 Aligned_cols=46 Identities=20% Similarity=0.256 Sum_probs=36.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.+||.+..+ +.|.+++. .+ .-...+.++|+.|+||||+|+.+++..
T Consensus 17 dIIGQe~Iv---~~LknaI~----~~-rl~HAyLFtGPpGtGKTTLARiLAk~L 62 (944)
T PRK14949 17 QMVGQSHVL---HALTNALT----QQ-RLHHAYLFTGTRGVGKTSLARLFAKGL 62 (944)
T ss_pred HhcCcHHHH---HHHHHHHH----hC-CCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence 789999999 88888887 11 223345789999999999999998773
No 46
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.81 E-value=0.00012 Score=72.85 Aligned_cols=124 Identities=15% Similarity=0.130 Sum_probs=72.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccC-------------------Ccc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKF-------------------YFD 143 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~-------------------~F~ 143 (348)
.++|.+..+ +.|...+. .+ .-...+.++|+.|+||||+|+.+++...... .|.
T Consensus 17 diiGq~~~v---~~L~~~i~----~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~ 88 (546)
T PRK14957 17 EVAGQQHAL---NSLVHALE----TQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFI 88 (546)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCC
Confidence 789999999 88888887 21 2334567899999999999999986521111 111
Q ss_pred eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH-hcCCeEEEEEeCCCCh--hhHHHHHhhCCCC
Q 040110 144 CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY-LTNKKYFTVLDDVWIE--KIWDDLREALPDN 220 (348)
Q Consensus 144 ~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~ 220 (348)
..+++.......+. +..++.+.+... ..+++-++|+|++..- ...+.+...+-..
T Consensus 89 dlieidaas~~gvd----------------------~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEep 146 (546)
T PRK14957 89 DLIEIDAASRTGVE----------------------ETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEP 146 (546)
T ss_pred ceEEeecccccCHH----------------------HHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcC
Confidence 22222221111111 122222222221 2356779999999743 5677787777655
Q ss_pred CCCcEEE-EEeCChhhh
Q 040110 221 QIGSRAL-ITVGPHNIL 236 (348)
Q Consensus 221 ~~gskIl-vTTR~~~v~ 236 (348)
...+++| +||....+.
T Consensus 147 p~~v~fIL~Ttd~~kil 163 (546)
T PRK14957 147 PEYVKFILATTDYHKIP 163 (546)
T ss_pred CCCceEEEEECChhhhh
Confidence 4455555 455544444
No 47
>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=97.80 E-value=6.4e-05 Score=66.92 Aligned_cols=35 Identities=17% Similarity=0.252 Sum_probs=29.5
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
.++|+|.+|+|||||...+..+ ..+.|+.+++++-
T Consensus 15 r~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 15 RMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITP 49 (241)
T ss_pred eEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEec
Confidence 5678999999999999999988 8888977766643
No 48
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.79 E-value=0.00018 Score=72.33 Aligned_cols=146 Identities=14% Similarity=0.142 Sum_probs=74.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
++||.+..+ +.|.+.+. .+. -...+.++|..|+||||+|+.+.+.....+.-...- + .+..+..-.....
T Consensus 17 dVIGQe~vv---~~L~~al~----~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g-~-~~~PCG~C~sC~~ 86 (700)
T PRK12323 17 TLVGQEHVV---RALTHALE----QQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG-I-TAQPCGQCRACTE 86 (700)
T ss_pred HHcCcHHHH---HHHHHHHH----hCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc-C-CCCCCcccHHHHH
Confidence 799999999 99998887 222 234567899999999999999876532210000000 0 0000110111111
Q ss_pred HHHHhCCCCCcc-ccCCCCHHHHHHHHHHH----hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcE-EEEEeCChh
Q 040110 163 IMKSLMPTSSWL-KIMGKDYKSEKTILRDY----LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSR-ALITVGPHN 234 (348)
Q Consensus 163 i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~----L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gsk-IlvTTR~~~ 234 (348)
|...-....-.. ..+...++++.+.+.+. ..++.-++|+|++... ..++.|+..+-.-..+++ |++||....
T Consensus 87 I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~k 166 (700)
T PRK12323 87 IDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQK 166 (700)
T ss_pred HHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHh
Confidence 111000000000 00112233333322221 1356678999999753 567788777755444455 455666565
Q ss_pred hhhh
Q 040110 235 ILTS 238 (348)
Q Consensus 235 v~~~ 238 (348)
+...
T Consensus 167 LlpT 170 (700)
T PRK12323 167 IPVT 170 (700)
T ss_pred hhhH
Confidence 5543
No 49
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=97.77 E-value=6.1e-05 Score=71.92 Aligned_cols=55 Identities=20% Similarity=0.297 Sum_probs=39.5
Q ss_pred cccccccccccHHHHHhhcCCCC-------CCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS-------GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~-------~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
++.|++..+ ++|.+.+..+- ..+-..++-+.++|++|+|||++|+++++. ....|
T Consensus 123 di~Gl~~~~---~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~--l~~~~ 184 (364)
T TIGR01242 123 DIGGLEEQI---REIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE--TNATF 184 (364)
T ss_pred HhCChHHHH---HHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh--CCCCE
Confidence 788999999 88888763110 001123455889999999999999999987 44443
No 50
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.77 E-value=1.5e-05 Score=79.00 Aligned_cols=133 Identities=13% Similarity=0.022 Sum_probs=70.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
+++|.+... +.|..++. .+. -...+.++|++|+||||+|+.+++.......+...+|.|.+. ..
T Consensus 15 dvvGq~~v~---~~L~~~i~----~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc--------~~ 78 (504)
T PRK14963 15 EVVGQEHVK---EVLLAALR----QGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESC--------LA 78 (504)
T ss_pred HhcChHHHH---HHHHHHHH----cCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhh--------HH
Confidence 789999888 88888887 211 234568899999999999999987743222232233332210 00
Q ss_pred HHHHhCCCCCcc-ccCCCCHHH---HHHHHHH-HhcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeC
Q 040110 163 IMKSLMPTSSWL-KIMGKDYKS---EKTILRD-YLTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVG 231 (348)
Q Consensus 163 i~~~l~~~~~~~-~~~~~~~~~---~~~~l~~-~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR 231 (348)
+........... .......+. +...+.. -+.+++-++|+|+++.. ..++.+...+......+.+|++|.
T Consensus 79 i~~~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~ 154 (504)
T PRK14963 79 VRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATT 154 (504)
T ss_pred HhcCCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcC
Confidence 000000000000 000112222 2222221 12346678999999754 567778777755444555555543
No 51
>PRK10536 hypothetical protein; Provisional
Probab=97.76 E-value=0.00013 Score=65.37 Aligned_cols=53 Identities=11% Similarity=0.095 Sum_probs=39.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeE
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHA 146 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~ 146 (348)
.+.++.... ..++.+|. + ..++.+.|+.|+|||+||.++..+.-....|+.++
T Consensus 56 ~i~p~n~~Q---~~~l~al~------~--~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi 108 (262)
T PRK10536 56 PILARNEAQ---AHYLKAIE------S--KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRII 108 (262)
T ss_pred cccCCCHHH---HHHHHHHh------c--CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence 567788888 88898887 2 23888999999999999999877532234455333
No 52
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.74 E-value=0.00024 Score=69.87 Aligned_cols=45 Identities=16% Similarity=0.169 Sum_probs=35.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.|...+. .+ .-...+.++|++|+||||+|+.+++.
T Consensus 15 divGq~~i~---~~L~~~i~----~~-~l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 15 EVVGQDHVK---KLIINALK----KN-SISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred HccCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 789998888 88877776 11 22345678999999999999999876
No 53
>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=97.71 E-value=5.5e-05 Score=66.24 Aligned_cols=54 Identities=19% Similarity=0.219 Sum_probs=33.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
+|||.+..+ ..+.-++... ....+...-+.+||++|+||||||..+++. ....|
T Consensus 25 efiGQ~~l~---~~l~i~i~aa-~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~ 78 (233)
T PF05496_consen 25 EFIGQEHLK---GNLKILIRAA-KKRGEALDHMLFYGPPGLGKTTLARIIANE--LGVNF 78 (233)
T ss_dssp CS-S-HHHH---HHHHHHHHHH-HCTTS---EEEEESSTTSSHHHHHHHHHHH--CT--E
T ss_pred HccCcHHHH---hhhHHHHHHH-HhcCCCcceEEEECCCccchhHHHHHHHhc--cCCCe
Confidence 899999888 5544433210 012345667788999999999999999998 55554
No 54
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.71 E-value=0.0003 Score=69.93 Aligned_cols=45 Identities=20% Similarity=0.275 Sum_probs=36.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++||-+..+ +.|.+++. .+ .-...+.++|+.|+||||+|+.+++.
T Consensus 17 divGq~~v~---~~L~~~~~----~~-~l~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (509)
T PRK14958 17 EVIGQAPVV---RALSNALD----QQ-YLHHAYLFTGTRGVGKTTISRILAKC 61 (509)
T ss_pred HhcCCHHHH---HHHHHHHH----hC-CCCeeEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 99999987 22 12335678999999999999998875
No 55
>PRK08118 topology modulation protein; Reviewed
Probab=97.70 E-value=2.1e-05 Score=66.62 Aligned_cols=34 Identities=18% Similarity=0.335 Sum_probs=27.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcCcccc-CCcceeEE
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVK-FYFDCHAW 147 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~-~~F~~~~w 147 (348)
.|.|+|++|+||||||+.+++..... -+||..+|
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~ 37 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW 37 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence 57899999999999999999885443 45777776
No 56
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=97.68 E-value=0.0004 Score=68.79 Aligned_cols=143 Identities=13% Similarity=0.064 Sum_probs=73.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcce-eEEEEeCCCCCHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDC-HAWVRVSNFYNFKRILD 161 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~ 161 (348)
+++|.+..+ ..|...+. .+ .-...+.++|+.|+||||+|+.+++.......... .-+..+... ....
T Consensus 22 dliGq~~vv---~~L~~ai~----~~-ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C----~~C~ 89 (507)
T PRK06645 22 ELQGQEVLV---KVLSYTIL----ND-RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC----TNCI 89 (507)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC----hHHH
Confidence 789999998 88887776 11 22345678999999999999999876322111100 000000000 0011
Q ss_pred HHHHHhCCCCCcc-ccCCCCHHHHHHHHHHH----hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEE-EeCCh
Q 040110 162 DIMKSLMPTSSWL-KIMGKDYKSEKTILRDY----LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALI-TVGPH 233 (348)
Q Consensus 162 ~i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~----L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlv-TTR~~ 233 (348)
.+........... ..+....+++...+... +.+++-++|+|+++.. ..++.+...+......+++|+ ||+..
T Consensus 90 ~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~ 169 (507)
T PRK06645 90 SFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQ 169 (507)
T ss_pred HHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChH
Confidence 1110000000000 00111223332222221 2356778999999863 568888877765555566554 65555
Q ss_pred hhhh
Q 040110 234 NILT 237 (348)
Q Consensus 234 ~v~~ 237 (348)
.+..
T Consensus 170 kI~~ 173 (507)
T PRK06645 170 KIPA 173 (507)
T ss_pred HhhH
Confidence 5544
No 57
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.66 E-value=0.00046 Score=69.01 Aligned_cols=45 Identities=24% Similarity=0.347 Sum_probs=36.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+..+ +.|.+++. .+ .-...+.++|+.|+||||+|+.+.+.
T Consensus 17 divGq~~v~---~~L~~~i~----~~-~~~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (527)
T PRK14969 17 ELVGQEHVV---RALTNALE----QQ-RLHHAYLFTGTRGVGKTTLARILAKS 61 (527)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 88888887 11 22335578999999999999998766
No 58
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.66 E-value=0.00033 Score=70.85 Aligned_cols=45 Identities=18% Similarity=0.296 Sum_probs=35.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++||-+..+ +.|.+++. .+ .-...+.++|..|+||||+|+.+.+.
T Consensus 17 dviGQe~vv---~~L~~~l~----~~-rl~ha~Lf~Gp~GvGKTtlAr~lAk~ 61 (618)
T PRK14951 17 EMVGQEHVV---QALTNALT----QQ-RLHHAYLFTGTRGVGKTTVSRILAKS 61 (618)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 789988888 88888887 21 23345678999999999999998655
No 59
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=97.65 E-value=0.00036 Score=70.80 Aligned_cols=45 Identities=24% Similarity=0.393 Sum_probs=36.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+..+ +.|.+++. .+ .-...+.++|+.|+||||+|+.+.+.
T Consensus 17 dIIGQe~vv---~~L~~ai~----~~-rl~Ha~Lf~GP~GvGKTTlAriLAk~ 61 (709)
T PRK08691 17 DLVGQEHVV---KALQNALD----EG-RLHHAYLLTGTRGVGKTTIARILAKS 61 (709)
T ss_pred HHcCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 799999999 99999887 21 22345778999999999999998775
No 60
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.62 E-value=0.00047 Score=67.88 Aligned_cols=127 Identities=14% Similarity=0.144 Sum_probs=71.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCcccc-------------------CCcc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVK-------------------FYFD 143 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~-------------------~~F~ 143 (348)
++||.+... +.|.+.+. .+. -...+.++|+.|+||||+|+.+++..... ..+.
T Consensus 14 dliGQe~vv---~~L~~a~~----~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~ 85 (491)
T PRK14964 14 DLVGQDVLV---RILRNAFT----LNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHP 85 (491)
T ss_pred HhcCcHHHH---HHHHHHHH----cCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCC
Confidence 789999888 88888776 222 23367789999999999999887531100 0111
Q ss_pred eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhCCCCC
Q 040110 144 CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREALPDNQ 221 (348)
Q Consensus 144 ~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~ 221 (348)
.++.+..+....+.+ .++++...... -..++.-++|+|++... ...+.+...+-...
T Consensus 86 Dv~eidaas~~~vdd-IR~Iie~~~~~--------------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp 144 (491)
T PRK14964 86 DVIEIDAASNTSVDD-IKVILENSCYL--------------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPA 144 (491)
T ss_pred CEEEEecccCCCHHH-HHHHHHHHHhc--------------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCC
Confidence 223333332222222 11222221110 01346678999999653 55777777776555
Q ss_pred CCcEEEE-EeCChhhhhh
Q 040110 222 IGSRALI-TVGPHNILTS 238 (348)
Q Consensus 222 ~gskIlv-TTR~~~v~~~ 238 (348)
+.+++|+ ||....+...
T Consensus 145 ~~v~fIlatte~~Kl~~t 162 (491)
T PRK14964 145 PHVKFILATTEVKKIPVT 162 (491)
T ss_pred CCeEEEEEeCChHHHHHH
Confidence 5666655 5444555443
No 61
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.61 E-value=0.00042 Score=66.98 Aligned_cols=145 Identities=13% Similarity=0.124 Sum_probs=73.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE-eCCCCCHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR-VSNFYNFKRILD 161 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~ 161 (348)
.++|.+... +.|.+++. .+. -...+.++|+.|+||||+|..+++.......++..-|.. ...++..=...+
T Consensus 17 eiiGq~~~~---~~L~~~~~----~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~ 88 (397)
T PRK14955 17 DITAQEHIT---RTIQNSLR----MGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCR 88 (397)
T ss_pred hccChHHHH---HHHHHHHH----hCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHH
Confidence 789999888 88888887 221 233466899999999999999877632211111111110 001111111112
Q ss_pred HHHHHhCCCCCcc-ccCCCCHHHHHHHHHHHh-----cCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEE-eCC
Q 040110 162 DIMKSLMPTSSWL-KIMGKDYKSEKTILRDYL-----TNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALIT-VGP 232 (348)
Q Consensus 162 ~i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~L-----~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvT-TR~ 232 (348)
.+......+.... .......+++.+ +.+.+ .+++-++|+|++... ..++.+...+....+.+.+|++ ++.
T Consensus 89 ~~~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~ 167 (397)
T PRK14955 89 DFDAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTEL 167 (397)
T ss_pred HHhcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence 2221111110000 001112333332 22222 345668899998753 5677787777655556665554 444
Q ss_pred hhhh
Q 040110 233 HNIL 236 (348)
Q Consensus 233 ~~v~ 236 (348)
..+.
T Consensus 168 ~kl~ 171 (397)
T PRK14955 168 HKIP 171 (397)
T ss_pred HHhH
Confidence 4444
No 62
>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=97.61 E-value=0.00014 Score=66.22 Aligned_cols=25 Identities=16% Similarity=0.007 Sum_probs=21.1
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...-+.++|++|+||||+|+.+++.
T Consensus 41 ~~~~vll~GppGtGKTtlA~~ia~~ 65 (261)
T TIGR02881 41 QVLHMIFKGNPGTGKTTVARILGKL 65 (261)
T ss_pred CcceEEEEcCCCCCHHHHHHHHHHH
Confidence 4455778999999999999999765
No 63
>PRK08181 transposase; Validated
Probab=97.60 E-value=0.00019 Score=65.40 Aligned_cols=71 Identities=17% Similarity=0.074 Sum_probs=42.3
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhc
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT 193 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~ 193 (348)
-+.++|++|+|||.||..+.+. .....-.++|++ ..+++..+..... ..+....... +
T Consensus 108 nlll~Gp~GtGKTHLa~Aia~~--a~~~g~~v~f~~------~~~L~~~l~~a~~---------~~~~~~~l~~----l- 165 (269)
T PRK08181 108 NLLLFGPPGGGKSHLAAAIGLA--LIENGWRVLFTR------TTDLVQKLQVARR---------ELQLESAIAK----L- 165 (269)
T ss_pred eEEEEecCCCcHHHHHHHHHHH--HHHcCCceeeee------HHHHHHHHHHHHh---------CCcHHHHHHH----H-
Confidence 4789999999999999999876 322222345553 3455555543321 1122222222 2
Q ss_pred CCeEEEEEeCCCC
Q 040110 194 NKKYFTVLDDVWI 206 (348)
Q Consensus 194 ~kr~LlVLDdv~~ 206 (348)
.+--||||||+..
T Consensus 166 ~~~dLLIIDDlg~ 178 (269)
T PRK08181 166 DKFDLLILDDLAY 178 (269)
T ss_pred hcCCEEEEecccc
Confidence 2345999999953
No 64
>PRK12377 putative replication protein; Provisional
Probab=97.59 E-value=0.00029 Score=63.37 Aligned_cols=72 Identities=19% Similarity=0.118 Sum_probs=44.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
..+.++|.+|+|||+||.++++. .....-.++++++ .+++..+-...... ..... +.+.+
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~------~~l~~~l~~~~~~~--------~~~~~----~l~~l 161 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTV------PDVMSRLHESYDNG--------QSGEK----FLQEL 161 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEH------HHHHHHHHHHHhcc--------chHHH----HHHHh
Confidence 46789999999999999999998 4333334566643 35555554443221 11122 22223
Q ss_pred cCCeEEEEEeCCC
Q 040110 193 TNKKYFTVLDDVW 205 (348)
Q Consensus 193 ~~kr~LlVLDdv~ 205 (348)
.+--||||||+-
T Consensus 162 -~~~dLLiIDDlg 173 (248)
T PRK12377 162 -CKVDLLVLDEIG 173 (248)
T ss_pred -cCCCEEEEcCCC
Confidence 356799999994
No 65
>PRK08727 hypothetical protein; Validated
Probab=97.59 E-value=0.00013 Score=65.19 Aligned_cols=35 Identities=14% Similarity=0.104 Sum_probs=26.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR 149 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~ 149 (348)
..+.|+|..|+|||.|++++++. ..+....+++++
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLP 76 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEe
Confidence 45889999999999999999877 333323455665
No 66
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=97.58 E-value=0.00032 Score=71.13 Aligned_cols=139 Identities=14% Similarity=0.116 Sum_probs=72.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.+||.+..+ +.|.+.+. .+. -...+.++|..|+||||+|+.+++.......+. +.++..-...+.
T Consensus 17 divGQe~vv---~~L~~~l~----~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~ 81 (647)
T PRK07994 17 EVVGQEHVL---TALANALD----LGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCRE 81 (647)
T ss_pred HhcCcHHHH---HHHHHHHH----cCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHH
Confidence 799999999 88888887 221 233467899999999999999987632211110 011111112222
Q ss_pred HHHHhCCCCCcc-ccCCCCHH---HHHHHHHHH-hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEE-EEEeCChh
Q 040110 163 IMKSLMPTSSWL-KIMGKDYK---SEKTILRDY-LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRA-LITVGPHN 234 (348)
Q Consensus 163 i~~~l~~~~~~~-~~~~~~~~---~~~~~l~~~-L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskI-lvTTR~~~ 234 (348)
|...-....... .......+ ++...+... ..+++-++|+|++... ...+.++..+-......++ ++||....
T Consensus 82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~k 161 (647)
T PRK07994 82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK 161 (647)
T ss_pred HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccc
Confidence 211100000000 00011222 222222221 2456778999999753 5677777766544444544 44555555
Q ss_pred hh
Q 040110 235 IL 236 (348)
Q Consensus 235 v~ 236 (348)
+.
T Consensus 162 Ll 163 (647)
T PRK07994 162 LP 163 (647)
T ss_pred cc
Confidence 54
No 67
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=97.58 E-value=0.00056 Score=66.03 Aligned_cols=109 Identities=16% Similarity=0.182 Sum_probs=69.7
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCc
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSW 173 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~ 173 (348)
.++.+.+. .... ++.|.|+.++||||+++.+... ..+. .+++...... +..++
T Consensus 27 ~~l~~~~~------~~~~-i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l-------------- 80 (398)
T COG1373 27 PRLIKKLD------LRPF-IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIEL-------------- 80 (398)
T ss_pred HHHHhhcc------cCCc-EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhH--------------
Confidence 56666555 2222 8999999999999999777666 3222 4444322211 11111
Q ss_pred cccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 174 LKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 174 ~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
.+....+...-..++.+++||.|.....|......+.+.++. +|++|+-+......
T Consensus 81 --------~d~~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~ 136 (398)
T COG1373 81 --------LDLLRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSK 136 (398)
T ss_pred --------HHHHHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhcc
Confidence 111111111111278899999999999999999998887766 89998888776554
No 68
>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=97.55 E-value=0.0014 Score=56.45 Aligned_cols=40 Identities=8% Similarity=0.076 Sum_probs=26.8
Q ss_pred CCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeCCh
Q 040110 194 NKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVGPH 233 (348)
Q Consensus 194 ~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR~~ 233 (348)
+.+-++|+|++... ...+.+...+......+.+|++|++.
T Consensus 95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~ 136 (188)
T TIGR00678 95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSP 136 (188)
T ss_pred CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence 45678999998754 45677777775544456666666543
No 69
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.54 E-value=0.00021 Score=75.33 Aligned_cols=44 Identities=23% Similarity=0.300 Sum_probs=36.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ +++++.|. .. ...-+.++|++|+|||++|..++..
T Consensus 180 ~~igr~~ei---~~~~~~L~----r~--~~~n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 180 PVIGREKEI---ERVIQILG----RR--TKNNPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred CCCCcHHHH---HHHHHHHc----cc--ccCCeEEECCCCCCHHHHHHHHHHH
Confidence 579999999 99999998 22 2223458999999999999998876
No 70
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=97.54 E-value=0.00057 Score=65.70 Aligned_cols=50 Identities=12% Similarity=0.154 Sum_probs=35.5
Q ss_pred cccccccccccHHHHHhhcCCCCC----CCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSG----LGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~----~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +.|.+.+..... ....-...+.++|+.|+|||++|..+++.
T Consensus 6 ~IiGq~~~~---~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~ 59 (394)
T PRK07940 6 DLVGQEAVV---AELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAA 59 (394)
T ss_pred hccChHHHH---HHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 678888888 888888872100 00012445778999999999999998764
No 71
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.52 E-value=0.00018 Score=64.34 Aligned_cols=36 Identities=6% Similarity=0.090 Sum_probs=26.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
..+.|+|+.|+|||+|++.+++. ....-..+.++++
T Consensus 46 ~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~ 81 (235)
T PRK08084 46 GYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPL 81 (235)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEH
Confidence 46789999999999999999886 2222224456554
No 72
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=97.51 E-value=0.00024 Score=68.38 Aligned_cols=50 Identities=20% Similarity=0.296 Sum_probs=37.3
Q ss_pred cccccccccccHHHHHhhcCCCC-------CCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS-------GLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~-------~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.|++..+ +++.+.+..+- .-+-..++-+.++|++|+|||++|+++++.
T Consensus 132 di~Gl~~~~---~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 132 DIGGLEEQI---REVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred HhCCcHHHH---HHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence 788999999 88887663110 011234556789999999999999999987
No 73
>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=97.51 E-value=0.0011 Score=62.88 Aligned_cols=45 Identities=18% Similarity=0.257 Sum_probs=36.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +.+.+++. .+ .-...+.++|++|+||||+|+.+...
T Consensus 15 ~iig~~~~~---~~l~~~~~----~~-~~~~~~Ll~G~~G~GKt~~a~~la~~ 59 (355)
T TIGR02397 15 DVIGQEHIV---QTLKNAIK----NG-RIAHAYLFSGPRGTGKTSIARIFAKA 59 (355)
T ss_pred hccCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 99998887 22 22346778999999999999888755
No 74
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.50 E-value=0.00027 Score=68.95 Aligned_cols=141 Identities=13% Similarity=0.107 Sum_probs=73.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
+++|.+... ..|..++. .+. -...+.++|+.|+||||+|+.+++.......... ..+....+ ...
T Consensus 19 dvVGQe~iv---~~L~~~i~----~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~s----C~~ 83 (484)
T PRK14956 19 DVIHQDLAI---GALQNALK----SGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTS----CLE 83 (484)
T ss_pred HHhChHHHH---HHHHHHHH----cCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcH----HHH
Confidence 789999888 88888887 222 2235678999999999999999877322111000 00111111 111
Q ss_pred HHHHhCCCCCcc----ccCCCCHHHHHHHHHHH-hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEE-EEeCChh
Q 040110 163 IMKSLMPTSSWL----KIMGKDYKSEKTILRDY-LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRAL-ITVGPHN 234 (348)
Q Consensus 163 i~~~l~~~~~~~----~~~~~~~~~~~~~l~~~-L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIl-vTTR~~~ 234 (348)
+........... .....++.++.+.+... ..++.-++|+|++... ..++.+...+-.......+| .||....
T Consensus 84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~k 163 (484)
T PRK14956 84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHK 163 (484)
T ss_pred HHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhh
Confidence 211111100000 00111222233333221 2356678999999754 66788877765433344444 4665555
Q ss_pred hhhh
Q 040110 235 ILTS 238 (348)
Q Consensus 235 v~~~ 238 (348)
+...
T Consensus 164 I~~T 167 (484)
T PRK14956 164 IPET 167 (484)
T ss_pred ccHH
Confidence 5443
No 75
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=97.49 E-value=0.00064 Score=68.16 Aligned_cols=45 Identities=16% Similarity=0.148 Sum_probs=36.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|++... +.+.+.+. .+ .-...+.++|+.|+||||+|+.+++.
T Consensus 17 dIIGQe~iv---~~L~~aI~----~~-rl~hA~Lf~GP~GvGKTTlA~~lAk~ 61 (605)
T PRK05896 17 QIIGQELIK---KILVNAIL----NN-KLTHAYIFSGPRGIGKTSIAKIFAKA 61 (605)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCceEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 99998886 21 22345778999999999999998776
No 76
>PRK07261 topology modulation protein; Provisional
Probab=97.49 E-value=0.00029 Score=59.81 Aligned_cols=66 Identities=14% Similarity=0.215 Sum_probs=41.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcCcccc-CCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVK-FYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~-~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
.|.|+|++|+||||||+.+.....+. -+.|...|-. .....+.++....+...+
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~-------------------------~~~~~~~~~~~~~~~~~~ 56 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQP-------------------------NWQERDDDDMIADISNFL 56 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEecc-------------------------ccccCCHHHHHHHHHHHH
Confidence 47899999999999999998663221 1334444421 111223455666667777
Q ss_pred cCCeEEEEEeCCCC
Q 040110 193 TNKKYFTVLDDVWI 206 (348)
Q Consensus 193 ~~kr~LlVLDdv~~ 206 (348)
.+.+ .|+|+.-.
T Consensus 57 ~~~~--wIidg~~~ 68 (171)
T PRK07261 57 LKHD--WIIDGNYS 68 (171)
T ss_pred hCCC--EEEcCcch
Confidence 6666 67787743
No 77
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.48 E-value=0.00029 Score=74.34 Aligned_cols=44 Identities=23% Similarity=0.308 Sum_probs=36.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ +++++.|. . ....-+.++|++|+|||++|..+...
T Consensus 179 ~vigr~~ei---~~~i~iL~----r--~~~~n~lL~G~pGvGKT~l~~~la~~ 222 (857)
T PRK10865 179 PVIGRDEEI---RRTIQVLQ----R--RTKNNPVLIGEPGVGKTAIVEGLAQR 222 (857)
T ss_pred cCCCCHHHH---HHHHHHHh----c--CCcCceEEECCCCCCHHHHHHHHHHH
Confidence 689999999 99999998 2 22333558999999999999999877
No 78
>PRK12608 transcription termination factor Rho; Provisional
Probab=97.47 E-value=0.00099 Score=63.01 Aligned_cols=104 Identities=10% Similarity=-0.025 Sum_probs=64.7
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc-ce-eEEEEeCCC-CCHHHHHHHHHHHhCCCC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF-DC-HAWVRVSNF-YNFKRILDDIMKSLMPTS 171 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F-~~-~~wv~~~~~-~~~~~~~~~i~~~l~~~~ 171 (348)
.++++.+.+- ..+- ...|+|..|+|||||++.+++. +.... +. ++|+.+++. ..+.++++.+...+....
T Consensus 121 ~RvID~l~Pi----GkGQ-R~LIvG~pGtGKTTLl~~la~~--i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast 193 (380)
T PRK12608 121 MRVVDLVAPI----GKGQ-RGLIVAPPRAGKTVLLQQIAAA--VAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAST 193 (380)
T ss_pred Hhhhhheeec----CCCc-eEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeec
Confidence 6788888732 2333 3579999999999999998886 33322 33 466666554 578889999988777643
Q ss_pred Ccc-ccCCCCHHHHHHHHHHHh--cCCeEEEEEeCCC
Q 040110 172 SWL-KIMGKDYKSEKTILRDYL--TNKKYFTVLDDVW 205 (348)
Q Consensus 172 ~~~-~~~~~~~~~~~~~l~~~L--~~kr~LlVLDdv~ 205 (348)
++. .............+.+++ .+++++||+|++-
T Consensus 194 ~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt 230 (380)
T PRK12608 194 FDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT 230 (380)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence 210 000011111122222333 5789999999984
No 79
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.47 E-value=0.00031 Score=73.19 Aligned_cols=44 Identities=20% Similarity=0.232 Sum_probs=36.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ +++++.|.. . ...-+.++|++|+|||++|+.+++.
T Consensus 183 ~~igr~~ei---~~~~~~L~~----~--~~~n~lL~G~pG~GKT~l~~~la~~ 226 (731)
T TIGR02639 183 PLIGREDEL---ERTIQVLCR----R--KKNNPLLVGEPGVGKTAIAEGLALR 226 (731)
T ss_pred cccCcHHHH---HHHHHHHhc----C--CCCceEEECCCCCCHHHHHHHHHHH
Confidence 689999999 999998872 2 2223558999999999999999876
No 80
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.46 E-value=0.00093 Score=63.86 Aligned_cols=45 Identities=16% Similarity=0.178 Sum_probs=37.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.+.+.+. .+ .-...+.++|+.|+||||+|..+.+.
T Consensus 18 ~iig~~~~~---~~l~~~i~----~~-~~~~~~L~~G~~G~GKt~~a~~la~~ 62 (367)
T PRK14970 18 DVVGQSHIT---NTLLNAIE----NN-HLAQALLFCGPRGVGKTTCARILARK 62 (367)
T ss_pred hcCCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 99999887 21 23457778999999999999999776
No 81
>PRK05642 DNA replication initiation factor; Validated
Probab=97.44 E-value=0.00034 Score=62.54 Aligned_cols=37 Identities=5% Similarity=0.077 Sum_probs=26.3
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
...+.|+|..|+|||.|++++++.. ...-..++|++.
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~~~--~~~~~~v~y~~~ 81 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACLRF--EQRGEPAVYLPL 81 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCcEEEeeH
Confidence 3567899999999999999998762 221124566653
No 82
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=97.43 E-value=0.00075 Score=59.96 Aligned_cols=122 Identities=16% Similarity=0.172 Sum_probs=69.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+.+. +.|++-...-- . ..+..-+.+||..|+|||++++++.+...-+. .--|.+.+.
T Consensus 28 ~L~Gie~Qk---~~l~~Nt~~Fl-~-G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k~--------- 89 (249)
T PF05673_consen 28 DLIGIERQK---EALIENTEQFL-Q-GLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSKE--------- 89 (249)
T ss_pred HhcCHHHHH---HHHHHHHHHHH-c-CCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECHH---------
Confidence 899998888 77665332100 1 22333466799999999999999987722222 111222211
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCC---ChhhHHHHHhhCCCC---CCCc-EEEEEeCChhh
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVW---IEKIWDDLREALPDN---QIGS-RALITVGPHNI 235 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~---~~~~~~~l~~~l~~~---~~gs-kIlvTTR~~~v 235 (348)
.-.+...+.+.|+. +..||+|.+||+. ++.....++..+-.+ .+.. .|.+||..+++
T Consensus 90 --------------~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHL 153 (249)
T PF05673_consen 90 --------------DLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHL 153 (249)
T ss_pred --------------HhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhc
Confidence 12234444444442 3579999999985 235566666665432 1223 34446665665
Q ss_pred hhh
Q 040110 236 LTS 238 (348)
Q Consensus 236 ~~~ 238 (348)
...
T Consensus 154 v~E 156 (249)
T PF05673_consen 154 VPE 156 (249)
T ss_pred cch
Confidence 554
No 83
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.41 E-value=0.0012 Score=66.52 Aligned_cols=45 Identities=20% Similarity=0.236 Sum_probs=36.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+... +.|.+++. .+ .-...+.++|+.|+||||+|+.+++.
T Consensus 14 eivGq~~i~---~~L~~~i~----~~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 14 EVVGQEHVT---EPLSSALD----AG-RINHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 88999887 22 22335678999999999999999876
No 84
>PRK06526 transposase; Provisional
Probab=97.39 E-value=0.00038 Score=62.99 Aligned_cols=23 Identities=26% Similarity=0.213 Sum_probs=20.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.-+.++|++|+|||+||..+.+.
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHH
Confidence 35789999999999999999876
No 85
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.38 E-value=0.0015 Score=66.37 Aligned_cols=134 Identities=10% Similarity=0.092 Sum_probs=71.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+..+ +.|..++. .+ .-...+.++|+.|+||||+|+.+++.......+. -...++.-...+.
T Consensus 17 eiiGq~~~~---~~L~~~i~----~~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~ 82 (585)
T PRK14950 17 ELVGQEHVV---QTLRNAIA----EG-RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRA 82 (585)
T ss_pred HhcCCHHHH---HHHHHHHH----hC-CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHH
Confidence 789999999 88888887 21 1234567899999999999999987622111100 0111222233333
Q ss_pred HHHHhCCCCCcc-ccCCCCHHHHHHHHHHHh-----cCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeC
Q 040110 163 IMKSLMPTSSWL-KIMGKDYKSEKTILRDYL-----TNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVG 231 (348)
Q Consensus 163 i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~L-----~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR 231 (348)
|........-.. .......+++.. +.+.+ .+++-++|+|++... ...+.|...+......+.+|++|.
T Consensus 83 i~~~~~~d~~~i~~~~~~~vd~ir~-ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~ 158 (585)
T PRK14950 83 IAEGSAVDVIEMDAASHTSVDDARE-IIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATT 158 (585)
T ss_pred HhcCCCCeEEEEeccccCCHHHHHH-HHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence 333222110000 001122333222 22221 245678999998643 557777776655444566655553
No 86
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=97.37 E-value=0.0012 Score=69.17 Aligned_cols=46 Identities=20% Similarity=0.226 Sum_probs=36.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.+||.+..+ +.|...+. .+. -...+.++|+.|+||||+|+.+.+..
T Consensus 16 eiiGqe~v~---~~L~~~i~----~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 16 EVIGQEHVT---EPLSTALD----SGR-INHAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred HhcCcHHHH---HHHHHHHH----hCC-CCceEEEECCCCCCHHHHHHHHHHHh
Confidence 789999999 88988887 222 22356789999999999999997763
No 87
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=97.37 E-value=0.0013 Score=66.63 Aligned_cols=45 Identities=22% Similarity=0.353 Sum_probs=36.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+..+ +.|.+.+. .+. -...+.++|+.|+||||+|+.+++.
T Consensus 25 dliGq~~~v---~~L~~~~~----~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~ 69 (598)
T PRK09111 25 DLIGQEAMV---RTLTNAFE----TGR-IAQAFMLTGVRGVGKTTTARILARA 69 (598)
T ss_pred HhcCcHHHH---HHHHHHHH----cCC-CCceEEEECCCCCCHHHHHHHHHHh
Confidence 799999999 99999887 222 2335678999999999999999876
No 88
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.36 E-value=0.0031 Score=56.63 Aligned_cols=76 Identities=14% Similarity=0.166 Sum_probs=45.4
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
...+.++|.+|+|||+||.++++.. ...-..++++ +..+++..+-...... ..+... +.+.
T Consensus 99 ~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~i------t~~~l~~~l~~~~~~~-------~~~~~~----~l~~ 159 (244)
T PRK07952 99 IASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLII------TVADIMSAMKDTFSNS-------ETSEEQ----LLND 159 (244)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEE------EHHHHHHHHHHHHhhc-------cccHHH----HHHH
Confidence 3467789999999999999999883 2222345555 3455555554443211 112222 3333
Q ss_pred hcCCeEEEEEeCCCCh
Q 040110 192 LTNKKYFTVLDDVWIE 207 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~ 207 (348)
+. +.=||||||+...
T Consensus 160 l~-~~dlLvIDDig~~ 174 (244)
T PRK07952 160 LS-NVDLLVIDEIGVQ 174 (244)
T ss_pred hc-cCCEEEEeCCCCC
Confidence 44 3458888999643
No 89
>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=97.35 E-value=0.0019 Score=53.39 Aligned_cols=40 Identities=15% Similarity=0.135 Sum_probs=28.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYN 155 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~ 155 (348)
++.|+|.+|+||||++..+.... ...-..++|++......
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~e~~~~ 40 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVDIEEEIE 40 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEECCcchH
Confidence 36789999999999999998773 22233567777665543
No 90
>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=97.35 E-value=0.0021 Score=56.88 Aligned_cols=94 Identities=12% Similarity=0.125 Sum_probs=58.1
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCc------ceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc-----cccCC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF------DCHAWVRVSNFYNFKRILDDIMKSLMPTSSW-----LKIMG 178 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F------~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~ 178 (348)
..-.++.|+|.+|+|||+||.+++... ...- ..++|+.....++...+. ++....+..... .-...
T Consensus 17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~ 93 (226)
T cd01393 17 PTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP 93 (226)
T ss_pred cCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence 445689999999999999999987652 2222 357888887777765543 333333221100 01122
Q ss_pred CCHHHHHHHHHHHhc----CCeEEEEEeCCCC
Q 040110 179 KDYKSEKTILRDYLT----NKKYFTVLDDVWI 206 (348)
Q Consensus 179 ~~~~~~~~~l~~~L~----~kr~LlVLDdv~~ 206 (348)
.+.+++...+..... .+--|+|+|.+..
T Consensus 94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~ 125 (226)
T cd01393 94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVAA 125 (226)
T ss_pred CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence 455666666666553 3556999999853
No 91
>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=97.34 E-value=0.00045 Score=73.10 Aligned_cols=44 Identities=23% Similarity=0.311 Sum_probs=36.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ ++++..|. .. ...-+.++|++|+|||++|..+...
T Consensus 174 ~~igr~~ei---~~~~~~l~----r~--~~~n~lL~G~pGvGKT~l~~~la~~ 217 (852)
T TIGR03346 174 PVIGRDEEI---RRTIQVLS----RR--TKNNPVLIGEPGVGKTAIVEGLAQR 217 (852)
T ss_pred cCCCcHHHH---HHHHHHHh----cC--CCCceEEEcCCCCCHHHHHHHHHHH
Confidence 589999999 99999997 22 2233457999999999999998876
No 92
>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=97.34 E-value=0.00061 Score=60.27 Aligned_cols=102 Identities=13% Similarity=0.161 Sum_probs=59.9
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcc--eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD--CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
....+.|+|..|+|||.|.+++++. ..+..+ .++++ +..++...+...+... .. ..+
T Consensus 33 ~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~------~~~~f~~~~~~~~~~~---------~~----~~~ 91 (219)
T PF00308_consen 33 RYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYL------SAEEFIREFADALRDG---------EI----EEF 91 (219)
T ss_dssp SSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEE------EHHHHHHHHHHHHHTT---------SH----HHH
T ss_pred CCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceee------cHHHHHHHHHHHHHcc---------cc----hhh
Confidence 3445789999999999999999988 332221 34555 4556666766666432 22 233
Q ss_pred HHHhcCCeEEEEEeCCCCh---hhHHHHHhhCCC--CCCCcEEEEEeCChh
Q 040110 189 RDYLTNKKYFTVLDDVWIE---KIWDDLREALPD--NQIGSRALITVGPHN 234 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~--~~~gskIlvTTR~~~ 234 (348)
++.++ .-=+|++||++.. ..|......+-+ ...|.+||+|++...
T Consensus 92 ~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P 141 (219)
T PF00308_consen 92 KDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPP 141 (219)
T ss_dssp HHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-T
T ss_pred hhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCC
Confidence 44444 3457888999753 223222211111 124668999996543
No 93
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.33 E-value=0.0016 Score=66.14 Aligned_cols=45 Identities=13% Similarity=0.109 Sum_probs=35.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... ..|.+.+. .+ .-...+.++|+.|+||||+|..+++.
T Consensus 17 eivGQe~i~---~~L~~~i~----~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~ 61 (620)
T PRK14954 17 DITAQEHIT---HTIQNSLR----MD-RVGHGYIFSGLRGVGKTTAARVFAKA 61 (620)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCeeEEEECCCCCCHHHHHHHHHHH
Confidence 789999888 88888777 21 22234678999999999999988766
No 94
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=97.33 E-value=0.0019 Score=61.58 Aligned_cols=45 Identities=22% Similarity=0.222 Sum_probs=36.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+... +.|.+.+. .+ .-...+.++|+.|+||+|+|..+.+.
T Consensus 20 ~iiGq~~~~---~~L~~~~~----~~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~ 64 (365)
T PRK07471 20 ALFGHAAAE---AALLDAYR----SG-RLHHAWLIGGPQGIGKATLAYRMARF 64 (365)
T ss_pred hccChHHHH---HHHHHHHH----cC-CCCceEEEECCCCCCHHHHHHHHHHH
Confidence 899999999 88988887 22 22335778999999999999887765
No 95
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=97.32 E-value=0.0009 Score=59.33 Aligned_cols=90 Identities=11% Similarity=0.060 Sum_probs=53.5
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHH----hCCCCCccccCCCCHHH--
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKS----LMPTSSWLKIMGKDYKS-- 183 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~----l~~~~~~~~~~~~~~~~-- 183 (348)
..-.++.|+|.+|+|||+||.+++.. ....-..++|++.. .++...+. +++.. +..+.. -....+..+
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~--~~~~~~~~~~~ 94 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNII--IFEPSSFEEQS 94 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeE--EEeCCCHHHHH
Confidence 45568899999999999999999876 32233567888877 56555443 23222 100000 011123323
Q ss_pred -HHHHHHHHhcCCeEEEEEeCCC
Q 040110 184 -EKTILRDYLTNKKYFTVLDDVW 205 (348)
Q Consensus 184 -~~~~l~~~L~~kr~LlVLDdv~ 205 (348)
....+...+..+.-++|+|.+.
T Consensus 95 ~~i~~~~~~~~~~~~lvVIDsi~ 117 (225)
T PRK09361 95 EAIRKAEKLAKENVGLIVLDSAT 117 (225)
T ss_pred HHHHHHHHHHHhcccEEEEeCcH
Confidence 3344444454677799999984
No 96
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=97.31 E-value=0.0019 Score=60.21 Aligned_cols=122 Identities=11% Similarity=0.078 Sum_probs=72.3
Q ss_pred ccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccC-------------------Ccce
Q 040110 84 LLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKF-------------------YFDC 144 (348)
Q Consensus 84 ~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~-------------------~F~~ 144 (348)
++|-+... .++..+.. ........+.++|++|+||||+|..+.+...-.. ..+.
T Consensus 3 ~~~~~~~~---~~l~~~~~----~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d 75 (325)
T COG0470 3 LVPWQEAV---KRLLVQAL----ESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPD 75 (325)
T ss_pred cccchhHH---HHHHHHHH----hcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCc
Confidence 45555556 67777666 1122333588899999999999999987632111 1123
Q ss_pred eEEEEeCCCCC---HHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhCCC
Q 040110 145 HAWVRVSNFYN---FKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREALPD 219 (348)
Q Consensus 145 ~~wv~~~~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~ 219 (348)
...++.+.... ..+.++++.+....... .++.-++++|+++.. +.-+.+...+..
T Consensus 76 ~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~--------------------~~~~kviiidead~mt~~A~nallk~lEe 135 (325)
T COG0470 76 FLELNPSDLRKIDIIVEQVRELAEFLSESPL--------------------EGGYKVVIIDEADKLTEDAANALLKTLEE 135 (325)
T ss_pred eEEecccccCCCcchHHHHHHHHHHhccCCC--------------------CCCceEEEeCcHHHHhHHHHHHHHHHhcc
Confidence 44444444433 34444444444433210 356788899999754 445666666655
Q ss_pred CCCCcEEEEEeCC
Q 040110 220 NQIGSRALITVGP 232 (348)
Q Consensus 220 ~~~gskIlvTTR~ 232 (348)
....+.+|++|.+
T Consensus 136 p~~~~~~il~~n~ 148 (325)
T COG0470 136 PPKNTRFILITND 148 (325)
T ss_pred CCCCeEEEEEcCC
Confidence 5556777777763
No 97
>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=97.30 E-value=0.00051 Score=72.40 Aligned_cols=44 Identities=20% Similarity=0.234 Sum_probs=36.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ +++++.|. . ....-+.++|.+|+||||+|..+++.
T Consensus 188 ~~iGr~~ei---~~~i~~l~----r--~~~~n~lLvG~pGvGKTal~~~La~~ 231 (852)
T TIGR03345 188 PVLGRDDEI---RQMIDILL----R--RRQNNPILTGEAGVGKTAVVEGLALR 231 (852)
T ss_pred cccCCHHHH---HHHHHHHh----c--CCcCceeEECCCCCCHHHHHHHHHHH
Confidence 689999999 99999887 2 22223458999999999999999876
No 98
>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=97.30 E-value=0.00077 Score=58.65 Aligned_cols=112 Identities=13% Similarity=0.115 Sum_probs=64.8
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHH-HHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFK-RILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
.++.|.|+.|+||||++..+.+. ........++. +..+.... .-...+..+- . -..+.....+.++..
T Consensus 2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t-~e~~~E~~~~~~~~~i~q~-------~-vg~~~~~~~~~i~~a 70 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILT-IEDPIEFVHESKRSLINQR-------E-VGLDTLSFENALKAA 70 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEE-EcCCccccccCccceeeec-------c-cCCCccCHHHHHHHH
Confidence 47889999999999999988776 43333334443 22221100 0000011000 0 011223455667788
Q ss_pred hcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
|+...=++++|.+.+.+.+..+..... .|..++.|+-..++...
T Consensus 71 Lr~~pd~ii~gEird~e~~~~~l~~a~---~G~~v~~t~Ha~~~~~~ 114 (198)
T cd01131 71 LRQDPDVILVGEMRDLETIRLALTAAE---TGHLVMSTLHTNSAAKT 114 (198)
T ss_pred hcCCcCEEEEcCCCCHHHHHHHHHHHH---cCCEEEEEecCCcHHHH
Confidence 877788999999988766655444432 35568888877766544
No 99
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=97.29 E-value=0.0064 Score=59.22 Aligned_cols=91 Identities=11% Similarity=-0.045 Sum_probs=49.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
..+.++.++|.+|+||||++..++..... ..+. +.-++... .....+.++.++.+++.+... .....+........
T Consensus 93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~~-~g~k-V~lV~~D~~R~aa~eQL~~la~~~gvp~~~-~~~~~d~~~i~~~a 169 (437)
T PRK00771 93 LKPQTIMLVGLQGSGKTTTAAKLARYFKK-KGLK-VGLVAADTYRPAAYDQLKQLAEKIGVPFYG-DPDNKDAVEIAKEG 169 (437)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHHHHH-cCCe-EEEecCCCCCHHHHHHHHHHHHHcCCcEEe-cCCccCHHHHHHHH
Confidence 35789999999999999999999876322 2232 23333321 112345566666666654221 11122333333333
Q ss_pred HHHhcCCeEEEEEeCC
Q 040110 189 RDYLTNKKYFTVLDDV 204 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv 204 (348)
.+.+.+. -++|+|-.
T Consensus 170 l~~~~~~-DvVIIDTA 184 (437)
T PRK00771 170 LEKFKKA-DVIIVDTA 184 (437)
T ss_pred HHHhhcC-CEEEEECC
Confidence 3333333 45777766
No 100
>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=97.29 E-value=0.0016 Score=60.07 Aligned_cols=22 Identities=18% Similarity=0.172 Sum_probs=18.6
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-+.++|++|+|||++|+.+++.
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~ 81 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQI 81 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 4678999999999999777654
No 101
>COG3903 Predicted ATPase [General function prediction only]
Probab=97.29 E-value=0.00011 Score=69.27 Aligned_cols=195 Identities=14% Similarity=0.030 Sum_probs=122.2
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcce-eEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDC-HAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
+..+.+.++|.|||||||++-++.. +...|.. +.++...+-.+...+.-.+...++.... +-+.....+
T Consensus 12 ~~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~-------~g~~~~~~~ 81 (414)
T COG3903 12 TALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQ-------PGDSAVDTL 81 (414)
T ss_pred hhhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccc-------cchHHHHHH
Confidence 3567899999999999999998887 4566764 4455555555666666667776777521 223445566
Q ss_pred HHHhcCCeEEEEEeCCCCh-hhHHHHHhhCCCCCCCcEEEEEeCChhhhhh---cccC----------------------
Q 040110 189 RDYLTNKKYFTVLDDVWIE-KIWDDLREALPDNQIGSRALITVGPHNILTS---IELE---------------------- 242 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~~~-~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~---~~l~---------------------- 242 (348)
.....++|.++|+||..+. ++-..+...+..+++.-.|+.|+|+...... +.++
T Consensus 82 ~~~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~ 161 (414)
T COG3903 82 VRRIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALS 161 (414)
T ss_pred HHHHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccc
Confidence 7777889999999998654 3334444555555556678888888765554 2222
Q ss_pred -----------CCCc----CCCC----cccccCccccCC-----HHHHHHHHHHhCCCCCCCCCCCcchhccc-cccCCC
Q 040110 243 -----------NGEK----NRHD----SALVGGPLIRIK-----HETWQFFILHYGSTPLENETEGPSVGLKL-VSLSEL 297 (348)
Q Consensus 243 -----------~~~C----~Lp~----~~~ig~~L~~~~-----~~~w~~~~~~~~~~~~~~~~~~~~i~~~l-~s~~~L 297 (348)
...| |.|+ +...+..|..+. .+.|..+.... . ...... .....++ +||.-|
T Consensus 162 f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~-r--~a~~~~-qtl~asl~ws~~lL 237 (414)
T COG3903 162 FWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGA-R--LAVLRQ-QTLRASLDWSYALL 237 (414)
T ss_pred eeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhccc-c--cchhHH-HhccchhhhhhHhh
Confidence 2455 5666 222222222211 33444443331 1 111111 2333777 999999
Q ss_pred ChhHHHHHhHhccCCCCceec
Q 040110 298 PFPLIVCCLYFCVFPTDIELT 318 (348)
Q Consensus 298 p~~lk~cf~y~a~fp~~~~i~ 318 (348)
....+.-|.-++.|...+.-+
T Consensus 238 tgwe~~~~~rLa~~~g~f~~~ 258 (414)
T COG3903 238 TGWERALFGRLAVFVGGFDLG 258 (414)
T ss_pred hhHHHHHhcchhhhhhhhccc
Confidence 988889999999998876554
No 102
>PRK09183 transposase/IS protein; Provisional
Probab=97.28 E-value=0.00072 Score=61.42 Aligned_cols=23 Identities=22% Similarity=0.319 Sum_probs=20.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+.|+|++|+|||+||..+.+.
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~ 125 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYE 125 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHH
Confidence 35779999999999999999765
No 103
>CHL00181 cbbX CbbX; Provisional
Probab=97.27 E-value=0.003 Score=58.29 Aligned_cols=22 Identities=23% Similarity=0.226 Sum_probs=19.5
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.++|++|+||||+|+.+++.
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~ 82 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADI 82 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4678999999999999999765
No 104
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=97.27 E-value=0.00078 Score=64.91 Aligned_cols=50 Identities=16% Similarity=0.244 Sum_probs=36.3
Q ss_pred cccccccccccHHHHHhhcCC----C---CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPP----S---SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~----~---~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|.+... ++|.+.+.. + ...+-..++-+.++|++|+|||+||+++++.
T Consensus 146 digGl~~~k---~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 146 DIGGLDIQK---QEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred HcCCHHHHH---HHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 678888888 777765521 1 0112234566889999999999999999987
No 105
>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=97.26 E-value=0.00078 Score=71.30 Aligned_cols=136 Identities=13% Similarity=0.126 Sum_probs=72.1
Q ss_pred cccccccccccHHHHHhhcCCCC-C--CCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS-G--LGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~-~--~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.++|.+..+ +.+...+.... + ..+....++.++|+.|+|||++|+.+... ....-...+.++++.-.+...
T Consensus 566 ~v~GQ~~av---~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~- 639 (852)
T TIGR03346 566 RVVGQDEAV---EAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHS- 639 (852)
T ss_pred ccCCChHHH---HHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccch-
Confidence 689999988 88888876210 0 11223456789999999999999999876 222212334444443222111
Q ss_pred HHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhCCCC-----------CCCcEE
Q 040110 160 LDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREALPDN-----------QIGSRA 226 (348)
Q Consensus 160 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~-----------~~gskI 226 (348)
...-++.+ +. .........+...++ +....+|+||++... +.++.|...+..+ -..+-|
T Consensus 640 ---~~~l~g~~-~g-~~g~~~~g~l~~~v~---~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~ii 711 (852)
T TIGR03346 640 ---VARLIGAP-PG-YVGYEEGGQLTEAVR---RKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVI 711 (852)
T ss_pred ---HHHhcCCC-CC-ccCcccccHHHHHHH---cCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEE
Confidence 11112211 00 001111122322222 123458999999864 5667666665332 123446
Q ss_pred EEEeCC
Q 040110 227 LITVGP 232 (348)
Q Consensus 227 lvTTR~ 232 (348)
|+||..
T Consensus 712 I~TSn~ 717 (852)
T TIGR03346 712 IMTSNL 717 (852)
T ss_pred EEeCCc
Confidence 777764
No 106
>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=97.25 E-value=0.0012 Score=57.77 Aligned_cols=93 Identities=11% Similarity=0.038 Sum_probs=54.9
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHh-CCCCCc-cccCCCCH---HH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSL-MPTSSW-LKIMGKDY---KS 183 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l-~~~~~~-~~~~~~~~---~~ 183 (348)
-+.-.++.|+|++|+|||+++.++... ....-..++|++... ++...+.+. +... ...... .-.+..+. ..
T Consensus 9 i~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~ 84 (209)
T TIGR02237 9 VERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGV 84 (209)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHH
Confidence 345578999999999999999998766 323335788988765 665554443 2221 000000 00111222 23
Q ss_pred HHHHHHHHhcC-CeEEEEEeCCC
Q 040110 184 EKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 184 ~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
....+...+.. +.-++|+|.+.
T Consensus 85 ~~~~l~~~~~~~~~~lvVIDSis 107 (209)
T TIGR02237 85 AIQKTSKFIDRDSASLVVVDSFT 107 (209)
T ss_pred HHHHHHHHHhhcCccEEEEeCcH
Confidence 35555555544 46689999985
No 107
>PRK05541 adenylylsulfate kinase; Provisional
Probab=97.25 E-value=0.00059 Score=58.06 Aligned_cols=36 Identities=22% Similarity=0.344 Sum_probs=28.4
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEE
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWV 148 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv 148 (348)
...+|.+.|+.|+||||+|+.+++. ....+...+++
T Consensus 6 ~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~ 41 (176)
T PRK05541 6 NGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYL 41 (176)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEE
Confidence 4458999999999999999999988 55555555555
No 108
>PRK08939 primosomal protein DnaI; Reviewed
Probab=97.25 E-value=0.0011 Score=61.65 Aligned_cols=98 Identities=15% Similarity=0.162 Sum_probs=57.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
..-+.++|..|+|||.||.++++... +..+ .+.++++ .+++.++....... +..+... .
T Consensus 156 ~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~-~v~~~~~------~~l~~~lk~~~~~~---------~~~~~l~----~ 214 (306)
T PRK08939 156 VKGLYLYGDFGVGKSYLLAAIANELA-KKGV-SSTLLHF------PEFIRELKNSISDG---------SVKEKID----A 214 (306)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH-HcCC-CEEEEEH------HHHHHHHHHHHhcC---------cHHHHHH----H
Confidence 34577999999999999999998843 2233 3455543 45666665554321 2222222 2
Q ss_pred hcCCeEEEEEeCCCCh--hhHH--HHHhhCCC-C-CCCcEEEEEeC
Q 040110 192 LTNKKYFTVLDDVWIE--KIWD--DLREALPD-N-QIGSRALITVG 231 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~--~~~~--~l~~~l~~-~-~~gskIlvTTR 231 (348)
+ .+-=||||||+-.. ..|. ++...+.+ . ..+-.+|+||.
T Consensus 215 l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN 259 (306)
T PRK08939 215 V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN 259 (306)
T ss_pred h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence 2 35678999999543 4453 34333321 1 23455777775
No 109
>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=97.24 E-value=0.0024 Score=56.82 Aligned_cols=96 Identities=13% Similarity=0.093 Sum_probs=57.1
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCC----cceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----ccCCC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFY----FDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----KIMGK 179 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~----F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----~~~~~ 179 (348)
-..-.++.|+|.+|+|||+||.+++-....... -..++|++....++...+. +++..++...... -....
T Consensus 16 i~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~ 94 (235)
T cd01123 16 IETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAY 94 (235)
T ss_pred CCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecC
Confidence 345578899999999999999998744222221 2578899888777755443 3334433221110 01112
Q ss_pred CH---HHHHHHHHHHhc-C-CeEEEEEeCCC
Q 040110 180 DY---KSEKTILRDYLT-N-KKYFTVLDDVW 205 (348)
Q Consensus 180 ~~---~~~~~~l~~~L~-~-kr~LlVLDdv~ 205 (348)
+. ......+.+.+. . +--|+|+|.+.
T Consensus 95 ~~~~l~~~l~~l~~~l~~~~~~~liVIDSis 125 (235)
T cd01123 95 NSDHQLQLLEELEAILIESSRIKLVIVDSVT 125 (235)
T ss_pred CHHHHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence 22 333444555553 3 67899999985
No 110
>PRK09087 hypothetical protein; Validated
Probab=97.24 E-value=0.0013 Score=58.47 Aligned_cols=24 Identities=25% Similarity=0.237 Sum_probs=21.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.+.|+|+.|+|||+|++.+++.
T Consensus 44 ~~~l~l~G~~GsGKThLl~~~~~~ 67 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLASIWREK 67 (226)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHh
Confidence 356889999999999999988876
No 111
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.23 E-value=0.0022 Score=64.76 Aligned_cols=46 Identities=15% Similarity=0.102 Sum_probs=35.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
+++|.+... +.|.+.+. .+ .-...+.++|+.|+||||+|+.+++..
T Consensus 17 dIiGQe~v~---~~L~~ai~----~~-ri~ha~Lf~GPpG~GKTtiArilAk~L 62 (624)
T PRK14959 17 EVAGQETVK---AILSRAAQ----EN-RVAPAYLFSGTRGVGKTTIARIFAKAL 62 (624)
T ss_pred HhcCCHHHH---HHHHHHHH----cC-CCCceEEEECCCCCCHHHHHHHHHHhc
Confidence 788988888 88888777 21 123466789999999999999998773
No 112
>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=97.23 E-value=0.00056 Score=72.14 Aligned_cols=50 Identities=14% Similarity=0.215 Sum_probs=37.4
Q ss_pred cccccccccccHHHHHhhcCCC---CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS---SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +.+.+.+... -...+....++.++|+.|+|||.||+.++..
T Consensus 567 ~v~GQ~~Av---~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~ 619 (852)
T TIGR03345 567 RVIGQDHAL---EAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL 619 (852)
T ss_pred eEcChHHHH---HHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 678999988 8888877421 0122344567889999999999999988766
No 113
>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=97.23 E-value=0.0014 Score=63.55 Aligned_cols=99 Identities=13% Similarity=0.192 Sum_probs=54.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcc--eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD--CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
...+.|+|..|+|||+|++++++. +....+ .+++++ ..++...+...+... .... +.
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~--l~~~~~~~~v~yi~------~~~~~~~~~~~~~~~---------~~~~----~~ 194 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNE--ILENNPNAKVVYVS------SEKFTNDFVNALRNN---------KMEE----FK 194 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHH--HHHhCCCCcEEEEE------HHHHHHHHHHHHHcC---------CHHH----HH
Confidence 345789999999999999999987 433322 345553 344555555555322 2222 23
Q ss_pred HHhcCCeEEEEEeCCCCh---hhH-HHHHhhCCC-CCCCcEEEEEeCC
Q 040110 190 DYLTNKKYFTVLDDVWIE---KIW-DDLREALPD-NQIGSRALITVGP 232 (348)
Q Consensus 190 ~~L~~kr~LlVLDdv~~~---~~~-~~l~~~l~~-~~~gskIlvTTR~ 232 (348)
+.+++ .-+|+|||+... ..+ +.+...+.. ...+..+|+||..
T Consensus 195 ~~~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~ 241 (405)
T TIGR00362 195 EKYRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR 241 (405)
T ss_pred HHHHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence 33332 348889999743 111 222222211 1234567777764
No 114
>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=97.23 E-value=0.00024 Score=56.34 Aligned_cols=22 Identities=27% Similarity=0.392 Sum_probs=20.6
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|.|.|++|+||||+|+.+.+.
T Consensus 1 vI~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5889999999999999999887
No 115
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=97.22 E-value=0.0013 Score=64.42 Aligned_cols=73 Identities=22% Similarity=0.267 Sum_probs=47.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCc-c-eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYF-D-CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F-~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
.-+.|+|.+|+|||+|++++++. +...+ . .++|++ ..++..++...+... ... .+.+
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~------~~~f~~~~~~~~~~~---------~~~----~f~~ 189 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYIT------SEKFLNDLVDSMKEG---------KLN----EFRE 189 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEE------HHHHHHHHHHHHhcc---------cHH----HHHH
Confidence 34889999999999999999987 44332 2 355664 345666666665432 122 2333
Q ss_pred HhcCCeEEEEEeCCCC
Q 040110 191 YLTNKKYFTVLDDVWI 206 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~ 206 (348)
.+..+.-+|++||+..
T Consensus 190 ~~~~~~dvLlIDDi~~ 205 (440)
T PRK14088 190 KYRKKVDVLLIDDVQF 205 (440)
T ss_pred HHHhcCCEEEEechhh
Confidence 3334456899999974
No 116
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.21 E-value=0.00095 Score=69.57 Aligned_cols=118 Identities=13% Similarity=0.161 Sum_probs=64.2
Q ss_pred cccccccccccHHHHHhhcCCCC-C--CCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS-G--LGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~-~--~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.++|.+..+ +.+.+.+.... + ..+....++.++|+.|+|||+||+.++.. .. ...+.++++.-.+..
T Consensus 455 ~v~GQ~~ai---~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~--l~---~~~~~~d~se~~~~~-- 524 (731)
T TIGR02639 455 KIFGQDEAI---DSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA--LG---VHLERFDMSEYMEKH-- 524 (731)
T ss_pred ceeCcHHHH---HHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH--hc---CCeEEEeCchhhhcc--
Confidence 578888888 77777765210 0 11233456789999999999999999887 32 233445444321111
Q ss_pred HHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC-CeEEEEEeCCCCh--hhHHHHHhhCC
Q 040110 160 LDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN-KKYFTVLDDVWIE--KIWDDLREALP 218 (348)
Q Consensus 160 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~~~--~~~~~l~~~l~ 218 (348)
.+...++.+.. ......... +.+.++. ...+++||+++.. +.++.+...+-
T Consensus 525 --~~~~lig~~~g--yvg~~~~~~----l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld 578 (731)
T TIGR02639 525 --TVSRLIGAPPG--YVGFEQGGL----LTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMD 578 (731)
T ss_pred --cHHHHhcCCCC--CcccchhhH----HHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhc
Confidence 11122222110 011111222 3333333 4569999999854 55566665553
No 117
>PHA00729 NTP-binding motif containing protein
Probab=97.20 E-value=0.0012 Score=58.14 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=21.9
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
....+.|+|.+|+||||||..+.+.
T Consensus 16 ~f~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 16 GFVSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHH
Confidence 4456889999999999999999886
No 118
>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=97.20 E-value=0.00079 Score=58.62 Aligned_cols=123 Identities=15% Similarity=0.060 Sum_probs=60.3
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeC----CCC--CHHH-------HHH
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVS----NFY--NFKR-------ILD 161 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~----~~~--~~~~-------~~~ 161 (348)
...++.|. ...++.+.|++|+|||.||.+..-+.-....|+..+++.-. +.. -+.+ .+.
T Consensus 10 ~~~~~al~--------~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~ 81 (205)
T PF02562_consen 10 KFALDALL--------NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLR 81 (205)
T ss_dssp HHHHHHHH--------H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTH
T ss_pred HHHHHHHH--------hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHH
Confidence 55666666 34478899999999999999988765455778877766321 111 0011 111
Q ss_pred HHHHHhCCCCCccccCCCCHHHHHHH------HHHHhcCC---eEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEe
Q 040110 162 DIMKSLMPTSSWLKIMGKDYKSEKTI------LRDYLTNK---KYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITV 230 (348)
Q Consensus 162 ~i~~~l~~~~~~~~~~~~~~~~~~~~------l~~~L~~k---r~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTT 230 (348)
-+...+..- ......+.+... -..+++++ +.++|+|++.+. .++..+... .+.|||++++=
T Consensus 82 p~~d~l~~~-----~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~G 153 (205)
T PF02562_consen 82 PIYDALEEL-----FGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITG 153 (205)
T ss_dssp HHHHHHTTT-----S-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE
T ss_pred HHHHHHHHH-----hChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEec
Confidence 222222211 011122222211 01245553 689999999875 455555444 46689999875
Q ss_pred CCh
Q 040110 231 GPH 233 (348)
Q Consensus 231 R~~ 233 (348)
-..
T Consensus 154 D~~ 156 (205)
T PF02562_consen 154 DPS 156 (205)
T ss_dssp ---
T ss_pred Cce
Confidence 443
No 119
>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=97.19 E-value=0.00023 Score=60.82 Aligned_cols=73 Identities=21% Similarity=0.260 Sum_probs=42.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
.-+.++|..|+|||.||..+.+.... ..+ .+.|++ ..+++..+-..-. .....+.... +
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~~~~~-~g~-~v~f~~------~~~L~~~l~~~~~---------~~~~~~~~~~----l 106 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIANEAIR-KGY-SVLFIT------ASDLLDELKQSRS---------DGSYEELLKR----L 106 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHH-TT---EEEEE------HHHHHHHHHCCHC---------CTTHCHHHHH----H
T ss_pred eEEEEEhhHhHHHHHHHHHHHHHhcc-CCc-ceeEee------cCceecccccccc---------ccchhhhcCc----c
Confidence 35889999999999999999876322 233 355663 4455555432211 1122233222 3
Q ss_pred cCCeEEEEEeCCCCh
Q 040110 193 TNKKYFTVLDDVWIE 207 (348)
Q Consensus 193 ~~kr~LlVLDdv~~~ 207 (348)
. +-=||||||+-..
T Consensus 107 ~-~~dlLilDDlG~~ 120 (178)
T PF01695_consen 107 K-RVDLLILDDLGYE 120 (178)
T ss_dssp H-TSSCEEEETCTSS
T ss_pred c-cccEeccccccee
Confidence 2 3467889998643
No 120
>PRK06921 hypothetical protein; Provisional
Probab=97.19 E-value=0.0022 Score=58.45 Aligned_cols=37 Identities=16% Similarity=0.076 Sum_probs=27.2
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCC-cceeEEEEe
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFY-FDCHAWVRV 150 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~-F~~~~wv~~ 150 (348)
..-+.++|..|+|||.||.++++. +... -..+++++.
T Consensus 117 ~~~l~l~G~~G~GKThLa~aia~~--l~~~~g~~v~y~~~ 154 (266)
T PRK06921 117 KNSIALLGQPGSGKTHLLTAAANE--LMRKKGVPVLYFPF 154 (266)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHH--HhhhcCceEEEEEH
Confidence 346789999999999999999987 4332 234566653
No 121
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=97.17 E-value=0.0019 Score=63.52 Aligned_cols=73 Identities=15% Similarity=0.166 Sum_probs=45.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcc--eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD--CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
..-+.|+|.+|+|||+|++++++. ....++ .+++++ ..++...+...+... ... .+.
T Consensus 148 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~------~~~~~~~~~~~~~~~---------~~~----~~~ 206 (450)
T PRK00149 148 YNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVT------SEKFTNDFVNALRNN---------TME----EFK 206 (450)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEE------HHHHHHHHHHHHHcC---------cHH----HHH
Confidence 345789999999999999999988 444432 344553 334445555555321 122 233
Q ss_pred HHhcCCeEEEEEeCCCC
Q 040110 190 DYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 190 ~~L~~kr~LlVLDdv~~ 206 (348)
+.++ +.-+|+|||+..
T Consensus 207 ~~~~-~~dlLiiDDi~~ 222 (450)
T PRK00149 207 EKYR-SVDVLLIDDIQF 222 (450)
T ss_pred HHHh-cCCEEEEehhhh
Confidence 3333 344889999964
No 122
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.17 E-value=0.0013 Score=64.56 Aligned_cols=103 Identities=12% Similarity=0.073 Sum_probs=57.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
.-+.|+|..|+|||+|++++.+.......--.++++ +..++...+...+... . .....+.+.+
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv------~~~~f~~~~~~~l~~~----~-------~~~~~~~~~~ 204 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYM------SGDEFARKAVDILQKT----H-------KEIEQFKNEI 204 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEE------EHHHHHHHHHHHHHHh----h-------hHHHHHHHHh
Confidence 347799999999999999998862111111133444 3456777777666432 0 1223344444
Q ss_pred cCCeEEEEEeCCCCh---hhH-HHHHhhCCC-CCCCcEEEEEeCCh
Q 040110 193 TNKKYFTVLDDVWIE---KIW-DDLREALPD-NQIGSRALITVGPH 233 (348)
Q Consensus 193 ~~kr~LlVLDdv~~~---~~~-~~l~~~l~~-~~~gskIlvTTR~~ 233 (348)
+. .-+|||||+... ..+ +.+...+-. ...|..||+|+...
T Consensus 205 ~~-~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~ 249 (450)
T PRK14087 205 CQ-NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKS 249 (450)
T ss_pred cc-CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCC
Confidence 43 447888999643 222 233222211 12345688886644
No 123
>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=97.16 E-value=0.0002 Score=67.26 Aligned_cols=51 Identities=10% Similarity=0.178 Sum_probs=41.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.++|.++.+ +++++++...........+++.++|++|+||||||..+.+..
T Consensus 52 ~~~G~~~~i---~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 52 DFFGMEEAI---ERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred hccCcHHHH---HHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 799999999 999999973221223456789999999999999999998873
No 124
>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=97.15 E-value=0.0017 Score=64.26 Aligned_cols=50 Identities=20% Similarity=0.254 Sum_probs=36.0
Q ss_pred cccccccccccHHHHHhhcCCC-------CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-------SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-------~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.|.+..+ +++.+.+.-+ ...+-..++-+.++|++|+|||++|+++++.
T Consensus 183 dIgGl~~~i---~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e 239 (512)
T TIGR03689 183 DIGGLDSQI---EQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS 239 (512)
T ss_pred HcCChHHHH---HHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence 677899998 8887765310 0011223445778999999999999999988
No 125
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.14 E-value=0.0037 Score=63.29 Aligned_cols=45 Identities=22% Similarity=0.280 Sum_probs=36.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+... +.|.+.+. .+ .-...+.++|+.|+||||+|+.+++.
T Consensus 17 ~iiGq~~v~---~~L~~~i~----~~-~~~hayLf~Gp~G~GKtt~A~~lak~ 61 (576)
T PRK14965 17 DLTGQEHVS---RTLQNAID----TG-RVAHAFLFTGARGVGKTSTARILAKA 61 (576)
T ss_pred HccCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 799999888 88888887 22 22345678999999999999998766
No 126
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=97.12 E-value=0.0025 Score=58.00 Aligned_cols=92 Identities=13% Similarity=0.218 Sum_probs=55.0
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcc-eeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFD-CHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------ 183 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------ 183 (348)
.++|.|.+|+|||||++.+++. .+.+|+ .++++-+++.. .+.++..++...=....... ...+.....
T Consensus 71 r~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~ 148 (274)
T cd01133 71 KIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVAL 148 (274)
T ss_pred EEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence 4789999999999999999998 554554 45556665554 45566666654321111110 111111111
Q ss_pred HHHHHHHHh--c-CCeEEEEEeCCCCh
Q 040110 184 EKTILRDYL--T-NKKYFTVLDDVWIE 207 (348)
Q Consensus 184 ~~~~l~~~L--~-~kr~LlVLDdv~~~ 207 (348)
..-.+.+++ + ++++|+++||+-..
T Consensus 149 ~a~~~AEyfr~~~g~~Vl~~~Dsltr~ 175 (274)
T cd01133 149 TGLTMAEYFRDEEGQDVLLFIDNIFRF 175 (274)
T ss_pred HHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence 112344555 3 78999999998543
No 127
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=97.11 E-value=0.0032 Score=53.62 Aligned_cols=23 Identities=17% Similarity=0.306 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|.|..|.|||||++.+...
T Consensus 29 e~~~i~G~nGsGKStLl~~l~G~ 51 (178)
T cd03247 29 EKIALLGRSGSGKSTLLQLLTGD 51 (178)
T ss_pred CEEEEECCCCCCHHHHHHHHhcc
Confidence 47899999999999999999876
No 128
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.11 E-value=0.0058 Score=60.48 Aligned_cols=45 Identities=20% Similarity=0.251 Sum_probs=36.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.|.+++. .+ .-.....++|+.|+||||+|+.++..
T Consensus 17 diiGq~~i~---~~L~~~i~----~~-~i~hayLf~Gp~G~GKTtlAr~lAk~ 61 (486)
T PRK14953 17 EVIGQEIVV---RILKNAVK----LQ-RVSHAYIFAGPRGTGKTTIARILAKV 61 (486)
T ss_pred HccChHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 788999999 99999887 21 22335667999999999999998765
No 129
>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=97.11 E-value=0.0013 Score=57.16 Aligned_cols=57 Identities=18% Similarity=0.086 Sum_probs=38.9
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPT 170 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~ 170 (348)
++++.++|+.|+||||.+-.++.....+ =..+..++... .....+-++..++.++.+
T Consensus 1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp 58 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVP 58 (196)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEE
T ss_pred CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccc
Confidence 4689999999999999887777664333 22455666543 235566777788888765
No 130
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.11 E-value=0.0024 Score=58.75 Aligned_cols=86 Identities=19% Similarity=0.183 Sum_probs=48.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCcccc-CCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVK-FYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~-~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
..++++++|++|+||||++..++.....+ ..+ .+..++.... ....+.+....+.++.+. ....+..++...+
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~-~V~li~~D~~r~~a~eql~~~~~~~~~p~----~~~~~~~~l~~~l 267 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNK-KVALITTDTYRIGAVEQLKTYAKILGVPV----KVARDPKELRKAL 267 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCC-eEEEEECCccchhHHHHHHHHHHHhCCce----eccCCHHHHHHHH
Confidence 46799999999999999999988763322 223 3444544321 123344444555555442 2223445554444
Q ss_pred HHHhcCCeEEEEEeC
Q 040110 189 RDYLTNKKYFTVLDD 203 (348)
Q Consensus 189 ~~~L~~kr~LlVLDd 203 (348)
.. +.+ .=++++|.
T Consensus 268 ~~-~~~-~d~vliDt 280 (282)
T TIGR03499 268 DR-LRD-KDLILIDT 280 (282)
T ss_pred HH-ccC-CCEEEEeC
Confidence 43 333 34666664
No 131
>PRK04296 thymidine kinase; Provisional
Probab=97.10 E-value=0.0013 Score=56.82 Aligned_cols=115 Identities=9% Similarity=-0.071 Sum_probs=64.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
.++.|+|..|.||||+|..+..+. ..+-..++.+. ..++.......++.+++.... ........++...+.+ .
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~--~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~--~~~~~~~~~~~~~~~~-~ 75 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNY--EERGMKVLVFK--PAIDDRYGEGKVVSRIGLSRE--AIPVSSDTDIFELIEE-E 75 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHH--HHcCCeEEEEe--ccccccccCCcEecCCCCccc--ceEeCChHHHHHHHHh-h
Confidence 367789999999999998888773 22222233331 222222223445666654321 1112334555555555 3
Q ss_pred cCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeCChhhh
Q 040110 193 TNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVGPHNIL 236 (348)
Q Consensus 193 ~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR~~~v~ 236 (348)
.++.-+||+|.+.-. ++..++...+. ..|..|++|.++.+..
T Consensus 76 ~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~~~~ 119 (190)
T PRK04296 76 GEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDTDFR 119 (190)
T ss_pred CCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCcccc
Confidence 334568999998642 33444443321 3477899999985543
No 132
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=97.10 E-value=0.0048 Score=58.53 Aligned_cols=45 Identities=22% Similarity=0.278 Sum_probs=37.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.+...+. .+ .-+..+.|+|+.|+||||+|..+.+.
T Consensus 24 ~l~Gh~~a~---~~L~~a~~----~g-rl~ha~L~~G~~G~GKttlA~~lA~~ 68 (351)
T PRK09112 24 RLFGHEEAE---AFLAQAYR----EG-KLHHALLFEGPEGIGKATLAFHLANH 68 (351)
T ss_pred hccCcHHHH---HHHHHHHH----cC-CCCeeEeeECCCCCCHHHHHHHHHHH
Confidence 899999999 99999887 22 23346778999999999999988776
No 133
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.09 E-value=0.00093 Score=70.49 Aligned_cols=135 Identities=11% Similarity=0.095 Sum_probs=71.1
Q ss_pred cccccccccccHHHHHhhcCCC-C--CCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-S--GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-~--~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.++|.+..+ +.+.+.+... . ...+.....+.++|+.|+|||+||+.+++. +-..-...+-+.++.-.+...+
T Consensus 510 ~v~GQ~~ai---~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~--l~~~~~~~~~~d~s~~~~~~~~ 584 (821)
T CHL00095 510 RIIGQDEAV---VAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY--FFGSEDAMIRLDMSEYMEKHTV 584 (821)
T ss_pred cCcChHHHH---HHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHH--hcCCccceEEEEchhccccccH
Confidence 688988888 8887776411 0 012233446678999999999999999876 2111122333444332221111
Q ss_pred HHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCe-EEEEEeCCCCh--hhHHHHHhhCCCC-----------CCCcE
Q 040110 160 LDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKK-YFTVLDDVWIE--KIWDDLREALPDN-----------QIGSR 225 (348)
Q Consensus 160 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr-~LlVLDdv~~~--~~~~~l~~~l~~~-----------~~gsk 225 (348)
.+-++.+. . ........ .+.+.++.++ .+++||++... +.++.+...+-.+ ...+-
T Consensus 585 ----~~l~g~~~-g-yvg~~~~~----~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i 654 (821)
T CHL00095 585 ----SKLIGSPP-G-YVGYNEGG----QLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTL 654 (821)
T ss_pred ----HHhcCCCC-c-ccCcCccc----hHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceE
Confidence 11122110 0 01111112 2334444444 68889999754 5566666655432 13455
Q ss_pred EEEEeCC
Q 040110 226 ALITVGP 232 (348)
Q Consensus 226 IlvTTR~ 232 (348)
+|+||..
T Consensus 655 ~I~Tsn~ 661 (821)
T CHL00095 655 IIMTSNL 661 (821)
T ss_pred EEEeCCc
Confidence 6667664
No 134
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.09 E-value=0.0011 Score=67.13 Aligned_cols=49 Identities=16% Similarity=0.208 Sum_probs=38.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +++..+|.... .......++.|+|++|+||||+++.++..
T Consensus 85 el~~~~~ki---~~l~~~l~~~~-~~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 85 ELAVHKKKI---EEVETWLKAQV-LENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred HhcCcHHHH---HHHHHHHHhcc-cccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 88888886321 11233457899999999999999999876
No 135
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=97.09 E-value=0.0011 Score=68.90 Aligned_cols=44 Identities=20% Similarity=0.241 Sum_probs=35.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ +++++.|.. .. ..-+.++|++|+|||++|+.+++.
T Consensus 187 ~liGR~~ei---~~~i~iL~r----~~--~~n~LLvGppGvGKT~lae~la~~ 230 (758)
T PRK11034 187 PLIGREKEL---ERAIQVLCR----RR--KNNPLLVGESGVGKTAIAEGLAWR 230 (758)
T ss_pred cCcCCCHHH---HHHHHHHhc----cC--CCCeEEECCCCCCHHHHHHHHHHH
Confidence 589999999 999998882 12 223457999999999999998865
No 136
>CHL00176 ftsH cell division protein; Validated
Probab=97.07 E-value=0.0016 Score=66.34 Aligned_cols=53 Identities=17% Similarity=0.228 Sum_probs=35.9
Q ss_pred cccccccccccHHHHHhhcCCCCC---CCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSG---LGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|.++....+.+++..|..+.. -+....+-+.++|++|+|||+||+.+++.
T Consensus 184 dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 184 DIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred hccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 678888877334555555542211 01223445789999999999999999886
No 137
>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=97.07 E-value=0.0079 Score=58.44 Aligned_cols=26 Identities=15% Similarity=0.220 Sum_probs=21.8
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+.++.++|.+|+||||+|..++..
T Consensus 97 ~~p~vi~~vG~~GsGKTTtaakLA~~ 122 (428)
T TIGR00959 97 KPPTVILMVGLQGSGKTTTCGKLAYY 122 (428)
T ss_pred CCCEEEEEECCCCCcHHHHHHHHHHH
Confidence 34679999999999999998777655
No 138
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=97.07 E-value=0.0021 Score=57.03 Aligned_cols=24 Identities=4% Similarity=0.162 Sum_probs=21.3
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...+.|+|..|+|||+||..+++.
T Consensus 42 ~~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 42 DRFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 446789999999999999999886
No 139
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.06 E-value=0.0016 Score=58.97 Aligned_cols=75 Identities=19% Similarity=0.191 Sum_probs=47.6
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
...-+.++|.+|+|||.||.++.+... +..+ .+.++ +..+++.++....... .....|.+
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~-sv~f~------~~~el~~~Lk~~~~~~------------~~~~~l~~ 163 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGI-SVLFI------TAPDLLSKLKAAFDEG------------RLEEKLLR 163 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEE------EHHHHHHHHHHHHhcC------------chHHHHHH
Confidence 344577999999999999999999943 3233 34455 4556666666655431 11222333
Q ss_pred HhcCCeEEEEEeCCCC
Q 040110 191 YLTNKKYFTVLDDVWI 206 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~ 206 (348)
.+ .+-=||||||+-.
T Consensus 164 ~l-~~~dlLIiDDlG~ 178 (254)
T COG1484 164 EL-KKVDLLIIDDIGY 178 (254)
T ss_pred Hh-hcCCEEEEecccC
Confidence 22 2445899999864
No 140
>PRK06835 DNA replication protein DnaC; Validated
Probab=97.05 E-value=0.0019 Score=60.63 Aligned_cols=35 Identities=11% Similarity=-0.032 Sum_probs=25.8
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR 149 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~ 149 (348)
.-+.++|..|+|||.||.++++...- ..+ .+++++
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~-~g~-~V~y~t 218 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLD-RGK-SVIYRT 218 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHH-CCC-eEEEEE
Confidence 45889999999999999999987322 222 455664
No 141
>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=97.04 E-value=0.0052 Score=54.08 Aligned_cols=90 Identities=12% Similarity=0.099 Sum_probs=50.7
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHH----hCCCCCccccCCCCHHHH-
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKS----LMPTSSWLKIMGKDYKSE- 184 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~----l~~~~~~~~~~~~~~~~~- 184 (348)
..-.++.|.|.+|+||||||.+++.. ....=..++|++....+. +-+++++.. +..... -....+..++
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ 90 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSII--VFEPMDFNEQG 90 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEE--EEeCCCHHHHH
Confidence 44568899999999999999998866 222223567776655543 223333322 111100 1112222232
Q ss_pred --HHHHHHHhcCCeEEEEEeCCC
Q 040110 185 --KTILRDYLTNKKYFTVLDDVW 205 (348)
Q Consensus 185 --~~~l~~~L~~kr~LlVLDdv~ 205 (348)
...+...+..+.-++|+|.+.
T Consensus 91 ~~~~~~~~~~~~~~~lvvIDsi~ 113 (218)
T cd01394 91 RAIQETETFADEKVDLVVVDSAT 113 (218)
T ss_pred HHHHHHHHHHhcCCcEEEEechH
Confidence 334455555556789999984
No 142
>PRK06620 hypothetical protein; Validated
Probab=97.03 E-value=0.0012 Score=58.08 Aligned_cols=23 Identities=17% Similarity=-0.026 Sum_probs=20.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.+.|+|++|+|||+|++.+++.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~~~ 67 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQNL 67 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHHhc
Confidence 56889999999999999998877
No 143
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.02 E-value=0.0017 Score=68.77 Aligned_cols=50 Identities=16% Similarity=0.239 Sum_probs=35.8
Q ss_pred cccccccccccHHHHHhhcCCCC-C--CCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS-G--LGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~-~--~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +.+...+.... + ..+....++.++|+.|+|||+||+.+++.
T Consensus 569 ~viGQ~~ai---~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~ 621 (857)
T PRK10865 569 RVIGQNEAV---EAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF 621 (857)
T ss_pred eEeCCHHHH---HHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 578988888 77777664210 0 11223357889999999999999999876
No 144
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=97.02 E-value=0.0055 Score=51.48 Aligned_cols=114 Identities=10% Similarity=0.056 Sum_probs=64.5
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccC------------------CcceeEEEEeCCC---
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKF------------------YFDCHAWVRVSNF--- 153 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~------------------~F~~~~wv~~~~~--- 153 (348)
+.|.+.+. . +.-+..+.++|+.|+||+++|..+++..--.. ..+...|+.-...
T Consensus 7 ~~L~~~~~----~-~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~ 81 (162)
T PF13177_consen 7 ELLKNLIK----S-GRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKKS 81 (162)
T ss_dssp HHHHHHHH----C-TC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSSS
T ss_pred HHHHHHHH----c-CCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccch
Confidence 55666555 1 12233567899999999999988865421111 1223344432221
Q ss_pred CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeC
Q 040110 154 YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVG 231 (348)
Q Consensus 154 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR 231 (348)
..+.++. ++...+.... ..++.=++|+|+++.. +..+.++..+-.-..++.+|++|.
T Consensus 82 i~i~~ir-~i~~~~~~~~--------------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~ 140 (162)
T PF13177_consen 82 IKIDQIR-EIIEFLSLSP--------------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITN 140 (162)
T ss_dssp BSHHHHH-HHHHHCTSS---------------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES
T ss_pred hhHHHHH-HHHHHHHHHH--------------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEEC
Confidence 2332222 3333332221 1235678889999753 677888877766566788888887
Q ss_pred Chh
Q 040110 232 PHN 234 (348)
Q Consensus 232 ~~~ 234 (348)
+..
T Consensus 141 ~~~ 143 (162)
T PF13177_consen 141 NPS 143 (162)
T ss_dssp -GG
T ss_pred ChH
Confidence 765
No 145
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=97.00 E-value=0.0015 Score=60.77 Aligned_cols=136 Identities=15% Similarity=0.119 Sum_probs=74.5
Q ss_pred ccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCc-cccCCcceeE-E---EEeCCCCC---
Q 040110 84 LLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNN-FVKFYFDCHA-W---VRVSNFYN--- 155 (348)
Q Consensus 84 ~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~-~~~~~F~~~~-w---v~~~~~~~--- 155 (348)
+-+|..+. .-.+++|+ ++....|.+.|.+|+|||.||.+..-.. ..+..|..++ . +.+++...
T Consensus 226 i~prn~eQ---~~ALdlLl------d~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLP 296 (436)
T COG1875 226 IRPRNAEQ---RVALDLLL------DDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLP 296 (436)
T ss_pred cCcccHHH---HHHHHHhc------CCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCC
Confidence 44566666 77778888 7788999999999999999997754222 2233444222 1 22333221
Q ss_pred ------HHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH----------HHHhcCC---eEEEEEeCCCChhhHHHHHhh
Q 040110 156 ------FKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL----------RDYLTNK---KYFTVLDDVWIEKIWDDLREA 216 (348)
Q Consensus 156 ------~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l----------~~~L~~k---r~LlVLDdv~~~~~~~~l~~~ 216 (348)
+.-.++.|...+..-. +..... ......+ ..+++++ +.++|+|...+... ..++..
T Consensus 297 G~eEeKm~PWmq~i~DnLE~L~---~~~~~~-~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTp-heikTi 371 (436)
T COG1875 297 GTEEEKMGPWMQAIFDNLEVLF---SPNEPG-DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTP-HELKTI 371 (436)
T ss_pred CchhhhccchHHHHHhHHHHHh---cccccc-hHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCH-HHHHHH
Confidence 1112333333322111 111112 2222222 1233453 68999999987621 334455
Q ss_pred CCCCCCCcEEEEEeCCh
Q 040110 217 LPDNQIGSRALITVGPH 233 (348)
Q Consensus 217 l~~~~~gskIlvTTR~~ 233 (348)
+...+.||||+.|---.
T Consensus 372 ltR~G~GsKIVl~gd~a 388 (436)
T COG1875 372 LTRAGEGSKIVLTGDPA 388 (436)
T ss_pred HHhccCCCEEEEcCCHH
Confidence 55567899999875433
No 146
>PRK07667 uridine kinase; Provisional
Probab=97.00 E-value=0.00081 Score=58.26 Aligned_cols=38 Identities=18% Similarity=0.174 Sum_probs=30.9
Q ss_pred HHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 94 LRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 94 ~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.+.+.+. .......+|+|.|.+|+||||+|..+...
T Consensus 3 ~~~~~~~~~----~~~~~~~iIgI~G~~gsGKStla~~L~~~ 40 (193)
T PRK07667 3 TNELINIMK----KHKENRFILGIDGLSRSGKTTFVANLKEN 40 (193)
T ss_pred HHHHHHHHH----hcCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 477777776 33445589999999999999999999876
No 147
>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=96.99 E-value=0.0082 Score=54.60 Aligned_cols=42 Identities=12% Similarity=0.051 Sum_probs=27.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRIL 160 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~ 160 (348)
-+.+.|++|+|||+||+.+++. .... .+.++.....+..+++
T Consensus 23 ~vLL~G~~GtGKT~lA~~la~~--lg~~---~~~i~~~~~~~~~dll 64 (262)
T TIGR02640 23 PVHLRGPAGTGKTTLAMHVARK--RDRP---VMLINGDAELTTSDLV 64 (262)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH--hCCC---EEEEeCCccCCHHHHh
Confidence 3558999999999999999874 3222 3445555554444443
No 148
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.97 E-value=0.0063 Score=61.96 Aligned_cols=45 Identities=16% Similarity=0.210 Sum_probs=35.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.|.+.+. .+ .-...+.++|+.|+||||+|..+...
T Consensus 18 ~viGq~~~~---~~L~~~i~----~~-~l~hayLf~Gp~G~GKtt~A~~lAk~ 62 (614)
T PRK14971 18 SVVGQEALT---TTLKNAIA----TN-KLAHAYLFCGPRGVGKTTCARIFAKT 62 (614)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCeeEEEECCCCCCHHHHHHHHHHH
Confidence 789999999 99999887 21 23345778999999999999887765
No 149
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=96.97 E-value=0.0059 Score=59.95 Aligned_cols=45 Identities=20% Similarity=0.240 Sum_probs=36.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+..+ +.|.+.+. .+ .-...+.++|+.|+||||+|+.+.+.
T Consensus 18 diiGq~~~v---~~L~~~i~----~~-~i~ha~Lf~Gp~G~GKtt~A~~lAk~ 62 (451)
T PRK06305 18 EILGQDAVV---AVLKNALR----FN-RAAHAYLFSGIRGTGKTTLARIFAKA 62 (451)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCceEEEEEcCCCCCHHHHHHHHHHH
Confidence 789999999 88888887 11 22345678999999999999998765
No 150
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.97 E-value=0.0041 Score=60.88 Aligned_cols=73 Identities=11% Similarity=0.177 Sum_probs=44.3
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
..-+.|+|+.|+|||+|++++++. +...-..+++++ ...+...+...+... . ...++..
T Consensus 141 ~npl~L~G~~G~GKTHLl~Ai~~~--l~~~~~~v~yi~------~~~f~~~~~~~l~~~---------~----~~~f~~~ 199 (445)
T PRK12422 141 FNPIYLFGPEGSGKTHLMQAAVHA--LRESGGKILYVR------SELFTEHLVSAIRSG---------E----MQRFRQF 199 (445)
T ss_pred CceEEEEcCCCCCHHHHHHHHHHH--HHHcCCCEEEee------HHHHHHHHHHHHhcc---------h----HHHHHHH
Confidence 345779999999999999999987 332222344553 344555555555321 1 1224444
Q ss_pred hcCCeEEEEEeCCCC
Q 040110 192 LTNKKYFTVLDDVWI 206 (348)
Q Consensus 192 L~~kr~LlVLDdv~~ 206 (348)
++. .-+|++||+..
T Consensus 200 ~~~-~dvLiIDDiq~ 213 (445)
T PRK12422 200 YRN-VDALFIEDIEV 213 (445)
T ss_pred ccc-CCEEEEcchhh
Confidence 433 44788899864
No 151
>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=96.96 E-value=0.0033 Score=54.45 Aligned_cols=84 Identities=13% Similarity=0.048 Sum_probs=45.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcc---eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFD---CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~---~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
||+|.|.+|+||||||+.+...... ..+. ....++....+........ -...............+.+.+...|..
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~L~~-~~~~~~~~~~~~~~d~~~~~~~~~~~-~~~~~~~~~~~~p~a~d~~~l~~~l~~ 78 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQILNK-RGIPAMEMDIILSLDDFYDDYHLRDR-KGRGENRYNFDHPDAFDFDLLKEDLKA 78 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTT-CTTTCCCSEEEEEGGGGBHHHHHHHH-HHHCTTTSSTTSGGGBSHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCc-cCcCccceeEEEeecccccccchhhH-hhccccccCCCCccccCHHHHHHHHHH
Confidence 6899999999999999999876221 1122 1333333332222222222 111111100003445677788888877
Q ss_pred HhcCCeEEE
Q 040110 191 YLTNKKYFT 199 (348)
Q Consensus 191 ~L~~kr~Ll 199 (348)
..+++..-+
T Consensus 79 L~~g~~i~~ 87 (194)
T PF00485_consen 79 LKNGGSIEI 87 (194)
T ss_dssp HHTTSCEEE
T ss_pred HhCCCcccc
Confidence 666665444
No 152
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.95 E-value=0.0034 Score=55.34 Aligned_cols=123 Identities=15% Similarity=0.133 Sum_probs=68.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+... +.|++-..+-- . .-...-|.+||..|+|||+|++++.+. +....-..+=| .+.
T Consensus 61 ~l~Gvd~qk---~~L~~NT~~F~-~-G~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glrLVEV--~k~--------- 122 (287)
T COG2607 61 DLVGVDRQK---EALVRNTEQFA-E-GLPANNVLLWGARGTGKSSLVKALLNE--YADEGLRLVEV--DKE--------- 122 (287)
T ss_pred HHhCchHHH---HHHHHHHHHHH-c-CCcccceEEecCCCCChHHHHHHHHHH--HHhcCCeEEEE--cHH---------
Confidence 789988887 66665332100 1 222334678999999999999999988 54443322222 111
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCC---hhhHHHHHhhCCCC---CCCcEEEEEeC-Chhh
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWI---EKIWDDLREALPDN---QIGSRALITVG-PHNI 235 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~---~~~~~~l~~~l~~~---~~gskIlvTTR-~~~v 235 (348)
+-.+...+.+.|+. ..+||+|..||+.= .+....++..+-.+ .+...++..|. .++.
T Consensus 123 --------------dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRRHL 186 (287)
T COG2607 123 --------------DLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRRHL 186 (287)
T ss_pred --------------HHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCccc
Confidence 11122222222221 35799999999863 24566666666432 23444444444 4444
Q ss_pred hhhc
Q 040110 236 LTSI 239 (348)
Q Consensus 236 ~~~~ 239 (348)
...+
T Consensus 187 l~e~ 190 (287)
T COG2607 187 LPED 190 (287)
T ss_pred ccHh
Confidence 4433
No 153
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.95 E-value=0.0098 Score=59.26 Aligned_cols=45 Identities=22% Similarity=0.148 Sum_probs=35.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|-+... +.|...+. .+ .-..+..++|+.|+||||+|+.+.+.
T Consensus 15 eiiGqe~v~---~~L~~~I~----~g-rl~hayLf~Gp~G~GKTt~Ar~LAk~ 59 (535)
T PRK08451 15 ELIGQESVS---KTLSLALD----NN-RLAHAYLFSGLRGSGKTSSARIFARA 59 (535)
T ss_pred HccCcHHHH---HHHHHHHH----cC-CCCeeEEEECCCCCcHHHHHHHHHHH
Confidence 789998888 88888887 22 23345678999999999999987765
No 154
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=96.94 E-value=0.0025 Score=64.07 Aligned_cols=96 Identities=11% Similarity=0.152 Sum_probs=55.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCc--ceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYF--DCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
..+.|+|..|+|||.|++++++. ....+ -.++++ +..++..++...+... .. ..+++
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~--a~~~~~g~~V~Yi------taeef~~el~~al~~~---------~~----~~f~~ 373 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHY--ARRLYPGTRVRYV------SSEEFTNEFINSIRDG---------KG----DSFRR 373 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEe------eHHHHHHHHHHHHHhc---------cH----HHHHH
Confidence 34789999999999999999987 33322 134555 3455555555544321 11 22333
Q ss_pred HhcCCeEEEEEeCCCCh---hhHH----HHHhhCCCCCCCcEEEEEeCC
Q 040110 191 YLTNKKYFTVLDDVWIE---KIWD----DLREALPDNQIGSRALITVGP 232 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~---~~~~----~l~~~l~~~~~gskIlvTTR~ 232 (348)
.+++ -=+|||||+... ..|. .+...+. ..|..|||||..
T Consensus 374 ~y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~--e~gk~IIITSd~ 419 (617)
T PRK14086 374 RYRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLH--NANKQIVLSSDR 419 (617)
T ss_pred Hhhc-CCEEEEehhccccCCHHHHHHHHHHHHHHH--hcCCCEEEecCC
Confidence 3433 357888999643 2222 2222222 234568888876
No 155
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=96.92 E-value=0.0064 Score=56.93 Aligned_cols=96 Identities=10% Similarity=0.061 Sum_probs=58.4
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCc----ceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----ccCCCC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF----DCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----KIMGKD 180 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F----~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----~~~~~~ 180 (348)
+.-.++-|+|++|+|||+|+.+++-.......+ ..++|++....++...+.+ +++.++...... -....+
T Consensus 100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~ 178 (317)
T PRK04301 100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYN 178 (317)
T ss_pred cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCC
Confidence 456688899999999999999987552221111 3788999888888776544 445554432110 001111
Q ss_pred ---HHHHHHHHHHHhcC--CeEEEEEeCCCC
Q 040110 181 ---YKSEKTILRDYLTN--KKYFTVLDDVWI 206 (348)
Q Consensus 181 ---~~~~~~~l~~~L~~--kr~LlVLDdv~~ 206 (348)
...+...+...+.. +--|||+|.+..
T Consensus 179 ~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa 209 (317)
T PRK04301 179 SDHQMLLAEKAEELIKEGENIKLVIVDSLTA 209 (317)
T ss_pred HHHHHHHHHHHHHHHhccCceeEEEEECchH
Confidence 12334555555644 445999999853
No 156
>PRK06696 uridine kinase; Validated
Probab=96.92 E-value=0.00063 Score=60.33 Aligned_cols=43 Identities=26% Similarity=0.247 Sum_probs=32.6
Q ss_pred cccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 87 LQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 87 r~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.+.+ ++|.+.+.. .....+.+|+|.|.+|+||||||+.+...
T Consensus 3 ~~~~~---~~la~~~~~---~~~~~~~iI~I~G~sgsGKSTlA~~L~~~ 45 (223)
T PRK06696 3 RKQLI---KELAEHILT---LNLTRPLRVAIDGITASGKTTFADELAEE 45 (223)
T ss_pred HHHHH---HHHHHHHHH---hCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 44445 666666652 12456789999999999999999999876
No 157
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=96.90 E-value=0.0035 Score=57.10 Aligned_cols=124 Identities=15% Similarity=0.165 Sum_probs=74.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEE-EEeCCCCCHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAW-VRVSNFYNFKRILD 161 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~w-v~~~~~~~~~~~~~ 161 (348)
.++|.+..+ +.|.+.+. .........+|++|.|||+-|...+...--.+.|++++- .++|..-... +..
T Consensus 37 e~~gQe~vV---~~L~~a~~------~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr 106 (346)
T KOG0989|consen 37 ELAGQEHVV---QVLKNALL------RRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVR 106 (346)
T ss_pred hhcchHHHH---HHHHHHHh------hcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chh
Confidence 789999999 88888888 245567778999999999999888776444566765543 3444332221 000
Q ss_pred HHHHHhCCCCCccccCCCCHHHHHHHHHHHhc--CCe-EEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEe
Q 040110 162 DIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT--NKK-YFTVLDDVWIE--KIWDDLREALPDNQIGSRALITV 230 (348)
Q Consensus 162 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~--~kr-~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTT 230 (348)
+ ...+...+......... .++ -.+|||++++- +.|..+...+-+....++.+..|
T Consensus 107 ~--------------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIc 166 (346)
T KOG0989|consen 107 E--------------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILIC 166 (346)
T ss_pred h--------------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEc
Confidence 0 00011111111110000 123 46788999864 88999988887655556554433
No 158
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=96.89 E-value=0.0082 Score=61.65 Aligned_cols=45 Identities=18% Similarity=0.222 Sum_probs=36.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.|...+. .+ .-.....++|+.|+||||+|+.+++.
T Consensus 19 dIiGQe~~v---~~L~~aI~----~~-rl~HAYLF~GP~GtGKTt~AriLAk~ 63 (725)
T PRK07133 19 DIVGQDHIV---QTLKNIIK----SN-KISHAYLFSGPRGTGKTSVAKIFANA 63 (725)
T ss_pred HhcCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 789999988 88888887 21 22345668999999999999998765
No 159
>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=96.88 E-value=0.003 Score=58.89 Aligned_cols=89 Identities=13% Similarity=0.069 Sum_probs=56.8
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
+.-+++-|+|++|+||||||.++... ....-..++|++....++.. .+++++.+.... .....+.++....+
T Consensus 53 p~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~ 125 (321)
T TIGR02012 53 PRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA 125 (321)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence 45568889999999999999987766 22222457788776665543 355555432211 11223456666666
Q ss_pred HHHhc-CCeEEEEEeCCC
Q 040110 189 RDYLT-NKKYFTVLDDVW 205 (348)
Q Consensus 189 ~~~L~-~kr~LlVLDdv~ 205 (348)
...++ +.--++|+|.|-
T Consensus 126 ~~li~~~~~~lIVIDSv~ 143 (321)
T TIGR02012 126 ETLVRSGAVDIIVVDSVA 143 (321)
T ss_pred HHHhhccCCcEEEEcchh
Confidence 65554 356789999985
No 160
>PRK14974 cell division protein FtsY; Provisional
Probab=96.88 E-value=0.0091 Score=56.17 Aligned_cols=92 Identities=13% Similarity=0.033 Sum_probs=49.5
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC--CHHHHHHHHHHHhCCCCCccccCCCCHHHH-HHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY--NFKRILDDIMKSLMPTSSWLKIMGKDYKSE-KTI 187 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~-~~~ 187 (348)
++.++.++|+.|+||||++..++.... ...+. ++.+. ...+ ...+.++..+..++.+... .....+.... ...
T Consensus 139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~~-V~li~-~Dt~R~~a~eqL~~~a~~lgv~v~~-~~~g~dp~~v~~~a 214 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGFS-VVIAA-GDTFRAGAIEQLEEHAERLGVKVIK-HKYGADPAAVAYDA 214 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCe-EEEec-CCcCcHHHHHHHHHHHHHcCCceec-ccCCCCHHHHHHHH
Confidence 468999999999999998887776522 12233 22333 2233 2334456667777654321 1222333332 233
Q ss_pred HHHHhcCCeEEEEEeCCCC
Q 040110 188 LRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 188 l~~~L~~kr~LlVLDdv~~ 206 (348)
+........=++++|-.-.
T Consensus 215 i~~~~~~~~DvVLIDTaGr 233 (336)
T PRK14974 215 IEHAKARGIDVVLIDTAGR 233 (336)
T ss_pred HHHHHhCCCCEEEEECCCc
Confidence 3332222233888888743
No 161
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.87 E-value=0.012 Score=56.29 Aligned_cols=101 Identities=13% Similarity=0.131 Sum_probs=54.8
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
..++|+++|++|+||||++..++.... ...+ .+..++.... ....+-++.....++.+ -....+...+...+.
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~~L~-~~Gk-kVglI~aDt~RiaAvEQLk~yae~lgip----v~v~~d~~~L~~aL~ 313 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKK-TVGFITTDHSRIGTVQQLQDYVKTIGFE----VIAVRDEAAMTRALT 313 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHHHHH-HcCC-cEEEEecCCcchHHHHHHHHHhhhcCCc----EEecCCHHHHHHHHH
Confidence 457899999999999999999986532 2222 2334443221 12333344555555544 222345566665554
Q ss_pred HHhcC-CeEEEEEeCCCC----hhhHHHHHhhC
Q 040110 190 DYLTN-KKYFTVLDDVWI----EKIWDDLREAL 217 (348)
Q Consensus 190 ~~L~~-kr~LlVLDdv~~----~~~~~~l~~~l 217 (348)
..-.. +.=++++|-.-. ...+.++...+
T Consensus 314 ~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~l 346 (436)
T PRK11889 314 YFKEEARVDYILIDTAGKNYRASETVEEMIETM 346 (436)
T ss_pred HHHhccCCCEEEEeCccccCcCHHHHHHHHHHH
Confidence 44321 234566676532 23455554444
No 162
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.0023 Score=65.77 Aligned_cols=122 Identities=13% Similarity=0.182 Sum_probs=70.3
Q ss_pred cccccccccccHHHHHhhcCCCC---CCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS---GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.++|.+.-+ ..+.+.+.... ...+.+..+....|+.|||||-||++++.. +-..=+..+-+.+|.--.-
T Consensus 492 rViGQd~AV---~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~--Lfg~e~aliR~DMSEy~Ek--- 563 (786)
T COG0542 492 RVIGQDEAV---EAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA--LFGDEQALIRIDMSEYMEK--- 563 (786)
T ss_pred ceeChHHHH---HHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH--hcCCCccceeechHHHHHH---
Confidence 689999999 88888774220 123455667788999999999999998876 2111133444433322111
Q ss_pred HHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeE-EEEEeCCCCh--hhHHHHHhhCCC
Q 040110 160 LDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKY-FTVLDDVWIE--KIWDDLREALPD 219 (348)
Q Consensus 160 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~-LlVLDdv~~~--~~~~~l~~~l~~ 219 (348)
..+.+-+|.+ +. -..-.. -..|-+..+.++| ++.||.+... +.++-|...|-+
T Consensus 564 -HsVSrLIGaP-PG-YVGyee----GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd 619 (786)
T COG0542 564 -HSVSRLIGAP-PG-YVGYEE----GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD 619 (786)
T ss_pred -HHHHHHhCCC-CC-Cceecc----ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence 1222223322 11 111111 2334555667776 6778999864 667777776654
No 163
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.86 E-value=0.014 Score=56.83 Aligned_cols=86 Identities=17% Similarity=0.088 Sum_probs=47.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCcc-ccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNF-VKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~-~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
.+++.++|++|+||||++..++.... ....+ .+..++.... ....+.+....+.++.+. ....+..++...+.
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~-~V~li~~D~~r~~a~eqL~~~a~~~~vp~----~~~~~~~~l~~~l~ 295 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKK-KVALITLDTYRIGAVEQLKTYAKIMGIPV----EVVYDPKELAKALE 295 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCC-eEEEEECCccHHHHHHHHHHHHHHhCCce----EccCCHHhHHHHHH
Confidence 46899999999999999888876532 12222 3445554321 112233444455555442 22234455555554
Q ss_pred HHhcCCeEEEEEeCC
Q 040110 190 DYLTNKKYFTVLDDV 204 (348)
Q Consensus 190 ~~L~~kr~LlVLDdv 204 (348)
. +. ..=++++|..
T Consensus 296 ~-~~-~~DlVlIDt~ 308 (424)
T PRK05703 296 Q-LR-DCDVILIDTA 308 (424)
T ss_pred H-hC-CCCEEEEeCC
Confidence 3 33 3466777865
No 164
>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=96.85 E-value=0.0031 Score=65.89 Aligned_cols=50 Identities=20% Similarity=0.254 Sum_probs=35.4
Q ss_pred cccccccccccHHHHHhhcCCC-------CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-------SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-------~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|.+..+ +.+.+.+.-+ ...+-...+-+.++|++|+|||+||+.+++.
T Consensus 179 di~G~~~~~---~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~ 235 (733)
T TIGR01243 179 DIGGLKEAK---EKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE 235 (733)
T ss_pred HhcCHHHHH---HHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence 578999888 7776665310 0011123455779999999999999999987
No 165
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.85 E-value=0.01 Score=60.46 Aligned_cols=136 Identities=10% Similarity=0.034 Sum_probs=70.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+... +.|..++. .+. -...+.++|+.|+||||+|..+++.......... ....+..-...+.
T Consensus 17 ~liGq~~i~---~~L~~~l~----~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-----~~~~Cg~C~~C~~ 83 (620)
T PRK14948 17 ELVGQEAIA---TTLKNALI----SNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-----TPEPCGKCELCRA 83 (620)
T ss_pred hccChHHHH---HHHHHHHH----cCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-----CCCCCcccHHHHH
Confidence 788999999 88888887 222 2235678999999999999999877322111100 0011121122333
Q ss_pred HHHHhCCCCCcc-ccCCCCHHHHHHHHHHH----hcCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEEeC
Q 040110 163 IMKSLMPTSSWL-KIMGKDYKSEKTILRDY----LTNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALITVG 231 (348)
Q Consensus 163 i~~~l~~~~~~~-~~~~~~~~~~~~~l~~~----L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvTTR 231 (348)
+........... .......+++.+.+... ..+++-++|+|++... ..++.|...+-.....+.+|++|.
T Consensus 84 i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~ 159 (620)
T PRK14948 84 IAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATT 159 (620)
T ss_pred HhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeC
Confidence 322222110000 00112233332222111 1245568899999753 567777777655444454444443
No 166
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=96.85 E-value=0.005 Score=59.15 Aligned_cols=115 Identities=13% Similarity=0.122 Sum_probs=75.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++||+.+. ..+.+++... -.....+-+-|.|-+|.|||.+...++.+......=.+++.++...-.....++..
T Consensus 151 ~l~gRe~e~---~~v~~F~~~h--le~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k 225 (529)
T KOG2227|consen 151 TLKGRELEM---DIVREFFSLH--LELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK 225 (529)
T ss_pred CccchHHHH---HHHHHHHHhh--hhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence 799999999 8888888632 12344556778999999999999999988322222124566665544456666777
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCC--eEEEEEeCCCC
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNK--KYFTVLDDVWI 206 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~k--r~LlVLDdv~~ 206 (348)
|...+-.. ........+.+..+....... -+|+|||..+.
T Consensus 226 I~~~~~q~----~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~ 267 (529)
T KOG2227|consen 226 IFSSLLQD----LVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDH 267 (529)
T ss_pred HHHHHHHH----hcCCchhHHHHHHHHHHHhcccceEEEEechhhH
Confidence 76666111 001112256667777777553 58899998853
No 167
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=96.84 E-value=0.0024 Score=55.83 Aligned_cols=26 Identities=23% Similarity=0.309 Sum_probs=24.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.+.+|+|-|.+|+||||+|+.++..
T Consensus 6 ~~~iiIgIaG~SgSGKTTva~~l~~~ 31 (218)
T COG0572 6 EKVIIIGIAGGSGSGKTTVAKELSEQ 31 (218)
T ss_pred CceEEEEEeCCCCCCHHHHHHHHHHH
Confidence 46689999999999999999999988
No 168
>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=96.83 E-value=0.03 Score=56.36 Aligned_cols=46 Identities=17% Similarity=0.216 Sum_probs=35.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|....+ +++.+.+... .....-|.|+|..|+|||++|+.+++.
T Consensus 197 ~liG~s~~~---~~~~~~~~~~----a~~~~pvli~Ge~GtGK~~lA~~ih~~ 242 (534)
T TIGR01817 197 GIIGKSPAM---RQVVDQARVV----ARSNSTVLLRGESGTGKELIAKAIHYL 242 (534)
T ss_pred ceEECCHHH---HHHHHHHHHH----hCcCCCEEEECCCCccHHHHHHHHHHh
Confidence 899999999 8887777521 122234669999999999999999876
No 169
>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=96.83 E-value=0.0092 Score=50.48 Aligned_cols=22 Identities=27% Similarity=0.342 Sum_probs=19.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.++|++|+||||++..++..
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~ 23 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALY 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6788999999999999988866
No 170
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.83 E-value=0.016 Score=58.49 Aligned_cols=45 Identities=18% Similarity=0.240 Sum_probs=36.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.|.+++. .+. -...+.++|+.|+||||+|+.+.+.
T Consensus 17 ~viGq~~v~---~~L~~~i~----~~~-~~hayLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 17 DVVGQEHIT---KTLKNAIK----QGK-ISHAYLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred hccCcHHHH---HHHHHHHH----cCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 799999999 99999887 222 2345667999999999999998765
No 171
>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=96.83 E-value=0.003 Score=58.99 Aligned_cols=89 Identities=15% Similarity=0.078 Sum_probs=56.7
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
+.-+++-|+|++|+||||||.+++.. ....-..++|++....++.. .+++++.+.... -....+.++....+
T Consensus 53 p~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~ 125 (325)
T cd00983 53 PKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA 125 (325)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence 34568889999999999999998765 22233467788877666643 344444432210 11223456666666
Q ss_pred HHHhcC-CeEEEEEeCCC
Q 040110 189 RDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 189 ~~~L~~-kr~LlVLDdv~ 205 (348)
...++. .--++|+|.|-
T Consensus 126 ~~li~s~~~~lIVIDSva 143 (325)
T cd00983 126 DSLVRSGAVDLIVVDSVA 143 (325)
T ss_pred HHHHhccCCCEEEEcchH
Confidence 665544 56789999975
No 172
>PRK10867 signal recognition particle protein; Provisional
Probab=96.82 E-value=0.0052 Score=59.70 Aligned_cols=26 Identities=19% Similarity=0.285 Sum_probs=21.4
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+.++.++|++|+||||++..++..
T Consensus 98 ~~p~vI~~vG~~GsGKTTtaakLA~~ 123 (433)
T PRK10867 98 KPPTVIMMVGLQGAGKTTTAGKLAKY 123 (433)
T ss_pred CCCEEEEEECCCCCcHHHHHHHHHHH
Confidence 34789999999999999977776654
No 173
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.81 E-value=0.0043 Score=56.94 Aligned_cols=82 Identities=10% Similarity=0.155 Sum_probs=51.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccc--cCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFV--KFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~--~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
..++|.++|++|.|||+|+++++++..+ .+.|....-+.+. -..+..... +.+..-+..+-+.|
T Consensus 176 ~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEin----shsLFSKWF----------sESgKlV~kmF~kI 241 (423)
T KOG0744|consen 176 WNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEIN----SHSLFSKWF----------SESGKLVAKMFQKI 241 (423)
T ss_pred eeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEe----hhHHHHHHH----------hhhhhHHHHHHHHH
Confidence 3678899999999999999999998643 3455444434332 122222222 12233456667777
Q ss_pred HHHhcCCe--EEEEEeCCCC
Q 040110 189 RDYLTNKK--YFTVLDDVWI 206 (348)
Q Consensus 189 ~~~L~~kr--~LlVLDdv~~ 206 (348)
.+.+.++. +++.+|.|.+
T Consensus 242 ~ELv~d~~~lVfvLIDEVES 261 (423)
T KOG0744|consen 242 QELVEDRGNLVFVLIDEVES 261 (423)
T ss_pred HHHHhCCCcEEEEEeHHHHH
Confidence 88887764 3344688853
No 174
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.81 E-value=0.013 Score=52.14 Aligned_cols=93 Identities=14% Similarity=0.152 Sum_probs=57.8
Q ss_pred CCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-------------
Q 040110 108 GQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL------------- 174 (348)
Q Consensus 108 ~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~------------- 174 (348)
+-+.-+++.|.|.+|+|||+|+.++.... .++. ..++|++.... ..++.+++ .+++....+.
T Consensus 21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~-~~~g-~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~ 95 (234)
T PRK06067 21 GIPFPSLILIEGDHGTGKSVLSQQFVYGA-LKQG-KKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNT 95 (234)
T ss_pred CCcCCcEEEEECCCCCChHHHHHHHHHHH-HhCC-CEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccc
Confidence 34556788999999999999999985441 2222 36778877544 44555553 3343221110
Q ss_pred ---ccCCCCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 175 ---KIMGKDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 175 ---~~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
.....+.+.+...+.+.+.. +.-++|+|.+-
T Consensus 96 ~~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t 130 (234)
T PRK06067 96 EGFEWNSTLANKLLELIIEFIKSKREDVIIIDSLT 130 (234)
T ss_pred cccccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence 01123446777777777764 56689999975
No 175
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=96.80 E-value=0.014 Score=58.74 Aligned_cols=45 Identities=18% Similarity=0.187 Sum_probs=37.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|-+... +.|...+. .+ .-...+.++|+.|+||||+|+.+++.
T Consensus 17 diiGqe~iv---~~L~~~i~----~~-~i~hayLf~Gp~G~GKTt~Ar~lAk~ 61 (563)
T PRK06647 17 SLEGQDFVV---ETLKHSIE----SN-KIANAYIFSGPRGVGKTSSARAFARC 61 (563)
T ss_pred HccCcHHHH---HHHHHHHH----cC-CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence 789999999 89999887 22 23346778999999999999999876
No 176
>PRK09354 recA recombinase A; Provisional
Probab=96.80 E-value=0.0037 Score=58.84 Aligned_cols=89 Identities=16% Similarity=0.070 Sum_probs=58.2
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
+.-+++-|+|++|+||||||.++... ....-..++|+.....++. ..+++++...... .....+.++....+
T Consensus 58 p~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~-----~~a~~lGvdld~lli~qp~~~Eq~l~i~ 130 (349)
T PRK09354 58 PRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDP-----VYAKKLGVDIDNLLVSQPDTGEQALEIA 130 (349)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHH-----HHHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence 45568889999999999999998765 2223346788887777665 2455555432211 11223456666666
Q ss_pred HHHhcC-CeEEEEEeCCC
Q 040110 189 RDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 189 ~~~L~~-kr~LlVLDdv~ 205 (348)
...++. .--++|+|.|-
T Consensus 131 ~~li~s~~~~lIVIDSva 148 (349)
T PRK09354 131 DTLVRSGAVDLIVVDSVA 148 (349)
T ss_pred HHHhhcCCCCEEEEeChh
Confidence 666544 56789999985
No 177
>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=96.79 E-value=0.026 Score=54.72 Aligned_cols=26 Identities=15% Similarity=0.217 Sum_probs=22.4
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+.+|.++|+.|+||||++..++..
T Consensus 98 ~~~~vi~lvG~~GvGKTTtaaKLA~~ 123 (429)
T TIGR01425 98 GKQNVIMFVGLQGSGKTTTCTKLAYY 123 (429)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 34689999999999999999888754
No 178
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=96.79 E-value=0.018 Score=48.51 Aligned_cols=114 Identities=11% Similarity=0.045 Sum_probs=57.5
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCcccc-CC--cc---eeEEEEeCCCC--CHHHHHHHHHHHhCCCCCccccCCCCHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVK-FY--FD---CHAWVRVSNFY--NFKRILDDIMKSLMPTSSWLKIMGKDYKS 183 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~-~~--F~---~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~ 183 (348)
-.+++|+|..|.|||||++.+....... .. ++ .+.++ .+.. ....+...+... .. . .-..-..
T Consensus 27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~-~~-----~-~LS~G~~ 97 (166)
T cd03223 27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP-WD-----D-VLSGGEQ 97 (166)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccccccHHHHhhcc-CC-----C-CCCHHHH
Confidence 3478999999999999999998763221 11 11 12222 2222 111333333211 00 1 1111223
Q ss_pred HHHHHHHHhcCCeEEEEEeCCCCh---hhHHHHHhhCCCCCCCcEEEEEeCChhhh
Q 040110 184 EKTILRDYLTNKKYFTVLDDVWIE---KIWDDLREALPDNQIGSRALITVGPHNIL 236 (348)
Q Consensus 184 ~~~~l~~~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~~~~gskIlvTTR~~~v~ 236 (348)
..-.+.+.|..++=+++||+.-+. .....+...+... +..||++|.+....
T Consensus 98 ~rv~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~ 151 (166)
T cd03223 98 QRLAFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW 151 (166)
T ss_pred HHHHHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence 333455566667788889987543 2222222222221 34577777776543
No 179
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.76 E-value=0.016 Score=55.27 Aligned_cols=89 Identities=20% Similarity=0.122 Sum_probs=51.1
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
.-.+++++|+.|+||||++..+......+.....+..++... .....+.++...+.++.+.. ...+..++...+.
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~----~~~~~~~l~~~l~ 211 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH----AVKDGGDLQLALA 211 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE----ecCCcccHHHHHH
Confidence 346899999999999999999987632222122344554322 23445666666777766522 2223333333333
Q ss_pred HHhcCCeEEEEEeCCC
Q 040110 190 DYLTNKKYFTVLDDVW 205 (348)
Q Consensus 190 ~~L~~kr~LlVLDdv~ 205 (348)
.+.++ -++++|..-
T Consensus 212 -~l~~~-DlVLIDTaG 225 (374)
T PRK14722 212 -ELRNK-HMVLIDTIG 225 (374)
T ss_pred -HhcCC-CEEEEcCCC
Confidence 34444 455588874
No 180
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=96.75 E-value=0.021 Score=48.73 Aligned_cols=120 Identities=13% Similarity=0.071 Sum_probs=63.4
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE---eCCCCCHHHH------HHHHHHHhCCCCCcc-ccCCCCHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR---VSNFYNFKRI------LDDIMKSLMPTSSWL-KIMGKDYK 182 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~---~~~~~~~~~~------~~~i~~~l~~~~~~~-~~~~~~~~ 182 (348)
.+++|+|..|.|||||++.++... ......+++. +. ..+.... .-++++.++...... .....+..
T Consensus 26 ~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~-~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G 101 (180)
T cd03214 26 EIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLA-SLSPKELARKIAYVPQALELLGLAHLADRPFNELSGG 101 (180)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECC-cCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence 478999999999999999998762 2233444332 21 1122221 112455554431100 11112222
Q ss_pred H-HHHHHHHHhcCCeEEEEEeCCCCh---hhHHHHHhhCCCC-CC-CcEEEEEeCChhhh
Q 040110 183 S-EKTILRDYLTNKKYFTVLDDVWIE---KIWDDLREALPDN-QI-GSRALITVGPHNIL 236 (348)
Q Consensus 183 ~-~~~~l~~~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~~-~~-gskIlvTTR~~~v~ 236 (348)
+ ..-.+.+.|-..+-+++||+.-+. ...+.+...+... .. +..||++|.+....
T Consensus 102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~ 161 (180)
T cd03214 102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA 161 (180)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence 2 223455666678889999997643 2223333332211 11 56788888776644
No 181
>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=96.75 E-value=0.0074 Score=51.46 Aligned_cols=22 Identities=36% Similarity=0.409 Sum_probs=20.0
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|.|+|++|+||||+|+.+...
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~ 22 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVEN 22 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999876
No 182
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=96.73 E-value=0.012 Score=50.07 Aligned_cols=116 Identities=12% Similarity=0.099 Sum_probs=60.4
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCc-cc--cC---Ccc--eeEEEEeCCCCCHHHHHHHHHHHhCCCCC--ccccCCCCH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNN-FV--KF---YFD--CHAWVRVSNFYNFKRILDDIMKSLMPTSS--WLKIMGKDY 181 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~-~~--~~---~F~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~ 181 (348)
-.+++|+|+.|+|||||.+.+..+. .+ .. .|. ...|+ .+ .+.+..++.... .......+.
T Consensus 21 G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSg 90 (176)
T cd03238 21 NVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSG 90 (176)
T ss_pred CCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCH
Confidence 3478999999999999999886321 11 11 111 12232 11 456666665321 001111222
Q ss_pred HH-HHHHHHHHhcCC--eEEEEEeCCCCh---hhHHHHHhhCCC-CCCCcEEEEEeCChhhhh
Q 040110 182 KS-EKTILRDYLTNK--KYFTVLDDVWIE---KIWDDLREALPD-NQIGSRALITVGPHNILT 237 (348)
Q Consensus 182 ~~-~~~~l~~~L~~k--r~LlVLDdv~~~---~~~~~l~~~l~~-~~~gskIlvTTR~~~v~~ 237 (348)
.+ ..-.+.+.|..+ .-+++||..-+. ...+.+...+.. ...|..||++|.+.....
T Consensus 91 Gq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~ 153 (176)
T cd03238 91 GELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS 153 (176)
T ss_pred HHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence 22 222344555556 778888987543 222333322221 113566888888876553
No 183
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=96.70 E-value=0.0079 Score=50.52 Aligned_cols=113 Identities=11% Similarity=0.014 Sum_probs=58.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeC--CCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVS--NFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~--~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
.+++|.|..|.|||||.+.++... ......+++.-. ...+..+.. .+.++.- .+-..-+...-.+.+
T Consensus 27 e~~~l~G~nGsGKSTLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~-----~qLS~G~~qrl~lar 95 (163)
T cd03216 27 EVHALLGENGAGKSTLMKILSGLY---KPDSGEILVDGKEVSFASPRDAR---RAGIAMV-----YQLSVGERQMVEIAR 95 (163)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEECCcCCHHHHH---hcCeEEE-----EecCHHHHHHHHHHH
Confidence 378999999999999999998762 233444544211 111111111 1111110 001111223334555
Q ss_pred HhcCCeEEEEEeCCCCh---hhHHHHHhhCCC-CCCCcEEEEEeCChhhh
Q 040110 191 YLTNKKYFTVLDDVWIE---KIWDDLREALPD-NQIGSRALITVGPHNIL 236 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~-~~~gskIlvTTR~~~v~ 236 (348)
.+-.++-+++||+.-+. .....+...+.. ...|..||++|.+...+
T Consensus 96 al~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~ 145 (163)
T cd03216 96 ALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV 145 (163)
T ss_pred HHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence 66677888999997653 222233222221 12355688888886643
No 184
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=96.70 E-value=0.0027 Score=65.94 Aligned_cols=50 Identities=16% Similarity=0.252 Sum_probs=36.8
Q ss_pred cccccccccccHHHHHhhcCCC-CC--CCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-SG--LGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-~~--~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +.|.+.+... .+ ........+.++|++|+|||++|+.++..
T Consensus 459 ~ViGQ~~ai---~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~ 511 (758)
T PRK11034 459 LVFGQDKAI---EALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA 511 (758)
T ss_pred eEeCcHHHH---HHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH
Confidence 578988888 7777776521 00 11233457889999999999999999887
No 185
>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=96.68 E-value=0.012 Score=47.89 Aligned_cols=22 Identities=14% Similarity=0.309 Sum_probs=19.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|.+.|++|+||||+|+.+...
T Consensus 1 lii~~G~pgsGKSt~a~~l~~~ 22 (143)
T PF13671_consen 1 LIILCGPPGSGKSTLAKRLAKR 22 (143)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5778999999999999999865
No 186
>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=96.67 E-value=0.004 Score=62.00 Aligned_cols=53 Identities=21% Similarity=0.245 Sum_probs=33.0
Q ss_pred cccccccccccHHHHHhhcCCCC---CCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS---GLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+.....+.+++.++..+. ..+....+-+.++|++|+|||+||+.+++.
T Consensus 56 di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 56 DVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred HhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 67887777622233344333110 011223344778999999999999999987
No 187
>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=96.67 E-value=0.016 Score=54.11 Aligned_cols=96 Identities=10% Similarity=0.059 Sum_probs=57.1
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCC----cceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc----c-cCCCC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFY----FDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL----K-IMGKD 180 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~----F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~----~-~~~~~ 180 (348)
..-.++-|+|.+|+|||+|+.+++........ =..++|++....++...+. +++..++...... . ....+
T Consensus 93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~ 171 (310)
T TIGR02236 93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYN 171 (310)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCC
Confidence 44678889999999999999998765322110 1268899988888877654 4455554431100 0 00111
Q ss_pred H---HHHHHHHHHHhcCC---eEEEEEeCCCC
Q 040110 181 Y---KSEKTILRDYLTNK---KYFTVLDDVWI 206 (348)
Q Consensus 181 ~---~~~~~~l~~~L~~k---r~LlVLDdv~~ 206 (348)
. ..+.+.+.+.+... .-++|+|.+..
T Consensus 172 ~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa 203 (310)
T TIGR02236 172 SNHQMLLVEKAEDLIKELNNPVKLLIVDSLTS 203 (310)
T ss_pred HHHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence 1 12344455555432 45899998853
No 188
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.00072 Score=67.93 Aligned_cols=55 Identities=15% Similarity=0.198 Sum_probs=43.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
+-+|.++.. ++|++.|....-...-.-.+++++|++|+|||+|++.+++. ..+.|
T Consensus 324 dHYGLekVK---eRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~a--l~Rkf 378 (782)
T COG0466 324 DHYGLEKVK---ERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKA--LGRKF 378 (782)
T ss_pred cccCchhHH---HHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHH--hCCCE
Confidence 679999999 99999995211122233369999999999999999999988 76666
No 189
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.66 E-value=0.0015 Score=53.96 Aligned_cols=25 Identities=20% Similarity=0.193 Sum_probs=21.6
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.--|+|.|++|+||||+++.+.+..
T Consensus 5 ~mki~ITG~PGvGKtTl~~ki~e~L 29 (179)
T COG1618 5 AMKIFITGRPGVGKTTLVLKIAEKL 29 (179)
T ss_pred ceEEEEeCCCCccHHHHHHHHHHHH
Confidence 3458899999999999999999773
No 190
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=96.64 E-value=0.023 Score=46.63 Aligned_cols=101 Identities=12% Similarity=0.030 Sum_probs=54.4
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYL 192 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L 192 (348)
.+++|+|..|.|||||++.+..... .....+++.-. ..++.- ..-..-....-.+.+.|
T Consensus 27 e~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~~~-------------~~i~~~-----~~lS~G~~~rv~laral 85 (144)
T cd03221 27 DRIGLVGRNGAGKSTLLKLIAGELE---PDEGIVTWGST-------------VKIGYF-----EQLSGGEKMRLALAKLL 85 (144)
T ss_pred CEEEEECCCCCCHHHHHHHHcCCCC---CCceEEEECCe-------------EEEEEE-----ccCCHHHHHHHHHHHHH
Confidence 4789999999999999999987632 22333433110 000000 00001122233355566
Q ss_pred cCCeEEEEEeCCCCh---hhHHHHHhhCCCCCCCcEEEEEeCChhhh
Q 040110 193 TNKKYFTVLDDVWIE---KIWDDLREALPDNQIGSRALITVGPHNIL 236 (348)
Q Consensus 193 ~~kr~LlVLDdv~~~---~~~~~l~~~l~~~~~gskIlvTTR~~~v~ 236 (348)
..+.-+++||+.-.. .....+...+..- +..||++|.+...+
T Consensus 86 ~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~ 130 (144)
T cd03221 86 LENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFL 130 (144)
T ss_pred hcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHH
Confidence 667788999997643 2233333332221 24578888776654
No 191
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.0088 Score=58.36 Aligned_cols=106 Identities=17% Similarity=0.142 Sum_probs=60.4
Q ss_pred CCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHH
Q 040110 108 GQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTI 187 (348)
Q Consensus 108 ~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~ 187 (348)
...+...+.+.|++|+|||+||..++.. ..|+.+--++. ++ .-..+.......
T Consensus 534 ~~s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKiiSp------e~-----------------miG~sEsaKc~~ 586 (744)
T KOG0741|consen 534 ERSPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKIISP------ED-----------------MIGLSESAKCAH 586 (744)
T ss_pred ccCcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEeCh------HH-----------------ccCccHHHHHHH
Confidence 3455666778999999999999999865 56764433321 11 011122223333
Q ss_pred HHHH----hcCCeEEEEEeCCCChhhHH------------HHHhhCCC-CCCCcEE--EEEeCChhhhhhcc
Q 040110 188 LRDY----LTNKKYFTVLDDVWIEKIWD------------DLREALPD-NQIGSRA--LITVGPHNILTSIE 240 (348)
Q Consensus 188 l~~~----L~~kr~LlVLDdv~~~~~~~------------~l~~~l~~-~~~gskI--lvTTR~~~v~~~~~ 240 (348)
+++. -+..=..||+||+...-+|- .+...+.. ...|-|. +-||....+.+.++
T Consensus 587 i~k~F~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~ 658 (744)
T KOG0741|consen 587 IKKIFEDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMG 658 (744)
T ss_pred HHHHHHHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcC
Confidence 3333 34556789999997543332 23222221 1124444 44888888888733
No 192
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=96.63 E-value=0.0055 Score=57.80 Aligned_cols=27 Identities=11% Similarity=0.219 Sum_probs=24.7
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-..+..++|+|++|+|||.+|+.+++.
T Consensus 145 ik~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 145 IKVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 356788999999999999999999998
No 193
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=96.62 E-value=0.0016 Score=63.43 Aligned_cols=55 Identities=20% Similarity=0.324 Sum_probs=37.2
Q ss_pred cccccccccccHHHHHhhcCCC-C------CCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-S------GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-~------~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
++.|.+..+ ++|.+.+.-+ . .-+-...+-+.++|++|+|||++|+.+++. ....|
T Consensus 184 DIgGl~~qi---~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e--l~~~f 245 (438)
T PTZ00361 184 DIGGLEQQI---QEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE--TSATF 245 (438)
T ss_pred HhcCHHHHH---HHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh--hCCCE
Confidence 567888888 7776665311 0 011223455778999999999999999987 44444
No 194
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=96.62 E-value=0.016 Score=54.69 Aligned_cols=107 Identities=12% Similarity=0.102 Sum_probs=63.8
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccC----CcceeEEEEeCCCCCHHHHHHHHHHHhCCC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKF----YFDCHAWVRVSNFYNFKRILDDIMKSLMPT 170 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~ 170 (348)
..|-.+|. .+-..-.++-|.|.+|+|||+|+..++-...... .-..++|++....|+...+ .+|++.++..
T Consensus 110 ~~LD~lL~----GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~ 184 (342)
T PLN03186 110 RELDKILE----GGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLN 184 (342)
T ss_pred HHHHHhhc----CCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCC
Confidence 44444444 2334566888999999999999988774421111 1126889999998888775 4556666554
Q ss_pred CCcc-----ccCCCCHHHHHHHHH---HHh-cCCeEEEEEeCCCC
Q 040110 171 SSWL-----KIMGKDYKSEKTILR---DYL-TNKKYFTVLDDVWI 206 (348)
Q Consensus 171 ~~~~-----~~~~~~~~~~~~~l~---~~L-~~kr~LlVLDdv~~ 206 (348)
.... -....+.+.+...+. ..+ ..+--|||+|.+-.
T Consensus 185 ~~~~l~~i~~~~~~~~e~~~~ll~~~~~~~~~~~~~LIVIDSI~a 229 (342)
T PLN03186 185 GADVLENVAYARAYNTDHQSELLLEAASMMAETRFALMIVDSATA 229 (342)
T ss_pred hhhhccceEEEecCCHHHHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence 2110 111234444433333 223 34567899999853
No 195
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=96.62 E-value=0.013 Score=53.40 Aligned_cols=94 Identities=16% Similarity=0.041 Sum_probs=59.6
Q ss_pred CCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHH---H
Q 040110 108 GQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKS---E 184 (348)
Q Consensus 108 ~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~---~ 184 (348)
+-+.-+++=|+|+.|+||||+|.+++-. ....-..++|++..+.+++..+..-....+..-. -....+.++ +
T Consensus 56 Gl~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~---v~~~~~~e~q~~i 130 (279)
T COG0468 56 GLPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAKQLGVDLLDNLL---VSQPDTGEQQLEI 130 (279)
T ss_pred CcccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHHHHHHhhhccee---EecCCCHHHHHHH
Confidence 3456678899999999999999998876 4444447899999999998765433322122110 112223333 3
Q ss_pred HHHHHHHhcCCeEEEEEeCCCC
Q 040110 185 KTILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 185 ~~~l~~~L~~kr~LlVLDdv~~ 206 (348)
...+......+--|+|+|.+-.
T Consensus 131 ~~~~~~~~~~~i~LvVVDSvaa 152 (279)
T COG0468 131 AEKLARSGAEKIDLLVVDSVAA 152 (279)
T ss_pred HHHHHHhccCCCCEEEEecCcc
Confidence 3333333333468999999854
No 196
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=96.62 E-value=0.0057 Score=58.61 Aligned_cols=100 Identities=17% Similarity=0.121 Sum_probs=59.1
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
....+.|+|..|.|||.|++++.+. .....+....+.+ +.+.....++..+... -...+++
T Consensus 112 ~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~----~se~f~~~~v~a~~~~-------------~~~~Fk~ 172 (408)
T COG0593 112 AYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYL----TSEDFTNDFVKALRDN-------------EMEKFKE 172 (408)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEec----cHHHHHHHHHHHHHhh-------------hHHHHHH
Confidence 4567889999999999999999998 5555553333332 3344555555444332 1234555
Q ss_pred HhcCCeEEEEEeCCCCh---hhH----HHHHhhCCCCCCCcEEEEEeCCh
Q 040110 191 YLTNKKYFTVLDDVWIE---KIW----DDLREALPDNQIGSRALITVGPH 233 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~---~~~----~~l~~~l~~~~~gskIlvTTR~~ 233 (348)
.. .-=++++||++-. +.| -.+...+.. .|-.||+|++..
T Consensus 173 ~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~--~~kqIvltsdr~ 218 (408)
T COG0593 173 KY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLE--NGKQIVLTSDRP 218 (408)
T ss_pred hh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHh--cCCEEEEEcCCC
Confidence 55 3347888999752 122 222333332 233788888643
No 197
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.60 E-value=0.045 Score=52.12 Aligned_cols=101 Identities=11% Similarity=0.109 Sum_probs=60.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
.+.++++++|+.|+||||++..++.....+ . ..+.+++.... ....+-++..++.++.+ -....+..++...+
T Consensus 204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~-g-~~V~lItaDtyR~gAveQLk~yae~lgvp----v~~~~dp~dL~~al 277 (407)
T PRK12726 204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQ-N-RTVGFITTDTFRSGAVEQFQGYADKLDVE----LIVATSPAELEEAV 277 (407)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHc-C-CeEEEEeCCccCccHHHHHHHHhhcCCCC----EEecCCHHHHHHHH
Confidence 456799999999999999999888653222 2 23555655322 23345666667766654 22234666666655
Q ss_pred HHHhc-CCeEEEEEeCCCC----hhhHHHHHhh
Q 040110 189 RDYLT-NKKYFTVLDDVWI----EKIWDDLREA 216 (348)
Q Consensus 189 ~~~L~-~kr~LlVLDdv~~----~~~~~~l~~~ 216 (348)
...-. +..=++++|-.-. ....+++...
T Consensus 278 ~~l~~~~~~D~VLIDTAGr~~~d~~~l~EL~~l 310 (407)
T PRK12726 278 QYMTYVNCVDHILIDTVGRNYLAEESVSEISAY 310 (407)
T ss_pred HHHHhcCCCCEEEEECCCCCccCHHHHHHHHHH
Confidence 54431 3446777787643 2344555443
No 198
>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=96.57 E-value=0.0084 Score=62.63 Aligned_cols=50 Identities=18% Similarity=0.235 Sum_probs=33.6
Q ss_pred cccccccccccHHHHHhhcCCC-------CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-------SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-------~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.|.+... +.|.+.+.-+ ...+-...+-+.++|++|+|||+||+++++.
T Consensus 454 di~g~~~~k---~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 454 DIGGLEEVK---QELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred hcccHHHHH---HHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 567777777 6665554310 0011223445778999999999999999987
No 199
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.57 E-value=0.0099 Score=58.80 Aligned_cols=89 Identities=16% Similarity=0.073 Sum_probs=46.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
...+++|+|++|+||||++..+......+.....+..++... .....+.++...+.++... ....+...+...+.
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v----~~a~d~~~L~~aL~ 424 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAV----HEADSAESLLDLLE 424 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCcee----EecCcHHHHHHHHH
Confidence 457899999999999999988876522221112334444321 1122233334444444321 11223344444443
Q ss_pred HHhcCCeEEEEEeCCC
Q 040110 190 DYLTNKKYFTVLDDVW 205 (348)
Q Consensus 190 ~~L~~kr~LlVLDdv~ 205 (348)
. +.+ .-+|++|..-
T Consensus 425 ~-l~~-~DLVLIDTaG 438 (559)
T PRK12727 425 R-LRD-YKLVLIDTAG 438 (559)
T ss_pred H-hcc-CCEEEecCCC
Confidence 3 333 4567777763
No 200
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=96.56 E-value=0.0035 Score=55.06 Aligned_cols=44 Identities=14% Similarity=0.130 Sum_probs=35.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++||-++.+ +++.-.-. +.++.-+.|.||+|+||||-+..+++.
T Consensus 28 dIVGNe~tv---~rl~via~------~gnmP~liisGpPG~GKTTsi~~LAr~ 71 (333)
T KOG0991|consen 28 DIVGNEDTV---ERLSVIAK------EGNMPNLIISGPPGTGKTTSILCLARE 71 (333)
T ss_pred HhhCCHHHH---HHHHHHHH------cCCCCceEeeCCCCCchhhHHHHHHHH
Confidence 799999999 77766655 445666889999999999988777765
No 201
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.56 E-value=0.0073 Score=58.14 Aligned_cols=25 Identities=24% Similarity=0.263 Sum_probs=21.9
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...++.++|++|+||||++..++..
T Consensus 222 ~~~vi~lvGptGvGKTTtaaKLA~~ 246 (432)
T PRK12724 222 QRKVVFFVGPTGSGKTTSIAKLAAK 246 (432)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3568999999999999999999865
No 202
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=96.56 E-value=0.0095 Score=52.71 Aligned_cols=22 Identities=18% Similarity=0.173 Sum_probs=20.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.|.+|+||||||+.+...
T Consensus 1 IigI~G~sGSGKTTla~~L~~~ 22 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQAL 22 (220)
T ss_pred CEEeeCCCCCCHHHHHHHHHHH
Confidence 5899999999999999999876
No 203
>PHA02774 E1; Provisional
Probab=96.55 E-value=0.012 Score=58.50 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=27.4
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
+....+.|+|++|+|||.+|..+.+- ... ..+.|++.
T Consensus 432 PKknciv~~GPP~TGKS~fa~sL~~~--L~G--~vi~fvN~ 468 (613)
T PHA02774 432 PKKNCLVIYGPPDTGKSMFCMSLIKF--LKG--KVISFVNS 468 (613)
T ss_pred CcccEEEEECCCCCCHHHHHHHHHHH--hCC--CEEEEEEC
Confidence 44557889999999999999999877 321 23456653
No 204
>PRK05480 uridine/cytidine kinase; Provisional
Probab=96.54 E-value=0.0024 Score=55.94 Aligned_cols=26 Identities=27% Similarity=0.433 Sum_probs=23.4
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
....+|+|.|.+|+|||||++.+...
T Consensus 4 ~~~~iI~I~G~sGsGKTTl~~~l~~~ 29 (209)
T PRK05480 4 KKPIIIGIAGGSGSGKTTVASTIYEE 29 (209)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 35679999999999999999999887
No 205
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=96.54 E-value=0.027 Score=58.45 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=34.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|+...+ ..+.+.+... .....-|.|+|..|+|||++|+.+++.
T Consensus 377 ~liG~S~~~---~~~~~~~~~~----a~~~~pVLI~GE~GTGK~~lA~~ih~~ 422 (686)
T PRK15429 377 EIIGRSEAM---YSVLKQVEMV----AQSDSTVLILGETGTGKELIARAIHNL 422 (686)
T ss_pred ceeecCHHH---HHHHHHHHHH----hCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence 799999888 7776655411 122234779999999999999999876
No 206
>PRK06547 hypothetical protein; Provisional
Probab=96.53 E-value=0.0033 Score=53.39 Aligned_cols=27 Identities=22% Similarity=0.135 Sum_probs=23.9
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.....+|+|.|++|+||||+|..+...
T Consensus 12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 12 GGGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred cCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 356779999999999999999999876
No 207
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=96.53 E-value=0.014 Score=52.93 Aligned_cols=94 Identities=17% Similarity=0.157 Sum_probs=57.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccC----CcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----ccCCCCH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKF----YFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----KIMGKDY 181 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----~~~~~~~ 181 (348)
.-.+.=|+|.+|+|||.|+.+++-...+.. .=..++|++-...|+...+. +|++..+...... -....+.
T Consensus 37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~ 115 (256)
T PF08423_consen 37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDL 115 (256)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCH
Confidence 445888999999999999988864422221 12368899988889887765 4666654432110 1112344
Q ss_pred HHHHHHHH---HHh-cCCeEEEEEeCCC
Q 040110 182 KSEKTILR---DYL-TNKKYFTVLDDVW 205 (348)
Q Consensus 182 ~~~~~~l~---~~L-~~kr~LlVLDdv~ 205 (348)
.++...+. ..+ ..+--|||+|.+-
T Consensus 116 ~~l~~~L~~l~~~l~~~~ikLIVIDSIa 143 (256)
T PF08423_consen 116 EELLELLEQLPKLLSESKIKLIVIDSIA 143 (256)
T ss_dssp HHHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred HHHHHHHHHHHhhccccceEEEEecchH
Confidence 44444443 333 3456799999984
No 208
>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=96.53 E-value=0.0018 Score=51.53 Aligned_cols=21 Identities=29% Similarity=0.343 Sum_probs=19.5
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.|.|.+|+||||+|+.+...
T Consensus 1 I~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 678999999999999999887
No 209
>PRK08233 hypothetical protein; Provisional
Probab=96.51 E-value=0.0023 Score=54.38 Aligned_cols=24 Identities=17% Similarity=0.302 Sum_probs=21.9
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+|+|.|.+|+||||||..+...
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~ 26 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHK 26 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 368999999999999999999876
No 210
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.51 E-value=0.013 Score=55.68 Aligned_cols=101 Identities=14% Similarity=0.092 Sum_probs=57.2
Q ss_pred CcEEEEEECCCCCcHHH-HHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTA-FAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTt-LA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
+.++++++|+.|+|||| ||+..+.-.....+. .+..++...- ....+-++..++-++.+ -.-..+..++...+
T Consensus 202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~-kVaiITtDtYRIGA~EQLk~Ya~im~vp----~~vv~~~~el~~ai 276 (407)
T COG1419 202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKK-KVAIITTDTYRIGAVEQLKTYADIMGVP----LEVVYSPKELAEAI 276 (407)
T ss_pred cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCc-ceEEEEeccchhhHHHHHHHHHHHhCCc----eEEecCHHHHHHHH
Confidence 47899999999999998 666655442223332 3455554322 34556677777777776 33345566666555
Q ss_pred HHHhcCCeEEEEEeCCCC----hhhHHHHHhhCC
Q 040110 189 RDYLTNKKYFTVLDDVWI----EKIWDDLREALP 218 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~~----~~~~~~l~~~l~ 218 (348)
.. |++.++.| +|=+-. .....++...+.
T Consensus 277 ~~-l~~~d~IL-VDTaGrs~~D~~~i~el~~~~~ 308 (407)
T COG1419 277 EA-LRDCDVIL-VDTAGRSQYDKEKIEELKELID 308 (407)
T ss_pred HH-hhcCCEEE-EeCCCCCccCHHHHHHHHHHHh
Confidence 43 34444433 355432 234445544443
No 211
>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=96.51 E-value=0.013 Score=53.55 Aligned_cols=92 Identities=14% Similarity=0.049 Sum_probs=49.2
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCH--HHHHHHHHHHhCCCCCccccCCCCHHH-HHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNF--KRILDDIMKSLMPTSSWLKIMGKDYKS-EKT 186 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~~~~~~~~~~-~~~ 186 (348)
...+++.++|++|+||||++..++... ...-..+..+... .+.. .+-+....+..+.+... .....+... ...
T Consensus 70 ~~~~vi~l~G~~G~GKTTt~akLA~~l--~~~g~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~-~~~~~dp~~~~~~ 145 (272)
T TIGR00064 70 NKPNVILFVGVNGVGKTTTIAKLANKL--KKQGKSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIK-QKEGADPAAVAFD 145 (272)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEe-CCCCCCHHHHHHH
Confidence 456899999999999999998888663 2221234445433 2322 23444455555533110 111223322 233
Q ss_pred HHHHHhcCCeEEEEEeCCC
Q 040110 187 ILRDYLTNKKYFTVLDDVW 205 (348)
Q Consensus 187 ~l~~~L~~kr~LlVLDdv~ 205 (348)
.+........=++++|-.-
T Consensus 146 ~l~~~~~~~~D~ViIDT~G 164 (272)
T TIGR00064 146 AIQKAKARNIDVVLIDTAG 164 (272)
T ss_pred HHHHHHHCCCCEEEEeCCC
Confidence 4444444445567777763
No 212
>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=96.49 E-value=0.0026 Score=66.69 Aligned_cols=55 Identities=16% Similarity=0.249 Sum_probs=38.6
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
.++|.+... +++.+++......+.....++.++|++|+|||++|+.+++. ....|
T Consensus 321 ~~~G~~~~k---~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~--l~~~~ 375 (775)
T TIGR00763 321 DHYGLKKVK---ERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA--LNRKF 375 (775)
T ss_pred hcCChHHHH---HHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH--hcCCe
Confidence 578888888 88887663110011222347889999999999999999988 44443
No 213
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=96.49 E-value=0.024 Score=53.34 Aligned_cols=45 Identities=13% Similarity=0.106 Sum_probs=31.3
Q ss_pred cccc-cccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLG-LQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vG-r~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++| -+... +.+.+.+. . ..-.....++|+.|+||||+|..+.+.
T Consensus 6 ~i~~~q~~~~---~~L~~~~~----~-~~l~ha~Lf~G~~G~gk~~~a~~la~~ 51 (329)
T PRK08058 6 QLTALQPVVV---KMLQNSIA----K-NRLSHAYLFEGAKGTGKKATALWLAKS 51 (329)
T ss_pred HHHhhHHHHH---HHHHHHHH----c-CCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 3555 55555 66777665 1 223446678999999999999988665
No 214
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=96.47 E-value=0.028 Score=53.01 Aligned_cols=96 Identities=13% Similarity=0.095 Sum_probs=59.0
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCcccc----CCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----ccCCC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVK----FYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----KIMGK 179 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----~~~~~ 179 (348)
=+.-++.-|+|.+|+|||+|+.+++-..... ..-..++|++....|+...+.+ +++.++.+.... -....
T Consensus 123 i~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~ 201 (344)
T PLN03187 123 IETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAY 201 (344)
T ss_pred CCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCC
Confidence 3455688899999999999999886432111 1123688999999899887654 566666542110 11223
Q ss_pred CHHHHHHH---HHHHh-cCCeEEEEEeCCC
Q 040110 180 DYKSEKTI---LRDYL-TNKKYFTVLDDVW 205 (348)
Q Consensus 180 ~~~~~~~~---l~~~L-~~kr~LlVLDdv~ 205 (348)
+.+++... +...+ ..+--|||+|.+-
T Consensus 202 ~~e~~~~~l~~l~~~i~~~~~~LvVIDSit 231 (344)
T PLN03187 202 TYEHQYNLLLGLAAKMAEEPFRLLIVDSVI 231 (344)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence 44443333 33333 2345688999985
No 215
>PRK04040 adenylate kinase; Provisional
Probab=96.46 E-value=0.0083 Score=51.73 Aligned_cols=24 Identities=21% Similarity=0.272 Sum_probs=21.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+|+|+|++|+||||+++.+.+.
T Consensus 2 ~~~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 2 MKVVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHH
Confidence 357899999999999999999887
No 216
>PTZ00301 uridine kinase; Provisional
Probab=96.46 E-value=0.0034 Score=55.07 Aligned_cols=24 Identities=21% Similarity=0.405 Sum_probs=21.4
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+|+|.|.+|+||||||+.+.+.
T Consensus 3 ~~iIgIaG~SgSGKTTla~~l~~~ 26 (210)
T PTZ00301 3 CTVIGISGASGSGKSSLSTNIVSE 26 (210)
T ss_pred CEEEEEECCCcCCHHHHHHHHHHH
Confidence 468999999999999999988765
No 217
>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=96.45 E-value=0.026 Score=52.72 Aligned_cols=96 Identities=9% Similarity=0.052 Sum_probs=58.6
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCcccc----CCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----ccCCC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVK----FYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----KIMGK 179 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----~~~~~ 179 (348)
=+.-+++-|+|++|+|||+|+.+++-..... ..=..++|++....++.+.+. ++++.++.+.... .....
T Consensus 93 i~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~ 171 (313)
T TIGR02238 93 IESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAY 171 (313)
T ss_pred CcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCC
Confidence 3455688899999999999998876432111 111368899988888888765 4566666542210 01112
Q ss_pred CHHHHH---HHHHHHhc-CCeEEEEEeCCC
Q 040110 180 DYKSEK---TILRDYLT-NKKYFTVLDDVW 205 (348)
Q Consensus 180 ~~~~~~---~~l~~~L~-~kr~LlVLDdv~ 205 (348)
+.++.. ..+...+. .+--|+|+|.+.
T Consensus 172 ~~e~~~~~l~~l~~~i~~~~~~LvVIDSis 201 (313)
T TIGR02238 172 TSEHQMELLDYLAAKFSEEPFRLLIVDSIM 201 (313)
T ss_pred CHHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence 333333 33333443 356689999985
No 218
>cd03281 ABC_MSH5_euk MutS5 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 sliding c
Probab=96.44 E-value=0.013 Score=51.67 Aligned_cols=122 Identities=11% Similarity=0.149 Sum_probs=59.0
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
.+++.|+|+.|.|||||.+.+....... ....|+.... ..+ ....++...++...+. .........-...+...
T Consensus 29 ~~~~~itGpNg~GKStlLk~i~~~~~la---~~G~~v~a~~-~~~-~~~d~i~~~l~~~~si-~~~~S~f~~el~~l~~~ 102 (213)
T cd03281 29 PSIMVITGPNSSGKSVYLKQVALIVFLA---HIGSFVPADS-ATI-GLVDKIFTRMSSRESV-SSGQSAFMIDLYQVSKA 102 (213)
T ss_pred ceEEEEECCCCCChHHHHHHHHHHHHHH---hCCCeeEcCC-cEE-eeeeeeeeeeCCccCh-hhccchHHHHHHHHHHH
Confidence 4788999999999999999887331110 0111111110 000 0111122222221110 00011112222223322
Q ss_pred h--cCCeEEEEEeCCCChhh-------HHHHHhhCCCC-CCCcEEEEEeCChhhhhhc
Q 040110 192 L--TNKKYFTVLDDVWIEKI-------WDDLREALPDN-QIGSRALITVGPHNILTSI 239 (348)
Q Consensus 192 L--~~kr~LlVLDdv~~~~~-------~~~l~~~l~~~-~~gskIlvTTR~~~v~~~~ 239 (348)
+ ..++.|++||..-...+ ...+...+... ..+..+|+||-+..++...
T Consensus 103 l~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~ 160 (213)
T cd03281 103 LRLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRS 160 (213)
T ss_pred HHhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhh
Confidence 2 36789999999875421 11233333222 2345799999998887763
No 219
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=96.43 E-value=0.0031 Score=55.22 Aligned_cols=26 Identities=31% Similarity=0.486 Sum_probs=22.9
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+...+++|.|++|+|||||++.+...
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence 34578999999999999999999876
No 220
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=96.43 E-value=0.012 Score=59.38 Aligned_cols=77 Identities=14% Similarity=0.208 Sum_probs=53.9
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTIL 188 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l 188 (348)
.+.-+++.++|++|.||||||.-++++ ..| .++=+++|..-+...+-..|...+.... ..+.
T Consensus 323 RP~kKilLL~GppGlGKTTLAHViAkq----aGY-sVvEINASDeRt~~~v~~kI~~avq~~s----~l~a--------- 384 (877)
T KOG1969|consen 323 RPPKKILLLCGPPGLGKTTLAHVIAKQ----AGY-SVVEINASDERTAPMVKEKIENAVQNHS----VLDA--------- 384 (877)
T ss_pred CCccceEEeecCCCCChhHHHHHHHHh----cCc-eEEEecccccccHHHHHHHHHHHHhhcc----cccc---------
Confidence 456788999999999999999999987 223 3556778888777777777766665431 1100
Q ss_pred HHHhcCCeEEEEEeCCCCh
Q 040110 189 RDYLTNKKYFTVLDDVWIE 207 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~~~ 207 (348)
.+++.-||+|.++..
T Consensus 385 ----dsrP~CLViDEIDGa 399 (877)
T KOG1969|consen 385 ----DSRPVCLVIDEIDGA 399 (877)
T ss_pred ----CCCcceEEEecccCC
Confidence 146677888888754
No 221
>CHL00195 ycf46 Ycf46; Provisional
Probab=96.42 E-value=0.014 Score=57.71 Aligned_cols=50 Identities=26% Similarity=0.311 Sum_probs=32.2
Q ss_pred cccccccccccHHHHHhhcCC----CCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPP----SSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~----~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|.+..+ +.+.+.... ....+-..++-+.++|++|+|||.+|+.+++.
T Consensus 229 dvgGl~~lK---~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e 282 (489)
T CHL00195 229 DIGGLDNLK---DWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIAND 282 (489)
T ss_pred HhcCHHHHH---HHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence 567777666 555432110 00011234456779999999999999999987
No 222
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=96.42 E-value=0.0012 Score=65.54 Aligned_cols=50 Identities=12% Similarity=0.204 Sum_probs=39.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.++.+ ++|++.|...........+++.++|++|+||||||+.+.+-
T Consensus 77 d~yGlee~i---eriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~ 126 (644)
T PRK15455 77 EFYGMEEAI---EQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL 126 (644)
T ss_pred cccCcHHHH---HHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence 689999999 99999993211122345579999999999999999999876
No 223
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.42 E-value=0.028 Score=53.89 Aligned_cols=102 Identities=12% Similarity=0.072 Sum_probs=57.7
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccC-Ccc-eeEEEEeCCCCC--HHHHHHHHHHHhCCCCCccccCCCCHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKF-YFD-CHAWVRVSNFYN--FKRILDDIMKSLMPTSSWLKIMGKDYKSEK 185 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~-~F~-~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~ 185 (348)
...+++.++|+.|+||||.+..++....... .-. .+..+++. .+. ....++..++.++.+. ....+...+.
T Consensus 172 ~~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv----~~~~~~~~l~ 246 (388)
T PRK12723 172 LKKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPV----KAIESFKDLK 246 (388)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcce----EeeCcHHHHH
Confidence 3467999999999999999988886632221 111 34444443 332 2334666666666642 2233445555
Q ss_pred HHHHHHhcCCeEEEEEeCCCCh----hhHHHHHhhCC
Q 040110 186 TILRDYLTNKKYFTVLDDVWIE----KIWDDLREALP 218 (348)
Q Consensus 186 ~~l~~~L~~kr~LlVLDdv~~~----~~~~~l~~~l~ 218 (348)
..+.+. .+.-++++|-.-.. ..+..+...+.
T Consensus 247 ~~L~~~--~~~DlVLIDTaGr~~~~~~~l~el~~~l~ 281 (388)
T PRK12723 247 EEITQS--KDFDLVLVDTIGKSPKDFMKLAEMKELLN 281 (388)
T ss_pred HHHHHh--CCCCEEEEcCCCCCccCHHHHHHHHHHHH
Confidence 555443 34567777877432 23445544443
No 224
>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=96.41 E-value=0.026 Score=46.62 Aligned_cols=22 Identities=18% Similarity=0.244 Sum_probs=19.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|+|.+|+||||||+.+...
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~ 22 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEK 22 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH
Confidence 4778999999999999998876
No 225
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=96.41 E-value=0.028 Score=50.24 Aligned_cols=94 Identities=16% Similarity=0.174 Sum_probs=57.0
Q ss_pred CCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc--------------
Q 040110 108 GQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSW-------------- 173 (348)
Q Consensus 108 ~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------------- 173 (348)
+-+.-+++.|.|.+|+|||+||.++.... .++ -..++|++... +..++.+.+. +++.+...
T Consensus 17 G~~~gs~~lI~G~pGsGKT~la~~~l~~~-~~~-ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~ 91 (237)
T TIGR03877 17 GIPERNVVLLSGGPGTGKSIFSQQFLWNG-LQM-GEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFT 91 (237)
T ss_pred CCcCCeEEEEEcCCCCCHHHHHHHHHHHH-HHc-CCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEeccc
Confidence 34456788999999999999998865442 122 23677877654 4455555433 33322100
Q ss_pred ---------c---ccCCCCHHHHHHHHHHHhcC-CeEEEEEeCCCC
Q 040110 174 ---------L---KIMGKDYKSEKTILRDYLTN-KKYFTVLDDVWI 206 (348)
Q Consensus 174 ---------~---~~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~~ 206 (348)
. .....+..++...+.+.+.. +.-++|+|.+..
T Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~ 137 (237)
T TIGR03877 92 GGIGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTT 137 (237)
T ss_pred cccccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhH
Confidence 0 01224667777777777644 445799999854
No 226
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=96.40 E-value=0.0027 Score=63.81 Aligned_cols=72 Identities=14% Similarity=0.205 Sum_probs=51.8
Q ss_pred ccCcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 80 ICDALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 80 ~~~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.+++-+|.++.. ++|+++|....-.++..-++++.+|++|||||++|+.++.. ..+.| +-++++.-.|+.+|
T Consensus 409 LdeDHYgm~dVK---eRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkF---fRfSvGG~tDvAeI 480 (906)
T KOG2004|consen 409 LDEDHYGMEDVK---ERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKF---FRFSVGGMTDVAEI 480 (906)
T ss_pred hcccccchHHHH---HHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCce---EEEeccccccHHhh
Confidence 334679999999 99999985322234455679999999999999999999988 65555 12345555555443
No 227
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=96.40 E-value=0.023 Score=51.22 Aligned_cols=123 Identities=9% Similarity=0.024 Sum_probs=72.3
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-----CCCHHHHHHHHHHHhCCCCCcc--ccCCCCHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-----FYNFKRILDDIMKSLMPTSSWL--KIMGKDYKSE 184 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-----~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~ 184 (348)
-.+++|+|.+|+||||+++.+..- ..-.. +.+++.-.+ .....+-..+++..++....-. ....-+-.+.
T Consensus 39 ge~~glVGESG~GKSTlgr~i~~L--~~pt~-G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr 115 (268)
T COG4608 39 GETLGLVGESGCGKSTLGRLILGL--EEPTS-GEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR 115 (268)
T ss_pred CCEEEEEecCCCCHHHHHHHHHcC--cCCCC-ceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence 347999999999999999999877 33232 233332111 2233455677777777543210 1111222333
Q ss_pred HH-HHHHHhcCCeEEEEEeCCCCh------hhHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 185 KT-ILRDYLTNKKYFTVLDDVWIE------KIWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 185 ~~-~l~~~L~~kr~LlVLDdv~~~------~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
+. .+.+.|.-+.-|+|.|..-+. .+.-.+...+. ...|-..+..|-+-.++..
T Consensus 116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~~ 175 (268)
T COG4608 116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVRY 175 (268)
T ss_pred hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhhh
Confidence 33 467778889999999987543 12222222221 1235668888888888877
No 228
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=96.39 E-value=0.015 Score=56.25 Aligned_cols=90 Identities=11% Similarity=0.121 Sum_probs=53.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------ 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------ 183 (348)
..++|+|..|+|||||++.+.+. .. .+.++.+-++... .+.++..+++..-+...+.. ...+.....
T Consensus 163 qrigI~G~sG~GKSTLL~~I~~~--~~--~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~ 238 (444)
T PRK08972 163 QRMGLFAGSGVGKSVLLGMMTRG--TT--ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCE 238 (444)
T ss_pred CEEEEECCCCCChhHHHHHhccC--CC--CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHH
Confidence 36899999999999999999865 22 2456666666554 45566666654422221110 111221111
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++++||++||+-.
T Consensus 239 ~A~tiAEyfrd~G~~VLl~~DslTR 263 (444)
T PRK08972 239 TATTIAEYFRDQGLNVLLLMDSLTR 263 (444)
T ss_pred HHHHHHHHHHHcCCCEEEEEcChHH
Confidence 111234444 57899999999853
No 229
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=96.39 E-value=0.076 Score=50.93 Aligned_cols=42 Identities=17% Similarity=0.178 Sum_probs=30.6
Q ss_pred HHHHhhcCCCCCC---CCCCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 95 RNLHQRLPPSSGL---GQPTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 95 ~~l~~~L~~~~~~---~~~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
++|+++|...+.. ....+.+|-.+|.-|.||||.|-.+++..
T Consensus 80 eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~l 124 (451)
T COG0541 80 EELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYL 124 (451)
T ss_pred HHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHH
Confidence 6677777631111 13457899999999999999998888773
No 230
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=96.38 E-value=0.019 Score=53.64 Aligned_cols=106 Identities=10% Similarity=0.047 Sum_probs=61.1
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccC----CcceeEEEEeCCCCCHHHHHHHHHHHhCCC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKF----YFDCHAWVRVSNFYNFKRILDDIMKSLMPT 170 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~ 170 (348)
..|-.+|. .+-..-.++.|.|.+|+|||+|+..++....... .-..++|++....++...+ .++++.++..
T Consensus 83 ~~lD~ll~----gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~ 157 (316)
T TIGR02239 83 KELDKLLG----GGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLN 157 (316)
T ss_pred HHHHHHhc----CCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCC
Confidence 44445454 3334567889999999999999998875321211 1125689988877777763 4455555443
Q ss_pred CCcc-----ccCCCCHHHHHH---HHHHHhc-CCeEEEEEeCCC
Q 040110 171 SSWL-----KIMGKDYKSEKT---ILRDYLT-NKKYFTVLDDVW 205 (348)
Q Consensus 171 ~~~~-----~~~~~~~~~~~~---~l~~~L~-~kr~LlVLDdv~ 205 (348)
.... -....+.+++.. .+...+. .+--|+|+|.+-
T Consensus 158 ~~~~l~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~LvVIDSI~ 201 (316)
T TIGR02239 158 PEDVLDNVAYARAYNTDHQLQLLQQAAAMMSESRFALLIVDSAT 201 (316)
T ss_pred hHHhhccEEEEecCChHHHHHHHHHHHHhhccCCccEEEEECcH
Confidence 2110 011123333333 3333343 356789999984
No 231
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.37 E-value=0.03 Score=47.31 Aligned_cols=24 Identities=21% Similarity=0.223 Sum_probs=21.5
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-.+++|+|..|.|||||.+.++.-
T Consensus 28 G~~~~l~G~nGsGKstLl~~i~G~ 51 (171)
T cd03228 28 GEKVAIVGPSGSGKSTLLKLLLRL 51 (171)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcC
Confidence 347899999999999999999876
No 232
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.36 E-value=0.012 Score=59.36 Aligned_cols=72 Identities=18% Similarity=0.206 Sum_probs=45.7
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC--CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF--YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
..-|.|.|+.|+|||+||+++++... +.+.-.+..++++.- ..++.+++. +...+.
T Consensus 431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~---------------------l~~vfs 488 (952)
T KOG0735|consen 431 HGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKF---------------------LNNVFS 488 (952)
T ss_pred cccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHH---------------------HHHHHH
Confidence 44678999999999999999998844 333333445554422 122222222 223344
Q ss_pred HHhcCCeEEEEEeCCC
Q 040110 190 DYLTNKKYFTVLDDVW 205 (348)
Q Consensus 190 ~~L~~kr~LlVLDdv~ 205 (348)
+.+.-.+.++||||++
T Consensus 489 e~~~~~PSiIvLDdld 504 (952)
T KOG0735|consen 489 EALWYAPSIIVLDDLD 504 (952)
T ss_pred HHHhhCCcEEEEcchh
Confidence 4555679999999996
No 233
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=96.35 E-value=0.019 Score=48.69 Aligned_cols=23 Identities=26% Similarity=0.322 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|.|||||.+.+..-
T Consensus 29 e~~~i~G~nGsGKStLl~~l~G~ 51 (173)
T cd03246 29 ESLAIIGPSGSGKSTLARLILGL 51 (173)
T ss_pred CEEEEECCCCCCHHHHHHHHHhc
Confidence 47899999999999999999876
No 234
>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=96.34 E-value=0.049 Score=48.94 Aligned_cols=124 Identities=15% Similarity=0.145 Sum_probs=73.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCcc-----cc---C---Cc---ceeEEEEeCCCC------CH----------------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNF-----VK---F---YF---DCHAWVRVSNFY------NF---------------- 156 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~-----~~---~---~F---~~~~wv~~~~~~------~~---------------- 156 (348)
.+++|+|+.|.|||||.+.+..-.. +. . .+ ..+.||+-...+ ++
T Consensus 31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~ 110 (254)
T COG1121 31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR 110 (254)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence 5899999999999999999987311 10 0 01 124444321111 11
Q ss_pred ------HHHHHHHHHHhCCCCCcc-ccCCCCHHHHHH-HHHHHhcCCeEEEEEeCCCCh------hhHHHHHhhCCCCCC
Q 040110 157 ------KRILDDIMKSLMPTSSWL-KIMGKDYKSEKT-ILRDYLTNKKYFTVLDDVWIE------KIWDDLREALPDNQI 222 (348)
Q Consensus 157 ------~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~-~l~~~L~~kr~LlVLDdv~~~------~~~~~l~~~l~~~~~ 222 (348)
.+...+.++.++...... ....-+-.+.+. .|.+.|..+.=||+||.--.. ..+-++...+...
T Consensus 111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e-- 188 (254)
T COG1121 111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE-- 188 (254)
T ss_pred cccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC--
Confidence 244555666665542210 223334444444 466778999999999985432 3344444444333
Q ss_pred CcEEEEEeCChhhhhh
Q 040110 223 GSRALITVGPHNILTS 238 (348)
Q Consensus 223 gskIlvTTR~~~v~~~ 238 (348)
|+-||+.|-+-+....
T Consensus 189 g~tIl~vtHDL~~v~~ 204 (254)
T COG1121 189 GKTVLMVTHDLGLVMA 204 (254)
T ss_pred CCEEEEEeCCcHHhHh
Confidence 7889999998776555
No 235
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.33 E-value=0.031 Score=47.32 Aligned_cols=23 Identities=22% Similarity=0.299 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|.|||||++.++..
T Consensus 27 e~~~i~G~nGsGKStLl~~l~G~ 49 (173)
T cd03230 27 EIYGLLGPNGAGKTTLIKIILGL 49 (173)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 47899999999999999999876
No 236
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.33 E-value=0.0067 Score=52.68 Aligned_cols=102 Identities=10% Similarity=0.046 Sum_probs=49.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
.++..|.|.+|+||||++..+... .... ...+.+..... +....+....+.... ++..........
T Consensus 18 ~~~~~l~G~aGtGKT~~l~~~~~~--~~~~-g~~v~~~apT~----~Aa~~L~~~~~~~a~-------Ti~~~l~~~~~~ 83 (196)
T PF13604_consen 18 DRVSVLQGPAGTGKTTLLKALAEA--LEAA-GKRVIGLAPTN----KAAKELREKTGIEAQ-------TIHSFLYRIPNG 83 (196)
T ss_dssp CSEEEEEESTTSTHHHHHHHHHHH--HHHT-T--EEEEESSH----HHHHHHHHHHTS-EE-------EHHHHTTEECCE
T ss_pred CeEEEEEECCCCCHHHHHHHHHHH--HHhC-CCeEEEECCcH----HHHHHHHHhhCcchh-------hHHHHHhcCCcc
Confidence 457778999999999999988766 2222 12333332222 222223333332211 111100000000
Q ss_pred h------cCCeEEEEEeCCCCh--hhHHHHHhhCCCCCCCcEEEEE
Q 040110 192 L------TNKKYFTVLDDVWIE--KIWDDLREALPDNQIGSRALIT 229 (348)
Q Consensus 192 L------~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~~gskIlvT 229 (348)
- ..++-+||+|++.-. ..+..+....+. .|+|+|+.
T Consensus 84 ~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilv 127 (196)
T PF13604_consen 84 DDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILV 127 (196)
T ss_dssp ECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEE
T ss_pred cccccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEE
Confidence 0 123459999998643 567777776654 35677653
No 237
>PRK06762 hypothetical protein; Provisional
Probab=96.33 E-value=0.0032 Score=52.93 Aligned_cols=23 Identities=22% Similarity=0.369 Sum_probs=21.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+|.|.|++|+||||+|+.+.+.
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 57899999999999999999877
No 238
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.33 E-value=0.036 Score=49.37 Aligned_cols=54 Identities=11% Similarity=0.075 Sum_probs=33.8
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMP 169 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~ 169 (348)
.-.++.|.|.+|+||||||.++.... .++. ..+++++ ..-+..++++.+ .+++.
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~--~e~~~~~~~~~~-~~~g~ 76 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVS--TQLTTTEFIKQM-MSLGY 76 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEe--CCCCHHHHHHHH-HHhCC
Confidence 34589999999999999986665442 1222 2345555 333556666666 34443
No 239
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=96.32 E-value=0.01 Score=50.63 Aligned_cols=22 Identities=23% Similarity=0.374 Sum_probs=20.1
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|.|.|++|+||||+|+.+.+.
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3678999999999999999988
No 240
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=96.32 E-value=0.08 Score=48.33 Aligned_cols=119 Identities=13% Similarity=0.011 Sum_probs=64.3
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCC-CCCcc--ccCCCCHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMP-TSSWL--KIMGKDYKSEKTIL 188 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~-~~~~~--~~~~~~~~~~~~~l 188 (348)
..-++|+|+.|+|||||.+.+... +... ...+++. +......+-..++...... +.... ..+..+-......+
T Consensus 111 ~~~~~i~g~~g~GKttl~~~l~~~--~~~~-~G~i~~~-g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~ 186 (270)
T TIGR02858 111 VLNTLIISPPQCGKTTLLRDLARI--LSTG-ISQLGLR-GKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGM 186 (270)
T ss_pred eeEEEEEcCCCCCHHHHHHHHhCc--cCCC-CceEEEC-CEEeecchhHHHHHHHhcccccccccccccccccchHHHHH
Confidence 457899999999999999999977 3322 2333331 1111111111233332221 10000 00000101112223
Q ss_pred HHHhc-CCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhh
Q 040110 189 RDYLT-NKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILT 237 (348)
Q Consensus 189 ~~~L~-~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~ 237 (348)
...+. ..+-++++|.+-..+.+..+...+. .|..||+||-+..+..
T Consensus 187 ~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~~ 233 (270)
T TIGR02858 187 MMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVED 233 (270)
T ss_pred HHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHHH
Confidence 33333 4788999999987777777766653 3677999998766644
No 241
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=96.30 E-value=0.021 Score=50.77 Aligned_cols=27 Identities=19% Similarity=0.223 Sum_probs=24.1
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.....+++|.|+.|+|||||++.+...
T Consensus 30 ~~~~~iigi~G~~GsGKTTl~~~L~~~ 56 (229)
T PRK09270 30 PQRRTIVGIAGPPGAGKSTLAEFLEAL 56 (229)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 356789999999999999999999876
No 242
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=96.29 E-value=0.046 Score=51.42 Aligned_cols=24 Identities=17% Similarity=0.213 Sum_probs=20.3
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...+.++|+.|+||||+|..+++.
T Consensus 22 ~ha~Lf~G~~G~GK~~~A~~~A~~ 45 (328)
T PRK05707 22 PHAYLLHGPAGIGKRALAERLAAA 45 (328)
T ss_pred ceeeeeECCCCCCHHHHHHHHHHH
Confidence 445778999999999999988765
No 243
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=96.28 E-value=0.039 Score=47.19 Aligned_cols=124 Identities=12% Similarity=0.131 Sum_probs=69.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE---eC------------------CC-----------------
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR---VS------------------NF----------------- 153 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~---~~------------------~~----------------- 153 (348)
-..+.++|++|.|||||.+.+|...+... +.+|+. ++ ++
T Consensus 28 Gef~fl~GpSGAGKSTllkLi~~~e~pt~---G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~pL 104 (223)
T COG2884 28 GEFVFLTGPSGAGKSTLLKLIYGEERPTR---GKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVALPL 104 (223)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhhhcCCC---ceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhhhh
Confidence 34788999999999999999997743221 222321 00 00
Q ss_pred ----C---CHHHHHHHHHHHhCCCCCcc--ccCCCCHHHHHHHHHHHhcCCeEEEEEeCC----CChhhHHHHHhhCCCC
Q 040110 154 ----Y---NFKRILDDIMKSLMPTSSWL--KIMGKDYKSEKTILRDYLTNKKYFTVLDDV----WIEKIWDDLREALPDN 220 (348)
Q Consensus 154 ----~---~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv----~~~~~~~~l~~~l~~~ 220 (348)
. ...+-..+.++.++...... ...-..-++.--.|.+.+-+++-+|+-|.- +....|+-+...-.-+
T Consensus 105 ~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeein 184 (223)
T COG2884 105 RVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEIN 184 (223)
T ss_pred hccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHh
Confidence 1 12222333344444432210 011122233344567777788888888864 3333444332222224
Q ss_pred CCCcEEEEEeCChhhhhh
Q 040110 221 QIGSRALITVGPHNILTS 238 (348)
Q Consensus 221 ~~gskIlvTTR~~~v~~~ 238 (348)
..|..||++|-+.++-..
T Consensus 185 r~GtTVl~ATHd~~lv~~ 202 (223)
T COG2884 185 RLGTTVLMATHDLELVNR 202 (223)
T ss_pred hcCcEEEEEeccHHHHHh
Confidence 568999999999988776
No 244
>PTZ00035 Rad51 protein; Provisional
Probab=96.26 E-value=0.054 Score=51.10 Aligned_cols=107 Identities=11% Similarity=0.052 Sum_probs=61.4
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCcccc---C-CcceeEEEEeCCCCCHHHHHHHHHHHhCCC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVK---F-YFDCHAWVRVSNFYNFKRILDDIMKSLMPT 170 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~---~-~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~ 170 (348)
..|-.+|. .+-+.-.++.|+|.+|+|||+|+..++-..... . .=..++|++-...++...+ .++++.++..
T Consensus 105 ~~LD~lLg----GGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~ 179 (337)
T PTZ00035 105 TQLDKLLG----GGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLD 179 (337)
T ss_pred HHHHHHhC----CCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCC
Confidence 34444444 334556789999999999999999887542211 1 1124668887777777663 4445555543
Q ss_pred CCcc-----ccCCCCHHHHHHHH---HHHh-cCCeEEEEEeCCCC
Q 040110 171 SSWL-----KIMGKDYKSEKTIL---RDYL-TNKKYFTVLDDVWI 206 (348)
Q Consensus 171 ~~~~-----~~~~~~~~~~~~~l---~~~L-~~kr~LlVLDdv~~ 206 (348)
.... -....+.+++...+ ...+ ..+--|||+|.+..
T Consensus 180 ~~~~l~nI~~~~~~~~e~~~~~l~~~~~~l~~~~~~lvVIDSita 224 (337)
T PTZ00035 180 PEDVLDNIAYARAYNHEHQMQLLSQAAAKMAEERFALLIVDSATA 224 (337)
T ss_pred hHhHhhceEEEccCCHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence 2110 11122334444433 3333 34567899999853
No 245
>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=96.22 E-value=0.012 Score=55.64 Aligned_cols=114 Identities=13% Similarity=0.148 Sum_probs=67.0
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
...+.|.|+.|+||||++..+.+. +..+....++. +..+... ..... ..+-... . ...+.......++..
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~--i~~~~~~~i~t-iEdp~E~--~~~~~-~~~i~q~---e-vg~~~~~~~~~l~~~ 191 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDY--INKNAAGHIIT-IEDPIEY--VHRNK-RSLINQR---E-VGLDTLSFANALRAA 191 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccCc-cceEEcc---c-cCCCCcCHHHHHHHh
Confidence 467899999999999999998876 44444445543 2322111 00000 0000000 0 011223456667888
Q ss_pred hcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
|+...=.|++|.+.+.+.+....... ..|..|+.|+-..++...
T Consensus 192 lr~~pd~i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~~~~~~ 235 (343)
T TIGR01420 192 LREDPDVILIGEMRDLETVELALTAA---ETGHLVFGTLHTNSAAQT 235 (343)
T ss_pred hccCCCEEEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCCCHHHH
Confidence 88899999999998876665543332 235557777777666554
No 246
>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=96.22 E-value=0.0038 Score=44.40 Aligned_cols=22 Identities=23% Similarity=0.400 Sum_probs=19.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|.|..|+||||+++.+.+.
T Consensus 1 ~i~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 1 IIAITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4788999999999999999877
No 247
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=96.22 E-value=0.0081 Score=49.81 Aligned_cols=45 Identities=22% Similarity=0.212 Sum_probs=33.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTS 171 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~ 171 (348)
+|.|-|++|+||||+|+.++++.-..- + +...++++|++..+.+.
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~gl~~-------v------saG~iFR~~A~e~gmsl 46 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHLGLKL-------V------SAGTIFREMARERGMSL 46 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHhCCce-------e------eccHHHHHHHHHcCCCH
Confidence 688999999999999999998832221 1 33467788888777653
No 248
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=96.22 E-value=0.0043 Score=50.57 Aligned_cols=22 Identities=23% Similarity=0.211 Sum_probs=19.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-|.|+|..|+||+++|+.++..
T Consensus 23 pvli~GE~GtGK~~~A~~lh~~ 44 (138)
T PF14532_consen 23 PVLITGEPGTGKSLLARALHRY 44 (138)
T ss_dssp -EEEECCTTSSHHHHHHCCHHT
T ss_pred cEEEEcCCCCCHHHHHHHHHhh
Confidence 4678999999999999999877
No 249
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=96.20 E-value=0.014 Score=54.03 Aligned_cols=146 Identities=16% Similarity=0.132 Sum_probs=80.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC-ccccCCcceeEEEEeCCCCCH-HHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN-NFVKFYFDCHAWVRVSNFYNF-KRIL 160 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~-~~~~~~F~~~~wv~~~~~~~~-~~~~ 160 (348)
.++|-.++. .++-.+|.+.- -.....-+.|+|+.|.|||+|......+ ....++| +-|.+...... .-.+
T Consensus 25 ~l~g~~~~~---~~l~~~lkqt~--~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al 96 (408)
T KOG2228|consen 25 NLFGVQDEQ---KHLSELLKQTI--LHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIAL 96 (408)
T ss_pred ceeehHHHH---HHHHHHHHHHH--HhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHH
Confidence 799999999 77777775321 0122234668999999999988777665 1233333 33444443332 2245
Q ss_pred HHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC------CeEEEEEeCCCCh----h---hHHHHHhhCCCCCCCcEEE
Q 040110 161 DDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN------KKYFTVLDDVWIE----K---IWDDLREALPDNQIGSRAL 227 (348)
Q Consensus 161 ~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~------kr~LlVLDdv~~~----~---~~~~l~~~l~~~~~gskIl 227 (348)
+.|.+++...-........+..+-..++...|+. -++++|+|.++-- . -.+.+...-....+-|-|-
T Consensus 97 ~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig 176 (408)
T KOG2228|consen 97 KGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIG 176 (408)
T ss_pred HHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEE
Confidence 5555555332111022233444555566666643 3689999887532 1 1111211111234667788
Q ss_pred EEeCChhhh
Q 040110 228 ITVGPHNIL 236 (348)
Q Consensus 228 vTTR~~~v~ 236 (348)
+|||-...-
T Consensus 177 ~Ttrld~lE 185 (408)
T KOG2228|consen 177 VTTRLDILE 185 (408)
T ss_pred eeccccHHH
Confidence 899976543
No 250
>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=96.20 E-value=0.023 Score=54.34 Aligned_cols=88 Identities=13% Similarity=0.060 Sum_probs=51.7
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
..-.++.|.|.+|+|||||+.+++.. ....-..++|++.... ..++ +.-+..++...... -....+.+.+.+.+
T Consensus 80 ~~GslvLI~G~pG~GKStLllq~a~~--~a~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i 154 (372)
T cd01121 80 VPGSVILIGGDPGIGKSTLLLQVAAR--LAKRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASI 154 (372)
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence 34568899999999999999998866 3222235677765432 3333 23344555432210 11223445554444
Q ss_pred HHHhcCCeEEEEEeCCC
Q 040110 189 RDYLTNKKYFTVLDDVW 205 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~ 205 (348)
. ..+.-++|+|.+.
T Consensus 155 ~---~~~~~lVVIDSIq 168 (372)
T cd01121 155 E---ELKPDLVIIDSIQ 168 (372)
T ss_pred H---hcCCcEEEEcchH
Confidence 3 2367789999984
No 251
>PRK00889 adenylylsulfate kinase; Provisional
Probab=96.19 E-value=0.032 Score=47.27 Aligned_cols=24 Identities=21% Similarity=0.151 Sum_probs=21.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..++.|.|++|+||||+|+.+...
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~ 27 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEK 27 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 458999999999999999999887
No 252
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=96.19 E-value=0.0022 Score=57.84 Aligned_cols=49 Identities=18% Similarity=0.227 Sum_probs=38.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|+|.++.. +.|.=.+... ....+..--+.++|++|.||||||.-+++.
T Consensus 27 efiGQ~~vk---~~L~ifI~AA-k~r~e~lDHvLl~GPPGlGKTTLA~IIA~E 75 (332)
T COG2255 27 EFIGQEKVK---EQLQIFIKAA-KKRGEALDHVLLFGPPGLGKTTLAHIIANE 75 (332)
T ss_pred HhcChHHHH---HHHHHHHHHH-HhcCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence 899999988 7666555421 123455667889999999999999999988
No 253
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=96.16 E-value=0.023 Score=55.62 Aligned_cols=91 Identities=12% Similarity=0.169 Sum_probs=55.1
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------H
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------E 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------~ 184 (348)
.++|.|.+|+|||||+.++.+.... ++-+.++++-++... .+.+++.++...=....+.. ...+..... .
T Consensus 145 R~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~~ 223 (461)
T PRK12597 145 KTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLT 223 (461)
T ss_pred EEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHHH
Confidence 5889999999999999998877322 244677777666543 55667666655322221110 111222211 2
Q ss_pred HHHHHHHh---cCCeEEEEEeCCC
Q 040110 185 KTILRDYL---TNKKYFTVLDDVW 205 (348)
Q Consensus 185 ~~~l~~~L---~~kr~LlVLDdv~ 205 (348)
.-.+.+++ .++++||++|++-
T Consensus 224 a~tiAEyfrd~~G~~VLl~~DslT 247 (461)
T PRK12597 224 GLTIAEYLRDEEKEDVLLFIDNIF 247 (461)
T ss_pred HHHHHHHHHHhcCCceEEEeccch
Confidence 22344555 3789999999993
No 254
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=96.16 E-value=0.04 Score=55.55 Aligned_cols=139 Identities=15% Similarity=0.081 Sum_probs=88.0
Q ss_pred ccCcccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCcc------ccCCcceeEEEEeCCC
Q 040110 80 ICDALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNF------VKFYFDCHAWVRVSNF 153 (348)
Q Consensus 80 ~~~~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~------~~~~F~~~~wv~~~~~ 153 (348)
+++.+-+|+.+. .+|-..+...-.. +..-+.+-|.|-+|+|||..+..|.+... .-..|+ .+.|+.-.-
T Consensus 394 vp~sLpcRe~E~---~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l 468 (767)
T KOG1514|consen 394 VPESLPCRENEF---SEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRL 468 (767)
T ss_pred ccccccchhHHH---HHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceee
Confidence 334677999999 8888888632111 33445888999999999999999987521 223453 455555555
Q ss_pred CCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhc-----CCeEEEEEeCCCCh-hhHHHHHhhC-CC-CCCCcE
Q 040110 154 YNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT-----NKKYFTVLDDVWIE-KIWDDLREAL-PD-NQIGSR 225 (348)
Q Consensus 154 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~-----~kr~LlVLDdv~~~-~~~~~l~~~l-~~-~~~gsk 225 (348)
....+++..|...+.... .........|..+.. .+.+++++|+++.. .--.++...+ -+ ..++||
T Consensus 469 ~~~~~~Y~~I~~~lsg~~-------~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sK 541 (767)
T KOG1514|consen 469 ASPREIYEKIWEALSGER-------VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSK 541 (767)
T ss_pred cCHHHHHHHHHHhcccCc-------ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCc
Confidence 678999999999998752 233444555555553 24688888887543 1112233222 22 346788
Q ss_pred EEEEe
Q 040110 226 ALITV 230 (348)
Q Consensus 226 IlvTT 230 (348)
++|-+
T Consensus 542 Lvvi~ 546 (767)
T KOG1514|consen 542 LVVIA 546 (767)
T ss_pred eEEEE
Confidence 76644
No 255
>PRK03839 putative kinase; Provisional
Probab=96.15 E-value=0.0041 Score=53.04 Aligned_cols=22 Identities=23% Similarity=0.386 Sum_probs=20.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|.|.|++|+||||+++.+++.
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~ 23 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4788999999999999999988
No 256
>PRK14527 adenylate kinase; Provisional
Probab=96.14 E-value=0.016 Score=49.87 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=22.1
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...++.|.|++|+||||+|+.+.+.
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4568999999999999999999866
No 257
>PTZ00088 adenylate kinase 1; Provisional
Probab=96.14 E-value=0.0087 Score=53.27 Aligned_cols=21 Identities=19% Similarity=0.430 Sum_probs=19.5
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.|.|++|+||||+|+.+...
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~ 29 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKK 29 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 778999999999999999877
No 258
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=96.14 E-value=0.0037 Score=53.70 Aligned_cols=21 Identities=19% Similarity=0.118 Sum_probs=18.4
Q ss_pred EEEEECCCCCcHHHHHHHHhc
Q 040110 114 VVAILDSRGFDKTAFAAEIYN 134 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~ 134 (348)
++.|+|+.|.||||+.+.+.-
T Consensus 1 ~~~ltG~N~~GKst~l~~i~~ 21 (185)
T smart00534 1 VVIITGPNMGGKSTYLRQVGL 21 (185)
T ss_pred CEEEECCCCCcHHHHHHHHHH
Confidence 367999999999999999873
No 259
>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=96.13 E-value=0.0046 Score=52.86 Aligned_cols=25 Identities=16% Similarity=0.248 Sum_probs=22.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...++.|.|++|+||||+|+.+...
T Consensus 2 ~~~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 2 KCKIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 3568999999999999999999865
No 260
>PRK06002 fliI flagellum-specific ATP synthase; Validated
Probab=96.12 E-value=0.037 Score=53.85 Aligned_cols=91 Identities=11% Similarity=0.149 Sum_probs=49.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc-cccCCCCHH------HHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSW-LKIMGKDYK------SEK 185 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~------~~~ 185 (348)
..++|+|..|+|||||+..+..... ....++++.-.+.-++.++....+.......-. ....+.... ...
T Consensus 166 qri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~a 242 (450)
T PRK06002 166 QRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLTA 242 (450)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHHH
Confidence 3689999999999999998876522 222444443334445555555444433111000 011111111 111
Q ss_pred HHHHHHh--cCCeEEEEEeCCCC
Q 040110 186 TILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 186 ~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
-.+.+++ +++++|+++||+-.
T Consensus 243 ~~iAEyfrd~G~~Vll~~DslTr 265 (450)
T PRK06002 243 TAIAEYFRDRGENVLLIVDSVTR 265 (450)
T ss_pred HHHHHHHHHcCCCEEEeccchHH
Confidence 2234444 47899999999853
No 261
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=96.11 E-value=0.021 Score=52.61 Aligned_cols=80 Identities=13% Similarity=0.057 Sum_probs=43.9
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc--ceeEEEEeCCCCCHHHHHHHHHHHhCCC-CCccccCCCCHHHHH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF--DCHAWVRVSNFYNFKRILDDIMKSLMPT-SSWLKIMGKDYKSEK 185 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~l~~~-~~~~~~~~~~~~~~~ 185 (348)
...+.+|+|.|..|+||||+|+.+..- ..... ..+..++...-+...+.+.. .+.. ... .....+...+.
T Consensus 59 ~~~p~IIGIaG~~GSGKSTlar~L~~l--l~~~~~~g~V~vi~~D~f~~~~~~l~~----~g~~~~~g-~P~s~D~~~l~ 131 (290)
T TIGR00554 59 AKIPYIISIAGSVAVGKSTTARILQAL--LSRWPEHRKVELITTDGFLHPNQVLKE----RNLMKKKG-FPESYDMHRLV 131 (290)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH--HhhcCCCCceEEEecccccccHHHHHH----cCCccccC-CChhccHHHHH
Confidence 345689999999999999999877544 22111 12334444433322222222 1111 001 23456777777
Q ss_pred HHHHHHhcCC
Q 040110 186 TILRDYLTNK 195 (348)
Q Consensus 186 ~~l~~~L~~k 195 (348)
..+.....++
T Consensus 132 ~~L~~Lk~g~ 141 (290)
T TIGR00554 132 KFLSDLKSGK 141 (290)
T ss_pred HHHHHHHCCC
Confidence 7776666554
No 262
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=96.11 E-value=0.036 Score=46.02 Aligned_cols=113 Identities=13% Similarity=0.106 Sum_probs=59.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC--CCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN--FYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
.+++|+|..|.|||||.+.+.... . .....+++.-.. ...... ....+... . +-..-+...-.+..
T Consensus 26 ~~~~i~G~nGsGKStll~~l~g~~--~-~~~G~i~~~~~~~~~~~~~~----~~~~i~~~----~-qlS~G~~~r~~l~~ 93 (157)
T cd00267 26 EIVALVGPNGSGKSTLLRAIAGLL--K-PTSGEILIDGKDIAKLPLEE----LRRRIGYV----P-QLSGGQRQRVALAR 93 (157)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC--C-CCccEEEECCEEcccCCHHH----HHhceEEE----e-eCCHHHHHHHHHHH
Confidence 588999999999999999998762 2 234445442211 111111 11111110 0 00111223333566
Q ss_pred HhcCCeEEEEEeCCCCh---hhHHHHHhhCCC-CCCCcEEEEEeCChhhhh
Q 040110 191 YLTNKKYFTVLDDVWIE---KIWDDLREALPD-NQIGSRALITVGPHNILT 237 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~-~~~gskIlvTTR~~~v~~ 237 (348)
.+....-+++||+.-.. .....+...+.. ...+..++++|.+.....
T Consensus 94 ~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~ 144 (157)
T cd00267 94 ALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAE 144 (157)
T ss_pred HHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence 66667889999998653 222222222211 112456888887766544
No 263
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.10 E-value=0.037 Score=53.59 Aligned_cols=25 Identities=24% Similarity=0.339 Sum_probs=21.5
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...+++++|+.|+||||++..+...
T Consensus 190 ~g~vi~lvGpnG~GKTTtlakLA~~ 214 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTAKLAAR 214 (420)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4579999999999999999887654
No 264
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.09 E-value=0.0043 Score=55.35 Aligned_cols=53 Identities=19% Similarity=0.216 Sum_probs=45.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++|.+.....+.-|++.|..+..-++-.++-|..+|++|.|||-+|+++++.
T Consensus 122 dViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane 174 (368)
T COG1223 122 DVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE 174 (368)
T ss_pred hhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcc
Confidence 68999999988888999998554445667888999999999999999999998
No 265
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=96.09 E-value=0.067 Score=53.52 Aligned_cols=46 Identities=20% Similarity=0.301 Sum_probs=36.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|....+ +++.+.+... .....-|.|+|..|+|||++|+.+++.
T Consensus 188 ~iig~s~~~---~~~~~~i~~~----a~~~~pVlI~Ge~GtGK~~~A~~ih~~ 233 (509)
T PRK05022 188 EMIGQSPAM---QQLKKEIEVV----AASDLNVLILGETGVGKELVARAIHAA 233 (509)
T ss_pred ceeecCHHH---HHHHHHHHHH----hCCCCcEEEECCCCccHHHHHHHHHHh
Confidence 799999999 8888777621 222335779999999999999999876
No 266
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=96.08 E-value=0.0087 Score=62.64 Aligned_cols=50 Identities=16% Similarity=0.262 Sum_probs=38.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+|.+..+ ++|+++|......+.....++.++|++|+||||+|+.++..
T Consensus 323 ~~~g~~~vK---~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~ 372 (784)
T PRK10787 323 DHYGLERVK---DRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA 372 (784)
T ss_pred hccCHHHHH---HHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 589999999 99998886211112223447889999999999999999976
No 267
>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=96.07 E-value=0.085 Score=47.96 Aligned_cols=52 Identities=12% Similarity=0.118 Sum_probs=34.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKS 166 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~ 166 (348)
-.++.|.|.+|+||||++.+++........ ..++|++... +..++...+...
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g-~~vl~iS~E~--~~~~~~~r~~~~ 81 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQHG-VRVGTISLEE--PVVRTARRLLGQ 81 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhcC-ceEEEEEccc--CHHHHHHHHHHH
Confidence 347778999999999999998766222212 3577877654 344555555443
No 268
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.07 E-value=0.016 Score=57.48 Aligned_cols=97 Identities=19% Similarity=0.278 Sum_probs=61.1
Q ss_pred cccccccccccHHHHHhhcCC---CC---CCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCH
Q 040110 83 ALLGLQSKIINLRNLHQRLPP---SS---GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNF 156 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~---~~---~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~ 156 (348)
++=|.+..+ .+|.+++.. ++ ..+-..++=|.++|++|+|||.||+++++. ..-.| +.++-+
T Consensus 191 diGG~d~~~---~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAge--l~vPf-----~~isAp--- 257 (802)
T KOG0733|consen 191 DIGGLDKTL---AELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGE--LGVPF-----LSISAP--- 257 (802)
T ss_pred hccChHHHH---HHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhh--cCCce-----Eeecch---
Confidence 677899888 777776642 10 112234455678999999999999999998 43333 222211
Q ss_pred HHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCC
Q 040110 157 KRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 157 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~ 206 (348)
+|+... ...+.+.+-+.+.+.-+.-.+++.+|+++-
T Consensus 258 -----eivSGv---------SGESEkkiRelF~~A~~~aPcivFiDeIDA 293 (802)
T KOG0733|consen 258 -----EIVSGV---------SGESEKKIRELFDQAKSNAPCIVFIDEIDA 293 (802)
T ss_pred -----hhhccc---------CcccHHHHHHHHHHHhccCCeEEEeecccc
Confidence 222222 233445555555555566899999999963
No 269
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=96.03 E-value=0.032 Score=54.45 Aligned_cols=91 Identities=13% Similarity=0.215 Sum_probs=53.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------H
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------E 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------~ 184 (348)
.++|.|.+|+|||||+.++......... +.++++-++... .+.+++.++...=....+.. ...+..... .
T Consensus 146 R~gIfa~~GvGKt~Ll~~i~~~~~~~~~-~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~~ 224 (463)
T PRK09280 146 KIGLFGGAGVGKTVLIQELINNIAKEHG-GYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVALT 224 (463)
T ss_pred EEEeecCCCCChhHHHHHHHHHHHhcCC-CEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHH
Confidence 5789999999999999988766221111 356666665543 56677777765422221110 112222221 1
Q ss_pred HHHHHHHh---cCCeEEEEEeCCC
Q 040110 185 KTILRDYL---TNKKYFTVLDDVW 205 (348)
Q Consensus 185 ~~~l~~~L---~~kr~LlVLDdv~ 205 (348)
.-.+.+++ +++++||++|++-
T Consensus 225 a~tiAEyfrd~~G~~VLll~DslT 248 (463)
T PRK09280 225 GLTMAEYFRDVEGQDVLLFIDNIF 248 (463)
T ss_pred HHHHHHHHHHhcCCceEEEecchH
Confidence 22355555 5689999999984
No 270
>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.
Probab=96.03 E-value=0.047 Score=49.70 Aligned_cols=94 Identities=15% Similarity=0.115 Sum_probs=56.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccc--cCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH-----
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFV--KFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS----- 183 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~--~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~----- 183 (348)
.++|.|-.|+|||+|+..+.++..+ +.+-+.++++-+++.. .+.+++.++...=....+.. ...+.....
T Consensus 71 R~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~ 150 (276)
T cd01135 71 KIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITP 150 (276)
T ss_pred EEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHH
Confidence 4789999999999999998877331 1234678888887665 56677776665422221110 111111111
Q ss_pred -HHHHHHHHhc---CCeEEEEEeCCCCh
Q 040110 184 -EKTILRDYLT---NKKYFTVLDDVWIE 207 (348)
Q Consensus 184 -~~~~l~~~L~---~kr~LlVLDdv~~~ 207 (348)
..-.+.++++ ++++|+++||+-..
T Consensus 151 ~~a~aiAEyfrd~~g~~VLl~~D~ltr~ 178 (276)
T cd01135 151 RMALTTAEYLAYEKGKHVLVILTDMTNY 178 (276)
T ss_pred HHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence 1123445542 68999999999543
No 271
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=96.03 E-value=0.037 Score=48.05 Aligned_cols=23 Identities=26% Similarity=0.420 Sum_probs=21.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|.|||||.+.+...
T Consensus 27 e~~~i~G~nGsGKStLl~~l~G~ 49 (200)
T cd03217 27 EVHALMGPNGSGKSTLAKTIMGH 49 (200)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 48999999999999999999876
No 272
>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=96.03 E-value=0.0044 Score=53.74 Aligned_cols=22 Identities=32% Similarity=0.471 Sum_probs=20.1
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|+|.|.+|+|||||++.+...
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~ 22 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQ 22 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999776
No 273
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=96.01 E-value=0.065 Score=45.68 Aligned_cols=23 Identities=22% Similarity=0.306 Sum_probs=21.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|+|||||.+.+..-
T Consensus 26 e~~~l~G~nGsGKSTLl~~l~Gl 48 (177)
T cd03222 26 EVIGIVGPNGTGKTTAVKILAGQ 48 (177)
T ss_pred CEEEEECCCCChHHHHHHHHHcC
Confidence 48999999999999999999876
No 274
>PRK04328 hypothetical protein; Provisional
Probab=96.00 E-value=0.029 Score=50.60 Aligned_cols=91 Identities=16% Similarity=0.170 Sum_probs=54.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc---------------
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL--------------- 174 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--------------- 174 (348)
+.-+++.|.|.+|+|||+|+.++.... .++ -..++|++.... ..++.+ .+++++.+....
T Consensus 21 p~gs~ili~G~pGsGKT~l~~~fl~~~-~~~-ge~~lyis~ee~--~~~i~~-~~~~~g~d~~~~~~~~~l~iid~~~~~ 95 (249)
T PRK04328 21 PERNVVLLSGGPGTGKSIFSQQFLWNG-LQM-GEPGVYVALEEH--PVQVRR-NMRQFGWDVRKYEEEGKFAIVDAFTGG 95 (249)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHH-Hhc-CCcEEEEEeeCC--HHHHHH-HHHHcCCCHHHHhhcCCEEEEeccccc
Confidence 455688899999999999999865442 222 235777776553 333333 333443321000
Q ss_pred -----------ccCCCCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 175 -----------KIMGKDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 175 -----------~~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
.....+...+...+.+.++. +.-++|+|.+.
T Consensus 96 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt 138 (249)
T PRK04328 96 IGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVS 138 (249)
T ss_pred cccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChh
Confidence 00123556667777776654 45679999984
No 275
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=96.00 E-value=0.033 Score=52.04 Aligned_cols=45 Identities=13% Similarity=0.125 Sum_probs=35.1
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+... +.+.+.+. .+ .-.....++|+.|+||+++|..+.+.
T Consensus 5 ~iiGq~~~~---~~L~~~i~----~~-rl~ha~Lf~G~~G~Gk~~~A~~~a~~ 49 (314)
T PRK07399 5 NLIGQPLAI---ELLTAAIK----QN-RIAPAYLFAGPEGVGRKLAALCFIEG 49 (314)
T ss_pred HhCCHHHHH---HHHHHHHH----hC-CCCceEEEECCCCCCHHHHHHHHHHH
Confidence 578988888 88888887 22 22357778999999999999887654
No 276
>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=95.99 E-value=0.078 Score=43.51 Aligned_cols=22 Identities=9% Similarity=0.339 Sum_probs=19.7
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.+.|++|+||||+|+.+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 3678999999999999999876
No 277
>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=95.99 E-value=0.042 Score=49.85 Aligned_cols=95 Identities=17% Similarity=0.098 Sum_probs=52.3
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCH-HHHHHHHHHHhCCCCCc----c---ccCC--
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNF-KRILDDIMKSLMPTSSW----L---KIMG-- 178 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~i~~~l~~~~~~----~---~~~~-- 178 (348)
-+.-+++.|.|.+|+|||+||.+++.... ++. ..+++++...+.+. .+-+...+..++..... . ....
T Consensus 33 ip~gs~~lI~G~pGtGKT~l~~qf~~~~a-~~G-e~vlyis~Ee~~~~~~~~l~~~a~~~g~d~~~~~~~l~~id~~~~~ 110 (259)
T TIGR03878 33 IPAYSVINITGVSDTGKSLMVEQFAVTQA-SRG-NPVLFVTVESPANFVYTSLKERAKAMGVDFDKIEENIILIDAASST 110 (259)
T ss_pred eECCcEEEEEcCCCCCHHHHHHHHHHHHH-hCC-CcEEEEEecCCchHHHHHHHHHHHHcCCCHHHHhCCEEEEECCCch
Confidence 34566888999999999999999765421 221 25677777643321 11122223334332110 0 0001
Q ss_pred ---CCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 179 ---KDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 179 ---~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
.+.+++...+....+. +.-++|+|.+.
T Consensus 111 ~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls 141 (259)
T TIGR03878 111 ELRENVPNLLATLAYAIKEYKVKNTVIDSIT 141 (259)
T ss_pred hhhhhHHHHHHHHHHHHHhhCCCEEEEcCch
Confidence 2345556666655533 45688999985
No 278
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=95.97 E-value=0.13 Score=45.14 Aligned_cols=23 Identities=13% Similarity=0.151 Sum_probs=20.8
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|.|||||.+.+...
T Consensus 38 e~~~i~G~nGsGKSTLl~~i~G~ 60 (214)
T PRK13543 38 EALLVQGDNGAGKTTLLRVLAGL 60 (214)
T ss_pred CEEEEEcCCCCCHHHHHHHHhCC
Confidence 47899999999999999999865
No 279
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=95.96 E-value=0.0065 Score=55.30 Aligned_cols=63 Identities=17% Similarity=0.031 Sum_probs=44.1
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHH
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILD 161 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 161 (348)
.+|+..|. ....+..+|+|+|.||+|||||.-.+......+.+==.++=|.-|++++--.++-
T Consensus 38 ~~ll~~l~----p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLG 100 (323)
T COG1703 38 RELLRALY----PRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILG 100 (323)
T ss_pred HHHHHHHh----hcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccc
Confidence 56777777 3355677999999999999999988877754444433555666677776544443
No 280
>PRK13531 regulatory ATPase RavA; Provisional
Probab=95.95 E-value=0.0054 Score=59.99 Aligned_cols=42 Identities=19% Similarity=0.113 Sum_probs=36.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||++.+ +.+...+. ..+ -+.|.|++|+|||+||+.+...
T Consensus 21 ~i~gre~vI---~lll~aal------ag~--hVLL~GpPGTGKT~LAraLa~~ 62 (498)
T PRK13531 21 GLYERSHAI---RLCLLAAL------SGE--SVFLLGPPGIAKSLIARRLKFA 62 (498)
T ss_pred hccCcHHHH---HHHHHHHc------cCC--CEEEECCCChhHHHHHHHHHHH
Confidence 699999999 99998888 222 3668999999999999999886
No 281
>PRK00131 aroK shikimate kinase; Reviewed
Probab=95.95 E-value=0.0064 Score=51.15 Aligned_cols=24 Identities=8% Similarity=0.151 Sum_probs=21.6
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...|.++|++|+||||+|+.++..
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHH
Confidence 347889999999999999999987
No 282
>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=95.95 E-value=0.066 Score=46.54 Aligned_cols=23 Identities=26% Similarity=0.156 Sum_probs=20.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++++|+|+.|.|||||.+.+...
T Consensus 26 ~~~~ltGpNg~GKSTllr~i~~~ 48 (199)
T cd03283 26 NGILITGSNMSGKSTFLRTIGVN 48 (199)
T ss_pred cEEEEECCCCCChHHHHHHHHHH
Confidence 78999999999999999988643
No 283
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=95.94 E-value=0.046 Score=48.63 Aligned_cols=93 Identities=13% Similarity=0.086 Sum_probs=53.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCcccc------------CCcceeE----------EEEeCCCC------------CHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVK------------FYFDCHA----------WVRVSNFY------------NFKR 158 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~------------~~F~~~~----------wv~~~~~~------------~~~~ 158 (348)
-+++|+|++|+|||||.+.++.-..-. ..-+.+. |.++-++. ...+
T Consensus 30 EfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~~~~~~vFQ~~~LlPW~Tv~~NV~l~l~~~~~~~~e~~~ 109 (248)
T COG1116 30 EFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPGPDIGYVFQEDALLPWLTVLDNVALGLELRGKSKAEARE 109 (248)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCcccCCCCCCEEEEeccCcccchhhHHhhheehhhccccchHhHHH
Confidence 379999999999999999987532111 1101111 43332221 1234
Q ss_pred HHHHHHHHhCCCCCcc---ccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCC
Q 040110 159 ILDDIMKSLMPTSSWL---KIMGKDYKSEKTILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 159 ~~~~i~~~l~~~~~~~---~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~ 206 (348)
...++++.++...... ..-+..+.+.. .|.+.|..++=+|.||.--.
T Consensus 110 ~a~~~L~~VgL~~~~~~~P~qLSGGMrQRV-aiARAL~~~P~lLLlDEPFg 159 (248)
T COG1116 110 RAKELLELVGLAGFEDKYPHQLSGGMRQRV-AIARALATRPKLLLLDEPFG 159 (248)
T ss_pred HHHHHHHHcCCcchhhcCccccChHHHHHH-HHHHHHhcCCCEEEEcCCcc
Confidence 6777777777764431 11222333433 35666667777888888654
No 284
>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=95.94 E-value=0.0063 Score=51.77 Aligned_cols=22 Identities=9% Similarity=0.173 Sum_probs=20.3
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|+|++|+|||||++.+...
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6889999999999999998876
No 285
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.93 E-value=0.04 Score=56.98 Aligned_cols=59 Identities=17% Similarity=0.054 Sum_probs=35.7
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPT 170 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~ 170 (348)
..+++++|+.|+||||.+..++...........+..++... .....+.++...+.++.+
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvp 244 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVP 244 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCC
Confidence 47999999999999999988887632222112334443321 122445556666666554
No 286
>cd03282 ABC_MSH4_euk MutS4 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 sliding c
Probab=95.92 E-value=0.0081 Score=52.52 Aligned_cols=119 Identities=13% Similarity=0.057 Sum_probs=59.0
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
..++.|.|+.|.||||+.+.+....-..+ ..+++.... .. -.+...|...++...+. .........-...+...
T Consensus 29 ~~~~~l~G~n~~GKstll~~i~~~~~la~---~G~~vpa~~-~~-l~~~d~I~~~~~~~d~~-~~~~S~fs~e~~~~~~i 102 (204)
T cd03282 29 SRFHIITGPNMSGKSTYLKQIALLAIMAQ---IGCFVPAEY-AT-LPIFNRLLSRLSNDDSM-ERNLSTFASEMSETAYI 102 (204)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHHH---cCCCcchhh-cC-ccChhheeEecCCcccc-chhhhHHHHHHHHHHHH
Confidence 36899999999999999988764321110 111221111 01 12223333333332110 00001111111122222
Q ss_pred h--cCCeEEEEEeCCCCh---hh----HHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 192 L--TNKKYFTVLDDVWIE---KI----WDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 192 L--~~kr~LlVLDdv~~~---~~----~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
+ ..++-|++||..-.. .+ ...+...+.. .|+.+|++|-+..++..
T Consensus 103 l~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~ 156 (204)
T cd03282 103 LDYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAI 156 (204)
T ss_pred HHhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHH
Confidence 2 356889999998442 11 1223333322 27789999999888775
No 287
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=95.92 E-value=0.066 Score=47.44 Aligned_cols=116 Identities=15% Similarity=0.052 Sum_probs=63.9
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc---------------
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL--------------- 174 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--------------- 174 (348)
+.-.++.|.|.+|+||||||.++.... .+ .-..++|++.... ..++... +++++......
T Consensus 18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~-~~-~g~~~~~is~e~~--~~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~ 92 (229)
T TIGR03881 18 PRGFFVAVTGEPGTGKTIFCLHFAYKG-LR-DGDPVIYVTTEES--RESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKE 92 (229)
T ss_pred cCCeEEEEECCCCCChHHHHHHHHHHH-Hh-cCCeEEEEEccCC--HHHHHHH-HHHhCCCHHHHhhcCCEEEEEccccc
Confidence 345688999999999999999876542 12 2236778876433 3343332 33332211100
Q ss_pred -----ccCCCCHHHHHHHHHHHhcC---CeEEEEEeCCCCh-----hhHH----HHHhhCCCCCCCcEEEEEeCC
Q 040110 175 -----KIMGKDYKSEKTILRDYLTN---KKYFTVLDDVWIE-----KIWD----DLREALPDNQIGSRALITVGP 232 (348)
Q Consensus 175 -----~~~~~~~~~~~~~l~~~L~~---kr~LlVLDdv~~~-----~~~~----~l~~~l~~~~~gskIlvTTR~ 232 (348)
.....+.+++...+.+.++. +.-++|+|.+... .... .+...+ ...|+.+++|+..
T Consensus 93 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~~r~~~~~l~~~l--~~~~~tvil~~~~ 165 (229)
T TIGR03881 93 KEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAMARKYSYYLKRVL--NRWNFTILLTSQY 165 (229)
T ss_pred cccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccChHHHHHHHHHHHHHH--HhCCCEEEEEecc
Confidence 01124567777777776643 3467889997532 1111 122222 2347778888763
No 288
>PRK05439 pantothenate kinase; Provisional
Probab=95.91 E-value=0.037 Score=51.46 Aligned_cols=81 Identities=17% Similarity=0.163 Sum_probs=44.9
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCC--cceeEEEEeCCCCCHHHHHHHHHHHhC-CCCCccccCCCCHHHHH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFY--FDCHAWVRVSNFYNFKRILDDIMKSLM-PTSSWLKIMGKDYKSEK 185 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~--F~~~~wv~~~~~~~~~~~~~~i~~~l~-~~~~~~~~~~~~~~~~~ 185 (348)
...+.+|+|.|.+|+||||+|..+... .... -..+.-+++..-+...+.+.. ..+. ... .+..-|.+.+.
T Consensus 83 ~~~~~iIgIaG~~gsGKSTla~~L~~~--l~~~~~~~~v~vi~~DdFy~~~~~l~~--~~l~~~kg---~Pes~D~~~l~ 155 (311)
T PRK05439 83 QKVPFIIGIAGSVAVGKSTTARLLQAL--LSRWPEHPKVELVTTDGFLYPNAVLEE--RGLMKRKG---FPESYDMRALL 155 (311)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH--HHhhCCCCceEEEeccccccCHHHHhh--hhccccCC---CcccccHHHHH
Confidence 456789999999999999999988765 2221 112333444333322222221 1111 111 22345677777
Q ss_pred HHHHHHhcCCe
Q 040110 186 TILRDYLTNKK 196 (348)
Q Consensus 186 ~~l~~~L~~kr 196 (348)
..|....+++.
T Consensus 156 ~~L~~Lk~G~~ 166 (311)
T PRK05439 156 RFLSDVKSGKP 166 (311)
T ss_pred HHHHHHHcCCC
Confidence 77776666654
No 289
>PRK08927 fliI flagellum-specific ATP synthase; Validated
Probab=95.90 E-value=0.039 Score=53.65 Aligned_cols=90 Identities=13% Similarity=0.110 Sum_probs=52.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------ 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------ 183 (348)
..++|+|..|+|||||++.+++... . +.++++-++... .+.++..+.+..-+...+.. ...+.....
T Consensus 159 qri~I~G~sG~GKTtLL~~I~~~~~---~-d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~~ 234 (442)
T PRK08927 159 QRMGIFAGSGVGKSVLLSMLARNAD---A-DVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAAY 234 (442)
T ss_pred CEEEEECCCCCCHHHHHHHHHhccC---C-CEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHHH
Confidence 4679999999999999999987722 1 345556565544 45566655554432221110 111221111
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++++|+++||+-.
T Consensus 235 ~a~tiAEyfrd~G~~Vll~~DslTr 259 (442)
T PRK08927 235 LTLAIAEYFRDQGKDVLCLMDSVTR 259 (442)
T ss_pred HHHHHHHHHHHCCCcEEEEEeCcHH
Confidence 111244444 47899999999843
No 290
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1). NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=95.90 E-value=0.12 Score=45.02 Aligned_cols=23 Identities=13% Similarity=0.326 Sum_probs=20.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|.|..|+|||||++.+...
T Consensus 35 ~~~~i~G~nGsGKSTLl~~l~Gl 57 (207)
T cd03369 35 EKIGIVGRTGAGKSTLILALFRF 57 (207)
T ss_pred CEEEEECCCCCCHHHHHHHHhcc
Confidence 47999999999999999999764
No 291
>cd03285 ABC_MSH2_euk MutS2 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 sliding c
Probab=95.88 E-value=0.0072 Score=53.57 Aligned_cols=23 Identities=13% Similarity=0.095 Sum_probs=20.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHh
Q 040110 111 THSVVAILDSRGFDKTAFAAEIY 133 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~ 133 (348)
..+++.|+|+.|.||||+.+.+.
T Consensus 29 ~~~~~~l~G~n~~GKstll~~i~ 51 (222)
T cd03285 29 KSRFLIITGPNMGGKSTYIRQIG 51 (222)
T ss_pred CCeEEEEECCCCCChHHHHHHHH
Confidence 45689999999999999988865
No 292
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.88 E-value=0.042 Score=51.42 Aligned_cols=27 Identities=15% Similarity=0.226 Sum_probs=23.5
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
....+++++|++|+||||++..++...
T Consensus 112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l 138 (318)
T PRK10416 112 KKPFVILVVGVNGVGKTTTIGKLAHKY 138 (318)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence 356899999999999999999988763
No 293
>PRK00625 shikimate kinase; Provisional
Probab=95.88 E-value=0.0063 Score=51.71 Aligned_cols=22 Identities=14% Similarity=0.138 Sum_probs=19.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|.++||+|+||||+++.+.+.
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~ 23 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKF 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3778999999999999999877
No 294
>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=95.88 E-value=0.02 Score=52.07 Aligned_cols=111 Identities=12% Similarity=0.074 Sum_probs=61.6
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
...++.|.|..|+||||++..+.+. +...-..++ .+.++.... +.. ..++.. ...........++.
T Consensus 79 ~~GlilisG~tGSGKTT~l~all~~--i~~~~~~ii--tiEdp~E~~--~~~-~~q~~v-------~~~~~~~~~~~l~~ 144 (264)
T cd01129 79 PHGIILVTGPTGSGKTTTLYSALSE--LNTPEKNII--TVEDPVEYQ--IPG-INQVQV-------NEKAGLTFARGLRA 144 (264)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEE--EECCCceec--CCC-ceEEEe-------CCcCCcCHHHHHHH
Confidence 3457889999999999999988766 322111222 232221110 000 011111 11111235567778
Q ss_pred HhcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 191 YLTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
.|+...=.++++++.+.+....+..... .|..++-|....++...
T Consensus 145 ~lR~~PD~i~vgEiR~~e~a~~~~~aa~---tGh~v~tTlHa~~~~~a 189 (264)
T cd01129 145 ILRQDPDIIMVGEIRDAETAEIAVQAAL---TGHLVLSTLHTNDAPGA 189 (264)
T ss_pred HhccCCCEEEeccCCCHHHHHHHHHHHH---cCCcEEEEeccCCHHHH
Confidence 8888888999999988876554444332 24446656665555443
No 295
>PRK06936 type III secretion system ATPase; Provisional
Probab=95.87 E-value=0.043 Score=53.30 Aligned_cols=90 Identities=12% Similarity=0.182 Sum_probs=52.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHHH-----
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKSE----- 184 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~----- 184 (348)
..++|.|..|+|||||.+.+++. ... +.++++-++... .+.++....+..-+...+.. ...+......
T Consensus 163 q~~~I~G~sG~GKStLl~~Ia~~--~~~--dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~ 238 (439)
T PRK06936 163 QRMGIFAAAGGGKSTLLASLIRS--AEV--DVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGF 238 (439)
T ss_pred CEEEEECCCCCChHHHHHHHhcC--CCC--CEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHHH
Confidence 36899999999999999999987 222 456677666554 45555544433222111110 1122222211
Q ss_pred -HHHHHHHh--cCCeEEEEEeCCCC
Q 040110 185 -KTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 -~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ .++++||++||+-.
T Consensus 239 ~a~tiAEyfrd~G~~Vll~~DslTR 263 (439)
T PRK06936 239 VATSIAEYFRDQGKRVLLLMDSVTR 263 (439)
T ss_pred HHHHHHHHHHHcCCCEEEeccchhH
Confidence 11233444 57899999999953
No 296
>PRK00279 adk adenylate kinase; Reviewed
Probab=95.85 E-value=0.022 Score=50.04 Aligned_cols=22 Identities=23% Similarity=0.176 Sum_probs=19.6
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|.|.|++|+||||+|+.++..
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~~ 23 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAEK 23 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3778999999999999998866
No 297
>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.057 Score=56.55 Aligned_cols=117 Identities=16% Similarity=0.205 Sum_probs=70.6
Q ss_pred cccccccccccHHHHHhhcCCCC-CCCC-CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS-GLGQ-PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRIL 160 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~-~~~~-~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~ 160 (348)
.++|.++.+ ..|.+.+.... +..+ .+...+.+.|+.|+|||-||++++.- +-+..+.-+-+.++ +..
T Consensus 563 ~V~gQ~eAv---~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~--~Fgse~~~IriDms------e~~ 631 (898)
T KOG1051|consen 563 RVIGQDEAV---AAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEY--VFGSEENFIRLDMS------EFQ 631 (898)
T ss_pred hccchHHHH---HHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHH--HcCCccceEEechh------hhh
Confidence 578888888 88888776431 1222 25567788999999999999999877 54444455555443 222
Q ss_pred HHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeE-EEEEeCCCCh--hhHHHHHhhC
Q 040110 161 DDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKY-FTVLDDVWIE--KIWDDLREAL 217 (348)
Q Consensus 161 ~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~-LlVLDdv~~~--~~~~~l~~~l 217 (348)
. +.+..+.+ +..--.+....|-+.++.++| .+.||||+.. +...-+...+
T Consensus 632 e-vskligsp------~gyvG~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~l 684 (898)
T KOG1051|consen 632 E-VSKLIGSP------PGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLL 684 (898)
T ss_pred h-hhhccCCC------cccccchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHH
Confidence 2 33333332 111223344567777877765 4556999765 3444444443
No 298
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=95.84 E-value=0.04 Score=51.35 Aligned_cols=90 Identities=16% Similarity=0.109 Sum_probs=56.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
+.-+++-|+|+.|+||||||.++... ....-..++|+.....++. ..+..++.+.+.. -......++..+.+
T Consensus 51 p~G~ivEi~G~~ssGKttLaL~~ia~--~q~~g~~~a~ID~e~~ld~-----~~a~~lGvdl~rllv~~P~~~E~al~~~ 123 (322)
T PF00154_consen 51 PRGRIVEIYGPESSGKTTLALHAIAE--AQKQGGICAFIDAEHALDP-----EYAESLGVDLDRLLVVQPDTGEQALWIA 123 (322)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHH--HHHTT-EEEEEESSS---H-----HHHHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred ccCceEEEeCCCCCchhhhHHHHHHh--hhcccceeEEecCcccchh-----hHHHhcCccccceEEecCCcHHHHHHHH
Confidence 34568999999999999999998876 3333347889988777765 3455566554331 11233456666766
Q ss_pred HHHhcC-CeEEEEEeCCCC
Q 040110 189 RDYLTN-KKYFTVLDDVWI 206 (348)
Q Consensus 189 ~~~L~~-kr~LlVLDdv~~ 206 (348)
...++. .--++|+|.|-.
T Consensus 124 e~lirsg~~~lVVvDSv~a 142 (322)
T PF00154_consen 124 EQLIRSGAVDLVVVDSVAA 142 (322)
T ss_dssp HHHHHTTSESEEEEE-CTT
T ss_pred HHHhhcccccEEEEecCcc
Confidence 666654 456889999854
No 299
>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=95.83 E-value=0.015 Score=47.19 Aligned_cols=42 Identities=17% Similarity=0.123 Sum_probs=30.0
Q ss_pred EEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHH
Q 040110 115 VAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILD 161 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~ 161 (348)
|.++|++|+|||+||+.++.. ... ...-+.++...+..+++.
T Consensus 2 vlL~G~~G~GKt~l~~~la~~--~~~---~~~~i~~~~~~~~~dl~g 43 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAAL--LGR---PVIRINCSSDTTEEDLIG 43 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHH--HTC---EEEEEE-TTTSTHHHHHC
T ss_pred EEEECCCCCCHHHHHHHHHHH--hhc---ceEEEEecccccccccee
Confidence 568999999999999999887 311 233456777777766554
No 300
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=95.81 E-value=0.029 Score=57.67 Aligned_cols=22 Identities=27% Similarity=0.288 Sum_probs=20.3
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-+.++|++|+|||++|+.+++.
T Consensus 187 gill~G~~G~GKt~~~~~~a~~ 208 (644)
T PRK10733 187 GVLMVGPPGTGKTLLAKAIAGE 208 (644)
T ss_pred cEEEECCCCCCHHHHHHHHHHH
Confidence 3889999999999999999887
No 301
>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=95.81 E-value=0.0074 Score=54.08 Aligned_cols=61 Identities=18% Similarity=0.103 Sum_probs=35.6
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHH
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRI 159 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~ 159 (348)
.++++.|.+ ...+..+|+|.|++|+|||||...+....+.+.+=-.++=|.-|++++--.+
T Consensus 16 ~~ll~~l~~----~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAl 76 (266)
T PF03308_consen 16 RELLKRLYP----HTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGAL 76 (266)
T ss_dssp HHHHHHHGG----GTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---S
T ss_pred HHHHHHHHh----hcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcc
Confidence 566666662 2345679999999999999999888766333222224445555666654433
No 302
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=95.81 E-value=0.079 Score=45.20 Aligned_cols=23 Identities=22% Similarity=0.339 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|.|||||.+.+..-
T Consensus 27 ~~~~i~G~nGsGKSTLl~~l~G~ 49 (182)
T cd03215 27 EIVGIAGLVGNGQTELAEALFGL 49 (182)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 47899999999999999999876
No 303
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.039 Score=54.09 Aligned_cols=55 Identities=18% Similarity=0.201 Sum_probs=39.8
Q ss_pred cccccccccccHHHHHhhcCCCC---CCCCCCcEEEEEECCCCCcHHHHHHHHhcCcc
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSS---GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNF 137 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~ 137 (348)
++-|-++...-+++++++|..+. .-+..-++=|.++|++|.|||-||++++....
T Consensus 305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~ 362 (752)
T KOG0734|consen 305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG 362 (752)
T ss_pred cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC
Confidence 45576666555599999998432 12333455677899999999999999998733
No 304
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=95.80 E-value=0.0057 Score=50.87 Aligned_cols=34 Identities=15% Similarity=-0.060 Sum_probs=25.4
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEE
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWV 148 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv 148 (348)
.+|-|+|.+|+||||||+++.+. ....-..++.+
T Consensus 3 ~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~L 36 (156)
T PF01583_consen 3 FVIWLTGLSGSGKTTLARALERR--LFARGIKVYLL 36 (156)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEE
T ss_pred EEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEe
Confidence 47889999999999999999988 43333344444
No 305
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=95.79 E-value=0.008 Score=51.10 Aligned_cols=23 Identities=13% Similarity=0.342 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++++|+|+.|+|||||++.+.+.
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHcc
Confidence 47899999999999999999886
No 306
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=95.78 E-value=0.012 Score=50.46 Aligned_cols=36 Identities=11% Similarity=0.135 Sum_probs=28.6
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR 149 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~ 149 (348)
.+++.|+|+.|+|||||+..+... ....|...+..+
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~--~~~~~~~~v~~T 37 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQE--FPDKFGRVVSHT 37 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHH--STTTEEEEEEEE
T ss_pred CCEEEEECCCCCCHHHHHHHHHHh--cccccccceeec
Confidence 357889999999999999999987 666775444443
No 307
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.76 E-value=0.059 Score=54.17 Aligned_cols=122 Identities=16% Similarity=0.145 Sum_probs=67.1
Q ss_pred CcEEEEEECCCCCcHHH-HHHHHhcCccccCCcceeEEEEeCCCCC--HHHHHHHHHHHhCCCCCcc-------------
Q 040110 111 THSVVAILDSRGFDKTA-FAAEIYNNNFVKFYFDCHAWVRVSNFYN--FKRILDDIMKSLMPTSSWL------------- 174 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTt-LA~~v~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~~------------- 174 (348)
...||.|+|..|+|||| |++.+|.+ .|...--+.+.++-. ...+.+.+...++......
T Consensus 370 ~n~vvvivgETGSGKTTQl~QyL~ed-----GY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~ 444 (1042)
T KOG0924|consen 370 ENQVVVIVGETGSGKTTQLAQYLYED-----GYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSE 444 (1042)
T ss_pred hCcEEEEEecCCCCchhhhHHHHHhc-----ccccCCeeeecCchHHHHHHHHHHHHHHhCCccccccceEEEeeecCCC
Confidence 34588999999999999 88888877 232222344455543 3456667777775443220
Q ss_pred --ccCCCCHH-HHHHHHHHHhcCCeEEEEEeCCCCh----hhHHH-HHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 175 --KIMGKDYK-SEKTILRDYLTNKKYFTVLDDVWIE----KIWDD-LREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 175 --~~~~~~~~-~~~~~l~~~L~~kr~LlVLDdv~~~----~~~~~-l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
.+.-.+.. -+.+.|....-+|=..+|+|...+. +.+-- ++..+. ....-|+||||-.-+.-+.
T Consensus 445 ~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~la-rRrdlKliVtSATm~a~kf 515 (1042)
T KOG0924|consen 445 DTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLA-RRRDLKLIVTSATMDAQKF 515 (1042)
T ss_pred ceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHH-hhccceEEEeeccccHHHH
Confidence 00011111 1222333333345567888988653 22222 223322 2236799999877665544
No 308
>PRK08149 ATP synthase SpaL; Validated
Probab=95.75 E-value=0.047 Score=52.93 Aligned_cols=90 Identities=13% Similarity=0.122 Sum_probs=51.6
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeC-CCCCHHHHHHHHHHHhCCCCCcc--ccCCCCHH------H
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVS-NFYNFKRILDDIMKSLMPTSSWL--KIMGKDYK------S 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~------~ 183 (348)
..++|+|..|+|||||+..+++.... +.++...+. +.-++.++..+............ ...+.... .
T Consensus 152 q~i~I~G~sG~GKTTLl~~i~~~~~~----dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~ 227 (428)
T PRK08149 152 QRMGIFASAGCGKTSLMNMLIEHSEA----DVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAAL 227 (428)
T ss_pred CEEEEECCCCCChhHHHHHHhcCCCC----CeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHH
Confidence 36899999999999999999876221 233333343 33456667666666433221110 11111111 1
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++++||++||+-.
T Consensus 228 ~a~tiAE~fr~~G~~Vll~~DslTr 252 (428)
T PRK08149 228 VATTVAEYFRDQGKRVVLFIDSMTR 252 (428)
T ss_pred HHHHHHHHHHHcCCCEEEEccchHH
Confidence 222233444 47899999999854
No 309
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=95.74 E-value=0.092 Score=51.84 Aligned_cols=46 Identities=13% Similarity=0.186 Sum_probs=34.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|..... .++.+.+... .....-+.|+|.+|+|||++|+.+++.
T Consensus 139 ~lig~s~~~---~~l~~~~~~~----~~~~~~vli~Ge~GtGK~~lA~~ih~~ 184 (469)
T PRK10923 139 DIIGEAPAM---QDVFRIIGRL----SRSSISVLINGESGTGKELVAHALHRH 184 (469)
T ss_pred cceecCHHH---HHHHHHHHHH----hccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence 689988877 6666655411 122334679999999999999999876
No 310
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=95.74 E-value=0.062 Score=45.90 Aligned_cols=25 Identities=16% Similarity=0.183 Sum_probs=22.3
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...++.|.|.+|+||||+|+.+...
T Consensus 17 ~~~~i~i~G~~GsGKstla~~l~~~ 41 (184)
T TIGR00455 17 RGVVIWLTGLSGSGKSTIANALEKK 41 (184)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4568999999999999999999876
No 311
>PRK06217 hypothetical protein; Validated
Probab=95.74 E-value=0.0086 Score=51.28 Aligned_cols=23 Identities=17% Similarity=0.216 Sum_probs=20.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcCc
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.|.|.|.+|+||||+|+.+....
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~l 25 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAERL 25 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHc
Confidence 48899999999999999999874
No 312
>PRK14738 gmk guanylate kinase; Provisional
Probab=95.73 E-value=0.012 Score=51.40 Aligned_cols=27 Identities=22% Similarity=0.255 Sum_probs=23.0
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
....+.+.|+|++|+|||||++.+...
T Consensus 10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 10 PAKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 446678889999999999999999755
No 313
>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta. A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.
Probab=95.73 E-value=0.041 Score=53.61 Aligned_cols=92 Identities=9% Similarity=0.192 Sum_probs=56.0
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------H
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------E 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------~ 184 (348)
.++|.|.+|+|||+|+.++.++.. +.+-+.++++-++... .+.+++.++...=....+.. ...+..... .
T Consensus 140 r~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~~ 218 (449)
T TIGR03305 140 KAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHT 218 (449)
T ss_pred EEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHHH
Confidence 578999999999999999887732 2233678888776654 45666666655322211110 111121111 2
Q ss_pred HHHHHHHhc---CCeEEEEEeCCCC
Q 040110 185 KTILRDYLT---NKKYFTVLDDVWI 206 (348)
Q Consensus 185 ~~~l~~~L~---~kr~LlVLDdv~~ 206 (348)
.-.+.++++ ++++||++||+-.
T Consensus 219 a~tiAEyfrd~~G~~VLl~~DslTR 243 (449)
T TIGR03305 219 ALTMAEYFRDDEKQDVLLLIDNIFR 243 (449)
T ss_pred HHHHHHHHHHhcCCceEEEecChHH
Confidence 223555554 5899999999854
No 314
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=95.72 E-value=0.0071 Score=52.05 Aligned_cols=22 Identities=23% Similarity=0.178 Sum_probs=20.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|+|.|.+|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKTtla~~l~~~ 22 (187)
T cd02024 1 IVGISGVTNSGKTTLAKLLQRI 22 (187)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5889999999999999999887
No 315
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=95.72 E-value=0.014 Score=51.66 Aligned_cols=124 Identities=13% Similarity=0.130 Sum_probs=67.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccc-------------cC-----Cccee--EEEEeCCCC----CHHHH---------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFV-------------KF-----YFDCH--AWVRVSNFY----NFKRI--------- 159 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~-------------~~-----~F~~~--~wv~~~~~~----~~~~~--------- 159 (348)
.+++|+|.+|+|||||++.+..-.+- .. .|..+ +|=.-.... ++.++
T Consensus 34 e~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~~~G~~~~~~~~~~~~~~~VQmVFQDp~~SLnP~~tv~~~l~Epl~~~~ 113 (252)
T COG1124 34 ETLGIVGESGSGKSTLARLLAGLEKPSSGSILLDGKPLAPKKRAKAFYRPVQMVFQDPYSSLNPRRTVGRILSEPLRPHG 113 (252)
T ss_pred CEEEEEcCCCCCHHHHHHHHhcccCCCCceEEECCcccCccccchhhccceeEEecCCccccCcchhHHHHHhhhhccCC
Confidence 37999999999999999998644211 00 12211 121111111 22222
Q ss_pred -------HHHHHHHhCCCCCcc--ccCCCCHHHHHH-HHHHHhcCCeEEEEEeCCCCh-------hhHHHHHhhCCCCCC
Q 040110 160 -------LDDIMKSLMPTSSWL--KIMGKDYKSEKT-ILRDYLTNKKYFTVLDDVWIE-------KIWDDLREALPDNQI 222 (348)
Q Consensus 160 -------~~~i~~~l~~~~~~~--~~~~~~~~~~~~-~l~~~L~~kr~LlVLDdv~~~-------~~~~~l~~~l~~~~~ 222 (348)
..+++++++.+.+.. .+..-+-.+++. .|.+.|.-+.-+||+|..-+. ..|+.+...- ...
T Consensus 114 ~~~~~~~i~~~L~~VgL~~~~l~R~P~eLSGGQ~QRiaIARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~l~--~~~ 191 (252)
T COG1124 114 LSKSQQRIAELLDQVGLPPSFLDRRPHELSGGQRQRIAIARALIPEPKLLILDEPTSALDVSVQAQILNLLLELK--KER 191 (252)
T ss_pred ccHHHHHHHHHHHHcCCCHHHHhcCchhcChhHHHHHHHHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHHHH--Hhc
Confidence 345566666653321 111223333333 477788889999999987543 2344333221 123
Q ss_pred CcEEEEEeCChhhhhh
Q 040110 223 GSRALITVGPHNILTS 238 (348)
Q Consensus 223 gskIlvTTR~~~v~~~ 238 (348)
+--+|+.|.+-.++..
T Consensus 192 ~lt~l~IsHdl~~v~~ 207 (252)
T COG1124 192 GLTYLFISHDLALVEH 207 (252)
T ss_pred CceEEEEeCcHHHHHH
Confidence 4568888888777765
No 316
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.02 Score=59.06 Aligned_cols=44 Identities=23% Similarity=0.330 Sum_probs=35.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++||+.++ +++++.|. ....+..++ +|.+|||||+++.-++.+
T Consensus 171 PvIGRd~EI---~r~iqIL~----RR~KNNPvL--iGEpGVGKTAIvEGLA~r 214 (786)
T COG0542 171 PVIGRDEEI---RRTIQILS----RRTKNNPVL--VGEPGVGKTAIVEGLAQR 214 (786)
T ss_pred CCcChHHHH---HHHHHHHh----ccCCCCCeE--ecCCCCCHHHHHHHHHHH
Confidence 579999999 99999998 444555554 899999999987766654
No 317
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=95.71 E-value=0.009 Score=53.64 Aligned_cols=59 Identities=10% Similarity=0.137 Sum_probs=37.0
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEE---------eCCCCCHHHH--HHHHHHHhCC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVR---------VSNFYNFKRI--LDDIMKSLMP 169 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~---------~~~~~~~~~~--~~~i~~~l~~ 169 (348)
-..+.+|.++||+|+||||+.+.++.+ ....+....-++ ..-+.++.+. .++..++.+.
T Consensus 16 ~~~p~~ilVvGMAGSGKTTF~QrL~~h--l~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~L 85 (366)
T KOG1532|consen 16 IQRPVIILVVGMAGSGKTTFMQRLNSH--LHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQL 85 (366)
T ss_pred ccCCcEEEEEecCCCCchhHHHHHHHH--HhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCC
Confidence 345567788999999999999999987 444433222222 2334455554 4566665544
No 318
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.71 E-value=0.05 Score=53.58 Aligned_cols=59 Identities=17% Similarity=0.055 Sum_probs=35.7
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPT 170 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~ 170 (348)
..|++++|+.|+||||++..++.....+..-..+..+.... .....+-++...+.++.+
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVp 315 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVP 315 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCC
Confidence 47999999999999999999987632222111234444322 223344555555555543
No 319
>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=95.71 E-value=0.063 Score=47.99 Aligned_cols=22 Identities=18% Similarity=0.211 Sum_probs=18.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+..|+|++|+|||+||..++-.
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~ 24 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALA 24 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHH
Confidence 4567999999999999998764
No 320
>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=95.70 E-value=0.0082 Score=50.99 Aligned_cols=23 Identities=9% Similarity=0.174 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++|.+.|++|+||||+|+.+...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 47889999999999999999876
No 321
>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]
Probab=95.69 E-value=0.18 Score=45.99 Aligned_cols=115 Identities=15% Similarity=0.115 Sum_probs=75.3
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.|+|-.... ++..++.+ ....-+...++|+.|+|||+-++.+++. .+..+-+..++.++...++..
T Consensus 73 ~~l~tkt~r----~~~~~~~~----A~k~g~l~~vyg~~g~gKt~a~~~y~~s------~p~~~l~~~~p~~~a~~~i~~ 138 (297)
T COG2842 73 DFLETKTVR----RIFFRTRP----ASKTGSLVVVYGYAGLGKTQAAKNYAPS------NPNALLIEADPSYTALVLILI 138 (297)
T ss_pred cccccchhH----hHhhhhhh----hhhcCceEEEeccccchhHHHHHhhccc------CccceeecCChhhHHHHHHHH
Confidence 777765543 45555552 2223337788999999999999998877 222333456666776666666
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhC
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREAL 217 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l 217 (348)
+....... ...........+...+++..-+++.|+.... ..++.+....
T Consensus 139 i~~~~~~~------~~~~~~d~~~~~~~~l~~~~~~iivDEA~~L~~~ale~lr~i~ 189 (297)
T COG2842 139 ICAAAFGA------TDGTINDLTERLMIRLRDTVRLIIVDEADRLPYRALEELRRIH 189 (297)
T ss_pred HHHHHhcc------cchhHHHHHHHHHHHHccCcceeeeehhhccChHHHHHHHHHH
Confidence 66655543 2335566667777778888889999998764 5556655443
No 322
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=95.69 E-value=0.0079 Score=61.26 Aligned_cols=75 Identities=11% Similarity=-0.004 Sum_probs=56.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.+..+ +.|...+. .. +.+.++|.+|+||||+|+.+.+.. -..+|+..+|..- ...+...+++.
T Consensus 32 ~vigq~~a~---~~L~~~~~------~~--~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~n-p~~~~~~~~~~ 98 (637)
T PRK13765 32 QVIGQEHAV---EVIKKAAK------QR--RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPN-PEDPNNPKIRT 98 (637)
T ss_pred HcCChHHHH---HHHHHHHH------hC--CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeC-CCcchHHHHHH
Confidence 789998888 87777676 11 257789999999999999998772 2234577778654 44477888888
Q ss_pred HHHHhCCC
Q 040110 163 IMKSLMPT 170 (348)
Q Consensus 163 i~~~l~~~ 170 (348)
++.+++..
T Consensus 99 v~~~~G~~ 106 (637)
T PRK13765 99 VPAGKGKQ 106 (637)
T ss_pred HHHhcCHH
Confidence 88877654
No 323
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=95.68 E-value=0.012 Score=49.92 Aligned_cols=25 Identities=20% Similarity=0.214 Sum_probs=22.7
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...+++|+|..|+|||||+..+...
T Consensus 5 ~~~ii~ivG~sgsGKTTLi~~li~~ 29 (173)
T PRK10751 5 MIPLLAIAAWSGTGKTTLLKKLIPA 29 (173)
T ss_pred CceEEEEECCCCChHHHHHHHHHHH
Confidence 4669999999999999999999877
No 324
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=95.66 E-value=0.0099 Score=48.45 Aligned_cols=21 Identities=10% Similarity=0.346 Sum_probs=19.6
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
++|+|+.|+|||||++.+...
T Consensus 2 i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 678999999999999999877
No 325
>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=95.66 E-value=0.058 Score=52.26 Aligned_cols=91 Identities=13% Similarity=0.099 Sum_probs=49.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc--ccCCCCH-HH-----H
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL--KIMGKDY-KS-----E 184 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~-~~-----~ 184 (348)
..++|+|..|+|||||++.+... .+. ...++...-.+.-.+.++..+.+..-+...+.. ...+... .. .
T Consensus 141 q~i~I~G~sG~GKTtLl~~I~~~--~~~-~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~ 217 (418)
T TIGR03498 141 QRLGIFAGSGVGKSTLLSMLARN--TDA-DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYT 217 (418)
T ss_pred cEEEEECCCCCChHHHHHHHhCC--CCC-CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHH
Confidence 46899999999999999988876 222 222332222333445556665544332221110 1111111 11 1
Q ss_pred HHHHHHHh--cCCeEEEEEeCCCC
Q 040110 185 KTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 ~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ +++++||++||+-.
T Consensus 218 a~~iAEyfrd~G~~Vll~~DslTr 241 (418)
T TIGR03498 218 ATAIAEYFRDQGKDVLLLMDSVTR 241 (418)
T ss_pred HHHHHHHHHHcCCCEEEeccchhH
Confidence 11244444 46899999999854
No 326
>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=95.65 E-value=0.038 Score=52.02 Aligned_cols=44 Identities=20% Similarity=0.279 Sum_probs=29.2
Q ss_pred cccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 85 LGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 85 vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|....+ +++.+.+... .....-|.|+|..|+||+++|+.+++.
T Consensus 2 iG~S~~m---~~~~~~~~~~----a~~~~pVLI~GE~GtGK~~lAr~iH~~ 45 (329)
T TIGR02974 2 IGESNAF---LEVLEQVSRL----APLDRPVLIIGERGTGKELIAARLHYL 45 (329)
T ss_pred CcCCHHH---HHHHHHHHHH----hCCCCCEEEECCCCChHHHHHHHHHHh
Confidence 5555555 5555555411 112233679999999999999999865
No 327
>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=95.65 E-value=0.012 Score=52.10 Aligned_cols=93 Identities=19% Similarity=0.187 Sum_probs=56.0
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc-------------cc
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSW-------------LK 175 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------------~~ 175 (348)
=+.-+++.|.|.+|+|||+|+.++.... .++.=..++|++...+ ..++.+.+. .++.+... +.
T Consensus 16 ip~gs~~li~G~~GsGKT~l~~q~l~~~-~~~~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~ 91 (226)
T PF06745_consen 16 IPKGSVVLISGPPGSGKTTLALQFLYNG-LKNFGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPE 91 (226)
T ss_dssp EETTSEEEEEESTTSSHHHHHHHHHHHH-HHHHT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGG
T ss_pred CCCCcEEEEEeCCCCCcHHHHHHHHHHh-hhhcCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEecccc
Confidence 3455688999999999999999866442 2220125677776544 344444433 44432111 01
Q ss_pred cC---CCCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 176 IM---GKDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 176 ~~---~~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
.. ..+...+...+.+.++. +...+|+|.+.
T Consensus 92 ~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls 125 (226)
T PF06745_consen 92 RIGWSPNDLEELLSKIREAIEELKPDRVVIDSLS 125 (226)
T ss_dssp GST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred cccccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence 01 45778888888888765 55899999874
No 328
>PRK13947 shikimate kinase; Provisional
Probab=95.65 E-value=0.0087 Score=50.41 Aligned_cols=22 Identities=14% Similarity=0.237 Sum_probs=20.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-|.|+|++|+||||+|+.+.+.
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~ 24 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATT 24 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 3789999999999999999887
No 329
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=95.64 E-value=0.037 Score=52.00 Aligned_cols=46 Identities=22% Similarity=0.296 Sum_probs=34.0
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|..... .++.+.+... .....-|.|+|..|+||+++|+.++..
T Consensus 7 ~liG~S~~~---~~~~~~i~~~----a~~~~pVlI~GE~GtGK~~lA~~iH~~ 52 (326)
T PRK11608 7 NLLGEANSF---LEVLEQVSRL----APLDKPVLIIGERGTGKELIASRLHYL 52 (326)
T ss_pred ccEECCHHH---HHHHHHHHHH----hCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence 688988888 7777766521 112224668999999999999999865
No 330
>PRK14528 adenylate kinase; Provisional
Probab=95.64 E-value=0.037 Score=47.53 Aligned_cols=23 Identities=13% Similarity=0.160 Sum_probs=20.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.+.|.|++|+||||+|+.+...
T Consensus 2 ~~i~i~G~pGsGKtt~a~~la~~ 24 (186)
T PRK14528 2 KNIIFMGPPGAGKGTQAKILCER 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35788999999999999999766
No 331
>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.
Probab=95.63 E-value=0.076 Score=48.33 Aligned_cols=98 Identities=13% Similarity=0.137 Sum_probs=53.2
Q ss_pred EEEEECCCCCcHHHHH-HHHhcCccccCCccee-EEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH-----
Q 040110 114 VVAILDSRGFDKTAFA-AEIYNNNFVKFYFDCH-AWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS----- 183 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA-~~v~~~~~~~~~F~~~-~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~----- 183 (348)
.++|.|..|+|||+|| ..+.+. . +-+.+ +++-++... .+.++..++...-....... ...+.....
T Consensus 71 r~~Ifg~~g~GKt~L~l~~i~~~--~--~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~ 146 (274)
T cd01132 71 RELIIGDRQTGKTAIAIDTIINQ--K--GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAP 146 (274)
T ss_pred EEEeeCCCCCCccHHHHHHHHHh--c--CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHH
Confidence 4789999999999996 556554 2 22333 566666554 45666666664322111110 111111111
Q ss_pred -HHHHHHHHh--cCCeEEEEEeCCCCh-hhHHHHHh
Q 040110 184 -EKTILRDYL--TNKKYFTVLDDVWIE-KIWDDLRE 215 (348)
Q Consensus 184 -~~~~l~~~L--~~kr~LlVLDdv~~~-~~~~~l~~ 215 (348)
..-.+.+++ +++.+|+++||+-.. ..+.++..
T Consensus 147 ~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEisl 182 (274)
T cd01132 147 YTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMSL 182 (274)
T ss_pred HHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHHH
Confidence 112233333 478999999999654 44555443
No 332
>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....
Probab=95.59 E-value=0.044 Score=48.22 Aligned_cols=87 Identities=15% Similarity=0.196 Sum_probs=51.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCc--cccCCCCH---------
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSW--LKIMGKDY--------- 181 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~--~~~~~~~~--------- 181 (348)
.++|.|.+|+|||+|+..+.++. . -+..+++.+++. ..+.++.+++...-...... ....+...
T Consensus 17 r~~I~g~~g~GKt~Ll~~i~~~~--~--~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~~ 92 (215)
T PF00006_consen 17 RIGIFGGAGVGKTVLLQEIANNQ--D--ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPYT 92 (215)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHC--T--TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHHH
T ss_pred EEEEEcCcccccchhhHHHHhcc--c--ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhcc
Confidence 47899999999999999998883 2 234477777655 45666666664431111100 01111111
Q ss_pred -HHHHHHHHHHhcCCeEEEEEeCCCC
Q 040110 182 -KSEKTILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 182 -~~~~~~l~~~L~~kr~LlVLDdv~~ 206 (348)
-...++++. +++++|+++||+-.
T Consensus 93 a~t~AEyfrd--~G~dVlli~Dsltr 116 (215)
T PF00006_consen 93 ALTIAEYFRD--QGKDVLLIIDSLTR 116 (215)
T ss_dssp HHHHHHHHHH--TTSEEEEEEETHHH
T ss_pred chhhhHHHhh--cCCceeehhhhhHH
Confidence 112223333 68999999999843
No 333
>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=95.59 E-value=0.0089 Score=51.11 Aligned_cols=22 Identities=41% Similarity=0.549 Sum_probs=20.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|+|.|.+|+||||||..+...
T Consensus 1 ii~i~G~sgsGKttla~~l~~~ 22 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQ 22 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999876
No 334
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=95.59 E-value=0.012 Score=53.77 Aligned_cols=34 Identities=18% Similarity=0.208 Sum_probs=25.0
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+++.+. ..+. -+.++|+.|+|||++++...+.
T Consensus 23 ~~ll~~l~------~~~~-pvLl~G~~GtGKT~li~~~l~~ 56 (272)
T PF12775_consen 23 SYLLDLLL------SNGR-PVLLVGPSGTGKTSLIQNFLSS 56 (272)
T ss_dssp HHHHHHHH------HCTE-EEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHHHH------HcCC-cEEEECCCCCchhHHHHhhhcc
Confidence 45556565 2233 4568999999999999998866
No 335
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=95.57 E-value=0.059 Score=45.61 Aligned_cols=83 Identities=8% Similarity=0.061 Sum_probs=45.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhc
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT 193 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~ 193 (348)
++.|.|.+|+||||+|..+... ... ..+++.-...+ -.++.+.|.......... -..-+....+...+.....
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~--~~~---~~~~iat~~~~-~~e~~~ri~~h~~~R~~~-w~t~E~~~~l~~~i~~~~~ 75 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQ--SGL---QVLYIATAQPF-DDEMAARIAHHRQRRPAH-WQTVEEPLDLAELLRADAA 75 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHH--cCC---CcEeCcCCCCC-hHHHHHHHHHHHhcCCCC-CeEecccccHHHHHHhhcC
Confidence 5789999999999999998866 211 23344333333 345556665544332111 1111122234444544343
Q ss_pred CCeEEEEEeCC
Q 040110 194 NKKYFTVLDDV 204 (348)
Q Consensus 194 ~kr~LlVLDdv 204 (348)
+ .-++++|.+
T Consensus 76 ~-~~~VlID~L 85 (170)
T PRK05800 76 P-GRCVLVDCL 85 (170)
T ss_pred C-CCEEEehhH
Confidence 3 336888886
No 336
>cd03287 ABC_MSH3_euk MutS3 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 sliding c
Probab=95.56 E-value=0.12 Score=45.72 Aligned_cols=108 Identities=10% Similarity=0.003 Sum_probs=57.7
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccc--cC-----------CcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFV--KF-----------YFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIM 177 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~--~~-----------~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~ 177 (348)
...++.|.|+.|.||||+.+.+...... .. .|+ .++..+...-++.. .
T Consensus 30 ~g~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~-~i~~~~~~~d~~~~------------------~ 90 (222)
T cd03287 30 GGYCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFD-SVLTRMGASDSIQH------------------G 90 (222)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccc-eEEEEecCcccccc------------------c
Confidence 3457889999999999999888652100 01 111 22222222211111 1
Q ss_pred CCCHHHHHHHHHHHh--cCCeEEEEEeCCCCh----h--h-HHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 178 GKDYKSEKTILRDYL--TNKKYFTVLDDVWIE----K--I-WDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 178 ~~~~~~~~~~l~~~L--~~kr~LlVLDdv~~~----~--~-~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
......-...+...+ .+++.|++||..-.. + . ...+...+... .++.+|++|....++..
T Consensus 91 ~StF~~e~~~~~~il~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~ 159 (222)
T cd03287 91 MSTFMVELSETSHILSNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEI 159 (222)
T ss_pred cchHHHHHHHHHHHHHhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHH
Confidence 111222222333333 247899999997432 1 1 12233444332 47889999999888664
No 337
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=95.56 E-value=0.0092 Score=48.66 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=20.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|.|.|.+|+||||+|+.+...
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999876
No 338
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=95.55 E-value=0.089 Score=54.17 Aligned_cols=46 Identities=17% Similarity=0.190 Sum_probs=33.4
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|..... .++.+.+... ..... -|.|+|..|+||+++|+.+++.
T Consensus 326 ~l~g~s~~~---~~~~~~~~~~---a~~~~-pvli~Ge~GtGK~~~A~~ih~~ 371 (638)
T PRK11388 326 HMPQDSPQM---RRLIHFGRQA---AKSSF-PVLLCGEEGVGKALLAQAIHNE 371 (638)
T ss_pred ceEECCHHH---HHHHHHHHHH---hCcCC-CEEEECCCCcCHHHHHHHHHHh
Confidence 688888777 6666665421 11222 3679999999999999999876
No 339
>PRK13948 shikimate kinase; Provisional
Probab=95.55 E-value=0.013 Score=50.28 Aligned_cols=26 Identities=19% Similarity=0.132 Sum_probs=22.8
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.....|.++|+.|+||||+++.+.+.
T Consensus 8 ~~~~~I~LiG~~GsGKSTvg~~La~~ 33 (182)
T PRK13948 8 RPVTWVALAGFMGTGKSRIGWELSRA 33 (182)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 34567889999999999999999987
No 340
>PRK03846 adenylylsulfate kinase; Provisional
Probab=95.54 E-value=0.014 Score=50.69 Aligned_cols=26 Identities=15% Similarity=0.112 Sum_probs=23.2
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
....++.|+|++|+||||||+.+...
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~~ 47 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEEA 47 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 45679999999999999999999876
No 341
>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=95.54 E-value=0.0078 Score=46.79 Aligned_cols=21 Identities=24% Similarity=0.434 Sum_probs=18.6
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|-|+|.+|+|||+||..++.+
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~ 21 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKD 21 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 358999999999999998876
No 342
>PRK05922 type III secretion system ATPase; Validated
Probab=95.54 E-value=0.12 Score=50.20 Aligned_cols=89 Identities=8% Similarity=0.184 Sum_probs=49.6
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------H
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWL--KIMGKDYKS------E 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------~ 184 (348)
.++|+|..|+|||||.+.+.+.. . . +....+.++. ...+...+.+....+....+.. ...+..... .
T Consensus 159 rigI~G~nG~GKSTLL~~Ia~~~--~-~-d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~~ 234 (434)
T PRK05922 159 RIGVFSEPGSGKSSLLSTIAKGS--K-S-TINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRA 234 (434)
T ss_pred EEEEECCCCCChHHHHHHHhccC--C-C-CceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHHH
Confidence 58999999999999999998762 1 1 3333333333 2344455555544433322110 111111111 1
Q ss_pred HHHHHHHh--cCCeEEEEEeCCCC
Q 040110 185 KTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 ~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ +++++||++||+-.
T Consensus 235 a~tiAEyfrd~G~~VLl~~DslTR 258 (434)
T PRK05922 235 AMTIAEYFRDQGHRVLFIMDSLSR 258 (434)
T ss_pred HHHHHHHHHHcCCCEEEeccchhH
Confidence 12244444 47899999999853
No 343
>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=95.53 E-value=0.034 Score=51.85 Aligned_cols=114 Identities=13% Similarity=0.116 Sum_probs=59.6
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
...+.|.|..|+|||||++.+... +.... .++.+.-..+..... .... ++.... .......-...+.+...
T Consensus 144 ~~~ili~G~tGsGKTTll~al~~~--~~~~~-~iv~ied~~El~~~~--~~~~-~l~~~~---~~~~~~~~~~~~~l~~~ 214 (308)
T TIGR02788 144 RKNIIISGGTGSGKTTFLKSLVDE--IPKDE-RIITIEDTREIFLPH--PNYV-HLFYSK---GGQGLAKVTPKDLLQSC 214 (308)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcc--CCccc-cEEEEcCccccCCCC--CCEE-EEEecC---CCCCcCccCHHHHHHHH
Confidence 457889999999999999998876 32221 122221111111100 0000 000000 00011112344556667
Q ss_pred hcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhh
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILT 237 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~ 237 (348)
|+...=.+++|.+.+.+.++.+ ..+..+..| ++.|+...+.+.
T Consensus 215 Lr~~pd~ii~gE~r~~e~~~~l-~a~~~g~~~--~i~T~Ha~~~~~ 257 (308)
T TIGR02788 215 LRMRPDRIILGELRGDEAFDFI-RAVNTGHPG--SITTLHAGSPEE 257 (308)
T ss_pred hcCCCCeEEEeccCCHHHHHHH-HHHhcCCCe--EEEEEeCCCHHH
Confidence 8888888999999987666544 333332222 577777666544
No 344
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.53 E-value=0.18 Score=44.49 Aligned_cols=126 Identities=18% Similarity=0.157 Sum_probs=70.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCcccc--C---Ccc--------------eeEEEEeCCC-----CCHHHHHH-------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVK--F---YFD--------------CHAWVRVSNF-----YNFKRILD------- 161 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~--~---~F~--------------~~~wv~~~~~-----~~~~~~~~------- 161 (348)
-+-+|-|+.|.||||||..+.-++.++ + .|+ ..+++....+ .++.++++
T Consensus 31 EvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G~I~~~GedI~~l~~~ERAr~GifLafQ~P~ei~GV~~~~fLr~a~n~~~ 110 (251)
T COG0396 31 EVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGEDILELSPDERARAGIFLAFQYPVEIPGVTNSDFLRAAMNARR 110 (251)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCCceEecceEEECCcccccCCHhHHHhcCCEEeecCCccCCCeeHHHHHHHHHHhhh
Confidence 477899999999999999999887432 1 121 2233332222 12333333
Q ss_pred --------------HHHHHhCCCCCc----cccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCChhhHHHHH------hhC
Q 040110 162 --------------DIMKSLMPTSSW----LKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIEKIWDDLR------EAL 217 (348)
Q Consensus 162 --------------~i~~~l~~~~~~----~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~~~~~~l~------~~l 217 (348)
+.++.++.+..- .+..-..-+.....|.+.+--++-|.|||..++.-+.+.+. ..+
T Consensus 111 ~~~~~~~~~~~~~~e~~~~l~~~~~~l~R~vN~GFSGGEkKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~l 190 (251)
T COG0396 111 GARGILPEFIKELKEKAELLGLDEEFLERYVNEGFSGGEKKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINAL 190 (251)
T ss_pred ccccccHHHHHHHHHHHHHcCCCHHHhhcccCCCcCcchHHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHH
Confidence 333333332100 00011111233445566666678899999998864443332 222
Q ss_pred CCCCCCcEEEEEeCChhhhhhcc
Q 040110 218 PDNQIGSRALITVGPHNILTSIE 240 (348)
Q Consensus 218 ~~~~~gskIlvTTR~~~v~~~~~ 240 (348)
. ..|+-+++.|..+.++..+.
T Consensus 191 r--~~~~~~liITHy~rll~~i~ 211 (251)
T COG0396 191 R--EEGRGVLIITHYQRLLDYIK 211 (251)
T ss_pred h--cCCCeEEEEecHHHHHhhcC
Confidence 2 23666888888888888743
No 345
>PRK00300 gmk guanylate kinase; Provisional
Probab=95.52 E-value=0.012 Score=51.15 Aligned_cols=24 Identities=8% Similarity=0.250 Sum_probs=21.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-.+++|+|++|+|||||++.++..
T Consensus 5 g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh
Confidence 357999999999999999999887
No 346
>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=95.52 E-value=0.038 Score=48.37 Aligned_cols=21 Identities=24% Similarity=0.291 Sum_probs=19.1
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.|.|++|+||||+|+.+...
T Consensus 2 I~i~G~pGsGKsT~a~~La~~ 22 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEK 22 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999999999866
No 347
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.52 E-value=0.021 Score=48.97 Aligned_cols=90 Identities=14% Similarity=0.070 Sum_probs=46.3
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCc--------ceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----c-----
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYF--------DCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----K----- 175 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F--------~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----~----- 175 (348)
++.|.|++|+||||++..+.........| ..++|++...+ ...+.+.+........... .
T Consensus 34 l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~rl~~~~~~~~~~~~~~~~~~~~~~ 111 (193)
T PF13481_consen 34 LTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS--ESQIARRLRALLQDYDDDANLFFVDLSNWG 111 (193)
T ss_dssp EEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS---HHHHHHHHHHHHTTS-HHHHHHHHHH--E-
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC--HHHHHHHHHHHhcccCCccceEEeeccccc
Confidence 67789999999999999887663322222 25677766555 3333333332222110000 0
Q ss_pred --------cCCCCHHHHHHHHHHHhcC--CeEEEEEeCCC
Q 040110 176 --------IMGKDYKSEKTILRDYLTN--KKYFTVLDDVW 205 (348)
Q Consensus 176 --------~~~~~~~~~~~~l~~~L~~--kr~LlVLDdv~ 205 (348)
..........+.+.+.+.. +.-++|+|++.
T Consensus 112 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~ 151 (193)
T PF13481_consen 112 CIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQ 151 (193)
T ss_dssp EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GG
T ss_pred cceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHH
Confidence 0011134455666776655 46799999775
No 348
>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=95.48 E-value=0.015 Score=53.15 Aligned_cols=23 Identities=17% Similarity=0.104 Sum_probs=18.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..|.|.|.+|+||||+|+.+...
T Consensus 2 pLiil~G~P~SGKTt~a~~L~~~ 24 (270)
T PF08433_consen 2 PLIILCGLPCSGKTTRAKELKKY 24 (270)
T ss_dssp -EEEEE--TTSSHHHHHHHHHHH
T ss_pred EEEEEEcCCCCcHHHHHHHHHHH
Confidence 46889999999999999999876
No 349
>PRK09099 type III secretion system ATPase; Provisional
Probab=95.47 E-value=0.073 Score=51.89 Aligned_cols=91 Identities=9% Similarity=0.059 Sum_probs=50.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------H
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL--KIMGKDYKS------E 184 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------~ 184 (348)
..++|.|..|+|||||++.+....... ..+++..-.+...+.++...+...-+...... ...+..... .
T Consensus 164 q~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~~ 240 (441)
T PRK09099 164 QRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAYV 240 (441)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHHH
Confidence 478999999999999999998763221 13333332334455566666654422221110 111111111 1
Q ss_pred HHHHHHHh--cCCeEEEEEeCCCC
Q 040110 185 KTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 ~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ +++++|+++||+-.
T Consensus 241 a~tiAEyfrd~G~~VLl~~DslTr 264 (441)
T PRK09099 241 ATAIAEYFRDRGLRVLLMMDSLTR 264 (441)
T ss_pred HHHHHHHHHHcCCCEEEeccchhH
Confidence 12244444 47899999999854
No 350
>cd03243 ABC_MutS_homologs 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 also possess 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 sliding clamps, and recognition of specific DNA stru
Probab=95.47 E-value=0.098 Score=45.45 Aligned_cols=22 Identities=14% Similarity=0.046 Sum_probs=20.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhc
Q 040110 113 SVVAILDSRGFDKTAFAAEIYN 134 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~ 134 (348)
.+++|+|+.|.|||||.+.+..
T Consensus 30 ~~~~l~G~Ng~GKStll~~i~~ 51 (202)
T cd03243 30 RLLLITGPNMGGKSTYLRSIGL 51 (202)
T ss_pred eEEEEECCCCCccHHHHHHHHH
Confidence 6899999999999999999873
No 351
>PRK15453 phosphoribulokinase; Provisional
Probab=95.46 E-value=0.097 Score=47.81 Aligned_cols=82 Identities=15% Similarity=0.143 Sum_probs=44.9
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcc-eeEEEEeCCCC--CHHHHHHHH--HHHhCCCCCccccCCCCHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD-CHAWVRVSNFY--NFKRILDDI--MKSLMPTSSWLKIMGKDYKSE 184 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~-~~~wv~~~~~~--~~~~~~~~i--~~~l~~~~~~~~~~~~~~~~~ 184 (348)
....+|+|.|.+|+||||+|+.+.+. ... .. ....++...-+ +-..+-..+ ...-+.+.+-.+.+..+.+.+
T Consensus 3 ~k~piI~ItG~SGsGKTTva~~l~~i--f~~-~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL 79 (290)
T PRK15453 3 AKHPIIAVTGSSGAGTTTVKRAFEKI--FRR-ENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDEL 79 (290)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHH--Hhh-cCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHH
Confidence 34579999999999999999988754 221 11 12333332222 322222222 111221111002566778888
Q ss_pred HHHHHHHhcC
Q 040110 185 KTILRDYLTN 194 (348)
Q Consensus 185 ~~~l~~~L~~ 194 (348)
...++.+.++
T Consensus 80 ~~~l~~l~~~ 89 (290)
T PRK15453 80 EQLFREYGET 89 (290)
T ss_pred HHHHHHHhcC
Confidence 8888877654
No 352
>PRK13949 shikimate kinase; Provisional
Probab=95.46 E-value=0.013 Score=49.60 Aligned_cols=22 Identities=14% Similarity=0.221 Sum_probs=20.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-|.|+|++|+||||+++.+++.
T Consensus 3 ~I~liG~~GsGKstl~~~La~~ 24 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALARE 24 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999987
No 353
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=95.45 E-value=0.049 Score=46.07 Aligned_cols=79 Identities=9% Similarity=0.071 Sum_probs=44.4
Q ss_pred EEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN 194 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~ 194 (348)
+.|.|.+|+|||++|.++... .....+++.-...++. ++.+.|.+....... .....+....+.+.+..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~-em~~rI~~H~~~R~~-----~w~t~E~~~~l~~~l~~ 70 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDD-EMAERIARHRKRRPA-----HWRTIETPRDLVSALKE 70 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCH-HHHHHHHHHHHhCCC-----CceEeecHHHHHHHHHh
Confidence 568999999999999998754 1125666666666654 355554443322211 11122222333333321
Q ss_pred --CeEEEEEeCC
Q 040110 195 --KKYFTVLDDV 204 (348)
Q Consensus 195 --kr~LlVLDdv 204 (348)
+.-.+++|.+
T Consensus 71 ~~~~~~VLIDcl 82 (169)
T cd00544 71 LDPGDVVLIDCL 82 (169)
T ss_pred cCCCCEEEEEcH
Confidence 2337888986
No 354
>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=95.44 E-value=0.0077 Score=48.21 Aligned_cols=27 Identities=22% Similarity=0.342 Sum_probs=19.1
Q ss_pred EEEECCCCCcHHHHHHHHhcCccccCCcc
Q 040110 115 VAILDSRGFDKTAFAAEIYNNNFVKFYFD 143 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~~~~~~F~ 143 (348)
+.|+|.+|+||||+|+.++.. +...|.
T Consensus 2 vLleg~PG~GKT~la~~lA~~--~~~~f~ 28 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS--LGLSFK 28 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH--TT--EE
T ss_pred EeeECCCccHHHHHHHHHHHH--cCCcee
Confidence 568999999999999999988 666674
No 355
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=95.44 E-value=0.02 Score=47.92 Aligned_cols=32 Identities=16% Similarity=0.315 Sum_probs=28.1
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++|.+.|. + +++.++|.+|+|||||...+...
T Consensus 27 ~~l~~~l~--------~-k~~vl~G~SGvGKSSLiN~L~~~ 58 (161)
T PF03193_consen 27 EELKELLK--------G-KTSVLLGQSGVGKSSLINALLPE 58 (161)
T ss_dssp HHHHHHHT--------T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred HHHHHHhc--------C-CEEEEECCCCCCHHHHHHHHHhh
Confidence 78888887 2 57889999999999999999987
No 356
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=95.44 E-value=0.021 Score=46.72 Aligned_cols=67 Identities=10% Similarity=0.151 Sum_probs=38.1
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhc
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLT 193 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~ 193 (348)
-|.|.|-+|+|||||+.+++... ..-|+++|.-..-..+....=... ....-+.+.+.+.|...+.
T Consensus 9 NILvtGTPG~GKstl~~~lae~~-------~~~~i~isd~vkEn~l~~gyDE~y-------~c~i~DEdkv~D~Le~~m~ 74 (176)
T KOG3347|consen 9 NILVTGTPGTGKSTLAERLAEKT-------GLEYIEISDLVKENNLYEGYDEEY-------KCHILDEDKVLDELEPLMI 74 (176)
T ss_pred CEEEeCCCCCCchhHHHHHHHHh-------CCceEehhhHHhhhcchhcccccc-------cCccccHHHHHHHHHHHHh
Confidence 46789999999999999998651 223555554332222222111111 2223455666666666654
Q ss_pred C
Q 040110 194 N 194 (348)
Q Consensus 194 ~ 194 (348)
.
T Consensus 75 ~ 75 (176)
T KOG3347|consen 75 E 75 (176)
T ss_pred c
Confidence 4
No 357
>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=95.44 E-value=0.1 Score=44.73 Aligned_cols=96 Identities=13% Similarity=0.081 Sum_probs=50.2
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
-..+.|.|..|+|||||++.+... +.... ..+-+ ........-..... ++..... ...........+.+...
T Consensus 25 g~~i~I~G~tGSGKTTll~aL~~~--i~~~~-~~i~i--ed~~E~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~~l~~~ 96 (186)
T cd01130 25 RKNILISGGTGSGKTTLLNALLAF--IPPDE-RIITI--EDTAELQLPHPNWV-RLVTRPG--NVEGSGEVTMADLLRSA 96 (186)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh--cCCCC-CEEEE--CCccccCCCCCCEE-EEEEecC--CCCCCCccCHHHHHHHH
Confidence 357899999999999999998876 32221 12222 11100000000000 0000000 00011123345566677
Q ss_pred hcCCeEEEEEeCCCChhhHHHHHh
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLRE 215 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~~ 215 (348)
++..+=.++++.+.+.+.++.+..
T Consensus 97 lR~~pd~i~igEir~~ea~~~~~a 120 (186)
T cd01130 97 LRMRPDRIIVGEVRGGEALDLLQA 120 (186)
T ss_pred hccCCCEEEEEccCcHHHHHHHHH
Confidence 777788899999998877665443
No 358
>PRK11823 DNA repair protein RadA; Provisional
Probab=95.43 E-value=0.047 Score=53.60 Aligned_cols=88 Identities=16% Similarity=0.090 Sum_probs=51.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
..-.++.|.|.+|+|||||+.+++.. ....-..++|++.... ..++.. -++.++...... -....+.+++...+
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~--~a~~g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i 152 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAAR--LAAAGGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLEAILATI 152 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHH
Confidence 34558889999999999999998876 2221124677765433 333322 245555432110 11223445444444
Q ss_pred HHHhcCCeEEEEEeCCC
Q 040110 189 RDYLTNKKYFTVLDDVW 205 (348)
Q Consensus 189 ~~~L~~kr~LlVLDdv~ 205 (348)
.+ .+.-++|+|.+.
T Consensus 153 ~~---~~~~lVVIDSIq 166 (446)
T PRK11823 153 EE---EKPDLVVIDSIQ 166 (446)
T ss_pred Hh---hCCCEEEEechh
Confidence 32 356689999985
No 359
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=95.42 E-value=0.013 Score=50.24 Aligned_cols=22 Identities=14% Similarity=0.314 Sum_probs=20.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++.|+|+.|+|||||++.++..
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~~ 25 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQR 25 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhcc
Confidence 6889999999999999999876
No 360
>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=95.42 E-value=0.086 Score=45.15 Aligned_cols=21 Identities=19% Similarity=0.276 Sum_probs=19.4
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.|.|++|+||||+|+.+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999999999876
No 361
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.41 E-value=0.045 Score=52.05 Aligned_cols=86 Identities=14% Similarity=0.118 Sum_probs=53.5
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTILRD 190 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l~~ 190 (348)
-.++.|=|-+|+|||||..++..+ ....- .+++|+-.. +..+ .+--+..|+.+.... -....+.+.+...+.+
T Consensus 93 Gs~iLIgGdPGIGKSTLLLQva~~--lA~~~-~vLYVsGEE--S~~Q-iklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~ 166 (456)
T COG1066 93 GSVILIGGDPGIGKSTLLLQVAAR--LAKRG-KVLYVSGEE--SLQQ-IKLRADRLGLPTNNLYLLAETNLEDIIAELEQ 166 (456)
T ss_pred ccEEEEccCCCCCHHHHHHHHHHH--HHhcC-cEEEEeCCc--CHHH-HHHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence 457888999999999999999888 44333 566664333 3332 334456666543211 1223455554444443
Q ss_pred HhcCCeEEEEEeCCCC
Q 040110 191 YLTNKKYFTVLDDVWI 206 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~ 206 (348)
.+.-|+|+|.+..
T Consensus 167 ---~~p~lvVIDSIQT 179 (456)
T COG1066 167 ---EKPDLVVIDSIQT 179 (456)
T ss_pred ---cCCCEEEEeccce
Confidence 5789999999863
No 362
>PTZ00185 ATPase alpha subunit; Provisional
Probab=95.41 E-value=0.14 Score=50.65 Aligned_cols=93 Identities=14% Similarity=0.128 Sum_probs=52.0
Q ss_pred EEEEECCCCCcHHHHH-HHHhcCcccc-----CCcceeEEEEeCCCCCHHHHHHHHHHHhC-CCCCcc--ccCCCCHHH-
Q 040110 114 VVAILDSRGFDKTAFA-AEIYNNNFVK-----FYFDCHAWVRVSNFYNFKRILDDIMKSLM-PTSSWL--KIMGKDYKS- 183 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA-~~v~~~~~~~-----~~F~~~~wv~~~~~~~~~~~~~~i~~~l~-~~~~~~--~~~~~~~~~- 183 (348)
.++|.|-.|+|||+|| -.+.|...+. ++-..++++-+++..+-..-+.+.++.-+ ...... ...+.....
T Consensus 191 R~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~r 270 (574)
T PTZ00185 191 RELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQ 270 (574)
T ss_pred EEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHHH
Confidence 4789999999999997 5566663221 23346788888877654333444444433 211110 111111111
Q ss_pred -----HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 -----EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 -----~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+-+++ +++.+|+|+||+-.
T Consensus 271 ~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr 300 (574)
T PTZ00185 271 YLAPYSGVTMGEYFMNRGRHCLCVYDDLSK 300 (574)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence 111233333 47899999999964
No 363
>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit. Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.
Probab=95.41 E-value=0.05 Score=53.28 Aligned_cols=93 Identities=13% Similarity=0.157 Sum_probs=54.5
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcc--eeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH-----
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFD--CHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS----- 183 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~--~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~----- 183 (348)
.++|.|-.|+|||||+..+.+.....+.+. .++++-+++.. .+.+++..+...=....+.. ...+.....
T Consensus 143 R~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a~ 222 (458)
T TIGR01041 143 KLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTP 222 (458)
T ss_pred EEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHH
Confidence 478999999999999999988743322221 55666665543 56667776664332221110 111111111
Q ss_pred -HHHHHHHHhc---CCeEEEEEeCCCC
Q 040110 184 -EKTILRDYLT---NKKYFTVLDDVWI 206 (348)
Q Consensus 184 -~~~~l~~~L~---~kr~LlVLDdv~~ 206 (348)
..-.+.++++ ++++||++||+-.
T Consensus 223 ~~a~tiAEyfr~d~G~~VLli~DslTR 249 (458)
T TIGR01041 223 RMALTAAEYLAFEKDMHVLVILTDMTN 249 (458)
T ss_pred HHHHHHHHHHHHccCCcEEEEEcChhH
Confidence 1122555555 6799999999853
No 364
>PF14516 AAA_35: AAA-like domain
Probab=95.40 E-value=0.13 Score=48.57 Aligned_cols=113 Identities=14% Similarity=0.169 Sum_probs=68.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-----CCHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-----YNFK 157 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-----~~~~ 157 (348)
-.|.|.... +++.+.|. .+ -..+.|.|+..+|||+|...+.+..... .| .++++++..- .+..
T Consensus 12 ~Yi~R~~~e---~~~~~~i~------~~-G~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~ 79 (331)
T PF14516_consen 12 FYIERPPAE---QECYQEIV------QP-GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLE 79 (331)
T ss_pred cccCchHHH---HHHHHHHh------cC-CCEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHH
Confidence 567898666 67887777 21 2368899999999999999998774332 33 3456665431 2455
Q ss_pred HHH----HHHHHHhCCCCCcc---ccCCCCHHHHHHHHHHHh---cCCeEEEEEeCCCCh
Q 040110 158 RIL----DDIMKSLMPTSSWL---KIMGKDYKSEKTILRDYL---TNKKYFTVLDDVWIE 207 (348)
Q Consensus 158 ~~~----~~i~~~l~~~~~~~---~~~~~~~~~~~~~l~~~L---~~kr~LlVLDdv~~~ 207 (348)
+++ ..+.++++....-. .............+.+.+ .+++.+|+||+++..
T Consensus 80 ~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l 139 (331)
T PF14516_consen 80 QFLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRL 139 (331)
T ss_pred HHHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhh
Confidence 444 45555555432100 001123334445555543 257999999999753
No 365
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=95.39 E-value=0.014 Score=50.64 Aligned_cols=25 Identities=20% Similarity=0.209 Sum_probs=22.6
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
..+|+|-||=|+||||||+.+.++.
T Consensus 4 ~~~IvI~G~IG~GKSTLa~~La~~l 28 (216)
T COG1428 4 AMVIVIEGMIGAGKSTLAQALAEHL 28 (216)
T ss_pred ccEEEEecccccCHHHHHHHHHHHh
Confidence 4589999999999999999999883
No 366
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=95.37 E-value=0.13 Score=51.47 Aligned_cols=46 Identities=13% Similarity=0.130 Sum_probs=32.5
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|..... .++++.+... ..... -|.|+|..|+||+++|+.+++.
T Consensus 205 ~~ig~s~~~---~~~~~~~~~~---A~~~~-pvlI~GE~GtGK~~lA~aiH~~ 250 (520)
T PRK10820 205 QIVAVSPKM---RQVVEQARKL---AMLDA-PLLITGDTGTGKDLLAYACHLR 250 (520)
T ss_pred ceeECCHHH---HHHHHHHHHH---hCCCC-CEEEECCCCccHHHHHHHHHHh
Confidence 788888777 6666655411 01122 3679999999999999998765
No 367
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=95.37 E-value=0.01 Score=49.65 Aligned_cols=21 Identities=14% Similarity=0.321 Sum_probs=19.0
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.|+|++|+||||+|+.+.+.
T Consensus 1 i~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHh
Confidence 458999999999999999877
No 368
>PLN02200 adenylate kinase family protein
Probab=95.36 E-value=0.018 Score=51.49 Aligned_cols=27 Identities=19% Similarity=0.214 Sum_probs=23.1
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...+.+|.|.|++|+||||+|+.+...
T Consensus 40 ~~~~~ii~I~G~PGSGKsT~a~~La~~ 66 (234)
T PLN02200 40 EKTPFITFVLGGPGSGKGTQCEKIVET 66 (234)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 344668899999999999999999876
No 369
>PRK05688 fliI flagellum-specific ATP synthase; Validated
Probab=95.36 E-value=0.077 Score=51.76 Aligned_cols=90 Identities=11% Similarity=0.097 Sum_probs=50.4
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCcc--ccCCCC-HHH-----
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWL--KIMGKD-YKS----- 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~--~~~~~~-~~~----- 183 (348)
..++|+|..|+|||||++.+.+.. . .+.++...++.. ..+.++...+...-....+.. ...+.. ...
T Consensus 169 qrigI~G~sG~GKSTLl~~I~g~~---~-~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~ 244 (451)
T PRK05688 169 QRLGLFAGTGVGKSVLLGMMTRFT---E-ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAM 244 (451)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCC---C-CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHH
Confidence 368999999999999999988752 1 133334334333 345566666555433322110 111111 111
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++++||++||+-.
T Consensus 245 ~a~aiAEyfrd~G~~VLl~~DslTR 269 (451)
T PRK05688 245 YCTRIAEYFRDKGKNVLLLMDSLTR 269 (451)
T ss_pred HHHHHHHHHHHCCCCEEEEecchhH
Confidence 111244444 57899999999854
No 370
>TIGR01039 atpD ATP synthase, F1 beta subunit. The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.
Probab=95.35 E-value=0.09 Score=51.31 Aligned_cols=92 Identities=13% Similarity=0.173 Sum_probs=53.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------H
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSWL--KIMGKDYKS------E 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------~ 184 (348)
.++|.|.+|+|||||+..+..+... ++=..++++-++.. -.+.+++.++...=....+.. ...+..... .
T Consensus 145 r~~If~~~G~GKt~L~~~~~~~~~~-~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~ 223 (461)
T TIGR01039 145 KIGLFGGAGVGKTVLIQELINNIAK-EHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALT 223 (461)
T ss_pred EEEeecCCCCChHHHHHHHHHHHHh-cCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHH
Confidence 5789999999999999998766211 12135667767554 356677777654322111110 111222111 2
Q ss_pred HHHHHHHh---cCCeEEEEEeCCCC
Q 040110 185 KTILRDYL---TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 ~~~l~~~L---~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ +++++||++||+-.
T Consensus 224 a~tiAEyfrd~~G~~VLll~DslTR 248 (461)
T TIGR01039 224 GLTMAEYFRDEQGQDVLLFIDNIFR 248 (461)
T ss_pred HHHHHHHHHHhcCCeeEEEecchhH
Confidence 22355565 45799999999853
No 371
>PRK14526 adenylate kinase; Provisional
Probab=95.35 E-value=0.037 Score=48.62 Aligned_cols=21 Identities=24% Similarity=0.303 Sum_probs=18.9
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.|+|++|+||||+|+.+...
T Consensus 3 i~l~G~pGsGKsT~a~~La~~ 23 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILSNE 23 (211)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 668999999999999998865
No 372
>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=95.35 E-value=0.015 Score=46.99 Aligned_cols=25 Identities=20% Similarity=0.235 Sum_probs=22.2
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCc
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
-.++.+.|.-|+|||||++.+++..
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 3489999999999999999999874
No 373
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=95.35 E-value=0.02 Score=51.92 Aligned_cols=91 Identities=19% Similarity=0.097 Sum_probs=59.4
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc-------------c--
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSW-------------L-- 174 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------------~-- 174 (348)
+.-+++.|+|.+|+|||+++.+.... ..+....++||+..... .++.+.+.. ++..... .
T Consensus 21 p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~--~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~~ 95 (260)
T COG0467 21 PRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESP--EELLENARS-FGWDLEVYIEKGKLAILDAFLSE 95 (260)
T ss_pred cCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCH--HHHHHHHHH-cCCCHHHHhhcCCEEEEEccccc
Confidence 45678999999999999999998877 55557789999876543 333333322 3222110 0
Q ss_pred -c------cCCCCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 175 -K------IMGKDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 175 -~------~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
. ....+...+...+.+.... +..-+|+|++-
T Consensus 96 ~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~ 134 (260)
T COG0467 96 KGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT 134 (260)
T ss_pred cccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence 0 0123556677777777654 47788999986
No 374
>PRK14737 gmk guanylate kinase; Provisional
Probab=95.34 E-value=0.018 Score=49.57 Aligned_cols=25 Identities=12% Similarity=0.186 Sum_probs=22.4
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...++.|+|++|+|||||++.+...
T Consensus 3 ~~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 3 SPKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHhc
Confidence 4568899999999999999999876
No 375
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=95.34 E-value=0.1 Score=50.79 Aligned_cols=90 Identities=13% Similarity=0.194 Sum_probs=49.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhCCCCCc--cccCCCC-HHHH----
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNF-YNFKRILDDIMKSLMPTSSW--LKIMGKD-YKSE---- 184 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~--~~~~~~~-~~~~---- 184 (348)
..++|+|..|+|||||++.+.+.. +.+..++..++.. ..+.+++.+....=...... ....+.. ....
T Consensus 156 qrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~~ 231 (433)
T PRK07594 156 QRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALF 231 (433)
T ss_pred CEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHHH
Confidence 368999999999999999998762 2334555555543 44545555543211010000 0111111 1111
Q ss_pred -HHHHHHHh--cCCeEEEEEeCCCC
Q 040110 185 -KTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 -~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ +++++||++||+-.
T Consensus 232 ~a~tiAEyfrd~G~~VLl~~Dsltr 256 (433)
T PRK07594 232 VATTIAEFFRDNGKRVVLLADSLTR 256 (433)
T ss_pred HHHHHHHHHHHCCCcEEEEEeCHHH
Confidence 11244444 47899999999853
No 376
>PRK15064 ABC transporter ATP-binding protein; Provisional
Probab=95.32 E-value=0.29 Score=49.18 Aligned_cols=23 Identities=13% Similarity=0.309 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|+.|+|||||.+.++..
T Consensus 28 e~~~liG~NGsGKSTLl~~l~Gl 50 (530)
T PRK15064 28 NRYGLIGANGCGKSTFMKILGGD 50 (530)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 47999999999999999999875
No 377
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=95.31 E-value=0.13 Score=43.05 Aligned_cols=120 Identities=8% Similarity=0.075 Sum_probs=59.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeE--EEEeCCCCCHHHHHHHHHHHhCCCCCc--cccCCCCH-------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHA--WVRVSNFYNFKRILDDIMKSLMPTSSW--LKIMGKDY------- 181 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~--wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~------- 181 (348)
..|-|++..|.||||+|..+.-+.. ...+.+.+ |+.-........+++.+ ..+...... ......+.
T Consensus 3 G~i~vy~g~G~Gkt~~a~g~~~ra~-~~g~~v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~a 80 (159)
T cd00561 3 GLIQVYTGNGKGKTTAALGLALRAL-GHGYRVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAAA 80 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHHH
Confidence 3677788889999999987765421 22232222 23322233433443333 001000000 00000111
Q ss_pred HHHHHHHHHHhcC-CeEEEEEeCCCCh-----hhHHHHHhhCCCCCCCcEEEEEeCChh
Q 040110 182 KSEKTILRDYLTN-KKYFTVLDDVWIE-----KIWDDLREALPDNQIGSRALITVGPHN 234 (348)
Q Consensus 182 ~~~~~~l~~~L~~-kr~LlVLDdv~~~-----~~~~~l~~~l~~~~~gskIlvTTR~~~ 234 (348)
.+..+..++.+.. .-=|||||++-.. -..+++...+.....+.-||+|.|+..
T Consensus 81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p 139 (159)
T cd00561 81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP 139 (159)
T ss_pred HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence 1223334444433 5579999998543 234455555444445678999999854
No 378
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=95.31 E-value=0.063 Score=55.78 Aligned_cols=89 Identities=18% Similarity=0.111 Sum_probs=58.0
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-ccCCCCHHHHHHHH
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-KIMGKDYKSEKTIL 188 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~l 188 (348)
+.-+++-|.|.+|+|||||+.+++... ...=..++|+.....++. ..+++++.+.... -......+.....+
T Consensus 58 p~GsiteI~G~~GsGKTtLal~~~~~a--~~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i 130 (790)
T PRK09519 58 PRGRVIEIYGPESSGKTTVALHAVANA--QAAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIA 130 (790)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHH
Confidence 456788899999999999998765542 111235788887777663 3667777653321 11223445566666
Q ss_pred HHHhcC-CeEEEEEeCCC
Q 040110 189 RDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 189 ~~~L~~-kr~LlVLDdv~ 205 (348)
...++. +--|+|+|.+.
T Consensus 131 ~~lv~~~~~~LVVIDSI~ 148 (790)
T PRK09519 131 DMLIRSGALDIVVIDSVA 148 (790)
T ss_pred HHHhhcCCCeEEEEcchh
Confidence 666644 56789999985
No 379
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=95.31 E-value=0.19 Score=49.40 Aligned_cols=213 Identities=13% Similarity=0.103 Sum_probs=101.8
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|..... .++.+.+.. .......+.|.|..|+||+++|+.+.... .......+-+++..- + .+.+..
T Consensus 135 ~lig~s~~~---~~v~~~i~~----~a~~~~~vli~Ge~GtGK~~~A~~ih~~~--~~~~~~~~~~~c~~~-~-~~~~~~ 203 (463)
T TIGR01818 135 ELIGEAPAM---QEVFRAIGR----LSRSDITVLINGESGTGKELVARALHRHS--PRANGPFIALNMAAI-P-KDLIES 203 (463)
T ss_pred ceeecCHHH---HHHHHHHHH----HhCcCCeEEEECCCCCCHHHHHHHHHHhC--CCCCCCeEEEeCCCC-C-HHHHHH
Confidence 578877766 666665541 11222346789999999999999998762 212122223333322 2 233333
Q ss_pred HHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh--hhHHHHHhhCCCCC-----------CCcEEEEE
Q 040110 163 IMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE--KIWDDLREALPDNQ-----------IGSRALIT 229 (348)
Q Consensus 163 i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~--~~~~~l~~~l~~~~-----------~gskIlvT 229 (348)
.+ ++.... ...... .. .....-....-.|+||++... .....+...+..+. ...+||+|
T Consensus 204 ~l--fg~~~~--~~~~~~-~~---~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~ 275 (463)
T TIGR01818 204 EL--FGHEKG--AFTGAN-TR---RQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAA 275 (463)
T ss_pred Hh--cCCCCC--CCCCcc-cC---CCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEe
Confidence 22 221100 000000 00 000011122344889999764 34445554443221 14578887
Q ss_pred eCChhhh---hh-------cccCCCCcCCCCcccccCccccCC---HHHHHHHHHHhCCCCCCC-CCCCc-chhcccccc
Q 040110 230 VGPHNIL---TS-------IELENGEKNRHDSALVGGPLIRIK---HETWQFFILHYGSTPLEN-ETEGP-SVGLKLVSL 294 (348)
Q Consensus 230 TR~~~v~---~~-------~~l~~~~C~Lp~~~~ig~~L~~~~---~~~w~~~~~~~~~~~~~~-~~~~~-~i~~~l~s~ 294 (348)
|...... .. |.+....+.+| .|+++. ..-...+++.+... ... ...+. .....|..|
T Consensus 276 ~~~~l~~~~~~~~f~~~L~~rl~~~~i~lP-------pLr~R~~Di~~l~~~~l~~~~~~-~~~~~~~~~~~a~~~L~~~ 347 (463)
T TIGR01818 276 THQNLEALVRQGKFREDLFHRLNVIRIHLP-------PLRERREDIPRLARHFLALAARE-LDVEPKLLDPEALERLKQL 347 (463)
T ss_pred CCCCHHHHHHcCCcHHHHHHHhCcceecCC-------CcccchhhHHHHHHHHHHHHHHH-hCCCCCCcCHHHHHHHHhC
Confidence 7554311 11 22221111333 788765 55555666555332 211 11111 121222344
Q ss_pred CCCC---hhHHHHHhHhccCCCCceecHHHHH
Q 040110 295 SELP---FPLIVCCLYFCVFPTDIELTTRQLC 323 (348)
Q Consensus 295 ~~Lp---~~lk~cf~y~a~fp~~~~i~~~~Li 323 (348)
+-| .+++.+.-.+.+...+-.|..+.|-
T Consensus 348 -~wpgNvreL~~~~~~~~~~~~~~~i~~~~l~ 378 (463)
T TIGR01818 348 -RWPGNVRQLENLCRWLTVMASGDEVLVSDLP 378 (463)
T ss_pred -CCCChHHHHHHHHHHHHHhCCCCcccHHhch
Confidence 456 5677777777776666667766654
No 380
>PRK12678 transcription termination factor Rho; Provisional
Probab=95.30 E-value=0.031 Score=55.71 Aligned_cols=105 Identities=13% Similarity=0.066 Sum_probs=53.4
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccC-CcceeEEE-EeCCCC-CHHHHHHHHHHHhCCCC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKF-YFDCHAWV-RVSNFY-NFKRILDDIMKSLMPTS 171 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~-~F~~~~wv-~~~~~~-~~~~~~~~i~~~l~~~~ 171 (348)
-+++++|.+- ..+- ..+|+|.+|+|||||++.+.+. +.. +=++.++| -++... .+.++.+.+-..+-...
T Consensus 404 iRvIDll~PI----GkGQ-R~LIvgpp~aGKTtLL~~IAn~--i~~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT 476 (672)
T PRK12678 404 TRVIDLIMPI----GKGQ-RGLIVSPPKAGKTTILQNIANA--ITTNNPECHLMVVLVDERPEEVTDMQRSVKGEVIAST 476 (672)
T ss_pred ceeeeeeccc----ccCC-EeEEeCCCCCCHHHHHHHHHHH--HhhcCCCeEEEEEEEeCchhhHHHHHHhccceEEEEC
Confidence 4667777632 2222 4679999999999999999986 322 22344333 344333 33333333211111110
Q ss_pred Cc-cccCCCCHHHHHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 172 SW-LKIMGKDYKSEKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 172 ~~-~~~~~~~~~~~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
+. +.........+.-.+.++| .++.+||+||++-.
T Consensus 477 ~D~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSlTR 514 (672)
T PRK12678 477 FDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSITR 514 (672)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCchH
Confidence 00 0000011122223344444 57899999999843
No 381
>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=95.30 E-value=0.066 Score=52.12 Aligned_cols=93 Identities=14% Similarity=0.143 Sum_probs=56.5
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccC--Ccc---------eeEEEEeCCCCCHHHHHHHHHHHhC-CCCCcc--ccCCC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKF--YFD---------CHAWVRVSNFYNFKRILDDIMKSLM-PTSSWL--KIMGK 179 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~--~F~---------~~~wv~~~~~~~~~~~~~~i~~~l~-~~~~~~--~~~~~ 179 (348)
-++|.|-+|+|||||+..+.+.....+ ..| .++++-+++.....+.+.+.+..-+ ...+.. ...+.
T Consensus 143 RigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd~ 222 (466)
T TIGR01040 143 KIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAND 222 (466)
T ss_pred eeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCCC
Confidence 478999999999999999987743100 011 5667777877666676666666555 222110 11111
Q ss_pred CHHH------HHHHHHHHhc---CCeEEEEEeCCCC
Q 040110 180 DYKS------EKTILRDYLT---NKKYFTVLDDVWI 206 (348)
Q Consensus 180 ~~~~------~~~~l~~~L~---~kr~LlVLDdv~~ 206 (348)
..-. ..-.+.++++ ++++||++||+-.
T Consensus 223 p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr 258 (466)
T TIGR01040 223 PTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS 258 (466)
T ss_pred CHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence 1111 1122555555 5899999999943
No 382
>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=95.30 E-value=0.026 Score=57.52 Aligned_cols=74 Identities=8% Similarity=0.012 Sum_probs=49.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCC-cceeEEEEeCCCCCHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFY-FDCHAWVRVSNFYNFKRILD 161 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~-F~~~~wv~~~~~~~~~~~~~ 161 (348)
.++|.+... +.+...+. ... .+.++|++|+||||+|+.+.+. +... |...+++. ....+...+++
T Consensus 19 ~viG~~~a~---~~l~~a~~------~~~--~~ll~G~pG~GKT~la~~la~~--l~~~~~~~~~~~~-n~~~~~~~~~~ 84 (608)
T TIGR00764 19 QVIGQEEAV---EIIKKAAK------QKR--NVLLIGEPGVGKSMLAKAMAEL--LPDEELEDILVYP-NPEDPNMPRIV 84 (608)
T ss_pred hccCHHHHH---HHHHHHHH------cCC--CEEEECCCCCCHHHHHHHHHHH--cCchhheeEEEEe-CCCCCchHHHH
Confidence 789999888 77777776 112 4458999999999999999977 4333 23233322 22335556677
Q ss_pred HHHHHhCCC
Q 040110 162 DIMKSLMPT 170 (348)
Q Consensus 162 ~i~~~l~~~ 170 (348)
.++.+++..
T Consensus 85 ~v~~~~g~~ 93 (608)
T TIGR00764 85 EVPAGEGRE 93 (608)
T ss_pred HHHHhhchH
Confidence 777777654
No 383
>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=95.30 E-value=0.014 Score=48.07 Aligned_cols=21 Identities=14% Similarity=0.237 Sum_probs=19.3
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.++|++|+||||+|+.+...
T Consensus 2 i~l~G~~GsGKstla~~la~~ 22 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKA 22 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 678999999999999999876
No 384
>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.
Probab=95.29 E-value=0.17 Score=47.35 Aligned_cols=90 Identities=11% Similarity=0.137 Sum_probs=50.6
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeC-CCCCHHHHHHHHHHHhCCCCCcc--ccCCCCHH------H
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVS-NFYNFKRILDDIMKSLMPTSSWL--KIMGKDYK------S 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~------~ 183 (348)
..++|+|..|+|||||.+.+.+. ... +..+..-++ +.-++.++.......-+...... ...+.... .
T Consensus 70 qri~I~G~sG~GKTtLl~~Ia~~--~~~--~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~ 145 (326)
T cd01136 70 QRLGIFAGSGVGKSTLLGMIARG--TTA--DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAY 145 (326)
T ss_pred cEEEEECCCCCChHHHHHHHhCC--CCC--CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHH
Confidence 36899999999999999998877 222 233334443 33456666666655433221110 11111111 1
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++.+|+++||+-.
T Consensus 146 ~a~~~AEyfr~~g~~Vll~~Dsltr 170 (326)
T cd01136 146 TATAIAEYFRDQGKDVLLLMDSLTR 170 (326)
T ss_pred HHHHHHHHHHHcCCCeEEEeccchH
Confidence 112233333 47899999999843
No 385
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=95.29 E-value=0.017 Score=50.24 Aligned_cols=24 Identities=21% Similarity=0.195 Sum_probs=21.9
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..++.|.|.+|+||||+|+.+...
T Consensus 3 ~~~i~i~G~~G~GKst~a~~l~~~ 26 (197)
T PRK12339 3 STIHFIGGIPGVGKTSISGYIARH 26 (197)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHh
Confidence 458899999999999999999887
No 386
>PRK06793 fliI flagellum-specific ATP synthase; Validated
Probab=95.27 E-value=0.27 Score=47.81 Aligned_cols=121 Identities=15% Similarity=0.091 Sum_probs=65.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc--ccCCCCH------HHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL--KIMGKDY------KSE 184 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~------~~~ 184 (348)
..++|+|..|+|||||+..++... +. ...++...-.+...+.+++...+..-+...+.. ...+... ...
T Consensus 157 qri~I~G~sG~GKTtLl~~Ia~~~--~~-~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~~ 233 (432)
T PRK06793 157 QKIGIFAGSGVGKSTLLGMIAKNA--KA-DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAKL 233 (432)
T ss_pred cEEEEECCCCCChHHHHHHHhccC--CC-CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHHH
Confidence 367999999999999999998873 21 123333322334667777666655533221110 1111111 112
Q ss_pred HHHHHHHh--cCCeEEEEEeCCCCh-hhHHHHHhh---CCCCCCCcEEEEEeCChhhhhh
Q 040110 185 KTILRDYL--TNKKYFTVLDDVWIE-KIWDDLREA---LPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 185 ~~~l~~~L--~~kr~LlVLDdv~~~-~~~~~l~~~---l~~~~~gskIlvTTR~~~v~~~ 238 (348)
...+.+++ ++++.||++|++-.. +...++... .|. . |-...+.|....++..
T Consensus 234 a~~iAEyfr~~G~~VLlilDslTr~a~A~reisl~~~e~p~-~-G~~~~~~s~l~~L~ER 291 (432)
T PRK06793 234 ATSIAEYFRDQGNNVLLMMDSVTRFADARRSVDIAVKELPI-G-GKTLLMESYMKKLLER 291 (432)
T ss_pred HHHHHHHHHHcCCcEEEEecchHHHHHHHHHHHHHhcCCCC-C-CeeeeeeccchhHHHH
Confidence 22233344 468999999999654 333333322 332 2 5555565555555544
No 387
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=95.27 E-value=0.18 Score=50.70 Aligned_cols=24 Identities=25% Similarity=0.220 Sum_probs=21.0
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-..++|+|+.|+|||||++.+..-
T Consensus 361 G~~vaIvG~SGsGKSTLl~lL~g~ 384 (529)
T TIGR02868 361 GERVAILGPSGSGKSTLLMLLTGL 384 (529)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 347899999999999999999755
No 388
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=95.26 E-value=0.017 Score=45.26 Aligned_cols=23 Identities=22% Similarity=0.527 Sum_probs=19.9
Q ss_pred EEEECCCCCcHHHHHHHHhcCcc
Q 040110 115 VAILDSRGFDKTAFAAEIYNNNF 137 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~~ 137 (348)
|.|+|..|+|||||.+.+.+...
T Consensus 2 I~V~G~~g~GKTsLi~~l~~~~~ 24 (119)
T PF08477_consen 2 IVVLGDSGVGKTSLIRRLCGGEF 24 (119)
T ss_dssp EEEECSTTSSHHHHHHHHHHSS-
T ss_pred EEEECcCCCCHHHHHHHHhcCCC
Confidence 67899999999999999987743
No 389
>cd03284 ABC_MutS1 MutS1 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 sliding clam
Probab=95.24 E-value=0.033 Score=49.13 Aligned_cols=22 Identities=9% Similarity=0.152 Sum_probs=19.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhc
Q 040110 113 SVVAILDSRGFDKTAFAAEIYN 134 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~ 134 (348)
.++.|+|+.|.||||+.+.+..
T Consensus 31 ~~~~l~Gpn~sGKstllr~i~~ 52 (216)
T cd03284 31 QILLITGPNMAGKSTYLRQVAL 52 (216)
T ss_pred eEEEEECCCCCChHHHHHHHHH
Confidence 7899999999999999999853
No 390
>PRK14530 adenylate kinase; Provisional
Probab=95.23 E-value=0.015 Score=51.17 Aligned_cols=22 Identities=14% Similarity=0.259 Sum_probs=20.1
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|.|+|++|+||||+|+.++..
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~ 26 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEE 26 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999999999876
No 391
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=95.22 E-value=0.11 Score=51.73 Aligned_cols=92 Identities=11% Similarity=0.035 Sum_probs=57.5
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc-----------cccC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSW-----------LKIM 177 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-----------~~~~ 177 (348)
-..-+++.|.|++|+|||||+.++...... .=..+++++.. -+..++...+ +.++.+... ....
T Consensus 260 ~~~gs~~li~G~~G~GKt~l~~~f~~~~~~--~ge~~~y~s~e--Es~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~ 334 (484)
T TIGR02655 260 FFKDSIILATGATGTGKTLLVSKFLENACA--NKERAILFAYE--ESRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPE 334 (484)
T ss_pred ccCCcEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEEee--CCHHHHHHHH-HHcCCChHHHhhCCcEEEEEcccc
Confidence 345668889999999999999998776321 11245555443 3455555554 455543211 0112
Q ss_pred CCCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 178 GKDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 178 ~~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
....++....+.+.+.. +.-.+|+|.+.
T Consensus 335 ~~~~~~~~~~i~~~i~~~~~~~vvIDsi~ 363 (484)
T TIGR02655 335 SAGLEDHLQIIKSEIADFKPARIAIDSLS 363 (484)
T ss_pred cCChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence 23456777777777754 56689999985
No 392
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=95.22 E-value=0.029 Score=52.40 Aligned_cols=47 Identities=15% Similarity=0.048 Sum_probs=30.0
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRIL 160 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~ 160 (348)
.+++...|.|||||||+|.+.+-. .......++=|+.....++.+++
T Consensus 2 ~riv~f~GKGGVGKTT~aaA~A~~--lA~~g~kvLlvStDPAhsL~d~f 48 (322)
T COG0003 2 TRIVFFTGKGGVGKTTIAAATAVK--LAESGKKVLLVSTDPAHSLGDVF 48 (322)
T ss_pred cEEEEEecCCcccHHHHHHHHHHH--HHHcCCcEEEEEeCCCCchHhhh
Confidence 468889999999999999886544 22222335555555544544443
No 393
>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=95.21 E-value=0.03 Score=53.48 Aligned_cols=25 Identities=12% Similarity=0.076 Sum_probs=21.8
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
....+.|.|.||+|||+|.+++.+.
T Consensus 21 ~~~~~fv~G~~GtGKs~l~~~i~~~ 45 (364)
T PF05970_consen 21 EGLNFFVTGPAGTGKSFLIKAIIDY 45 (364)
T ss_pred CCcEEEEEcCCCCChhHHHHHHHHH
Confidence 3456789999999999999999887
No 394
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=95.20 E-value=0.019 Score=44.57 Aligned_cols=22 Identities=32% Similarity=0.363 Sum_probs=19.7
Q ss_pred cEEEEEECCCCCcHHHHHHHHh
Q 040110 112 HSVVAILDSRGFDKTAFAAEIY 133 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~ 133 (348)
-..++|.|++|+|||||+..+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 3578999999999999999976
No 395
>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=95.20 E-value=0.038 Score=47.39 Aligned_cols=22 Identities=14% Similarity=0.160 Sum_probs=20.5
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|+|.|+.|+||||+++.+.+.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~ 23 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAER 23 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6889999999999999999887
No 396
>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=95.17 E-value=0.093 Score=51.60 Aligned_cols=99 Identities=13% Similarity=0.070 Sum_probs=54.5
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL 174 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~ 174 (348)
..+-..|. .+-..-.++.|.|.+|+|||||+.++.... ...=..++|++... +..++.. -+..++......
T Consensus 81 ~~LD~vLg----GGi~~GsvilI~G~pGsGKTTL~lq~a~~~--a~~g~kvlYvs~EE--s~~qi~~-ra~rlg~~~~~l 151 (454)
T TIGR00416 81 GELDRVLG----GGIVPGSLILIGGDPGIGKSTLLLQVACQL--AKNQMKVLYVSGEE--SLQQIKM-RAIRLGLPEPNL 151 (454)
T ss_pred HHHHHHhc----CCccCCeEEEEEcCCCCCHHHHHHHHHHHH--HhcCCcEEEEECcC--CHHHHHH-HHHHcCCChHHe
Confidence 44444444 233455688999999999999999987652 22112467776543 3333322 233444322110
Q ss_pred -ccCCCCHHHHHHHHHHHhcCCeEEEEEeCCC
Q 040110 175 -KIMGKDYKSEKTILRDYLTNKKYFTVLDDVW 205 (348)
Q Consensus 175 -~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~ 205 (348)
-....+.+.+...+.+ .+.-++|+|.+.
T Consensus 152 ~~~~e~~~~~I~~~i~~---~~~~~vVIDSIq 180 (454)
T TIGR00416 152 YVLSETNWEQICANIEE---ENPQACVIDSIQ 180 (454)
T ss_pred EEcCCCCHHHHHHHHHh---cCCcEEEEecch
Confidence 1122344544444432 356689999985
No 397
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=95.17 E-value=0.017 Score=47.30 Aligned_cols=39 Identities=13% Similarity=0.171 Sum_probs=27.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN 152 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~ 152 (348)
++|.|+|..|+|||||+..+.+... ++.+...+..+...
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~ik~~~~ 39 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELK-RRGYRVAVIKHTDH 39 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEE-ST
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHh-HcCCceEEEEEccC
Confidence 3789999999999999999998832 24555555555544
No 398
>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=95.16 E-value=0.012 Score=55.03 Aligned_cols=50 Identities=14% Similarity=0.228 Sum_probs=43.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.|+|.++.+ +++++.+.......+..-+++-++|+.|.||||||..+.+-
T Consensus 62 ~~~G~~~~i---~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~ 111 (358)
T PF08298_consen 62 EFYGMEETI---ERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG 111 (358)
T ss_pred cccCcHHHH---HHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH
Confidence 799999999 99999997544445667789999999999999999998776
No 399
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=95.15 E-value=0.017 Score=48.49 Aligned_cols=20 Identities=25% Similarity=0.371 Sum_probs=18.6
Q ss_pred EEEEECCCCCcHHHHHHHHh
Q 040110 114 VVAILDSRGFDKTAFAAEIY 133 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~ 133 (348)
.|+|.|.+|+||||+++.+.
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 58899999999999999987
No 400
>PLN02318 phosphoribulokinase/uridine kinase
Probab=95.14 E-value=0.021 Score=57.22 Aligned_cols=27 Identities=22% Similarity=0.318 Sum_probs=24.1
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++.+|+|.|.+|+||||||+.+...
T Consensus 62 ~~~riIIGIaGpSGSGKTTLAk~Lagl 88 (656)
T PLN02318 62 NDGIILVGVAGPSGAGKTVFTEKVLNF 88 (656)
T ss_pred CCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence 456789999999999999999999876
No 401
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=95.12 E-value=0.019 Score=48.68 Aligned_cols=23 Identities=9% Similarity=0.235 Sum_probs=20.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..|.|+|+.|+||||+++.+.+.
T Consensus 5 ~~I~liG~~GaGKStl~~~La~~ 27 (172)
T PRK05057 5 RNIFLVGPMGAGKSTIGRQLAQQ 27 (172)
T ss_pred CEEEEECCCCcCHHHHHHHHHHH
Confidence 35889999999999999999987
No 402
>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=95.12 E-value=0.062 Score=50.60 Aligned_cols=22 Identities=9% Similarity=0.066 Sum_probs=19.2
Q ss_pred EEEECCCCCcHHHHHHHHhcCc
Q 040110 115 VAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~ 136 (348)
+.+.|++|.||||+++.+.+..
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l 23 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATL 23 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHH
Confidence 5679999999999999998763
No 403
>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=95.09 E-value=0.043 Score=52.82 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=35.7
Q ss_pred cccccccccccHHHHHhhcCC--------CCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCc
Q 040110 83 ALLGLQSKIINLRNLHQRLPP--------SSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYF 142 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~--------~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F 142 (348)
.++|.++.+ +.+.-.+.. ++......++-+.++|++|+|||++|+.+... ....|
T Consensus 13 ~IiGQ~eAk---k~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~--l~~~f 75 (441)
T TIGR00390 13 YIIGQDNAK---KSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPF 75 (441)
T ss_pred hccCHHHHH---HHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH--hCCeE
Confidence 577777777 666544431 00011123356789999999999999999887 44443
No 404
>PRK13946 shikimate kinase; Provisional
Probab=95.09 E-value=0.019 Score=49.17 Aligned_cols=24 Identities=13% Similarity=0.194 Sum_probs=21.7
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.|.++|++|+||||+++.+.+.
T Consensus 10 ~~~I~l~G~~GsGKsti~~~LA~~ 33 (184)
T PRK13946 10 KRTVVLVGLMGAGKSTVGRRLATM 33 (184)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 346889999999999999999987
No 405
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=95.08 E-value=0.34 Score=49.92 Aligned_cols=23 Identities=13% Similarity=0.255 Sum_probs=21.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|+.|+|||||.+.+...
T Consensus 30 e~v~LvG~NGsGKSTLLriiaG~ 52 (635)
T PRK11147 30 ERVCLVGRNGAGKSTLMKILNGE 52 (635)
T ss_pred CEEEEECCCCCCHHHHHHHHcCC
Confidence 37999999999999999999876
No 406
>PRK07721 fliI flagellum-specific ATP synthase; Validated
Probab=95.07 E-value=0.11 Score=50.63 Aligned_cols=91 Identities=12% Similarity=0.057 Sum_probs=47.2
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCc--cccCCCCH------HH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSW--LKIMGKDY------KS 183 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~------~~ 183 (348)
-..++|+|..|+|||||++.+.+.... -...+++.-.+.-++.++..+.+..-...... ....+... ..
T Consensus 158 Gq~i~I~G~sG~GKStLl~~I~~~~~~---~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~~ 234 (438)
T PRK07721 158 GQRVGIFAGSGVGKSTLMGMIARNTSA---DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGAY 234 (438)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcccCC---CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHHH
Confidence 347899999999999999988876221 12344432223334555444322211111000 01111111 11
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVW 205 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~ 205 (348)
..-.+.+++ +++++||++||+-
T Consensus 235 ~a~~iAEyfr~~g~~Vll~~Dslt 258 (438)
T PRK07721 235 TATAIAEYFRDQGLNVMLMMDSVT 258 (438)
T ss_pred HHHHHHHHHHHCCCcEEEEEeChH
Confidence 112244444 4789999999984
No 407
>PRK05973 replicative DNA helicase; Provisional
Probab=95.06 E-value=0.13 Score=45.95 Aligned_cols=48 Identities=15% Similarity=0.129 Sum_probs=31.0
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDI 163 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 163 (348)
-.++.|.|.+|+|||+|+.++..... ++. ..+++++.... ..++...+
T Consensus 64 Gsl~LIaG~PG~GKT~lalqfa~~~a-~~G-e~vlyfSlEes--~~~i~~R~ 111 (237)
T PRK05973 64 GDLVLLGARPGHGKTLLGLELAVEAM-KSG-RTGVFFTLEYT--EQDVRDRL 111 (237)
T ss_pred CCEEEEEeCCCCCHHHHHHHHHHHHH-hcC-CeEEEEEEeCC--HHHHHHHH
Confidence 34778899999999999999876532 222 24556655443 44554444
No 408
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=95.05 E-value=0.052 Score=54.08 Aligned_cols=100 Identities=14% Similarity=0.137 Sum_probs=55.5
Q ss_pred cccccccccccHHHHHhhcCCCCC----CCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSG----LGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKR 158 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~----~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~ 158 (348)
.+.|.+.....+.+.+.++..... .+-...+.+.++|++|.|||.||+++++. ...+|-.+. .. +
T Consensus 243 diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~--~~~~fi~v~-----~~-~--- 311 (494)
T COG0464 243 DIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE--SRSRFISVK-----GS-E--- 311 (494)
T ss_pred hhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhh--CCCeEEEee-----CH-H---
Confidence 555666666222333443332111 12345557889999999999999999996 444443222 11 1
Q ss_pred HHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCC
Q 040110 159 ILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 159 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~ 206 (348)
++.. .-......+...+....+...+.|.+|.++.
T Consensus 312 ----l~sk---------~vGesek~ir~~F~~A~~~~p~iiFiDEiDs 346 (494)
T COG0464 312 ----LLSK---------WVGESEKNIRELFEKARKLAPSIIFIDEIDS 346 (494)
T ss_pred ----Hhcc---------ccchHHHHHHHHHHHHHcCCCcEEEEEchhh
Confidence 1110 1112233344444444557889999999864
No 409
>PRK13975 thymidylate kinase; Provisional
Probab=95.03 E-value=0.021 Score=49.26 Aligned_cols=24 Identities=17% Similarity=0.082 Sum_probs=21.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCc
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.+|.|.|+.|+||||+|+.+....
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~l 26 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEKL 26 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 478999999999999999999883
No 410
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=95.02 E-value=0.034 Score=48.97 Aligned_cols=41 Identities=24% Similarity=0.160 Sum_probs=25.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYN 155 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~ 155 (348)
.|+|+|-||+||||+|..+.....-++.|+ ++=|....+++
T Consensus 2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~-VLvVDaDpd~n 42 (255)
T COG3640 2 KIAITGKGGVGKTTIAALLLKRLLSKGGYN-VLVVDADPDSN 42 (255)
T ss_pred eEEEecCCCccHHHHHHHHHHHHHhcCCce-EEEEeCCCCCC
Confidence 589999999999999988554422233243 33344444444
No 411
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=95.01 E-value=0.024 Score=47.27 Aligned_cols=48 Identities=23% Similarity=0.212 Sum_probs=33.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTS 171 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~ 171 (348)
.+++.|+|.+|+||||+.+.+.... +..+ -.+...+.-+++...+...
T Consensus 4 ~kvvvitGVpGvGKTTVl~~~~~~l-~~~~-----------ivNyG~~Mle~A~k~glve 51 (189)
T COG2019 4 RKVVVITGVPGVGKTTVLKIALKEL-VKHK-----------IVNYGDLMLEIAKKKGLVE 51 (189)
T ss_pred ceEEEEEcCCCCChHHHHHHHHHHH-hhce-----------eeeHhHHHHHHHHHhCCcc
Confidence 6789999999999999998877662 1111 1144566667777666653
No 412
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=94.99 E-value=0.02 Score=53.46 Aligned_cols=128 Identities=16% Similarity=0.204 Sum_probs=74.9
Q ss_pred cccccccccccHHHHHhhcCCC-------CCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-------SGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYN 155 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-------~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~ 155 (348)
.+=|-++++ ++|.+...-+ ..-+=+.++=|.++|++|.|||-||++|+++ ....| +.+..
T Consensus 152 dIGGL~~Qi---~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF-----Irvvg--- 218 (406)
T COG1222 152 DIGGLDEQI---QEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF-----IRVVG--- 218 (406)
T ss_pred hccCHHHHH---HHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCceE-----EEecc---
Confidence 344688888 7777765311 0112234555678999999999999999999 55554 32221
Q ss_pred HHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcC-CeEEEEEeCCCCh-------------h---hHHHHHhhCC
Q 040110 156 FKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTN-KKYFTVLDDVWIE-------------K---IWDDLREALP 218 (348)
Q Consensus 156 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~-kr~LlVLDdv~~~-------------~---~~~~l~~~l~ 218 (348)
.++.+..+ + +-..+...+.+.-+. ...+|.+|.++.. + .+-++...+-
T Consensus 219 -SElVqKYi----G----------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlD 283 (406)
T COG1222 219 -SELVQKYI----G----------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLD 283 (406)
T ss_pred -HHHHHHHh----c----------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhcc
Confidence 12222221 1 224455555555555 4788889988631 1 1223344443
Q ss_pred CCC--CCcEEEEEeCChhhhhh
Q 040110 219 DNQ--IGSRALITVGPHNILTS 238 (348)
Q Consensus 219 ~~~--~gskIlvTTR~~~v~~~ 238 (348)
.++ ..-|||..|...++...
T Consensus 284 GFD~~~nvKVI~ATNR~D~LDP 305 (406)
T COG1222 284 GFDPRGNVKVIMATNRPDILDP 305 (406)
T ss_pred CCCCCCCeEEEEecCCccccCh
Confidence 322 34689988887777665
No 413
>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=94.98 E-value=0.042 Score=46.47 Aligned_cols=44 Identities=23% Similarity=0.308 Sum_probs=28.1
Q ss_pred cccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 85 LGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 85 vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|....+ .++.+.+... ..... -|.|+|..|+||+.+|+.+++.
T Consensus 2 iG~s~~m---~~~~~~~~~~---a~~~~-pVlI~GE~GtGK~~lA~~IH~~ 45 (168)
T PF00158_consen 2 IGESPAM---KRLREQAKRA---ASSDL-PVLITGETGTGKELLARAIHNN 45 (168)
T ss_dssp S--SHHH---HHHHHHHHHH---TTSTS--EEEECSTTSSHHHHHHHHHHC
T ss_pred EeCCHHH---HHHHHHHHHH---hCCCC-CEEEEcCCCCcHHHHHHHHHHh
Confidence 5656666 5555555411 11223 3559999999999999999986
No 414
>PRK04182 cytidylate kinase; Provisional
Probab=94.97 E-value=0.02 Score=48.41 Aligned_cols=22 Identities=23% Similarity=0.303 Sum_probs=20.6
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|.|.|+.|+||||+|+.+...
T Consensus 2 ~I~i~G~~GsGKstia~~la~~ 23 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6889999999999999999877
No 415
>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=94.95 E-value=0.02 Score=48.37 Aligned_cols=21 Identities=19% Similarity=0.351 Sum_probs=18.2
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.|+|.+|+|||||++.+.+.
T Consensus 2 i~iTG~pG~GKTTll~k~i~~ 22 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEE 22 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHH
T ss_pred EEEECcCCCCHHHHHHHHHHH
Confidence 679999999999999998876
No 416
>PRK07196 fliI flagellum-specific ATP synthase; Validated
Probab=94.93 E-value=0.094 Score=50.98 Aligned_cols=91 Identities=11% Similarity=0.091 Sum_probs=48.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCcc--cc------CCCCHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWL--KI------MGKDYK 182 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~--~~------~~~~~~ 182 (348)
-..++|+|..|+|||||+..+.+.... +..+...++. .-.+.++....+..-+...... .. ......
T Consensus 155 GQ~igI~G~sGaGKSTLl~~I~g~~~~----dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a~ 230 (434)
T PRK07196 155 GQRVGLMAGSGVGKSVLLGMITRYTQA----DVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKAT 230 (434)
T ss_pred ceEEEEECCCCCCccHHHHHHhcccCC----CeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHHH
Confidence 347899999999999999998876221 2222222322 2234444444443332211100 00 111222
Q ss_pred HHHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 183 SEKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 183 ~~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
+....+.+++ .++++||++||+-.
T Consensus 231 e~a~~iAEyfr~~g~~Vll~~Dsltr 256 (434)
T PRK07196 231 ELCHAIATYYRDKGHDVLLLVDSLTR 256 (434)
T ss_pred HHHHHHHHHhhhccCCEEEeecchhH
Confidence 3333445554 46899999999854
No 417
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=94.93 E-value=0.024 Score=48.17 Aligned_cols=23 Identities=9% Similarity=0.343 Sum_probs=21.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++.|.|++|+|||||+++++.+
T Consensus 5 ~l~vlsgPSG~GKsTl~k~L~~~ 27 (191)
T COG0194 5 LLIVLSGPSGVGKSTLVKALLED 27 (191)
T ss_pred eEEEEECCCCCCHHHHHHHHHhh
Confidence 46788999999999999999988
No 418
>PLN02348 phosphoribulokinase
Probab=94.90 E-value=0.027 Score=53.72 Aligned_cols=27 Identities=15% Similarity=0.289 Sum_probs=24.0
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.+.+|+|.|.+|+||||||+.+.+.
T Consensus 46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~ 72 (395)
T PLN02348 46 DDGTVVIGLAADSGCGKSTFMRRLTSV 72 (395)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 356789999999999999999999876
No 419
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=94.88 E-value=0.026 Score=49.36 Aligned_cols=27 Identities=22% Similarity=0.342 Sum_probs=24.4
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..++++++++|..|+|||||..++.+.
T Consensus 19 ~~~~~~i~~~G~~gsGKTTli~~l~~~ 45 (207)
T TIGR00073 19 KHGLVVLNFMSSPGSGKTTLIEKLIDN 45 (207)
T ss_pred hcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 457899999999999999999998876
No 420
>PTZ00494 tuzin-like protein; Provisional
Probab=94.87 E-value=0.32 Score=47.15 Aligned_cols=74 Identities=12% Similarity=0.091 Sum_probs=56.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.+|.|+.+. ..+.+.|.+ .+...++++.+.|..|.||++|.+.....+.+ ..++|.+... ++.++.
T Consensus 372 ~~V~R~~eE---~~vRqvL~q---ld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~-----paV~VDVRg~---EDtLrs 437 (664)
T PTZ00494 372 FEVRREDEE---ALVRSVLTQ---MAPSHPRIVALAGGSGGGRCVPCRRAVRVEGV-----ALVHVDVGGT---EDTLRS 437 (664)
T ss_pred cccchhhHH---HHHHHHHhh---ccCCCCcEEEEecCCCCCchHHHHHHHHHcCC-----CeEEEEecCC---cchHHH
Confidence 799999999 666666652 23567889999999999999999988776333 4567777644 456788
Q ss_pred HHHHhCCC
Q 040110 163 IMKSLMPT 170 (348)
Q Consensus 163 i~~~l~~~ 170 (348)
+.+.++.+
T Consensus 438 VVKALgV~ 445 (664)
T PTZ00494 438 VVRALGVS 445 (664)
T ss_pred HHHHhCCC
Confidence 88899887
No 421
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=94.87 E-value=0.1 Score=45.58 Aligned_cols=26 Identities=19% Similarity=0.368 Sum_probs=22.3
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+...|.++.|++|+|||||.+.+.+-
T Consensus 31 ~~~~VTAlIGPSGcGKST~LR~lNRm 56 (253)
T COG1117 31 PKNKVTALIGPSGCGKSTLLRCLNRM 56 (253)
T ss_pred cCCceEEEECCCCcCHHHHHHHHHhh
Confidence 45679999999999999999987654
No 422
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=94.86 E-value=0.02 Score=52.30 Aligned_cols=23 Identities=22% Similarity=0.296 Sum_probs=19.6
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.|+|.|-||+||||++..++..
T Consensus 1 ~~ia~~gKGGVGKTT~a~nLA~~ 23 (275)
T TIGR01287 1 RQIAIYGKGGIGKSTTTQNIAAA 23 (275)
T ss_pred CeeEEeCCCcCcHHHHHHHHHHH
Confidence 36899999999999988877655
No 423
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=94.85 E-value=0.019 Score=60.07 Aligned_cols=25 Identities=20% Similarity=0.001 Sum_probs=21.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+..++.|+|+.|.|||||.+.+...
T Consensus 321 ~~~~liItGpNg~GKSTlLK~i~~~ 345 (771)
T TIGR01069 321 EKRVLAITGPNTGGKTVTLKTLGLL 345 (771)
T ss_pred CceEEEEECCCCCCchHHHHHHHHH
Confidence 3468999999999999999988644
No 424
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=94.85 E-value=0.031 Score=48.75 Aligned_cols=123 Identities=9% Similarity=0.061 Sum_probs=65.6
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe-------------------CCCC-------------------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV-------------------SNFY------------------- 154 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~-------------------~~~~------------------- 154 (348)
.|++|+|++|+|||||.+.+..-+... .+.+|+.- =+.|
T Consensus 29 evv~iiGpSGSGKSTlLRclN~LE~~~---~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~v 105 (240)
T COG1126 29 EVVVIIGPSGSGKSTLLRCLNGLEEPD---SGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVKV 105 (240)
T ss_pred CEEEEECCCCCCHHHHHHHHHCCcCCC---CceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhHHH
Confidence 488999999999999999886553332 23444421 0111
Q ss_pred ------CHHHHHHHHHHHhCCCCCcc-ccCC-CCHHHHHHHHHHHhcCCeEEEEEeCCCCh---hhHHHHHhhCCC-CCC
Q 040110 155 ------NFKRILDDIMKSLMPTSSWL-KIMG-KDYKSEKTILRDYLTNKKYFTVLDDVWIE---KIWDDLREALPD-NQI 222 (348)
Q Consensus 155 ------~~~~~~~~i~~~l~~~~~~~-~~~~-~~~~~~~~~l~~~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~-~~~ 222 (348)
..++...+++..++...... -+.. ..-.+---.|.+.|.-++-++.+|..-+. +-..++...+.. ...
T Consensus 106 ~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~e 185 (240)
T COG1126 106 KKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEE 185 (240)
T ss_pred cCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHc
Confidence 12234445555555543220 0111 12223334577888888889999998664 222222222211 123
Q ss_pred CcEEEEEeCChhhhhh
Q 040110 223 GSRALITVGPHNILTS 238 (348)
Q Consensus 223 gskIlvTTR~~~v~~~ 238 (348)
|-..++.|..-.-|+.
T Consensus 186 GmTMivVTHEM~FAr~ 201 (240)
T COG1126 186 GMTMIIVTHEMGFARE 201 (240)
T ss_pred CCeEEEEechhHHHHH
Confidence 5556666666554443
No 425
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=94.84 E-value=0.035 Score=48.73 Aligned_cols=52 Identities=19% Similarity=0.097 Sum_probs=29.8
Q ss_pred EEEEECCCCCcHHHHHHHHhcCcc-----ccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNF-----VKFYFDCHAWVRVSNFYNFKRILDDIMK 165 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~-----~~~~F~~~~wv~~~~~~~~~~~~~~i~~ 165 (348)
+..|+|++|+||||++..+..... ....-...+-++...+..+..++..+..
T Consensus 19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 678899999999987766665521 0122234444445555556666666655
No 426
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=94.84 E-value=0.02 Score=47.92 Aligned_cols=21 Identities=14% Similarity=0.191 Sum_probs=17.4
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|+|+|..|+|||||+..+...
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 789999999999999999866
No 427
>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=94.84 E-value=0.18 Score=44.88 Aligned_cols=49 Identities=20% Similarity=0.168 Sum_probs=31.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDI 163 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i 163 (348)
-.++.|.|.+|+|||+++.++..+....... .++|++... +..++...+
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~-~vly~s~E~--~~~~~~~r~ 61 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQGK-PVLFFSLEM--SKEQLLQRL 61 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhCCC-ceEEEeCCC--CHHHHHHHH
Confidence 3578889999999999999887663222122 466665443 333444444
No 428
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=94.83 E-value=0.024 Score=48.29 Aligned_cols=23 Identities=13% Similarity=0.169 Sum_probs=21.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|++|+|||||++.++..
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~~ 26 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAAL 26 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHHh
Confidence 37899999999999999999987
No 429
>PRK13236 nitrogenase reductase; Reviewed
Probab=94.82 E-value=0.028 Score=52.13 Aligned_cols=27 Identities=11% Similarity=0.176 Sum_probs=22.5
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+++.+++++.|-|||||||+|..++.-
T Consensus 3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~ 29 (296)
T PRK13236 3 DENIRQIAFYGKGGIGKSTTSQNTLAA 29 (296)
T ss_pred CcCceEEEEECCCcCCHHHHHHHHHHH
Confidence 457799999999999999988776543
No 430
>PRK15115 response regulator GlrR; Provisional
Probab=94.80 E-value=0.34 Score=47.44 Aligned_cols=46 Identities=22% Similarity=0.174 Sum_probs=31.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|..... .++.+..... .... ..+.|.|.+|+|||++|+.+.+.
T Consensus 135 ~lig~s~~~---~~~~~~~~~~---a~~~-~~vli~Ge~GtGk~~lA~~ih~~ 180 (444)
T PRK15115 135 AIVTRSPLM---LRLLEQARMV---AQSD-VSVLINGQSGTGKEILAQAIHNA 180 (444)
T ss_pred cccccCHHH---HHHHHHHHhh---ccCC-CeEEEEcCCcchHHHHHHHHHHh
Confidence 577777666 6665544311 1122 24668999999999999999876
No 431
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=94.79 E-value=0.11 Score=53.11 Aligned_cols=97 Identities=12% Similarity=0.188 Sum_probs=58.6
Q ss_pred cccccccccccHHHHHhhcCCC-C-----CCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-S-----GLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNF 156 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-~-----~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~ 156 (348)
++=|.++.+ .+|.+-+.-+ . ..+-...+=|.++|++|.|||-||++|+.. . ..-|+++..+
T Consensus 673 DVGGLeevK---~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATE--c-----sL~FlSVKGP--- 739 (953)
T KOG0736|consen 673 DVGGLEEVK---TEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATE--C-----SLNFLSVKGP--- 739 (953)
T ss_pred cccCHHHHH---HHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhh--c-----eeeEEeecCH---
Confidence 566788888 8887766421 0 112222344668999999999999999977 2 1235555443
Q ss_pred HHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCC
Q 040110 157 KRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 157 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~ 206 (348)
+++.... ..+.+.+.+.+.+.-..+++.|.+|.+++
T Consensus 740 -ELLNMYV-------------GqSE~NVR~VFerAR~A~PCVIFFDELDS 775 (953)
T KOG0736|consen 740 -ELLNMYV-------------GQSEENVREVFERARSAAPCVIFFDELDS 775 (953)
T ss_pred -HHHHHHh-------------cchHHHHHHHHHHhhccCCeEEEeccccc
Confidence 2222211 11233344444444456899999999975
No 432
>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=94.79 E-value=0.025 Score=50.72 Aligned_cols=32 Identities=16% Similarity=0.058 Sum_probs=21.0
Q ss_pred EECCCCCcHHHHHHHHhcCccccCCcceeEEEEe
Q 040110 117 ILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV 150 (348)
Q Consensus 117 I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~ 150 (348)
|+|++|+||||+++.+.+.. ...-..++-|++
T Consensus 1 ViGpaGSGKTT~~~~~~~~~--~~~~~~~~~vNL 32 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWL--ESNGRDVYIVNL 32 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHH--TTT-S-EEEEE-
T ss_pred CCCCCCCCHHHHHHHHHHHH--HhccCCceEEEc
Confidence 68999999999999998873 333223444444
No 433
>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]
Probab=94.79 E-value=0.052 Score=57.49 Aligned_cols=116 Identities=16% Similarity=0.160 Sum_probs=62.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCcccc--CCcceeEEEEeCC-----CCCHH-HHHHHHHHHhCCCCCccccCCCCHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVK--FYFDCHAWVRVSN-----FYNFK-RILDDIMKSLMPTSSWLKIMGKDYKSE 184 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~--~~F~~~~wv~~~~-----~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~ 184 (348)
.-+.|+|.+|.||||+.+.++-....+ ..=+..+++.+.. .+.-. .+..-+...+.... ...+.
T Consensus 223 ~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~--------~~~~~ 294 (824)
T COG5635 223 AKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQG--------IAKQL 294 (824)
T ss_pred hheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccC--------Ccchh
Confidence 368899999999999998876442111 2223444543321 11111 23333333333221 11223
Q ss_pred HHHHHHHhcCCeEEEEEeCCCCh------hhHHHHHhhCCCCCCCcEEEEEeCChhhhh
Q 040110 185 KTILRDYLTNKKYFTVLDDVWIE------KIWDDLREALPDNQIGSRALITVGPHNILT 237 (348)
Q Consensus 185 ~~~l~~~L~~kr~LlVLDdv~~~------~~~~~l~~~l~~~~~gskIlvTTR~~~v~~ 237 (348)
.....+.++..++|+.+|.++.. .....+...++ .-+.+++|+|+|....-.
T Consensus 295 ~~~~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~-~~~~~~~iltcR~~~~~~ 352 (824)
T COG5635 295 IEAHQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQ-EYPDAQVLLTCRPDTYKE 352 (824)
T ss_pred hHHHHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhh-hccCCeEEEEeccchhhh
Confidence 33336788899999999998653 11112222222 234788999998755443
No 434
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase.
Probab=94.78 E-value=0.27 Score=47.83 Aligned_cols=90 Identities=12% Similarity=0.177 Sum_probs=49.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCcc--ccCCCCHH------H
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWL--KIMGKDYK------S 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~------~ 183 (348)
..++|.|..|+|||||.+.+.+. ... +....+.++. ...+.++..+............ ........ .
T Consensus 146 q~~~I~G~sG~GKStLl~~I~~~--~~~--~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~~ 221 (422)
T TIGR02546 146 QRIGIFAGAGVGKSTLLGMIARG--ASA--DVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAAY 221 (422)
T ss_pred CEEEEECCCCCChHHHHHHHhCC--CCC--CEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHHHHH
Confidence 36799999999999999999876 222 2333333433 3455555555443322211110 11111111 1
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ .+++.|+++|++-.
T Consensus 222 ~a~~~AE~f~~~g~~Vl~~~Dsltr 246 (422)
T TIGR02546 222 TATAIAEYFRDQGKRVLLMMDSLTR 246 (422)
T ss_pred HHHHHHHHHHHCCCcEEEEEeCchH
Confidence 222344444 46899999999953
No 435
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=94.78 E-value=0.027 Score=49.04 Aligned_cols=24 Identities=13% Similarity=0.141 Sum_probs=20.8
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+|+|+|+.|+||||+|+.+.+.
T Consensus 2 ~~iIglTG~igsGKStva~~~~~~ 25 (201)
T COG0237 2 MLIIGLTGGIGSGKSTVAKILAEL 25 (201)
T ss_pred ceEEEEecCCCCCHHHHHHHHHHc
Confidence 468999999999999999987653
No 436
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=94.76 E-value=0.12 Score=50.79 Aligned_cols=89 Identities=15% Similarity=0.162 Sum_probs=49.4
Q ss_pred EEEEECCCCCcHHHHHH-HHhcCccccCCcce-eEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCH-HHH---
Q 040110 114 VVAILDSRGFDKTAFAA-EIYNNNFVKFYFDC-HAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDY-KSE--- 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~-~v~~~~~~~~~F~~-~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~-~~~--- 184 (348)
.++|.|..|+|||+||. .+.+. . .-+. ++++-+++.. .+.++...+...=....+.. ...+... .+.
T Consensus 143 R~~I~g~~g~GKt~Lal~~I~~q--~--~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~ap 218 (485)
T CHL00059 143 RELIIGDRQTGKTAVATDTILNQ--K--GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAP 218 (485)
T ss_pred EEEeecCCCCCHHHHHHHHHHhc--c--cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHHHH
Confidence 47899999999999964 45555 2 2243 3677776554 55666666654322221110 1111111 110
Q ss_pred --HHHHHHHh--cCCeEEEEEeCCCC
Q 040110 185 --KTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 185 --~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
.-.+.+++ +++++|||+||+-.
T Consensus 219 ~~a~aiAEyfr~~G~~VLlv~DdlTr 244 (485)
T CHL00059 219 YTGAALAEYFMYRGRHTLIIYDDLSK 244 (485)
T ss_pred HHHhhHHHHHHHcCCCEEEEEcChhH
Confidence 11133333 47899999999954
No 437
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=94.76 E-value=0.28 Score=49.14 Aligned_cols=111 Identities=15% Similarity=0.084 Sum_probs=0.0
Q ss_pred EEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeC--------------------------CCCCHHHHHHHHHHHhC
Q 040110 115 VAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVS--------------------------NFYNFKRILDDIMKSLM 168 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~--------------------------~~~~~~~~~~~i~~~l~ 168 (348)
|+|+|+.|+|||||.+.+... .... .+.+.+..+ .+.....-.+.++..++
T Consensus 351 iaiiG~NG~GKSTLlk~l~g~--~~~~-~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f~ 427 (530)
T COG0488 351 IAIVGPNGAGKSTLLKLLAGE--LGPL-SGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRFG 427 (530)
T ss_pred EEEECCCCCCHHHHHHHHhhh--cccC-CceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHcC
Q ss_pred CCCCc---cccCCCCHHHHHHHHHHHhcCCeEEEEEeCCCCh---hhHHHHHhhCCCCCCCcEEEEE
Q 040110 169 PTSSW---LKIMGKDYKSEKTILRDYLTNKKYFTVLDDVWIE---KIWDDLREALPDNQIGSRALIT 229 (348)
Q Consensus 169 ~~~~~---~~~~~~~~~~~~~~l~~~L~~kr~LlVLDdv~~~---~~~~~l~~~l~~~~~gskIlvT 229 (348)
.+... +-..-..-+...-.+...+-.+.=+||||.--|. +..+.+...+.... |+.|+|+
T Consensus 428 F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~-Gtvl~VS 493 (530)
T COG0488 428 FTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFE-GTVLLVS 493 (530)
T ss_pred CChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCC-CeEEEEe
No 438
>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]
Probab=94.75 E-value=0.11 Score=47.59 Aligned_cols=50 Identities=20% Similarity=0.147 Sum_probs=35.3
Q ss_pred cccccccccccHHHHHhhcCCC-CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.--.. +.++..+..- .......+-+++.+|.+|+||.-+++.++++
T Consensus 83 ~lfGQHla~---~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n 133 (344)
T KOG2170|consen 83 ALFGQHLAK---QLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAEN 133 (344)
T ss_pred HhhchHHHH---HHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHH
Confidence 466755555 5555555311 1234567779999999999999999999877
No 439
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=94.75 E-value=0.027 Score=47.27 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=20.5
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+|.|.|+.|+||||+|+.+.+.
T Consensus 2 iI~i~G~~GSGKstia~~la~~ 23 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAEK 23 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999876
No 440
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.75 E-value=0.14 Score=48.93 Aligned_cols=88 Identities=13% Similarity=0.164 Sum_probs=58.2
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEe-CCCCCHHHHHHHHHHHhCCCCCcc--ccCC-CCHH-----HH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRV-SNFYNFKRILDDIMKSLMPTSSWL--KIMG-KDYK-----SE 184 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~l~~~~~~~--~~~~-~~~~-----~~ 184 (348)
.++|..-+|+|||||.-++++. ..+|..+-.-+ .+.-.+.+++.+.+..-+...+.. ...+ .... ..
T Consensus 165 RiGIFAgsGVGKStLLgMiar~----t~aDv~ViaLIGERGREVrEFIE~~Lg~egl~rsViVvATSD~s~l~R~~aa~~ 240 (441)
T COG1157 165 RIGIFAGSGVGKSTLLGMIARN----TEADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFT 240 (441)
T ss_pred eeEEEecCCCcHHHHHHHHhcc----ccCCEEEEEEeeccchhHHHHHHHhcchhhccceEEEEECCCCCHHHHHHHHHH
Confidence 5889999999999999999987 44564443333 345678888888887776654431 1111 1112 22
Q ss_pred HHHHHHHhc--CCeEEEEEeCCC
Q 040110 185 KTILRDYLT--NKKYFTVLDDVW 205 (348)
Q Consensus 185 ~~~l~~~L~--~kr~LlVLDdv~ 205 (348)
.-.+.++++ +|++||++|.+-
T Consensus 241 At~IAEyFRDqG~~VLL~mDSlT 263 (441)
T COG1157 241 ATTIAEYFRDQGKRVLLIMDSLT 263 (441)
T ss_pred HHHHHHHHHhCCCeEEEEeecHH
Confidence 334666664 589999999983
No 441
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=94.75 E-value=0.16 Score=47.48 Aligned_cols=100 Identities=13% Similarity=0.118 Sum_probs=53.4
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
...+.|.|..|+||||+++.+... +...++..--+++.....+.--... .+... .... ....+.++..
T Consensus 148 ~~~ilI~G~tGSGKTTll~aL~~~--~~~~~~~~rivtIEd~~El~~~~~~---~v~~~----~~~~---~~~~~ll~~a 215 (319)
T PRK13894 148 HRNILVIGGTGSGKTTLVNAIINE--MVIQDPTERVFIIEDTGEIQCAAEN---YVQYH----TSID---VNMTALLKTT 215 (319)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHh--hhhcCCCceEEEEcCCCccccCCCC---EEEEe----cCCC---CCHHHHHHHH
Confidence 356788999999999999998865 2111111111223222211000000 00000 0011 1345567778
Q ss_pred hcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCc
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLREALPDNQIGS 224 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gs 224 (348)
|+...=.||+..+.+.+.++.+ .....+..|+
T Consensus 216 LR~~PD~IivGEiR~~Ea~~~l-~A~~tGh~G~ 247 (319)
T PRK13894 216 LRMRPDRILVGEVRGPEALDLL-MAWNTGHEGG 247 (319)
T ss_pred hcCCCCEEEEeccCCHHHHHHH-HHHHcCCCce
Confidence 8888888999999988776644 4443434443
No 442
>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=94.75 E-value=0.064 Score=46.12 Aligned_cols=23 Identities=22% Similarity=0.104 Sum_probs=21.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..|+|.|..|+||||+++.+.+.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~ 26 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKL 26 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47899999999999999999877
No 443
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=94.72 E-value=0.07 Score=48.34 Aligned_cols=81 Identities=16% Similarity=0.058 Sum_probs=43.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC--CHHHHHHHHHHHh--CCCCCccccCCCCHHHHHHHHH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY--NFKRILDDIMKSL--MPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~l--~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
+|+|.|.+|+||||++..+........ .....++...-+ +-...-..+.... +.+-+-.+++..+.+.+.+.++
T Consensus 1 IIgItG~SGSGKTTv~~~l~~~l~~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~ 78 (277)
T cd02029 1 VIAVTGSSGAGTTTVKRAFEHIFAREG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR 78 (277)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHhcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence 589999999999999998876521111 112333322211 2222222222221 1111100245677888888888
Q ss_pred HHhcCCe
Q 040110 190 DYLTNKK 196 (348)
Q Consensus 190 ~~L~~kr 196 (348)
.+.+++.
T Consensus 79 ~L~~g~~ 85 (277)
T cd02029 79 TYGETGR 85 (277)
T ss_pred HHHcCCC
Confidence 8877653
No 444
>PRK14532 adenylate kinase; Provisional
Probab=94.71 E-value=0.024 Score=48.66 Aligned_cols=21 Identities=10% Similarity=0.156 Sum_probs=19.2
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.+.|++|+||||+|+.+...
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 668999999999999999876
No 445
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=94.71 E-value=0.38 Score=47.95 Aligned_cols=23 Identities=22% Similarity=0.313 Sum_probs=21.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|.|||||++.++..
T Consensus 51 EivgIiGpNGSGKSTLLkiLaGL 73 (549)
T PRK13545 51 EIVGIIGLNGSGKSTLSNLIAGV 73 (549)
T ss_pred CEEEEEcCCCCCHHHHHHHHhCC
Confidence 47999999999999999999876
No 446
>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=94.71 E-value=0.026 Score=45.53 Aligned_cols=23 Identities=22% Similarity=0.339 Sum_probs=20.8
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+++|+|..|+|||||.+.++..
T Consensus 12 ~~~~i~G~nGsGKStLl~~l~g~ 34 (137)
T PF00005_consen 12 EIVAIVGPNGSGKSTLLKALAGL 34 (137)
T ss_dssp SEEEEEESTTSSHHHHHHHHTTS
T ss_pred CEEEEEccCCCccccceeeeccc
Confidence 47899999999999999998766
No 447
>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=94.70 E-value=0.1 Score=50.51 Aligned_cols=90 Identities=16% Similarity=0.168 Sum_probs=48.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------ 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------ 183 (348)
..++|+|..|+|||||++.+.+.. .. +..+..-++... .+.++..+.+.+-+...... ...+.....
T Consensus 138 qri~I~G~sG~GKTtLl~~i~~~~--~~--~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~~~ 213 (413)
T TIGR03497 138 QRVGIFAGSGVGKSTLLGMIARNA--KA--DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAAF 213 (413)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC--CC--CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHHH
Confidence 478999999999999999888762 22 222223344332 45555555444322111110 111111111
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++++||++||+-.
T Consensus 214 ~a~tiAEyfr~~G~~Vll~~Dsltr 238 (413)
T TIGR03497 214 TATAIAEYFRDQGKDVLLMMDSVTR 238 (413)
T ss_pred HHHHHHHHHHHCCCCEEEEEcCcHH
Confidence 112234444 47899999999843
No 448
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=94.70 E-value=0.025 Score=49.52 Aligned_cols=24 Identities=17% Similarity=0.343 Sum_probs=21.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCc
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.-|.++|++|+|||||+.++.++.
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~ 29 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDE 29 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCc
Confidence 457899999999999999998774
No 449
>PLN02796 D-glycerate 3-kinase
Probab=94.69 E-value=0.082 Score=49.70 Aligned_cols=26 Identities=19% Similarity=0.183 Sum_probs=23.2
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+-+++|.|..|+|||||++.+...
T Consensus 98 ~~pliIGI~G~sGSGKSTLa~~L~~l 123 (347)
T PLN02796 98 IPPLVIGISAPQGCGKTTLVFALVYL 123 (347)
T ss_pred CCCEEEEEECCCCCcHHHHHHHHHHH
Confidence 35678999999999999999999877
No 450
>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=94.69 E-value=0.045 Score=50.81 Aligned_cols=37 Identities=16% Similarity=0.150 Sum_probs=28.4
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+++.+. .......+++|.|++|+|||||+..+...
T Consensus 21 ~~~~~~~~----~~~~~~~~i~i~G~~G~GKttl~~~l~~~ 57 (300)
T TIGR00750 21 KQLLDRIM----PYTGNAHRVGITGTPGAGKSTLLEALGME 57 (300)
T ss_pred HHHHHhCC----cccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 45555554 23456789999999999999999998765
No 451
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=94.68 E-value=0.05 Score=51.09 Aligned_cols=37 Identities=16% Similarity=0.159 Sum_probs=28.4
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..+++.+. ....+..+|+|.|.+|+|||||+..+...
T Consensus 43 ~~l~~~~~----~~~~~~~~igi~G~~GaGKSTl~~~l~~~ 79 (332)
T PRK09435 43 QELLDALL----PHTGNALRIGITGVPGVGKSTFIEALGMH 79 (332)
T ss_pred HHHHHHHh----hcCCCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 45666555 22346779999999999999999987766
No 452
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=94.65 E-value=0.33 Score=50.56 Aligned_cols=23 Identities=22% Similarity=0.228 Sum_probs=20.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..++|+|..|+|||||++.+..-
T Consensus 492 ~~iaIvG~sGsGKSTLlklL~gl 514 (694)
T TIGR03375 492 EKVAIIGRIGSGKSTLLKLLLGL 514 (694)
T ss_pred CEEEEECCCCCCHHHHHHHHhcC
Confidence 47899999999999999998755
No 453
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=94.65 E-value=0.028 Score=51.55 Aligned_cols=23 Identities=13% Similarity=0.182 Sum_probs=19.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++++|+|-||+||||+|..++..
T Consensus 2 ~~i~~~gKGGVGKTT~a~nLA~~ 24 (279)
T PRK13230 2 RKFCFYGKGGIGKSTTVCNIAAA 24 (279)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH
Confidence 57889999999999988877654
No 454
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.64 E-value=0.46 Score=43.38 Aligned_cols=101 Identities=14% Similarity=0.151 Sum_probs=52.8
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILR 189 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~ 189 (348)
+..+++++|.+|+||||++..+......+ . ..+.+++..... ....-++.....++.+ .....+...+...+.
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~-~-~~v~~i~~D~~ri~~~~ql~~~~~~~~~~----~~~~~~~~~l~~~l~ 147 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQFHGK-K-KTVGFITTDHSRIGTVQQLQDYVKTIGFE----VIAVRDEAAMTRALT 147 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHHHHc-C-CeEEEEecCCCCHHHHHHHHHHhhhcCce----EEecCCHHHHHHHHH
Confidence 34689999999999999999887652111 1 134455443221 2222333444444433 222235555554444
Q ss_pred HHhc-CCeEEEEEeCCCC----hhhHHHHHhhC
Q 040110 190 DYLT-NKKYFTVLDDVWI----EKIWDDLREAL 217 (348)
Q Consensus 190 ~~L~-~kr~LlVLDdv~~----~~~~~~l~~~l 217 (348)
..-+ .+.=++++|..-. ...++++...+
T Consensus 148 ~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~ 180 (270)
T PRK06731 148 YFKEEARVDYILIDTAGKNYRASETVEEMIETM 180 (270)
T ss_pred HHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHH
Confidence 3322 2456777787643 23455554443
No 455
>PRK06761 hypothetical protein; Provisional
Probab=94.63 E-value=0.059 Score=49.37 Aligned_cols=24 Identities=21% Similarity=0.239 Sum_probs=21.8
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCc
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
+++.|.|++|+||||+++.+++..
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L 27 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDIL 27 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhc
Confidence 478899999999999999999883
No 456
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=94.63 E-value=0.11 Score=51.91 Aligned_cols=103 Identities=15% Similarity=0.210 Sum_probs=58.4
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
+.=|.++|++|+|||-||++|+|. -.-.| +++..+ +++.... | .+....-..+++.
T Consensus 545 PsGvLL~GPPGCGKTLlAKAVANE--ag~NF-----isVKGP----ELlNkYV---G----------ESErAVR~vFqRA 600 (802)
T KOG0733|consen 545 PSGVLLCGPPGCGKTLLAKAVANE--AGANF-----ISVKGP----ELLNKYV---G----------ESERAVRQVFQRA 600 (802)
T ss_pred CCceEEeCCCCccHHHHHHHHhhh--ccCce-----EeecCH----HHHHHHh---h----------hHHHHHHHHHHHh
Confidence 444678999999999999999998 33333 444332 2222211 1 1223333334444
Q ss_pred hcCCeEEEEEeCCCCh-------------hhHHHHHhhCCCCC--CCcEEEEEeCChhhhhh
Q 040110 192 LTNKKYFTVLDDVWIE-------------KIWDDLREALPDNQ--IGSRALITVGPHNILTS 238 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~-------------~~~~~l~~~l~~~~--~gskIlvTTR~~~v~~~ 238 (348)
-..-.+.|.+|.++.. ...++++..+-... .|--||-.|...++-..
T Consensus 601 R~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDp 662 (802)
T KOG0733|consen 601 RASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDP 662 (802)
T ss_pred hcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccch
Confidence 4557999999998631 23455555554322 34445555555555443
No 457
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=94.63 E-value=0.11 Score=49.40 Aligned_cols=107 Identities=17% Similarity=0.162 Sum_probs=59.2
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
.++=+-|||..|.|||.|+-..|+...++..- + .....+..++-+.+..... . ......+.+
T Consensus 61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~--R--------~HFh~Fm~~vh~~l~~~~~----~----~~~l~~va~ 122 (362)
T PF03969_consen 61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKR--R--------VHFHEFMLDVHSRLHQLRG----Q----DDPLPQVAD 122 (362)
T ss_pred CCceEEEECCCCCchhHHHHHHHHhCCccccc--c--------ccccHHHHHHHHHHHHHhC----C----CccHHHHHH
Confidence 34557789999999999999999885432210 0 0111233333333322100 0 112344455
Q ss_pred HhcCCeEEEEEeCCCChh-----hHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 191 YLTNKKYFTVLDDVWIEK-----IWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~~-----~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
.+.++..||.||.+.-.+ -+..+...+. ..|. |||+|-|......
T Consensus 123 ~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gv-vlVaTSN~~P~~L 172 (362)
T PF03969_consen 123 ELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGV-VLVATSNRPPEDL 172 (362)
T ss_pred HHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCC-EEEecCCCChHHH
Confidence 666777899999875432 2333334332 2343 7777777766665
No 458
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=94.61 E-value=0.39 Score=44.92 Aligned_cols=24 Identities=21% Similarity=0.241 Sum_probs=20.1
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcC
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
...+.++|+.|+||+++|..+++.
T Consensus 26 ~HA~Lf~Gp~G~GK~~lA~~lA~~ 49 (319)
T PRK08769 26 GHGLLICGPEGLGKRAVALALAEH 49 (319)
T ss_pred ceeEeeECCCCCCHHHHHHHHHHH
Confidence 345778999999999999888765
No 459
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=94.61 E-value=0.049 Score=49.97 Aligned_cols=92 Identities=11% Similarity=0.045 Sum_probs=49.3
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCccc---cCCCCHHHHH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWLK---IMGKDYKSEK 185 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~---~~~~~~~~~~ 185 (348)
..+..++.|.|.+|+|||||...+.+. ........+. .....+..+ .+.++..+.+.-... .-..+...+.
T Consensus 101 ~~~~~~v~l~G~pGsGKTTLl~~l~~~--l~~~~~~~VI--~gD~~t~~D--a~rI~~~g~pvvqi~tG~~Chl~a~mv~ 174 (290)
T PRK10463 101 ARKQLVLNLVSSPGSGKTTLLTETLMR--LKDSVPCAVI--EGDQQTVND--AARIRATGTPAIQVNTGKGCHLDAQMIA 174 (290)
T ss_pred hcCCeEEEEECCCCCCHHHHHHHHHHH--hccCCCEEEE--CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcCcHHHHH
Confidence 456889999999999999999999887 4433332222 122122222 222344433211100 0012333344
Q ss_pred HHHHHHhcCCeEEEEEeCCCC
Q 040110 186 TILRDYLTNKKYFTVLDDVWI 206 (348)
Q Consensus 186 ~~l~~~L~~kr~LlVLDdv~~ 206 (348)
..+........-+||++++-+
T Consensus 175 ~Al~~L~~~~~d~liIEnvGn 195 (290)
T PRK10463 175 DAAPRLPLDDNGILFIENVGN 195 (290)
T ss_pred HHHHHHhhcCCcEEEEECCCC
Confidence 445444444456778898854
No 460
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=94.61 E-value=0.25 Score=46.58 Aligned_cols=47 Identities=17% Similarity=0.190 Sum_probs=34.9
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHH
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIM 164 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~ 164 (348)
.++|.|..|+|||+|++++.+.. +-+.++++-++... .+.+++.++-
T Consensus 159 r~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef~ 206 (369)
T cd01134 159 TAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEFP 206 (369)
T ss_pred EEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHHH
Confidence 68899999999999999999872 22467778776554 4555666653
No 461
>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=94.60 E-value=0.028 Score=49.32 Aligned_cols=23 Identities=17% Similarity=0.290 Sum_probs=18.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++|+|.|-||+||||++..++..
T Consensus 1 ~~iav~gKGGvGKTt~~~nLA~~ 23 (212)
T cd02117 1 RQIAIYGKGGIGKSTTSQNLSAA 23 (212)
T ss_pred CEEEEECCCcCcHHHHHHHHHHH
Confidence 46889999999999988776544
No 462
>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=94.60 E-value=0.18 Score=46.84 Aligned_cols=90 Identities=13% Similarity=0.101 Sum_probs=51.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcc-eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFD-CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRDY 191 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~ 191 (348)
..+.|.|..|+||||++..+.+. +....+ .++ +++.....+ .-.--..+.. .. ..........++..
T Consensus 133 ~~ilI~G~tGSGKTTll~al~~~--i~~~~~~~ri-~tiEd~~El---~~~~~~~v~~-----~~-~~~~~~~~~~l~~a 200 (299)
T TIGR02782 133 KNILVVGGTGSGKTTLANALLAE--IAKNDPTDRV-VIIEDTREL---QCAAPNVVQL-----RT-SDDAISMTRLLKAT 200 (299)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH--hhccCCCceE-EEECCchhh---cCCCCCEEEE-----Ee-cCCCCCHHHHHHHH
Confidence 35679999999999999999876 332211 222 233322111 0000000000 00 01112556678888
Q ss_pred hcCCeEEEEEeCCCChhhHHHHH
Q 040110 192 LTNKKYFTVLDDVWIEKIWDDLR 214 (348)
Q Consensus 192 L~~kr~LlVLDdv~~~~~~~~l~ 214 (348)
|+...=.+|+..+.+.+.++.+.
T Consensus 201 LR~~pD~iivGEiR~~ea~~~l~ 223 (299)
T TIGR02782 201 LRLRPDRIIVGEVRGGEALDLLK 223 (299)
T ss_pred hcCCCCEEEEeccCCHHHHHHHH
Confidence 88888888999999887666543
No 463
>PRK08356 hypothetical protein; Provisional
Probab=94.60 E-value=0.037 Score=47.90 Aligned_cols=21 Identities=19% Similarity=0.151 Sum_probs=19.1
Q ss_pred EEEEEECCCCCcHHHHHHHHh
Q 040110 113 SVVAILDSRGFDKTAFAAEIY 133 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~ 133 (348)
.+++|.|++|+||||+|+.+.
T Consensus 6 ~~i~~~G~~gsGK~t~a~~l~ 26 (195)
T PRK08356 6 MIVGVVGKIAAGKTTVAKFFE 26 (195)
T ss_pred EEEEEECCCCCCHHHHHHHHH
Confidence 578999999999999999994
No 464
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=94.60 E-value=0.031 Score=52.79 Aligned_cols=44 Identities=20% Similarity=0.252 Sum_probs=36.2
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+||.++.+ ..|...+. ++...-+.|.|..|+||||+|+.+++-
T Consensus 18 ~ivGq~~~k---~al~~~~~------~p~~~~vli~G~~GtGKs~~ar~~~~~ 61 (350)
T CHL00081 18 AIVGQEEMK---LALILNVI------DPKIGGVMIMGDRGTGKSTTIRALVDL 61 (350)
T ss_pred HHhChHHHH---HHHHHhcc------CCCCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 899999988 88887777 345555669999999999999998654
No 465
>PRK08472 fliI flagellum-specific ATP synthase; Validated
Probab=94.60 E-value=0.15 Score=49.61 Aligned_cols=23 Identities=17% Similarity=0.330 Sum_probs=20.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..++|.|..|+|||||+..+...
T Consensus 158 q~~~i~G~sG~GKStLl~~i~~~ 180 (434)
T PRK08472 158 QKLGIFAGSGVGKSTLMGMIVKG 180 (434)
T ss_pred CEEEEECCCCCCHHHHHHHHhhc
Confidence 36899999999999999999876
No 466
>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI. Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.
Probab=94.59 E-value=0.24 Score=47.95 Aligned_cols=90 Identities=13% Similarity=0.147 Sum_probs=49.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCCCcc--ccCCCCHHH------
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTSSWL--KIMGKDYKS------ 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~------ 183 (348)
..++|+|..|+|||||+..+.+.. .. +..+...++... .+.++...+...=....... ...+.....
T Consensus 138 q~~~I~G~sG~GKTtLl~~I~~~~--~~--~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~ 213 (411)
T TIGR03496 138 QRMGIFAGSGVGKSTLLGMMARYT--EA--DVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAF 213 (411)
T ss_pred cEEEEECCCCCCHHHHHHHHhcCC--CC--CEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHH
Confidence 368999999999999999888762 21 234444555433 34455555443321111110 111111111
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVWI 206 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~~ 206 (348)
..-.+.+++ +++++||++||+-.
T Consensus 214 ~a~tiAEyfr~~G~~Vll~~Dsltr 238 (411)
T TIGR03496 214 YATAIAEYFRDQGKDVLLLMDSLTR 238 (411)
T ss_pred HHHHHHHHHHHCCCCEEEEEeChHH
Confidence 112233444 57899999999843
No 467
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=94.59 E-value=0.036 Score=45.73 Aligned_cols=23 Identities=17% Similarity=0.371 Sum_probs=20.0
Q ss_pred EEEEECCCCCcHHHHHHHHhcCc
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNN 136 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~ 136 (348)
.|+++|.+|+|||||+..+.+..
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~~ 24 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYDE 24 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCC
Confidence 37899999999999999998653
No 468
>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=94.59 E-value=0.083 Score=50.26 Aligned_cols=117 Identities=15% Similarity=0.125 Sum_probs=60.2
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCccccCCcc-eeEEEEeCCCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNFVKFYFD-CHAWVRVSNFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTILRD 190 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~ 190 (348)
-..+.|+|+.|+||||++..+.+. +....+ ...-+++..+... .+..+......-.. .....+.......++.
T Consensus 134 ~glilI~GpTGSGKTTtL~aLl~~--i~~~~~~~~~Ivt~EdpiE~--~~~~~~~~~~~v~Q--~~v~~~~~~~~~~l~~ 207 (358)
T TIGR02524 134 EGIVFITGATGSGKSTLLAAIIRE--LAEAPDSHRKILTYEAPIEF--VYDEIETISASVCQ--SEIPRHLNNFAAGVRN 207 (358)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHH--HhhcCCCCcEEEEeCCCceE--eccccccccceeee--eeccccccCHHHHHHH
Confidence 468999999999999999998766 322222 1111222222110 01111000000000 0001122345566777
Q ss_pred HhcCCeEEEEEeCCCChhhHHHHHhhCCCCCCCcEEEEEeCChhhhh
Q 040110 191 YLTNKKYFTVLDDVWIEKIWDDLREALPDNQIGSRALITVGPHNILT 237 (348)
Q Consensus 191 ~L~~kr~LlVLDdv~~~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~ 237 (348)
.|+...-.+++..+.+.+.......... .|-.|+-|--..++..
T Consensus 208 aLR~~Pd~i~vGEiRd~et~~~al~aa~---tGh~v~tTlHa~~~~~ 251 (358)
T TIGR02524 208 ALRRKPHAILVGEARDAETISAALEAAL---TGHPVYTTLHSSGVAE 251 (358)
T ss_pred HhccCCCEEeeeeeCCHHHHHHHHHHHH---cCCcEEEeeccCCHHH
Confidence 8888888999999988766654433322 2444555555444443
No 469
>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=94.58 E-value=0.026 Score=47.03 Aligned_cols=33 Identities=12% Similarity=0.115 Sum_probs=24.3
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEE
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAW 147 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~w 147 (348)
+++|+|+.|+|||||+..+....+- ..+...+.
T Consensus 1 vi~i~G~~gsGKTtl~~~l~~~l~~-~G~~V~vi 33 (155)
T TIGR00176 1 VLQIVGPKNSGKTTLIERLVKALKA-RGYRVATI 33 (155)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEE
Confidence 5789999999999999999887322 23444433
No 470
>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=94.58 E-value=0.034 Score=52.37 Aligned_cols=44 Identities=18% Similarity=0.220 Sum_probs=34.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+||.+..+ ..++-.+. ++...-+.|.|..|+|||||++.+..-
T Consensus 5 ~ivgq~~~~---~al~~~~~------~~~~g~vli~G~~G~gKttl~r~~~~~ 48 (337)
T TIGR02030 5 AIVGQDEMK---LALLLNVI------DPKIGGVMVMGDRGTGKSTAVRALAAL 48 (337)
T ss_pred ccccHHHHH---HHHHHHhc------CCCCCeEEEEcCCCCCHHHHHHHHHHh
Confidence 678988888 88776666 333445779999999999999999754
No 471
>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=94.58 E-value=0.051 Score=54.55 Aligned_cols=44 Identities=27% Similarity=0.371 Sum_probs=34.9
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|.+..+ +.+...+.. ....-+.|+|++|+|||++|+.+++.
T Consensus 66 ~iiGqs~~i---~~l~~al~~------~~~~~vLi~Ge~GtGKt~lAr~i~~~ 109 (531)
T TIGR02902 66 EIIGQEEGI---KALKAALCG------PNPQHVIIYGPPGVGKTAAARLVLEE 109 (531)
T ss_pred HeeCcHHHH---HHHHHHHhC------CCCceEEEECCCCCCHHHHHHHHHHH
Confidence 799999999 888877661 22234568999999999999999764
No 472
>TIGR01026 fliI_yscN ATPase FliI/YscN family. This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.
Probab=94.58 E-value=0.11 Score=50.67 Aligned_cols=89 Identities=13% Similarity=0.174 Sum_probs=46.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhCCCCCcc--ccCCCCHH------H
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSN-FYNFKRILDDIMKSLMPTSSWL--KIMGKDYK------S 183 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~------~ 183 (348)
..++|.|..|+|||||++.+.+.. . . +..+...++. .-.+.++..+.+..-....... ...+.... .
T Consensus 164 q~~~I~G~sG~GKStLl~~I~~~~--~-~-~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~~ 239 (440)
T TIGR01026 164 QRIGIFAGSGVGKSTLLGMIARNT--E-A-DVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGAY 239 (440)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCC--C-C-CEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHHH
Confidence 367999999999999999988762 2 1 2223333333 2244444444333211111000 11111111 1
Q ss_pred HHHHHHHHh--cCCeEEEEEeCCC
Q 040110 184 EKTILRDYL--TNKKYFTVLDDVW 205 (348)
Q Consensus 184 ~~~~l~~~L--~~kr~LlVLDdv~ 205 (348)
..-.+.+++ +++++||++||+-
T Consensus 240 ~a~t~AE~frd~G~~Vll~~DslT 263 (440)
T TIGR01026 240 VATAIAEYFRDQGKDVLLLMDSVT 263 (440)
T ss_pred HHHHHHHHHHHCCCCEEEEEeChH
Confidence 112233444 5789999999984
No 473
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=94.58 E-value=0.21 Score=41.74 Aligned_cols=20 Identities=25% Similarity=0.325 Sum_probs=18.4
Q ss_pred EEEEEECCCCCcHHHHHHHH
Q 040110 113 SVVAILDSRGFDKTAFAAEI 132 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v 132 (348)
++..|+|+.|.|||++.+.+
T Consensus 22 ~~~~i~G~NgsGKS~~l~~i 41 (162)
T cd03227 22 SLTIITGPNGSGKSTILDAI 41 (162)
T ss_pred CEEEEECCCCCCHHHHHHHH
Confidence 68899999999999999886
No 474
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=94.57 E-value=0.039 Score=47.23 Aligned_cols=23 Identities=17% Similarity=0.323 Sum_probs=21.1
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
+.+.|+|++|+||+||+..+...
T Consensus 3 r~ivl~Gpsg~GK~tl~~~L~~~ 25 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAELIQE 25 (184)
T ss_pred cEEEEECCCCCCHHHHHHHHHhc
Confidence 57889999999999999999887
No 475
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=94.57 E-value=0.19 Score=50.32 Aligned_cols=91 Identities=10% Similarity=0.038 Sum_probs=55.6
Q ss_pred CCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc-----------ccCC
Q 040110 110 PTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL-----------KIMG 178 (348)
Q Consensus 110 ~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-----------~~~~ 178 (348)
+.-.++.|.|.+|+|||+||.++.... ...-..++|++.... ..++...+ ..++.+.... ....
T Consensus 271 ~~g~~~li~G~~G~GKT~l~~~~~~~~--~~~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~ 345 (509)
T PRK09302 271 FRGSIILVSGATGTGKTLLASKFAEAA--CRRGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPES 345 (509)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHHH--HhCCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCccc
Confidence 345678889999999999999987662 222246778776543 44444443 4444321110 1122
Q ss_pred CCHHHHHHHHHHHhcC-CeEEEEEeCCC
Q 040110 179 KDYKSEKTILRDYLTN-KKYFTVLDDVW 205 (348)
Q Consensus 179 ~~~~~~~~~l~~~L~~-kr~LlVLDdv~ 205 (348)
...++....+.+.+.. +.-++|+|.+.
T Consensus 346 ~~~~~~~~~i~~~i~~~~~~~vVIDslt 373 (509)
T PRK09302 346 YGLEDHLIIIKREIEEFKPSRVAIDPLS 373 (509)
T ss_pred CCHHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence 3445666677776644 55689999984
No 476
>PRK13409 putative ATPase RIL; Provisional
Probab=94.55 E-value=0.28 Score=50.03 Aligned_cols=125 Identities=12% Similarity=0.066 Sum_probs=63.0
Q ss_pred EEEEEECCCCCcHHHHHHHHhcCccccC-C--cce-eEEEEeC----CCCCHHHH-------------HHHHHHHhCCCC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNNNFVKF-Y--FDC-HAWVRVS----NFYNFKRI-------------LDDIMKSLMPTS 171 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~~~~~~-~--F~~-~~wv~~~----~~~~~~~~-------------~~~i~~~l~~~~ 171 (348)
.+++|+|+.|+|||||++.++....... . ++. +.++.-. ...++.+. ..++++.++...
T Consensus 366 eiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~y~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~~l~l~~ 445 (590)
T PRK13409 366 EVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKISYKPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIKPLQLER 445 (590)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEEEecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHHHCCCHH
Confidence 4899999999999999999987622111 0 111 1111110 11122222 233444444321
Q ss_pred Cc-cccCCCCHHHHHH-HHHHHhcCCeEEEEEeCCCCh---h---hHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 172 SW-LKIMGKDYKSEKT-ILRDYLTNKKYFTVLDDVWIE---K---IWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 172 ~~-~~~~~~~~~~~~~-~l~~~L~~kr~LlVLDdv~~~---~---~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
.. .....-+..+.+. .|...|....-+++||.--+. . ....+...+.. ..|..||++|.+...+..
T Consensus 446 ~~~~~~~~LSGGe~QRvaiAraL~~~p~llLLDEPt~~LD~~~~~~l~~~l~~l~~-~~g~tviivsHD~~~~~~ 519 (590)
T PRK13409 446 LLDKNVKDLSGGELQRVAIAACLSRDADLYLLDEPSAHLDVEQRLAVAKAIRRIAE-EREATALVVDHDIYMIDY 519 (590)
T ss_pred HHhCCcccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hCCCEEEEEeCCHHHHHH
Confidence 00 0112223333332 356667778899999987643 2 22222222222 124568888888765554
No 477
>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=94.55 E-value=0.024 Score=51.03 Aligned_cols=21 Identities=19% Similarity=0.422 Sum_probs=19.3
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|.++|++|+||||+|+.+...
T Consensus 2 Ivl~G~pGSGKST~a~~La~~ 22 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKK 22 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 678999999999999999876
No 478
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=94.54 E-value=0.03 Score=51.78 Aligned_cols=23 Identities=17% Similarity=0.320 Sum_probs=20.6
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++.+.|++|+||||+|+.+...
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~ 25 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAK 25 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHH
Confidence 46788999999999999999876
No 479
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=94.54 E-value=0.18 Score=52.91 Aligned_cols=139 Identities=10% Similarity=0.026 Sum_probs=83.8
Q ss_pred cccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 040110 87 LQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKS 166 (348)
Q Consensus 87 r~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~ 166 (348)
-.... .+|.+.+. ...|+.|.|..|+||||-.-+.+-+.-. .....+=++-.+......+...+++.
T Consensus 51 v~~~~---~~i~~ai~--------~~~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAee 117 (845)
T COG1643 51 VTAVR---DEILKAIE--------QNQVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEE 117 (845)
T ss_pred cHHHH---HHHHHHHH--------hCCEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHH
Confidence 34455 77778777 4558889999999999976665544111 22234444444455667888899999
Q ss_pred hCCCCCcc---------------ccCCCCHHHHHHHHH-HHhcCCeEEEEEeCCCChh-hH----HHHHhhCCCCCCCcE
Q 040110 167 LMPTSSWL---------------KIMGKDYKSEKTILR-DYLTNKKYFTVLDDVWIEK-IW----DDLREALPDNQIGSR 225 (348)
Q Consensus 167 l~~~~~~~---------------~~~~~~~~~~~~~l~-~~L~~kr~LlVLDdv~~~~-~~----~~l~~~l~~~~~gsk 225 (348)
++.+..+. ...-.+...+...++ ..+-.+=-.+|+|.+.+.. +- ..++..++....--|
T Consensus 118 l~~~~G~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLK 197 (845)
T COG1643 118 LGEKLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLK 197 (845)
T ss_pred hCCCcCceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCce
Confidence 98763320 122234555655555 3334456678899997642 11 222222222222479
Q ss_pred EEEEeCChhhhhh
Q 040110 226 ALITVGPHNILTS 238 (348)
Q Consensus 226 IlvTTR~~~v~~~ 238 (348)
|||+|=.-+..+.
T Consensus 198 iIimSATld~~rf 210 (845)
T COG1643 198 LIIMSATLDAERF 210 (845)
T ss_pred EEEEecccCHHHH
Confidence 9999887776655
No 480
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=94.53 E-value=0.034 Score=51.77 Aligned_cols=22 Identities=23% Similarity=0.211 Sum_probs=18.7
Q ss_pred EEEEEECCCCCcHHHHHHHHhc
Q 040110 113 SVVAILDSRGFDKTAFAAEIYN 134 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~ 134 (348)
+++.+.|-||+||||+|.+++-
T Consensus 2 r~~~~~GKGGVGKTT~aaA~A~ 23 (305)
T PF02374_consen 2 RILFFGGKGGVGKTTVAAALAL 23 (305)
T ss_dssp SEEEEEESTTSSHHHHHHHHHH
T ss_pred eEEEEecCCCCCcHHHHHHHHH
Confidence 5788999999999999977654
No 481
>PF13245 AAA_19: Part of AAA domain
Probab=94.53 E-value=0.038 Score=40.09 Aligned_cols=22 Identities=18% Similarity=0.154 Sum_probs=16.2
Q ss_pred cEEEEEECCCCCcHHHHHHHHh
Q 040110 112 HSVVAILDSRGFDKTAFAAEIY 133 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~ 133 (348)
.+++.|.|++|.|||+++....
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i 31 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARI 31 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHH
Confidence 4467789999999995554443
No 482
>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=94.52 E-value=0.057 Score=43.08 Aligned_cols=50 Identities=12% Similarity=0.109 Sum_probs=33.4
Q ss_pred cccccccccccHHHHHhhcCCC-CCCCCCCcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 83 ALLGLQSKIINLRNLHQRLPPS-SGLGQPTHSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~-~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|..-.. +.+++.|..- .......+-|++.+|.+|+|||.+++.+++.
T Consensus 26 ~l~GQhla~---~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ 76 (127)
T PF06309_consen 26 NLFGQHLAV---EVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH 76 (127)
T ss_pred HccCcHHHH---HHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence 466655444 4444444210 0134566789999999999999988888766
No 483
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=94.50 E-value=0.39 Score=45.10 Aligned_cols=25 Identities=24% Similarity=0.224 Sum_probs=20.7
Q ss_pred CcEEEEEECCCCCcHHHHHHHHhcC
Q 040110 111 THSVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 111 ~~~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
-...+.++|+.|+||||+|..+...
T Consensus 20 ~~hA~Lf~G~~G~GK~~la~~~a~~ 44 (325)
T PRK08699 20 RPNAWLFAGKKGIGKTAFARFAAQA 44 (325)
T ss_pred cceEEEeECCCCCCHHHHHHHHHHH
Confidence 3446778999999999999988765
No 484
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=94.50 E-value=0.22 Score=48.07 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=19.2
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
-.++|++|.|||++..+++|.
T Consensus 238 YLLYGPPGTGKSS~IaAmAn~ 258 (457)
T KOG0743|consen 238 YLLYGPPGTGKSSFIAAMANY 258 (457)
T ss_pred ceeeCCCCCCHHHHHHHHHhh
Confidence 457999999999999999988
No 485
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=94.50 E-value=0.044 Score=51.55 Aligned_cols=64 Identities=14% Similarity=0.083 Sum_probs=44.7
Q ss_pred cccccccccccHHHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 83 ALLGLQSKIINLRNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 83 ~~vGr~~~~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
.++|.++.. ..+...+. ..+ -+.+.|.+|+|||+||+.++.. .... ..++.+.......++...
T Consensus 25 ~~~g~~~~~---~~~l~a~~------~~~--~vll~G~PG~gKT~la~~lA~~--l~~~---~~~i~~t~~l~p~d~~G~ 88 (329)
T COG0714 25 VVVGDEEVI---ELALLALL------AGG--HVLLEGPPGVGKTLLARALARA--LGLP---FVRIQCTPDLLPSDLLGT 88 (329)
T ss_pred eeeccHHHH---HHHHHHHH------cCC--CEEEECCCCccHHHHHHHHHHH--hCCC---eEEEecCCCCCHHHhcCc
Confidence 588888888 77777776 122 3668999999999999999988 4433 345555666665554433
No 486
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=94.48 E-value=0.031 Score=47.05 Aligned_cols=22 Identities=18% Similarity=0.324 Sum_probs=20.1
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+.|+|++|+||||+|+.+.+.
T Consensus 4 ~i~~~G~~GsGKst~~~~la~~ 25 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALAQA 25 (171)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4778999999999999999977
No 487
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=94.48 E-value=0.083 Score=46.71 Aligned_cols=23 Identities=22% Similarity=0.343 Sum_probs=20.9
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
..|+|+|++|.|||||.+.+..-
T Consensus 31 E~VaiIG~SGaGKSTLLR~lngl 53 (258)
T COG3638 31 EMVAIIGPSGAGKSTLLRSLNGL 53 (258)
T ss_pred cEEEEECCCCCcHHHHHHHHhcc
Confidence 37899999999999999999875
No 488
>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=94.46 E-value=0.28 Score=53.79 Aligned_cols=129 Identities=12% Similarity=0.043 Sum_probs=68.3
Q ss_pred HHHHhhcCCCCCCCCCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHHHHHHhCCCCCcc
Q 040110 95 RNLHQRLPPSSGLGQPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDDIMKSLMPTSSWL 174 (348)
Q Consensus 95 ~~l~~~L~~~~~~~~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~ 174 (348)
++|++.|. +..++.|+|..|+||||..-.+.-. ......+.+.++-.+......+...++..++......
T Consensus 73 ~~Il~~l~--------~~~vvii~g~TGSGKTTqlPq~lle--~~~~~~~~I~~tQPRRlAA~svA~RvA~elg~~lG~~ 142 (1283)
T TIGR01967 73 EDIAEAIA--------ENQVVIIAGETGSGKTTQLPKICLE--LGRGSHGLIGHTQPRRLAARTVAQRIAEELGTPLGEK 142 (1283)
T ss_pred HHHHHHHH--------hCceEEEeCCCCCCcHHHHHHHHHH--cCCCCCceEecCCccHHHHHHHHHHHHHHhCCCcceE
Confidence 66777776 2347889999999999977655543 1111223343333333455667778888876542210
Q ss_pred ---------------ccCCCCHHHHHHHHHH-HhcCCeEEEEEeCCCCh----hhH-HHHHhhCCCCCCCcEEEEEeCCh
Q 040110 175 ---------------KIMGKDYKSEKTILRD-YLTNKKYFTVLDDVWIE----KIW-DDLREALPDNQIGSRALITVGPH 233 (348)
Q Consensus 175 ---------------~~~~~~~~~~~~~l~~-~L~~kr~LlVLDdv~~~----~~~-~~l~~~l~~~~~gskIlvTTR~~ 233 (348)
.+.-.+..-+...+.. .+-++=-.||||.+... +-. ..+...+.. .+..|+|++|=.-
T Consensus 143 VGY~vR~~~~~s~~T~I~~~TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~-rpdLKlIlmSATl 221 (1283)
T TIGR01967 143 VGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPR-RPDLKIIITSATI 221 (1283)
T ss_pred EeeEEcCCcccCCCceeeeccccHHHHHhhhCcccccCcEEEEcCcchhhccchhHHHHHHHHHhh-CCCCeEEEEeCCc
Confidence 0111233444444432 11123356889999752 111 122322222 2356888877554
Q ss_pred h
Q 040110 234 N 234 (348)
Q Consensus 234 ~ 234 (348)
+
T Consensus 222 d 222 (1283)
T TIGR01967 222 D 222 (1283)
T ss_pred C
Confidence 4
No 489
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=94.46 E-value=0.45 Score=42.61 Aligned_cols=100 Identities=15% Similarity=0.130 Sum_probs=60.4
Q ss_pred CCCcEEEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeC-CCCCHHHHHHHHHHHhCCCCCccccCCCCHHHHHHH
Q 040110 109 QPTHSVVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVS-NFYNFKRILDDIMKSLMPTSSWLKIMGKDYKSEKTI 187 (348)
Q Consensus 109 ~~~~~vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~ 187 (348)
.++-+++.++|.-|+|||.+.+.+..... + +.++-+.+. +..+...+...|+..+..+... .-.....+....
T Consensus 48 ~d~qg~~~vtGevGsGKTv~~Ral~~s~~--~--d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~--~~~~~~e~~~~~ 121 (269)
T COG3267 48 ADGQGILAVTGEVGSGKTVLRRALLASLN--E--DQVAVVVIDKPTLSDATLLEAIVADLESQPKV--NVNAVLEQIDRE 121 (269)
T ss_pred hcCCceEEEEecCCCchhHHHHHHHHhcC--C--CceEEEEecCcchhHHHHHHHHHHHhccCccc--hhHHHHHHHHHH
Confidence 35566899999999999999996554411 1 112223333 4467888999999988874211 001122333333
Q ss_pred HHHHh-cCCe-EEEEEeCCCCh--hhHHHHH
Q 040110 188 LRDYL-TNKK-YFTVLDDVWIE--KIWDDLR 214 (348)
Q Consensus 188 l~~~L-~~kr-~LlVLDdv~~~--~~~~~l~ 214 (348)
+.... +++| ..++.|+.... +.++.++
T Consensus 122 L~al~~~g~r~v~l~vdEah~L~~~~le~Lr 152 (269)
T COG3267 122 LAALVKKGKRPVVLMVDEAHDLNDSALEALR 152 (269)
T ss_pred HHHHHHhCCCCeEEeehhHhhhChhHHHHHH
Confidence 44443 4567 89999998654 4455544
No 490
>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=94.46 E-value=0.028 Score=47.91 Aligned_cols=21 Identities=14% Similarity=0.262 Sum_probs=19.2
Q ss_pred EEEEECCCCCcHHHHHHHHhc
Q 040110 114 VVAILDSRGFDKTAFAAEIYN 134 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~ 134 (348)
+|+|+|+.|+||||+++.+.+
T Consensus 1 ii~itG~~gsGKst~~~~l~~ 21 (179)
T cd02022 1 IIGLTGGIGSGKSTVAKLLKE 21 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 479999999999999999876
No 491
>PRK13695 putative NTPase; Provisional
Probab=94.44 E-value=0.036 Score=46.95 Aligned_cols=22 Identities=23% Similarity=0.291 Sum_probs=19.7
Q ss_pred EEEEECCCCCcHHHHHHHHhcC
Q 040110 114 VVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.++|+|.+|+|||||++.+++.
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~~ 23 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAEL 23 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999999998876
No 492
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=94.44 E-value=0.035 Score=49.03 Aligned_cols=53 Identities=13% Similarity=0.103 Sum_probs=33.6
Q ss_pred HHHHHHHhcCCeEEEEEeCCCC------hhhHHHHHhhCCCCCCCcEEEEEeCChhhhhh
Q 040110 185 KTILRDYLTNKKYFTVLDDVWI------EKIWDDLREALPDNQIGSRALITVGPHNILTS 238 (348)
Q Consensus 185 ~~~l~~~L~~kr~LlVLDdv~~------~~~~~~l~~~l~~~~~gskIlvTTR~~~v~~~ 238 (348)
.-.+.+.|-..+-+|+.|.--. ....-.+...+. ...|..||+.|-+..+|..
T Consensus 150 RVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~-~~~g~tii~VTHd~~lA~~ 208 (226)
T COG1136 150 RVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELN-KERGKTIIMVTHDPELAKY 208 (226)
T ss_pred HHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHH-HhcCCEEEEEcCCHHHHHh
Confidence 3457777888888888887532 122222222221 1346789999999999886
No 493
>CHL00060 atpB ATP synthase CF1 beta subunit
Probab=94.43 E-value=0.13 Score=50.54 Aligned_cols=92 Identities=14% Similarity=0.142 Sum_probs=54.4
Q ss_pred EEEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhCCCC-------Cc--cccCCCCHH-
Q 040110 114 VVAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFY-NFKRILDDIMKSLMPTS-------SW--LKIMGKDYK- 182 (348)
Q Consensus 114 vi~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~-------~~--~~~~~~~~~- 182 (348)
.++|.|.+|+|||||+..+...... .+=+.++++-++... .+.+++..+...-.... +. ....+....
T Consensus 163 R~gIfgg~GvGKs~L~~~~~~~~~~-~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~~~ 241 (494)
T CHL00060 163 KIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGA 241 (494)
T ss_pred EEeeecCCCCChhHHHHHHHHHHHH-hcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCCHHH
Confidence 5789999999999999988766111 111577788776654 45677777765221110 00 011111211
Q ss_pred -----HHHHHHHHHhc--CC-eEEEEEeCCCC
Q 040110 183 -----SEKTILRDYLT--NK-KYFTVLDDVWI 206 (348)
Q Consensus 183 -----~~~~~l~~~L~--~k-r~LlVLDdv~~ 206 (348)
-..-.+.++++ ++ ++||++||+-.
T Consensus 242 R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR 273 (494)
T CHL00060 242 RMRVGLTALTMAEYFRDVNKQDVLLFIDNIFR 273 (494)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCEEEEcccchH
Confidence 12223566664 34 99999999954
No 494
>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=94.43 E-value=0.031 Score=50.72 Aligned_cols=23 Identities=17% Similarity=0.283 Sum_probs=19.6
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++|+|.|-||+||||++..++..
T Consensus 2 ~~iav~~KGGvGKTT~~~nLA~~ 24 (270)
T cd02040 2 RQIAIYGKGGIGKSTTTQNLSAA 24 (270)
T ss_pred cEEEEEeCCcCCHHHHHHHHHHH
Confidence 46888899999999999887665
No 495
>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=94.43 E-value=0.037 Score=47.09 Aligned_cols=44 Identities=14% Similarity=0.231 Sum_probs=28.8
Q ss_pred EEEECCCCCcHHHHHHHHhcCccccCCcceeEEEEeCCCCCHHHHHHH
Q 040110 115 VAILDSRGFDKTAFAAEIYNNNFVKFYFDCHAWVRVSNFYNFKRILDD 162 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~ 162 (348)
+.|.|.+|+|||+|+.++..... ++. ..++|++... +..++...
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~-~~g-~~v~~~s~e~--~~~~~~~~ 45 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL-ARG-EPGLYVTLEE--SPEELIEN 45 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-HCC-CcEEEEECCC--CHHHHHHH
Confidence 56899999999999998766522 222 3466776543 34444443
No 496
>PRK01184 hypothetical protein; Provisional
Probab=94.42 E-value=0.035 Score=47.39 Aligned_cols=22 Identities=18% Similarity=0.398 Sum_probs=18.2
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
.+|+|+|++|+||||+|+ ++..
T Consensus 2 ~~i~l~G~~GsGKsT~a~-~~~~ 23 (184)
T PRK01184 2 KIIGVVGMPGSGKGEFSK-IARE 23 (184)
T ss_pred cEEEEECCCCCCHHHHHH-HHHH
Confidence 478999999999999987 4443
No 497
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=94.41 E-value=0.036 Score=43.39 Aligned_cols=21 Identities=19% Similarity=0.327 Sum_probs=19.4
Q ss_pred EEEECCCCCcHHHHHHHHhcC
Q 040110 115 VAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 115 i~I~G~gGvGKTtLA~~v~~~ 135 (348)
|+|+|+.|+|||||...+.+.
T Consensus 2 V~iiG~~~~GKSTlin~l~~~ 22 (116)
T PF01926_consen 2 VAIIGRPNVGKSTLINALTGK 22 (116)
T ss_dssp EEEEESTTSSHHHHHHHHHTS
T ss_pred EEEECCCCCCHHHHHHHHhcc
Confidence 689999999999999999974
No 498
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=94.41 E-value=0.04 Score=46.10 Aligned_cols=23 Identities=17% Similarity=0.306 Sum_probs=21.3
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++++|+|..|+|||||+..+...
T Consensus 2 ~vi~i~G~~gsGKTTli~~L~~~ 24 (159)
T cd03116 2 KVIGFVGYSGSGKTTLLEKLIPA 24 (159)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999999999876
No 499
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=94.38 E-value=0.091 Score=53.53 Aligned_cols=52 Identities=13% Similarity=0.125 Sum_probs=30.6
Q ss_pred cEEEEEECCCCCcHHHHHHHHhcCcc-ccCCcceeEEEEeCCCCCHHHHHHHH
Q 040110 112 HSVVAILDSRGFDKTAFAAEIYNNNF-VKFYFDCHAWVRVSNFYNFKRILDDI 163 (348)
Q Consensus 112 ~~vi~I~G~gGvGKTtLA~~v~~~~~-~~~~F~~~~wv~~~~~~~~~~~~~~i 163 (348)
.++..|.|.+|+||||++..+..... ....=...+.+.....-....+...+
T Consensus 167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHH
Confidence 35778899999999999988776521 11111134555555444444444444
No 500
>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=94.38 E-value=0.1 Score=52.94 Aligned_cols=23 Identities=22% Similarity=0.177 Sum_probs=19.5
Q ss_pred EEEEEECCCCCcHHHHHHHHhcC
Q 040110 113 SVVAILDSRGFDKTAFAAEIYNN 135 (348)
Q Consensus 113 ~vi~I~G~gGvGKTtLA~~v~~~ 135 (348)
++..|.|.+|+||||++..+...
T Consensus 161 ~~~vitGgpGTGKTt~v~~ll~~ 183 (586)
T TIGR01447 161 NFSLITGGPGTGKTTTVARLLLA 183 (586)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHH
Confidence 57788999999999998887654
Done!