Query 043562
Match_columns 176
No_of_seqs 225 out of 1321
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 06:14:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043562.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043562hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4658 Apoptotic ATPase [Sign 99.9 1.6E-25 3.4E-30 202.1 11.6 134 34-176 161-297 (889)
2 PF00931 NB-ARC: NB-ARC domain 99.9 1.1E-24 2.4E-29 174.5 7.9 137 36-176 1-137 (287)
3 PLN03210 Resistant to P. syrin 99.9 7.1E-21 1.5E-25 177.4 15.5 154 11-176 164-332 (1153)
4 TIGR02928 orc1/cdc6 family rep 99.2 2.2E-10 4.8E-15 94.9 10.0 124 23-149 7-141 (365)
5 PRK00411 cdc6 cell division co 99.1 8.8E-10 1.9E-14 92.3 9.2 125 21-149 20-150 (394)
6 cd01128 rho_factor Transcripti 98.9 4.4E-09 9.6E-14 83.3 6.9 92 54-148 16-114 (249)
7 PF13191 AAA_16: AAA ATPase do 98.8 2E-09 4.4E-14 80.4 3.5 46 32-77 1-47 (185)
8 TIGR03015 pepcterm_ATPase puta 98.8 3.5E-08 7.6E-13 78.3 10.2 97 54-158 43-146 (269)
9 PRK09376 rho transcription ter 98.8 2.8E-09 6.2E-14 88.8 3.1 86 55-148 170-267 (416)
10 cd00009 AAA The AAA+ (ATPases 98.7 1.1E-07 2.4E-12 67.2 9.8 57 34-94 1-57 (151)
11 PF13401 AAA_22: AAA domain; P 98.7 1.5E-08 3.2E-13 71.7 3.5 102 53-160 3-113 (131)
12 PF05729 NACHT: NACHT domain 98.6 2.5E-08 5.5E-13 72.9 3.8 86 55-149 1-93 (166)
13 PF01637 Arch_ATPase: Archaeal 98.6 4.3E-08 9.3E-13 75.4 4.4 43 33-77 1-43 (234)
14 PTZ00202 tuzin; Provisional 98.6 6.8E-07 1.5E-11 75.7 11.2 75 29-111 260-335 (550)
15 TIGR00767 rho transcription te 98.6 1.5E-07 3.4E-12 78.8 7.3 91 55-148 169-266 (415)
16 COG1474 CDC6 Cdc6-related prot 98.6 4.3E-07 9.4E-12 75.7 9.6 129 27-162 14-153 (366)
17 PRK04841 transcriptional regul 98.5 6.5E-07 1.4E-11 82.1 8.4 69 31-110 14-83 (903)
18 PRK11331 5-methylcytosine-spec 98.4 2.6E-06 5.7E-11 72.4 10.4 108 31-149 175-284 (459)
19 PTZ00112 origin recognition co 98.4 2E-06 4.4E-11 78.0 10.0 121 25-148 749-880 (1164)
20 KOG2543 Origin recognition com 98.3 1.4E-06 3E-11 72.1 6.8 116 30-150 5-128 (438)
21 PRK13342 recombination factor 98.3 1.6E-06 3.5E-11 73.4 7.2 45 31-77 12-59 (413)
22 TIGR00635 ruvB Holliday juncti 98.3 1.5E-06 3.2E-11 70.4 6.7 47 31-77 4-53 (305)
23 cd01133 F1-ATPase_beta F1 ATP 98.3 1.7E-06 3.6E-11 69.4 6.6 115 55-171 70-202 (274)
24 PF13173 AAA_14: AAA domain 98.3 2.4E-06 5.2E-11 60.7 5.7 79 54-156 2-80 (128)
25 PRK08118 topology modulation p 98.2 7E-07 1.5E-11 66.6 2.3 35 56-90 3-38 (167)
26 PRK00080 ruvB Holliday junctio 98.2 5.1E-06 1.1E-10 68.2 7.3 47 31-77 25-74 (328)
27 PRK04195 replication factor C 98.1 1.2E-05 2.6E-10 69.4 8.9 47 31-77 14-62 (482)
28 PF05496 RuvB_N: Holliday junc 98.1 2.8E-06 6.1E-11 66.1 4.3 53 31-85 24-79 (233)
29 PRK06893 DNA replication initi 98.1 1.2E-05 2.7E-10 62.8 7.9 37 54-92 39-75 (229)
30 KOG2028 ATPase related to the 98.1 4.5E-06 9.9E-11 69.0 5.4 73 52-147 160-232 (554)
31 PRK05564 DNA polymerase III su 98.1 5.1E-05 1.1E-09 61.9 11.1 109 31-160 4-118 (313)
32 COG2256 MGS1 ATPase related to 98.0 1.7E-05 3.6E-10 66.2 6.7 87 32-147 25-114 (436)
33 PRK13341 recombination factor 98.0 3.4E-05 7.3E-10 69.7 9.1 50 31-84 28-80 (725)
34 PF04665 Pox_A32: Poxvirus A32 98.0 4.4E-06 9.6E-11 65.7 2.5 36 55-92 14-49 (241)
35 smart00382 AAA ATPases associa 98.0 1.9E-05 4.1E-10 55.0 5.5 37 55-93 3-39 (148)
36 PRK07261 topology modulation p 98.0 3.6E-05 7.8E-10 57.5 7.2 54 56-109 2-56 (171)
37 PRK14957 DNA polymerase III su 97.9 8.3E-05 1.8E-09 65.1 9.8 46 31-77 16-61 (546)
38 PRK14949 DNA polymerase III su 97.9 8.4E-05 1.8E-09 68.0 9.9 46 31-77 16-61 (944)
39 PHA02544 44 clamp loader, smal 97.9 5.6E-05 1.2E-09 61.5 7.7 46 31-77 21-66 (316)
40 PRK08116 hypothetical protein; 97.9 6.2E-05 1.3E-09 60.3 7.6 47 55-109 115-161 (268)
41 PRK03992 proteasome-activating 97.9 2.8E-05 6.1E-10 65.5 5.7 48 30-77 130-188 (389)
42 smart00763 AAA_PrkA PrkA AAA d 97.8 2.5E-05 5.5E-10 64.8 5.1 48 31-78 51-102 (361)
43 PRK14961 DNA polymerase III su 97.8 0.00018 3.9E-09 60.0 10.1 46 31-77 16-61 (363)
44 PRK06696 uridine kinase; Valid 97.8 3.2E-05 7E-10 60.1 5.2 42 36-77 3-45 (223)
45 PRK07003 DNA polymerase III su 97.8 0.00014 3E-09 65.6 9.7 46 31-77 16-61 (830)
46 PLN03025 replication factor C 97.8 0.00012 2.5E-09 60.0 8.6 45 31-77 13-57 (319)
47 PF13207 AAA_17: AAA domain; P 97.8 1.5E-05 3.3E-10 55.5 2.9 22 56-77 1-22 (121)
48 PRK08727 hypothetical protein; 97.8 9E-05 2E-09 58.1 7.6 37 54-92 41-77 (233)
49 PRK07667 uridine kinase; Provi 97.8 3.8E-05 8.2E-10 58.5 5.0 38 40-77 3-40 (193)
50 TIGR03689 pup_AAA proteasome A 97.8 5.2E-05 1.1E-09 65.8 6.2 47 31-77 182-239 (512)
51 PRK14963 DNA polymerase III su 97.8 0.0002 4.4E-09 62.2 9.9 46 31-77 14-59 (504)
52 TIGR02639 ClpA ATP-dependent C 97.8 9.7E-05 2.1E-09 67.0 8.2 45 31-77 182-226 (731)
53 PRK12377 putative replication 97.8 0.00013 2.7E-09 57.9 7.8 37 54-92 101-137 (248)
54 TIGR02903 spore_lon_C ATP-depe 97.8 0.00018 3.9E-09 64.0 9.4 46 31-78 154-199 (615)
55 PRK12323 DNA polymerase III su 97.8 0.00026 5.7E-09 62.9 10.2 46 31-77 16-61 (700)
56 PRK14960 DNA polymerase III su 97.7 0.00022 4.8E-09 63.5 9.6 46 31-77 15-60 (702)
57 PRK14958 DNA polymerase III su 97.7 0.00022 4.7E-09 62.1 9.5 46 31-77 16-61 (509)
58 PRK10865 protein disaggregatio 97.7 0.00013 2.9E-09 67.2 8.2 45 31-77 178-222 (857)
59 PRK14956 DNA polymerase III su 97.7 0.00031 6.7E-09 60.5 9.7 46 31-77 18-63 (484)
60 PRK14951 DNA polymerase III su 97.7 0.0003 6.5E-09 62.5 9.8 46 31-77 16-61 (618)
61 PF05673 DUF815: Protein of un 97.7 0.00014 3.1E-09 57.2 7.0 51 27-77 23-75 (249)
62 PRK00440 rfc replication facto 97.7 0.00036 7.7E-09 56.5 9.5 45 31-77 17-61 (319)
63 PRK08084 DNA replication initi 97.7 0.00018 4E-09 56.4 7.2 37 54-92 45-81 (235)
64 PRK09361 radB DNA repair and r 97.7 0.00021 4.5E-09 55.4 7.5 56 42-100 11-66 (225)
65 PRK14962 DNA polymerase III su 97.7 0.00036 7.8E-09 60.2 9.5 46 31-77 14-59 (472)
66 PRK06645 DNA polymerase III su 97.6 0.00058 1.3E-08 59.4 10.6 46 31-77 21-66 (507)
67 TIGR03346 chaperone_ClpB ATP-d 97.6 0.0002 4.4E-09 65.9 8.1 45 31-77 173-217 (852)
68 KOG2227 Pre-initiation complex 97.6 0.00039 8.4E-09 59.2 9.0 115 27-147 146-266 (529)
69 COG2255 RuvB Holliday junction 97.6 6.5E-05 1.4E-09 60.3 4.2 48 31-78 26-76 (332)
70 PF00308 Bac_DnaA: Bacterial d 97.6 8.1E-05 1.8E-09 57.9 4.6 54 48-109 28-83 (219)
71 cd01393 recA_like RecA is a b 97.6 0.00051 1.1E-08 53.1 9.1 59 42-102 7-71 (226)
72 cd01120 RecA-like_NTPases RecA 97.6 0.00023 4.9E-09 51.4 6.7 39 56-96 1-39 (165)
73 PRK08972 fliI flagellum-specif 97.6 0.00032 6.9E-09 59.8 8.4 113 54-170 162-290 (444)
74 cd01135 V_A-ATPase_B V/A-type 97.6 0.00026 5.6E-09 56.8 7.4 116 55-170 70-204 (276)
75 PRK07994 DNA polymerase III su 97.6 0.00047 1E-08 61.5 9.7 46 31-77 16-61 (647)
76 PRK08691 DNA polymerase III su 97.6 0.00075 1.6E-08 60.5 10.9 46 31-77 16-61 (709)
77 PRK14088 dnaA chromosomal repl 97.6 0.00022 4.8E-09 61.0 7.2 48 54-109 130-179 (440)
78 TIGR01242 26Sp45 26S proteasom 97.6 7.6E-05 1.7E-09 62.2 4.0 48 30-77 121-179 (364)
79 cd01132 F1_ATPase_alpha F1 ATP 97.5 0.00033 7.2E-09 56.2 7.2 112 55-170 70-199 (274)
80 PRK14969 DNA polymerase III su 97.5 0.0011 2.3E-08 58.1 10.9 46 31-77 16-61 (527)
81 TIGR02639 ClpA ATP-dependent C 97.5 0.00049 1.1E-08 62.5 9.1 116 30-160 453-578 (731)
82 PRK07952 DNA replication prote 97.5 0.00058 1.2E-08 54.1 8.4 48 42-91 87-134 (244)
83 PRK14964 DNA polymerase III su 97.5 0.00066 1.4E-08 58.8 9.4 45 31-76 13-57 (491)
84 PRK00149 dnaA chromosomal repl 97.5 0.00026 5.7E-09 60.7 6.9 50 33-84 125-176 (450)
85 PRK06002 fliI flagellum-specif 97.5 0.00062 1.3E-08 58.2 9.0 114 54-171 165-293 (450)
86 KOG0733 Nuclear AAA ATPase (VC 97.5 0.00027 5.9E-09 62.0 6.9 93 31-147 190-292 (802)
87 PRK14952 DNA polymerase III su 97.5 0.00099 2.2E-08 58.9 10.5 46 31-77 13-58 (584)
88 PRK05922 type III secretion sy 97.5 0.00081 1.8E-08 57.3 9.5 113 55-171 158-286 (434)
89 PRK05896 DNA polymerase III su 97.5 0.00025 5.4E-09 62.6 6.6 46 31-77 16-61 (605)
90 PRK07594 type III secretion sy 97.5 0.00046 1E-08 58.8 8.1 114 54-172 155-285 (433)
91 PRK08149 ATP synthase SpaL; Va 97.5 0.00066 1.4E-08 57.8 8.9 112 54-169 151-278 (428)
92 PRK09270 nucleoside triphospha 97.5 0.00019 4E-09 56.1 5.3 28 50-77 29-56 (229)
93 PRK08927 fliI flagellum-specif 97.5 0.00057 1.2E-08 58.3 8.6 115 54-172 158-288 (442)
94 PRK15455 PrkA family serine pr 97.5 0.00013 2.8E-09 64.0 4.7 47 31-77 76-126 (644)
95 PF00485 PRK: Phosphoribulokin 97.5 7.8E-05 1.7E-09 56.6 2.9 22 56-77 1-22 (194)
96 TIGR00362 DnaA chromosomal rep 97.5 0.00049 1.1E-08 58.2 8.0 25 53-77 135-159 (405)
97 TIGR03305 alt_F1F0_F1_bet alte 97.5 0.0003 6.4E-09 60.2 6.6 115 55-170 139-270 (449)
98 PRK12597 F0F1 ATP synthase sub 97.5 0.00034 7.4E-09 60.0 7.0 117 55-172 144-277 (461)
99 PRK12402 replication factor C 97.5 0.00014 3E-09 59.5 4.4 45 31-77 15-59 (337)
100 TIGR03420 DnaA_homol_Hda DnaA 97.5 0.00018 3.8E-09 55.6 4.8 53 36-92 22-74 (226)
101 PF05621 TniB: Bacterial TniB 97.5 0.002 4.3E-08 52.3 10.9 118 27-148 30-156 (302)
102 PTZ00301 uridine kinase; Provi 97.5 0.00013 2.8E-09 56.4 3.9 24 54-77 3-26 (210)
103 PRK11034 clpA ATP-dependent Cl 97.5 0.00033 7.1E-09 63.7 7.0 45 31-77 186-230 (758)
104 PRK12608 transcription termina 97.5 0.00046 1E-08 57.7 7.2 102 42-148 122-231 (380)
105 PRK07764 DNA polymerase III su 97.4 0.001 2.3E-08 61.0 10.0 46 31-77 15-60 (824)
106 PRK05642 DNA replication initi 97.4 0.00046 9.9E-09 54.2 6.6 37 54-92 45-81 (234)
107 PRK06936 type III secretion sy 97.4 0.00082 1.8E-08 57.4 8.5 114 54-171 162-291 (439)
108 KOG0991 Replication factor C, 97.4 0.00044 9.5E-09 54.4 6.3 99 31-149 27-125 (333)
109 PRK05480 uridine/cytidine kina 97.4 0.00013 2.9E-09 55.9 3.5 25 53-77 5-29 (209)
110 PRK08233 hypothetical protein; 97.4 0.00014 3E-09 54.2 3.4 24 54-77 3-26 (182)
111 TIGR02237 recomb_radB DNA repa 97.4 0.00039 8.4E-09 53.2 6.0 55 46-103 4-58 (209)
112 PTZ00185 ATPase alpha subunit; 97.4 0.0012 2.6E-08 57.3 9.4 115 55-169 190-326 (574)
113 PRK09280 F0F1 ATP synthase sub 97.4 0.0005 1.1E-08 59.0 7.0 114 55-170 145-276 (463)
114 PRK09099 type III secretion sy 97.4 0.00096 2.1E-08 57.0 8.6 116 53-172 162-293 (441)
115 CHL00095 clpC Clp protease ATP 97.4 0.00018 3.8E-09 66.1 4.4 45 31-77 179-223 (821)
116 TIGR00235 udk uridine kinase. 97.4 0.00017 3.7E-09 55.3 3.7 25 53-77 5-29 (207)
117 PRK10865 protein disaggregatio 97.4 0.0011 2.4E-08 61.1 9.6 47 31-77 568-621 (857)
118 PRK05541 adenylylsulfate kinas 97.4 0.00017 3.7E-09 53.8 3.6 36 53-90 6-41 (176)
119 PF13238 AAA_18: AAA domain; P 97.4 0.00013 2.8E-09 50.9 2.7 21 57-77 1-21 (129)
120 TIGR03498 FliI_clade3 flagella 97.4 0.00083 1.8E-08 57.1 7.9 115 54-171 140-269 (418)
121 cd01131 PilT Pilus retraction 97.4 0.0004 8.6E-09 53.1 5.5 91 55-155 2-92 (198)
122 PRK08939 primosomal protein Dn 97.4 0.00037 7.9E-09 57.0 5.6 73 53-147 155-227 (306)
123 TIGR02881 spore_V_K stage V sp 97.4 0.00029 6.2E-09 56.1 4.9 46 32-77 7-65 (261)
124 KOG0735 AAA+-type ATPase [Post 97.4 0.0011 2.5E-08 59.2 8.8 66 27-93 404-469 (952)
125 TIGR03346 chaperone_ClpB ATP-d 97.4 0.0016 3.5E-08 60.1 10.2 47 31-77 565-618 (852)
126 TIGR01039 atpD ATP synthase, F 97.4 0.00077 1.7E-08 57.7 7.6 114 55-171 144-276 (461)
127 CHL00095 clpC Clp protease ATP 97.4 0.0015 3.3E-08 60.0 10.0 47 31-77 509-562 (821)
128 PRK14970 DNA polymerase III su 97.4 0.0015 3.4E-08 54.3 9.3 46 31-77 17-62 (367)
129 COG0466 Lon ATP-dependent Lon 97.4 0.00023 5E-09 63.3 4.4 53 30-84 322-378 (782)
130 TIGR01041 ATP_syn_B_arch ATP s 97.3 0.00075 1.6E-08 58.0 7.4 116 55-170 142-276 (458)
131 TIGR01040 V-ATPase_V1_B V-type 97.3 0.00075 1.6E-08 57.8 7.3 117 55-171 142-286 (466)
132 COG1484 DnaC DNA replication p 97.3 0.00037 7.9E-09 55.5 5.2 49 53-109 104-152 (254)
133 CHL00176 ftsH cell division pr 97.3 0.00044 9.6E-09 61.7 6.1 47 31-77 183-239 (638)
134 PRK08181 transposase; Validate 97.3 0.0006 1.3E-08 54.7 6.2 35 55-91 107-141 (269)
135 PF01695 IstB_IS21: IstB-like 97.3 0.00043 9.3E-09 52.1 5.0 36 54-91 47-82 (178)
136 COG0542 clpA ATP-binding subun 97.3 0.0014 3E-08 59.4 8.9 114 31-159 491-617 (786)
137 COG1618 Predicted nucleotide k 97.3 0.0002 4.4E-09 53.0 2.9 24 54-77 5-28 (179)
138 PF00158 Sigma54_activat: Sigm 97.3 0.0015 3.2E-08 48.8 7.5 45 33-77 1-45 (168)
139 PRK06762 hypothetical protein; 97.3 0.00025 5.4E-09 52.3 3.3 24 54-77 2-25 (166)
140 cd01123 Rad51_DMC1_radA Rad51_ 97.3 0.0012 2.6E-08 51.3 7.2 60 43-102 8-71 (235)
141 PRK07940 DNA polymerase III su 97.3 0.0025 5.4E-08 53.9 9.6 47 31-77 5-59 (394)
142 cd01136 ATPase_flagellum-secre 97.3 0.0022 4.7E-08 52.9 9.0 113 54-170 69-197 (326)
143 PRK06921 hypothetical protein; 97.3 0.00086 1.9E-08 53.7 6.5 37 54-92 117-154 (266)
144 PF12775 AAA_7: P-loop contain 97.3 0.00069 1.5E-08 54.4 5.9 34 41-77 23-56 (272)
145 TIGR03345 VI_ClpV1 type VI sec 97.3 0.00033 7.1E-09 64.5 4.6 45 31-77 187-231 (852)
146 TIGR03345 VI_ClpV1 type VI sec 97.3 0.0012 2.6E-08 60.9 8.2 47 31-77 566-619 (852)
147 PRK14087 dnaA chromosomal repl 97.3 0.00069 1.5E-08 58.2 6.2 49 53-109 140-190 (450)
148 TIGR03324 alt_F1F0_F1_al alter 97.3 0.0013 2.9E-08 56.8 7.9 111 55-169 163-291 (497)
149 PRK05688 fliI flagellum-specif 97.2 0.0022 4.7E-08 55.0 9.1 114 54-171 168-297 (451)
150 PRK12422 chromosomal replicati 97.2 0.0023 5.1E-08 54.9 9.3 25 53-77 140-164 (445)
151 PRK06547 hypothetical protein; 97.2 0.00055 1.2E-08 51.3 4.9 26 52-77 13-38 (172)
152 PRK06835 DNA replication prote 97.2 0.00076 1.7E-08 55.6 6.1 35 55-91 184-218 (329)
153 PF00004 AAA: ATPase family as 97.2 0.00023 4.9E-09 49.8 2.5 21 57-77 1-21 (132)
154 PRK11034 clpA ATP-dependent Cl 97.2 0.0017 3.7E-08 59.1 8.6 114 31-159 458-581 (758)
155 PRK06526 transposase; Provisio 97.2 0.0003 6.5E-09 56.0 3.4 23 55-77 99-121 (254)
156 PF13671 AAA_33: AAA domain; P 97.2 0.0003 6.4E-09 50.3 3.1 22 56-77 1-22 (143)
157 COG0468 RecA RecA/RadA recombi 97.2 0.0017 3.7E-08 52.3 7.5 65 41-108 47-111 (279)
158 TIGR01243 CDC48 AAA family ATP 97.2 0.0006 1.3E-08 61.9 5.3 48 30-77 177-235 (733)
159 cd02023 UMPK Uridine monophosp 97.2 0.00026 5.5E-09 53.8 2.5 22 56-77 1-22 (198)
160 TIGR03496 FliI_clade1 flagella 97.2 0.0014 3E-08 55.6 7.2 112 55-170 138-265 (411)
161 cd02019 NK Nucleoside/nucleoti 97.2 0.00032 6.9E-09 44.5 2.5 22 56-77 1-22 (69)
162 PLN00020 ribulose bisphosphate 97.2 0.0014 3E-08 54.9 6.8 26 52-77 146-171 (413)
163 PRK07960 fliI flagellum-specif 97.2 0.0016 3.5E-08 55.8 7.4 111 54-172 175-305 (455)
164 KOG0989 Replication factor C, 97.2 0.00081 1.8E-08 54.6 5.3 115 31-162 36-156 (346)
165 PRK08903 DnaA regulatory inact 97.2 0.00076 1.6E-08 52.3 5.1 36 41-77 30-65 (227)
166 cd01394 radB RadB. The archaea 97.2 0.0016 3.4E-08 50.2 6.8 53 42-96 7-59 (218)
167 TIGR02546 III_secr_ATP type II 97.2 0.0033 7.1E-08 53.6 9.2 112 54-170 145-273 (422)
168 PRK14950 DNA polymerase III su 97.2 0.0008 1.7E-08 59.6 5.7 46 31-77 16-61 (585)
169 PF00448 SRP54: SRP54-type pro 97.1 0.00073 1.6E-08 51.7 4.7 54 54-109 1-55 (196)
170 PRK09183 transposase/IS protei 97.1 0.0013 2.8E-08 52.5 6.3 23 55-77 103-125 (259)
171 COG0572 Udk Uridine kinase [Nu 97.1 0.00043 9.4E-09 53.6 3.4 26 52-77 6-31 (218)
172 PRK13343 F0F1 ATP synthase sub 97.1 0.0017 3.7E-08 56.3 7.3 112 55-170 163-292 (502)
173 TIGR00390 hslU ATP-dependent p 97.1 0.0018 3.9E-08 55.0 7.3 76 31-108 12-103 (441)
174 PRK06820 type III secretion sy 97.1 0.0015 3.3E-08 55.8 6.9 109 55-170 164-291 (440)
175 PRK03839 putative kinase; Prov 97.1 0.00038 8.2E-09 52.1 2.9 22 56-77 2-23 (180)
176 TIGR01360 aden_kin_iso1 adenyl 97.1 0.00048 1E-08 51.5 3.4 25 53-77 2-26 (188)
177 PRK05201 hslU ATP-dependent pr 97.1 0.0016 3.6E-08 55.3 6.8 47 31-77 15-73 (443)
178 TIGR00150 HI0065_YjeE ATPase, 97.1 0.0011 2.4E-08 47.7 4.8 40 39-78 7-46 (133)
179 COG1373 Predicted ATPase (AAA+ 97.1 0.0046 1E-07 52.3 9.4 82 56-163 39-121 (398)
180 COG2909 MalT ATP-dependent tra 97.1 0.0027 5.9E-08 57.6 8.2 67 40-110 24-91 (894)
181 COG1428 Deoxynucleoside kinase 97.1 0.00043 9.3E-09 53.3 2.8 24 54-77 4-27 (216)
182 PRK14086 dnaA chromosomal repl 97.1 0.0007 1.5E-08 59.9 4.5 24 54-77 314-337 (617)
183 PRK14738 gmk guanylate kinase; 97.1 0.00059 1.3E-08 52.5 3.6 32 46-77 5-36 (206)
184 PRK08472 fliI flagellum-specif 97.1 0.0037 8.1E-08 53.4 8.7 111 54-171 157-285 (434)
185 PRK04196 V-type ATP synthase s 97.1 0.0022 4.7E-08 55.2 7.3 113 55-169 144-277 (460)
186 cd02025 PanK Pantothenate kina 97.1 0.00036 7.9E-09 54.3 2.4 22 56-77 1-22 (220)
187 KOG2004 Mitochondrial ATP-depe 97.1 0.00074 1.6E-08 60.3 4.5 53 30-84 410-466 (906)
188 TIGR02012 tigrfam_recA protein 97.1 0.0018 3.9E-08 53.2 6.5 58 39-98 39-97 (321)
189 PRK14965 DNA polymerase III su 97.1 0.0054 1.2E-07 54.3 10.0 46 31-77 16-61 (576)
190 KOG1969 DNA replication checkp 97.1 0.0025 5.5E-08 57.1 7.8 73 52-148 324-398 (877)
191 CHL00059 atpA ATP synthase CF1 97.1 0.0031 6.7E-08 54.4 8.1 111 55-169 142-270 (485)
192 COG0470 HolB ATPase involved i 97.0 0.006 1.3E-07 49.4 9.5 46 32-77 2-47 (325)
193 PTZ00454 26S protease regulato 97.0 0.00099 2.1E-08 56.4 5.0 48 30-77 144-202 (398)
194 PRK09281 F0F1 ATP synthase sub 97.0 0.0026 5.6E-08 55.3 7.6 112 55-170 163-292 (502)
195 TIGR02322 phosphon_PhnN phosph 97.0 0.00055 1.2E-08 51.1 3.1 23 55-77 2-24 (179)
196 PRK00131 aroK shikimate kinase 97.0 0.00057 1.2E-08 50.3 3.1 24 54-77 4-27 (175)
197 TIGR02782 TrbB_P P-type conjug 97.0 0.0029 6.2E-08 51.6 7.3 94 55-159 133-226 (299)
198 PF00625 Guanylate_kin: Guanyl 97.0 0.00083 1.8E-08 50.5 3.9 37 54-92 2-38 (183)
199 CHL00181 cbbX CbbX; Provisiona 97.0 0.0013 2.8E-08 53.2 5.2 46 32-77 24-82 (287)
200 TIGR03263 guanyl_kin guanylate 97.0 0.00063 1.4E-08 50.7 3.1 23 55-77 2-24 (180)
201 PRK14955 DNA polymerase III su 97.0 0.0011 2.5E-08 55.9 4.9 46 31-77 16-61 (397)
202 TIGR01026 fliI_yscN ATPase Fli 97.0 0.0031 6.8E-08 54.0 7.6 113 54-170 163-291 (440)
203 TIGR03497 FliI_clade2 flagella 97.0 0.004 8.7E-08 52.9 8.1 113 53-169 136-264 (413)
204 PRK07721 fliI flagellum-specif 97.0 0.0033 7.2E-08 53.8 7.6 114 53-169 157-285 (438)
205 TIGR00678 holB DNA polymerase 97.0 0.011 2.4E-07 44.4 9.8 35 42-77 3-37 (188)
206 PTZ00361 26 proteosome regulat 97.0 0.0013 2.7E-08 56.3 4.9 52 31-84 183-245 (438)
207 cd02024 NRK1 Nicotinamide ribo 97.0 0.00055 1.2E-08 52.0 2.5 22 56-77 1-22 (187)
208 PRK14959 DNA polymerase III su 96.9 0.0097 2.1E-07 53.0 10.5 46 31-77 16-61 (624)
209 PRK06217 hypothetical protein; 96.9 0.0006 1.3E-08 51.3 2.6 35 56-91 3-39 (183)
210 PF07728 AAA_5: AAA domain (dy 96.9 0.0016 3.5E-08 46.4 4.7 82 57-156 2-86 (139)
211 COG0467 RAD55 RecA-superfamily 96.9 0.0014 3.1E-08 52.0 4.9 57 45-105 14-70 (260)
212 PRK05342 clpX ATP-dependent pr 96.9 0.0021 4.6E-08 54.6 6.1 46 32-77 72-131 (412)
213 PRK04040 adenylate kinase; Pro 96.9 0.0008 1.7E-08 51.1 3.2 24 54-77 2-25 (188)
214 PRK09354 recA recombinase A; P 96.9 0.003 6.6E-08 52.4 6.8 59 38-98 43-102 (349)
215 cd02028 UMPK_like Uridine mono 96.9 0.00078 1.7E-08 50.7 3.0 22 56-77 1-22 (179)
216 PRK00625 shikimate kinase; Pro 96.9 0.00071 1.5E-08 50.8 2.8 22 56-77 2-23 (173)
217 PLN02318 phosphoribulokinase/u 96.9 0.0014 3E-08 57.9 4.9 34 44-77 55-88 (656)
218 TIGR00554 panK_bact pantothena 96.9 0.0019 4E-08 52.4 5.3 24 52-75 60-83 (290)
219 PRK00300 gmk guanylate kinase; 96.9 0.00077 1.7E-08 51.3 3.0 24 54-77 5-28 (205)
220 cd00071 GMPK Guanosine monopho 96.9 0.00083 1.8E-08 48.3 3.0 22 56-77 1-22 (137)
221 TIGR01359 UMP_CMP_kin_fam UMP- 96.9 0.00059 1.3E-08 51.0 2.3 22 56-77 1-22 (183)
222 PRK00889 adenylylsulfate kinas 96.9 0.001 2.2E-08 49.5 3.5 24 54-77 4-27 (175)
223 PF00006 ATP-synt_ab: ATP synt 96.9 0.0011 2.4E-08 51.5 3.7 109 55-167 16-140 (215)
224 cd02020 CMPK Cytidine monophos 96.9 0.00069 1.5E-08 48.4 2.5 22 56-77 1-22 (147)
225 PRK13531 regulatory ATPase Rav 96.9 0.0014 3.1E-08 56.5 4.6 43 31-77 20-62 (498)
226 cd01121 Sms Sms (bacterial rad 96.9 0.007 1.5E-07 50.8 8.7 101 40-147 68-168 (372)
227 cd01130 VirB11-like_ATPase Typ 96.9 0.0018 3.9E-08 48.9 4.7 97 54-158 25-121 (186)
228 PRK13947 shikimate kinase; Pro 96.9 0.0008 1.7E-08 49.7 2.8 22 56-77 3-24 (171)
229 COG4608 AppF ABC-type oligopep 96.9 0.0057 1.2E-07 48.8 7.6 92 53-148 38-138 (268)
230 PRK02118 V-type ATP synthase s 96.9 0.0054 1.2E-07 52.3 7.9 114 55-172 141-271 (436)
231 PRK10078 ribose 1,5-bisphospho 96.9 0.001 2.2E-08 50.2 3.2 23 55-77 3-25 (186)
232 PRK05439 pantothenate kinase; 96.9 0.0022 4.8E-08 52.5 5.4 27 51-77 83-109 (311)
233 PRK03846 adenylylsulfate kinas 96.9 0.0012 2.6E-08 50.3 3.7 26 52-77 22-47 (198)
234 cd01672 TMPK Thymidine monopho 96.9 0.0025 5.3E-08 47.8 5.3 22 56-77 2-23 (200)
235 cd00227 CPT Chloramphenicol (C 96.9 0.00085 1.8E-08 50.1 2.8 23 55-77 3-25 (175)
236 TIGR02397 dnaX_nterm DNA polym 96.9 0.002 4.3E-08 53.1 5.2 46 31-77 14-59 (355)
237 PRK10751 molybdopterin-guanine 96.9 0.0014 2.9E-08 49.3 3.8 25 53-77 5-29 (173)
238 COG1222 RPT1 ATP-dependent 26S 96.8 0.002 4.3E-08 53.4 5.0 48 30-77 150-208 (406)
239 TIGR00962 atpA proton transloc 96.8 0.0042 9.1E-08 54.0 7.2 111 55-169 162-290 (501)
240 TIGR00763 lon ATP-dependent pr 96.8 0.0015 3.3E-08 59.7 4.7 47 31-77 320-370 (775)
241 PRK06620 hypothetical protein; 96.8 0.0032 6.9E-08 48.8 5.8 23 55-77 45-67 (214)
242 PHA00729 NTP-binding motif con 96.8 0.0022 4.7E-08 50.2 4.8 25 53-77 16-40 (226)
243 PRK08451 DNA polymerase III su 96.8 0.015 3.2E-07 51.0 10.4 46 31-77 14-59 (535)
244 TIGR02236 recomb_radA DNA repa 96.8 0.0063 1.4E-07 49.6 7.8 62 42-103 83-148 (310)
245 PRK00771 signal recognition pa 96.8 0.013 2.9E-07 50.1 10.0 25 53-77 94-118 (437)
246 PF01583 APS_kinase: Adenylyls 96.8 0.0014 3.1E-08 48.3 3.6 36 54-91 2-37 (156)
247 PRK04301 radA DNA repair and r 96.8 0.0052 1.1E-07 50.3 7.3 64 41-104 89-156 (317)
248 COG1124 DppF ABC-type dipeptid 96.8 0.0018 4E-08 50.9 4.3 24 54-77 33-56 (252)
249 cd02021 GntK Gluconate kinase 96.8 0.00091 2E-08 48.4 2.5 22 56-77 1-22 (150)
250 PRK13949 shikimate kinase; Pro 96.8 0.0011 2.3E-08 49.5 2.9 22 56-77 3-24 (169)
251 PRK14971 DNA polymerase III su 96.8 0.014 3.1E-07 52.0 10.4 46 31-77 17-62 (614)
252 TIGR02880 cbbX_cfxQ probable R 96.8 0.0022 4.7E-08 51.8 4.8 46 32-77 23-81 (284)
253 PRK12678 transcription termina 96.8 0.0014 3.1E-08 57.6 3.9 107 55-170 417-546 (672)
254 TIGR01817 nifA Nif-specific re 96.8 0.0038 8.3E-08 54.7 6.6 49 29-77 194-242 (534)
255 CHL00060 atpB ATP synthase CF1 96.8 0.0053 1.1E-07 53.1 7.2 115 55-171 162-301 (494)
256 PF03205 MobB: Molybdopterin g 96.8 0.0012 2.7E-08 47.7 2.9 38 55-94 1-39 (140)
257 TIGR00064 ftsY signal recognit 96.8 0.0031 6.8E-08 50.6 5.5 26 52-77 70-95 (272)
258 TIGR00764 lon_rel lon-related 96.7 0.0053 1.1E-07 54.7 7.4 72 31-109 18-90 (608)
259 COG0194 Gmk Guanylate kinase [ 96.7 0.0018 3.8E-08 49.0 3.7 24 54-77 4-27 (191)
260 PF06309 Torsin: Torsin; Inte 96.7 0.003 6.5E-08 44.9 4.7 46 32-77 26-76 (127)
261 cd00464 SK Shikimate kinase (S 96.7 0.0012 2.6E-08 47.7 2.8 21 57-77 2-22 (154)
262 PRK13975 thymidylate kinase; P 96.7 0.0013 2.7E-08 49.7 2.9 23 55-77 3-25 (196)
263 PF08477 Miro: Miro-like prote 96.7 0.0015 3.2E-08 45.0 3.0 23 57-79 2-24 (119)
264 TIGR01313 therm_gnt_kin carboh 96.7 0.001 2.3E-08 48.8 2.3 21 57-77 1-21 (163)
265 PRK07196 fliI flagellum-specif 96.7 0.0065 1.4E-07 51.9 7.2 113 54-170 155-283 (434)
266 PF00910 RNA_helicase: RNA hel 96.7 0.00097 2.1E-08 45.9 1.9 21 57-77 1-21 (107)
267 PF03308 ArgK: ArgK protein; 96.7 0.0032 6.9E-08 50.1 4.9 39 39-77 14-52 (266)
268 COG0055 AtpD F0F1-type ATP syn 96.7 0.0036 7.7E-08 52.2 5.4 111 55-167 148-276 (468)
269 COG1126 GlnQ ABC-type polar am 96.7 0.0021 4.5E-08 49.9 3.7 25 54-78 28-52 (240)
270 TIGR02640 gas_vesic_GvpN gas v 96.7 0.0076 1.6E-07 48.0 7.1 54 40-102 11-64 (262)
271 PRK09111 DNA polymerase III su 96.7 0.0025 5.5E-08 56.6 4.7 46 31-77 24-69 (598)
272 COG0593 DnaA ATPase involved i 96.7 0.0033 7.2E-08 53.2 5.2 53 51-109 110-162 (408)
273 TIGR02788 VirB11 P-type DNA tr 96.7 0.0067 1.5E-07 49.5 6.9 97 54-159 144-240 (308)
274 COG3899 Predicted ATPase [Gene 96.7 0.0027 5.8E-08 58.6 5.0 46 32-77 1-47 (849)
275 PF07693 KAP_NTPase: KAP famil 96.7 0.0092 2E-07 48.5 7.7 72 37-110 2-81 (325)
276 COG0563 Adk Adenylate kinase a 96.7 0.0013 2.9E-08 49.5 2.5 22 56-77 2-23 (178)
277 PRK06793 fliI flagellum-specif 96.6 0.014 3.1E-07 49.8 8.9 93 54-149 156-258 (432)
278 PF08298 AAA_PrkA: PrkA AAA do 96.6 0.0037 8.1E-08 51.8 5.3 47 31-77 61-111 (358)
279 cd01134 V_A-ATPase_A V/A-type 96.6 0.031 6.7E-07 46.6 10.6 109 55-167 158-289 (369)
280 PF07726 AAA_3: ATPase family 96.6 0.0019 4E-08 46.2 3.0 28 57-86 2-29 (131)
281 TIGR01243 CDC48 AAA family ATP 96.6 0.0058 1.3E-07 55.6 6.9 47 31-77 453-510 (733)
282 PRK10787 DNA-binding ATP-depen 96.6 0.0027 5.8E-08 58.1 4.8 47 31-77 322-372 (784)
283 PRK13948 shikimate kinase; Pro 96.6 0.0019 4.1E-08 48.9 3.2 25 53-77 9-33 (182)
284 PRK14737 gmk guanylate kinase; 96.6 0.0023 5E-08 48.5 3.7 25 53-77 3-27 (186)
285 KOG0741 AAA+-type ATPase [Post 96.6 0.0087 1.9E-07 52.1 7.4 35 52-90 536-570 (744)
286 TIGR00602 rad24 checkpoint pro 96.6 0.0029 6.3E-08 56.5 4.8 47 31-77 84-133 (637)
287 PRK09112 DNA polymerase III su 96.6 0.0043 9.4E-08 51.6 5.5 50 27-77 19-68 (351)
288 cd00820 PEPCK_HprK Phosphoenol 96.6 0.0022 4.8E-08 44.4 3.1 22 54-75 15-36 (107)
289 PRK04182 cytidylate kinase; Pr 96.6 0.0017 3.8E-08 48.0 2.9 22 56-77 2-23 (180)
290 TIGR01420 pilT_fam pilus retra 96.6 0.012 2.5E-07 48.9 8.0 92 54-155 122-213 (343)
291 PRK13765 ATP-dependent proteas 96.6 0.0062 1.3E-07 54.5 6.7 72 31-109 31-103 (637)
292 TIGR03877 thermo_KaiC_1 KaiC d 96.6 0.0082 1.8E-07 47.1 6.7 61 41-105 8-68 (237)
293 PRK14954 DNA polymerase III su 96.6 0.0031 6.8E-08 56.2 4.8 46 31-77 16-61 (620)
294 PRK05057 aroK shikimate kinase 96.6 0.002 4.3E-08 48.1 3.1 24 54-77 4-27 (172)
295 PRK13894 conjugal transfer ATP 96.6 0.011 2.4E-07 48.6 7.6 94 54-159 148-241 (319)
296 PRK09087 hypothetical protein; 96.6 0.0056 1.2E-07 47.8 5.7 25 53-77 43-67 (226)
297 PRK12339 2-phosphoglycerate ki 96.6 0.0021 4.6E-08 49.2 3.3 24 54-77 3-26 (197)
298 PF03193 DUF258: Protein of un 96.6 0.0038 8.3E-08 46.3 4.5 36 38-78 24-59 (161)
299 cd04139 RalA_RalB RalA/RalB su 96.6 0.0025 5.3E-08 46.0 3.5 23 56-78 2-24 (164)
300 PRK11889 flhF flagellar biosyn 96.6 0.0047 1E-07 52.3 5.5 25 53-77 240-264 (436)
301 PF13086 AAA_11: AAA domain; P 96.6 0.0033 7.1E-08 48.0 4.3 52 56-107 19-75 (236)
302 cd01129 PulE-GspE PulE/GspE Th 96.6 0.019 4.2E-07 45.9 8.9 98 40-154 69-166 (264)
303 PRK14722 flhF flagellar biosyn 96.6 0.01 2.3E-07 49.8 7.6 24 54-77 137-160 (374)
304 TIGR00041 DTMP_kinase thymidyl 96.6 0.0056 1.2E-07 46.1 5.5 23 55-77 4-26 (195)
305 PLN02348 phosphoribulokinase 96.6 0.0035 7.6E-08 52.7 4.7 28 50-77 45-72 (395)
306 PF00005 ABC_tran: ABC transpo 96.6 0.0021 4.6E-08 45.5 3.0 23 55-77 12-34 (137)
307 COG1100 GTPase SAR1 and relate 96.6 0.0019 4.1E-08 49.4 2.9 24 55-78 6-29 (219)
308 PRK13946 shikimate kinase; Pro 96.6 0.0019 4.1E-08 48.7 2.9 24 54-77 10-33 (184)
309 PRK11608 pspF phage shock prot 96.6 0.0055 1.2E-07 50.4 5.8 47 31-77 6-52 (326)
310 PRK10867 signal recognition pa 96.6 0.015 3.2E-07 49.8 8.5 25 53-77 99-123 (433)
311 COG1116 TauB ABC-type nitrate/ 96.6 0.0021 4.6E-08 50.6 3.1 24 54-77 29-52 (248)
312 PRK14530 adenylate kinase; Pro 96.6 0.0019 4.1E-08 49.8 2.9 22 56-77 5-26 (215)
313 COG1223 Predicted ATPase (AAA+ 96.5 0.0042 9.2E-08 49.7 4.8 51 29-79 119-176 (368)
314 KOG1532 GTPase XAB1, interacts 96.5 0.002 4.3E-08 51.7 2.9 32 52-85 17-48 (366)
315 TIGR01287 nifH nitrogenase iro 96.5 0.0018 4E-08 51.6 2.8 23 55-77 1-23 (275)
316 PRK12724 flagellar biosynthesi 96.5 0.0066 1.4E-07 51.6 6.2 24 54-77 223-246 (432)
317 cd04155 Arl3 Arl3 subfamily. 96.5 0.003 6.4E-08 46.3 3.7 24 54-77 14-37 (173)
318 COG1102 Cmk Cytidylate kinase 96.5 0.0017 3.7E-08 48.1 2.3 23 56-78 2-24 (179)
319 cd00983 recA RecA is a bacter 96.5 0.0052 1.1E-07 50.6 5.4 58 39-98 39-97 (325)
320 cd02027 APSK Adenosine 5'-phos 96.5 0.0018 4E-08 47.1 2.5 22 56-77 1-22 (149)
321 PF00437 T2SE: Type II/IV secr 96.5 0.007 1.5E-07 48.2 6.0 103 40-156 113-216 (270)
322 PRK09435 membrane ATPase/prote 96.5 0.0054 1.2E-07 50.7 5.5 37 41-77 43-79 (332)
323 TIGR02173 cyt_kin_arch cytidyl 96.5 0.0024 5.2E-08 46.9 3.0 22 56-77 2-23 (171)
324 TIGR01241 FtsH_fam ATP-depende 96.5 0.0033 7.2E-08 54.6 4.3 47 31-77 55-111 (495)
325 KOG0744 AAA+-type ATPase [Post 96.5 0.0059 1.3E-07 50.2 5.4 39 54-92 177-217 (423)
326 PF13521 AAA_28: AAA domain; P 96.5 0.002 4.4E-08 47.3 2.6 21 57-77 2-22 (163)
327 PRK06067 flagellar accessory p 96.5 0.0096 2.1E-07 46.4 6.5 61 41-105 12-72 (234)
328 TIGR03499 FlhF flagellar biosy 96.5 0.0027 6E-08 51.2 3.5 25 53-77 193-217 (282)
329 PRK14527 adenylate kinase; Pro 96.5 0.0024 5.3E-08 48.2 3.0 25 53-77 5-29 (191)
330 TIGR00073 hypB hydrogenase acc 96.5 0.0028 6E-08 48.6 3.4 26 52-77 20-45 (207)
331 PRK11823 DNA repair protein Ra 96.5 0.012 2.7E-07 50.5 7.6 101 40-147 66-166 (446)
332 PF03215 Rad17: Rad17 cell cyc 96.5 0.0043 9.3E-08 54.2 4.8 56 32-91 20-78 (519)
333 PRK10536 hypothetical protein; 96.5 0.0058 1.3E-07 48.7 5.2 43 31-77 55-97 (262)
334 PRK09825 idnK D-gluconate kina 96.5 0.0026 5.6E-08 47.8 3.1 23 55-77 4-26 (176)
335 TIGR02902 spore_lonB ATP-depen 96.5 0.0042 9.1E-08 54.5 4.8 45 31-77 65-109 (531)
336 PRK06761 hypothetical protein; 96.5 0.0058 1.3E-07 49.4 5.2 24 55-78 4-27 (282)
337 COG0003 ArsA Predicted ATPase 96.5 0.0047 1E-07 50.8 4.7 45 54-100 2-46 (322)
338 cd03255 ABC_MJ0796_Lo1CDE_FtsE 96.5 0.0027 5.8E-08 48.8 3.1 24 54-77 30-53 (218)
339 PF14532 Sigma54_activ_2: Sigm 96.4 0.0016 3.4E-08 46.7 1.7 45 34-78 1-45 (138)
340 TIGR00176 mobB molybdopterin-g 96.4 0.0022 4.9E-08 47.2 2.5 22 56-77 1-22 (155)
341 TIGR00959 ffh signal recogniti 96.4 0.02 4.3E-07 49.0 8.5 25 53-77 98-122 (428)
342 PF02374 ArsA_ATPase: Anion-tr 96.4 0.0031 6.8E-08 51.5 3.5 22 55-76 2-23 (305)
343 cd03225 ABC_cobalt_CbiO_domain 96.4 0.0029 6.2E-08 48.4 3.2 24 54-77 27-50 (211)
344 cd02117 NifH_like This family 96.4 0.0026 5.7E-08 48.9 2.9 22 55-76 1-22 (212)
345 smart00072 GuKc Guanylate kina 96.4 0.004 8.7E-08 46.9 3.9 24 54-77 2-25 (184)
346 PRK13833 conjugal transfer pro 96.4 0.033 7.1E-07 45.9 9.4 93 56-160 146-238 (323)
347 TIGR00750 lao LAO/AO transport 96.4 0.0049 1.1E-07 50.1 4.6 35 43-77 23-57 (300)
348 PRK09519 recA DNA recombinatio 96.4 0.025 5.3E-07 51.7 9.4 105 36-147 41-148 (790)
349 PRK00698 tmk thymidylate kinas 96.4 0.0078 1.7E-07 45.5 5.4 23 55-77 4-26 (205)
350 PLN02796 D-glycerate 3-kinase 96.4 0.0033 7.2E-08 52.1 3.5 25 53-77 99-123 (347)
351 TIGR00960 3a0501s02 Type II (G 96.4 0.003 6.5E-08 48.5 3.1 24 54-77 29-52 (216)
352 COG1936 Predicted nucleotide k 96.4 0.0029 6.2E-08 47.3 2.8 20 56-75 2-21 (180)
353 PRK13230 nitrogenase reductase 96.4 0.0029 6.4E-08 50.7 3.1 23 55-77 2-24 (279)
354 COG0714 MoxR-like ATPases [Gen 96.4 0.013 2.7E-07 48.3 6.8 66 31-105 24-89 (329)
355 PF08423 Rad51: Rad51; InterP 96.4 0.0093 2E-07 47.5 5.9 68 41-109 25-96 (256)
356 KOG1514 Origin recognition com 96.4 0.037 8.1E-07 49.6 10.0 123 29-159 394-535 (767)
357 cd01862 Rab7 Rab7 subfamily. 96.4 0.0033 7.1E-08 45.9 3.1 22 56-77 2-23 (172)
358 PLN03187 meiotic recombination 96.4 0.01 2.2E-07 49.3 6.3 68 41-109 113-184 (344)
359 PRK13236 nitrogenase reductase 96.4 0.0038 8.2E-08 50.7 3.6 25 52-76 4-28 (296)
360 TIGR03574 selen_PSTK L-seryl-t 96.4 0.0024 5.3E-08 50.3 2.5 22 56-77 1-22 (249)
361 PRK07471 DNA polymerase III su 96.4 0.0082 1.8E-07 50.3 5.7 49 28-77 16-64 (365)
362 COG3640 CooC CO dehydrogenase 96.3 0.0056 1.2E-07 48.0 4.3 22 56-77 2-23 (255)
363 TIGR01166 cbiO cobalt transpor 96.3 0.0035 7.5E-08 47.3 3.1 23 55-77 19-41 (190)
364 cd04119 RJL RJL (RabJ-Like) su 96.3 0.0035 7.6E-08 45.3 3.1 22 57-78 3-24 (168)
365 PRK08356 hypothetical protein; 96.3 0.0044 9.4E-08 47.1 3.7 22 54-75 5-26 (195)
366 PF03266 NTPase_1: NTPase; In 96.3 0.003 6.6E-08 47.1 2.7 21 57-77 2-22 (168)
367 PF01926 MMR_HSR1: 50S ribosom 96.3 0.0038 8.3E-08 43.0 3.1 21 57-77 2-22 (116)
368 cd02040 NifH NifH gene encodes 96.3 0.0031 6.8E-08 49.9 3.0 23 55-77 2-24 (270)
369 cd02022 DPCK Dephospho-coenzym 96.3 0.0028 6.1E-08 47.5 2.5 21 56-76 1-21 (179)
370 cd03297 ABC_ModC_molybdenum_tr 96.3 0.0039 8.5E-08 47.9 3.4 25 52-77 22-46 (214)
371 PRK13232 nifH nitrogenase redu 96.3 0.0032 7E-08 50.3 3.0 23 55-77 2-24 (273)
372 cd03261 ABC_Org_Solvent_Resist 96.3 0.0035 7.5E-08 48.9 3.1 23 55-77 27-49 (235)
373 TIGR03881 KaiC_arch_4 KaiC dom 96.3 0.0086 1.9E-07 46.4 5.4 51 42-94 8-58 (229)
374 PLN02200 adenylate kinase fami 96.3 0.0037 7.9E-08 49.1 3.3 25 53-77 42-66 (234)
375 COG1703 ArgK Putative periplas 96.3 0.0066 1.4E-07 49.2 4.7 38 40-77 37-74 (323)
376 PF03029 ATP_bind_1: Conserved 96.3 0.0035 7.5E-08 49.4 3.1 32 59-92 1-32 (238)
377 cd01428 ADK Adenylate kinase ( 96.3 0.0028 6.1E-08 47.6 2.5 21 57-77 2-22 (194)
378 PRK03731 aroL shikimate kinase 96.3 0.0032 7E-08 46.5 2.8 22 56-77 4-25 (171)
379 CHL00081 chlI Mg-protoporyphyr 96.3 0.0039 8.4E-08 51.9 3.5 49 27-77 13-61 (350)
380 cd03229 ABC_Class3 This class 96.3 0.0037 8.1E-08 46.7 3.2 24 54-77 26-49 (178)
381 PRK10463 hydrogenase nickel in 96.3 0.011 2.4E-07 47.9 6.1 26 52-77 102-127 (290)
382 PRK08533 flagellar accessory p 96.3 0.0095 2.1E-07 46.6 5.6 59 43-105 13-71 (230)
383 COG0237 CoaE Dephospho-CoA kin 96.3 0.0037 8.1E-08 48.0 3.2 23 54-76 2-24 (201)
384 PRK08154 anaerobic benzoate ca 96.3 0.0069 1.5E-07 49.5 4.9 26 52-77 131-156 (309)
385 TIGR01425 SRP54_euk signal rec 96.3 0.0072 1.6E-07 51.6 5.1 25 53-77 99-123 (429)
386 TIGR02030 BchI-ChlI magnesium 96.3 0.0069 1.5E-07 50.2 4.9 46 30-77 3-48 (337)
387 COG1136 SalX ABC-type antimicr 96.3 0.0038 8.2E-08 48.8 3.2 22 55-76 32-53 (226)
388 COG2607 Predicted ATPase (AAA+ 96.3 0.013 2.9E-07 46.2 6.2 97 31-156 60-161 (287)
389 TIGR02238 recomb_DMC1 meiotic 96.3 0.012 2.7E-07 48.2 6.3 69 40-109 82-154 (313)
390 cd04159 Arl10_like Arl10-like 96.3 0.0036 7.8E-08 44.5 2.9 22 57-78 2-23 (159)
391 cd03269 ABC_putative_ATPase Th 96.3 0.0038 8.2E-08 47.8 3.2 24 54-77 26-49 (210)
392 COG1120 FepC ABC-type cobalami 96.3 0.0037 8.1E-08 49.8 3.2 25 53-77 27-51 (258)
393 cd03256 ABC_PhnC_transporter A 96.3 0.0037 8E-08 48.8 3.1 24 54-77 27-50 (241)
394 TIGR02315 ABC_phnC phosphonate 96.3 0.0037 8E-08 48.9 3.1 23 55-77 29-51 (243)
395 smart00173 RAS Ras subfamily o 96.3 0.0038 8.2E-08 45.3 3.0 22 56-77 2-23 (164)
396 TIGR02673 FtsE cell division A 96.3 0.0038 8.3E-08 47.8 3.2 23 55-77 29-51 (214)
397 cd03263 ABC_subfamily_A The AB 96.3 0.0038 8.3E-08 48.0 3.2 24 54-77 28-51 (220)
398 cd01983 Fer4_NifH The Fer4_Nif 96.3 0.0034 7.4E-08 41.0 2.5 22 56-77 1-22 (99)
399 TIGR00231 small_GTP small GTP- 96.3 0.0041 8.9E-08 43.8 3.1 23 56-78 3-25 (161)
400 cd03293 ABC_NrtD_SsuB_transpor 96.3 0.0039 8.5E-08 48.1 3.2 23 55-77 31-53 (220)
401 cd03259 ABC_Carb_Solutes_like 96.3 0.0039 8.5E-08 47.8 3.2 24 54-77 26-49 (213)
402 cd03235 ABC_Metallic_Cations A 96.3 0.0037 8E-08 47.9 3.0 24 54-77 25-48 (213)
403 PRK14493 putative bifunctional 96.3 0.0039 8.4E-08 50.2 3.2 23 55-77 2-24 (274)
404 cd03116 MobB Molybdenum is an 96.3 0.0043 9.2E-08 45.9 3.2 23 55-77 2-24 (159)
405 PRK14953 DNA polymerase III su 96.3 0.0064 1.4E-07 52.8 4.8 46 31-77 16-61 (486)
406 PRK06305 DNA polymerase III su 96.3 0.007 1.5E-07 52.1 4.9 46 31-77 17-62 (451)
407 COG4639 Predicted kinase [Gene 96.3 0.0067 1.5E-07 44.7 4.1 26 54-79 2-27 (168)
408 PRK10416 signal recognition pa 96.3 0.0046 9.9E-08 50.8 3.6 25 53-77 113-137 (318)
409 PRK13768 GTPase; Provisional 96.3 0.006 1.3E-07 48.4 4.2 23 55-77 3-25 (253)
410 cd02026 PRK Phosphoribulokinas 96.3 0.0031 6.7E-08 50.7 2.6 22 56-77 1-22 (273)
411 cd03260 ABC_PstB_phosphate_tra 96.2 0.0042 9E-08 48.1 3.2 24 54-77 26-49 (227)
412 cd03238 ABC_UvrA The excision 96.2 0.0042 9.1E-08 46.7 3.1 23 54-76 21-43 (176)
413 PRK05537 bifunctional sulfate 96.2 0.0086 1.9E-07 53.0 5.5 44 34-77 372-415 (568)
414 PRK08099 bifunctional DNA-bind 96.2 0.0034 7.3E-08 53.2 2.8 26 52-77 217-242 (399)
415 cd03292 ABC_FtsE_transporter F 96.2 0.0043 9.4E-08 47.5 3.2 24 54-77 27-50 (214)
416 cd03226 ABC_cobalt_CbiO_domain 96.2 0.0044 9.4E-08 47.3 3.1 24 54-77 26-49 (205)
417 PLN03186 DNA repair protein RA 96.2 0.013 2.7E-07 48.7 6.0 73 36-109 105-181 (342)
418 cd04163 Era Era subfamily. Er 96.2 0.0056 1.2E-07 43.8 3.6 24 54-77 3-26 (168)
419 PRK15453 phosphoribulokinase; 96.2 0.0048 1E-07 49.8 3.4 24 53-76 4-27 (290)
420 cd03222 ABC_RNaseL_inhibitor T 96.2 0.0045 9.7E-08 46.6 3.1 24 54-77 25-48 (177)
421 PRK10584 putative ABC transpor 96.2 0.0044 9.5E-08 48.0 3.2 24 54-77 36-59 (228)
422 PF01078 Mg_chelatase: Magnesi 96.2 0.0091 2E-07 46.0 4.8 43 31-77 3-45 (206)
423 PRK04328 hypothetical protein; 96.2 0.014 3E-07 46.2 6.0 51 42-94 11-61 (249)
424 cd04138 H_N_K_Ras_like H-Ras/N 96.2 0.0044 9.6E-08 44.5 3.0 23 56-78 3-25 (162)
425 TIGR03878 thermo_KaiC_2 KaiC d 96.2 0.0062 1.3E-07 48.5 4.1 41 52-94 34-74 (259)
426 PRK14532 adenylate kinase; Pro 96.2 0.0037 8.1E-08 47.0 2.6 21 57-77 3-23 (188)
427 COG0703 AroK Shikimate kinase 96.2 0.004 8.7E-08 46.6 2.7 22 56-77 4-25 (172)
428 cd03296 ABC_CysA_sulfate_impor 96.2 0.0044 9.6E-08 48.4 3.1 24 54-77 28-51 (239)
429 cd03264 ABC_drug_resistance_li 96.2 0.004 8.7E-08 47.7 2.8 22 56-77 27-48 (211)
430 cd03265 ABC_DrrA DrrA is the A 96.2 0.0046 1E-07 47.7 3.2 24 54-77 26-49 (220)
431 TIGR02974 phageshock_pspF psp 96.2 0.01 2.3E-07 48.9 5.4 45 33-77 1-45 (329)
432 TIGR03864 PQQ_ABC_ATP ABC tran 96.2 0.0046 1E-07 48.2 3.2 24 54-77 27-50 (236)
433 smart00175 RAB Rab subfamily o 96.2 0.0048 1E-07 44.5 3.1 22 57-78 3-24 (164)
434 cd04113 Rab4 Rab4 subfamily. 96.2 0.0047 1E-07 44.7 3.1 22 57-78 3-24 (161)
435 PRK13695 putative NTPase; Prov 96.2 0.0042 9.1E-08 46.2 2.8 22 56-77 2-23 (174)
436 PRK05022 anaerobic nitric oxid 96.2 0.014 3.1E-07 50.9 6.5 64 29-94 185-248 (509)
437 cd01124 KaiC KaiC is a circadi 96.2 0.0053 1.1E-07 45.7 3.4 44 57-104 2-45 (187)
438 cd03224 ABC_TM1139_LivF_branch 96.2 0.0049 1.1E-07 47.5 3.3 24 54-77 26-49 (222)
439 COG3903 Predicted ATPase [Gene 96.2 0.0035 7.6E-08 52.7 2.6 85 53-147 13-98 (414)
440 PRK13233 nifH nitrogenase redu 96.2 0.0046 9.9E-08 49.4 3.2 23 55-77 3-25 (275)
441 PHA02530 pseT polynucleotide k 96.2 0.0044 9.5E-08 50.0 3.1 23 55-77 3-25 (300)
442 PRK01184 hypothetical protein; 96.2 0.0047 1E-07 46.2 3.0 21 55-76 2-22 (184)
443 cd01858 NGP_1 NGP-1. Autoanti 96.2 0.013 2.8E-07 42.8 5.3 43 35-77 82-125 (157)
444 TIGR02211 LolD_lipo_ex lipopro 96.2 0.0048 1E-07 47.5 3.2 24 54-77 31-54 (221)
445 cd00154 Rab Rab family. Rab G 96.2 0.0049 1.1E-07 43.7 3.0 22 57-78 3-24 (159)
446 TIGR02239 recomb_RAD51 DNA rep 96.2 0.014 3E-07 47.9 6.0 73 36-109 78-154 (316)
447 cd00879 Sar1 Sar1 subfamily. 96.2 0.0089 1.9E-07 44.6 4.5 24 54-77 19-42 (190)
448 cd03258 ABC_MetN_methionine_tr 96.2 0.0049 1.1E-07 47.9 3.2 24 54-77 31-54 (233)
449 TIGR02858 spore_III_AA stage I 96.2 0.081 1.8E-06 42.5 10.2 36 41-77 99-134 (270)
450 TIGR00455 apsK adenylylsulfate 96.2 0.0063 1.4E-07 45.6 3.7 25 53-77 17-41 (184)
451 PRK13541 cytochrome c biogenes 96.1 0.0051 1.1E-07 46.6 3.1 24 54-77 26-49 (195)
452 PRK11629 lolD lipoprotein tran 96.1 0.005 1.1E-07 47.9 3.2 24 54-77 35-58 (233)
453 cd03257 ABC_NikE_OppD_transpor 96.1 0.0049 1.1E-07 47.6 3.1 24 54-77 31-54 (228)
454 PRK05703 flhF flagellar biosyn 96.1 0.0077 1.7E-07 51.4 4.5 24 54-77 221-244 (424)
455 cd00876 Ras Ras family. The R 96.1 0.0052 1.1E-07 44.0 3.0 21 57-77 2-22 (160)
456 PRK06647 DNA polymerase III su 96.1 0.0085 1.8E-07 52.9 4.9 46 31-77 16-61 (563)
457 cd03114 ArgK-like The function 96.1 0.0044 9.5E-08 45.2 2.6 22 56-77 1-22 (148)
458 PRK14974 cell division protein 96.1 0.0093 2E-07 49.4 4.8 25 53-77 139-163 (336)
459 PRK07429 phosphoribulokinase; 96.1 0.0059 1.3E-07 50.4 3.6 26 52-77 6-31 (327)
460 PRK15177 Vi polysaccharide exp 96.1 0.0053 1.1E-07 47.4 3.2 24 54-77 13-36 (213)
461 TIGR03608 L_ocin_972_ABC putat 96.1 0.0053 1.1E-07 46.7 3.2 23 55-77 25-47 (206)
462 PRK13235 nifH nitrogenase redu 96.1 0.0047 1E-07 49.3 3.0 22 55-76 2-23 (274)
463 COG1763 MobB Molybdopterin-gua 96.1 0.0045 9.7E-08 45.9 2.6 24 54-77 2-25 (161)
464 PRK15429 formate hydrogenlyase 96.1 0.014 2.9E-07 52.8 6.2 47 31-77 376-422 (686)
465 cd03301 ABC_MalK_N The N-termi 96.1 0.0054 1.2E-07 46.9 3.2 24 54-77 26-49 (213)
466 PRK11248 tauB taurine transpor 96.1 0.0053 1.1E-07 48.7 3.2 23 55-77 28-50 (255)
467 PRK10247 putative ABC transpor 96.1 0.0054 1.2E-07 47.6 3.2 24 54-77 33-56 (225)
468 TIGR01184 ntrCD nitrate transp 96.1 0.0054 1.2E-07 47.8 3.2 23 55-77 12-34 (230)
469 cd03237 ABC_RNaseL_inhibitor_d 96.1 0.0053 1.2E-07 48.5 3.1 24 54-77 25-48 (246)
470 cd01673 dNK Deoxyribonucleosid 96.1 0.0043 9.4E-08 46.8 2.5 22 56-77 1-22 (193)
471 cd03219 ABC_Mj1267_LivG_branch 96.1 0.0052 1.1E-07 47.8 3.0 24 54-77 26-49 (236)
472 TIGR02528 EutP ethanolamine ut 96.1 0.0056 1.2E-07 43.4 3.0 23 56-78 2-24 (142)
473 PRK11124 artP arginine transpo 96.1 0.0055 1.2E-07 47.9 3.2 24 54-77 28-51 (242)
474 PTZ00088 adenylate kinase 1; P 96.1 0.0045 9.8E-08 48.5 2.6 21 57-77 9-29 (229)
475 cd01864 Rab19 Rab19 subfamily. 96.1 0.0059 1.3E-07 44.5 3.1 24 54-77 3-26 (165)
476 PRK10908 cell division protein 96.1 0.0059 1.3E-07 47.1 3.2 24 54-77 28-51 (222)
477 cd01876 YihA_EngB The YihA (En 96.0 0.0053 1.2E-07 44.1 2.8 20 57-76 2-21 (170)
478 TIGR01978 sufC FeS assembly AT 96.0 0.0058 1.2E-07 47.7 3.1 23 55-77 27-49 (243)
479 PTZ00035 Rad51 protein; Provis 96.0 0.026 5.6E-07 46.8 7.1 69 40-109 104-176 (337)
480 PRK05563 DNA polymerase III su 96.0 0.011 2.4E-07 52.2 5.1 46 31-77 16-61 (559)
481 PRK13538 cytochrome c biogenes 96.0 0.006 1.3E-07 46.5 3.1 24 54-77 27-50 (204)
482 COG0542 clpA ATP-binding subun 96.0 0.0094 2E-07 54.2 4.8 79 31-111 170-260 (786)
483 cd03295 ABC_OpuCA_Osmoprotecti 96.0 0.006 1.3E-07 47.8 3.2 23 55-77 28-50 (242)
484 cd01860 Rab5_related Rab5-rela 96.0 0.0062 1.4E-07 44.0 3.1 23 56-78 3-25 (163)
485 TIGR00017 cmk cytidylate kinas 96.0 0.0053 1.2E-07 47.7 2.8 23 55-77 3-25 (217)
486 cd03218 ABC_YhbG The ABC trans 96.0 0.0061 1.3E-07 47.3 3.1 24 54-77 26-49 (232)
487 cd04123 Rab21 Rab21 subfamily. 96.0 0.0063 1.4E-07 43.7 3.0 22 57-78 3-24 (162)
488 PRK12338 hypothetical protein; 96.0 0.006 1.3E-07 50.1 3.2 24 54-77 4-27 (319)
489 cd03262 ABC_HisP_GlnQ_permease 96.0 0.0062 1.4E-07 46.6 3.2 24 54-77 26-49 (213)
490 PRK13231 nitrogenase reductase 96.0 0.0065 1.4E-07 48.2 3.3 23 55-77 3-25 (264)
491 cd03115 SRP The signal recogni 96.0 0.0066 1.4E-07 45.0 3.2 22 56-77 2-23 (173)
492 PF13604 AAA_30: AAA domain; P 96.0 0.013 2.8E-07 44.7 4.8 36 39-77 6-41 (196)
493 cd04136 Rap_like Rap-like subf 96.0 0.0063 1.4E-07 43.9 3.0 22 56-77 3-24 (163)
494 TIGR02770 nickel_nikD nickel i 96.0 0.006 1.3E-07 47.4 3.1 24 54-77 12-35 (230)
495 PRK04192 V-type ATP synthase s 96.0 0.074 1.6E-06 47.1 10.0 108 56-167 229-359 (586)
496 PF00071 Ras: Ras family; Int 96.0 0.0059 1.3E-07 44.1 2.8 22 57-78 2-23 (162)
497 PRK14247 phosphate ABC transpo 96.0 0.0062 1.3E-07 47.9 3.1 24 54-77 29-52 (250)
498 TIGR00382 clpX endopeptidase C 96.0 0.0075 1.6E-07 51.3 3.8 47 31-77 77-139 (413)
499 cd04124 RabL2 RabL2 subfamily. 96.0 0.0065 1.4E-07 44.3 3.0 21 57-77 3-23 (161)
500 PRK14948 DNA polymerase III su 96.0 0.01 2.2E-07 53.0 4.7 46 31-77 16-61 (620)
No 1
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=99.93 E-value=1.6e-25 Score=202.13 Aligned_cols=134 Identities=19% Similarity=0.234 Sum_probs=111.2
Q ss_pred eeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcC-ccCcccceEEEEcCCCCCHHHHHHHHHHHhCCC
Q 043562 34 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNY-VKHYFDCHAWVQEPYTCYADQILDIIITFLMPS 112 (176)
Q Consensus 34 vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~ 112 (176)
||.+..++++.+.|..++. .++||+||||+||||||++++|+.. ++++|+..+||+||+.++...++.+|+..+...
T Consensus 161 VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~ 238 (889)
T KOG4658|consen 161 VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLL 238 (889)
T ss_pred ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccC
Confidence 9999999999999998764 8999999999999999999999987 999999999999999999999999999988642
Q ss_pred CCccccCCCCCCchhhhhhhhhCCCceEEEecCCCChhhhHHHhcCCCCCCCCCC--CccccccCC
Q 043562 113 SSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEYQPEEYTDQRRIPSRYPFPKE--REHDLTESR 176 (176)
Q Consensus 113 ~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~~~~~w~~i~~~~~~~~~~~~--~~~~~~~~~ 176 (176)
...... .........+.+.|++|||||||||||+..+|+.|.. |||.. ..++++|||
T Consensus 239 ~~~~~~--~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~-----~~p~~~~g~KvvlTTR 297 (889)
T KOG4658|consen 239 DEEWED--KEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGV-----PFPSRENGSKVVLTTR 297 (889)
T ss_pred Ccccch--hhHHHHHHHHHHHhccCceEEEEecccccccHHhcCC-----CCCCccCCeEEEEEec
Confidence 211100 0001123334889999999999999999999999975 55553 578999988
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=99.91 E-value=1.1e-24 Score=174.47 Aligned_cols=137 Identities=21% Similarity=0.264 Sum_probs=102.1
Q ss_pred ehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCc
Q 043562 36 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSR 115 (176)
Q Consensus 36 ~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~ 115 (176)
||.++++|.+.|.....+.++|+|+||||+||||||+++|++..++.+|+.++|++++...+...++..|+..+......
T Consensus 1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~ 80 (287)
T PF00931_consen 1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS 80 (287)
T ss_dssp -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence 68899999999998667899999999999999999999998877889999999999999999999999999999754221
Q ss_pred cccCCCCCCchhhhhhhhhCCCceEEEecCCCChhhhHHHhcCCCCCCCCCCCccccccCC
Q 043562 116 MVRADTDNEPSTNMGRPETSTSQRNIPTRDEYQPEEYTDQRRIPSRYPFPKEREHDLTESR 176 (176)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~~~~~w~~i~~~~~~~~~~~~~~~~~~~~~ 176 (176)
. ....+.......+.+.|+++++||||||||+...|+.+... ++..+.+.++|+|||
T Consensus 81 ~-~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~---~~~~~~~~kilvTTR 137 (287)
T PF00931_consen 81 I-SDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREP---LPSFSSGSKILVTTR 137 (287)
T ss_dssp S-SCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH----------HCHHSS-EEEEEES
T ss_pred c-ccccccccccccchhhhccccceeeeeeecccccccccccc---ccccccccccccccc
Confidence 1 00011111334447889999999999999999999888653 333344678999998
No 3
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.86 E-value=7.1e-21 Score=177.39 Aligned_cols=154 Identities=12% Similarity=0.155 Sum_probs=112.9
Q ss_pred HHHHHHHHhhhhCCCCCCCCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEE
Q 043562 11 IIDAIKTFEAEAGISSSSKSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWV 90 (176)
Q Consensus 11 ~~d~i~~~~~~~~~~~~~~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv 90 (176)
|.++++.........+.....++||++.+++++..+|..+..++++|+||||||+||||||+++|+. +..+|++.+|+
T Consensus 164 i~~Iv~~v~~~l~~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~--l~~~F~g~vfv 241 (1153)
T PLN03210 164 IEEIANDVLGKLNLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSR--LSRQFQSSVFI 241 (1153)
T ss_pred HHHHHHHHHHhhccccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHH--HhhcCCeEEEe
Confidence 4444455655665555666778999999999999999776678999999999999999999999998 88899998887
Q ss_pred Ec---CCC-----------CC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhCCCceEEEecCCCChhhhHHH
Q 043562 91 QE---PYT-----------CY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEYQPEEYTDQ 155 (176)
Q Consensus 91 ~v---s~~-----------~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~~~~~w~~i 155 (176)
.. +.. ++ ...++..++..+....... .......++.++++|+||||||||+.++|+.+
T Consensus 242 ~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~-------~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L 314 (1153)
T PLN03210 242 DRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIK-------IYHLGAMEERLKHRKVLIFIDDLDDQDVLDAL 314 (1153)
T ss_pred eccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcc-------cCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHH
Confidence 42 111 11 1234555566554322110 11113347789999999999999999999999
Q ss_pred hcCCCCCCCCCCCccccccCC
Q 043562 156 RRIPSRYPFPKEREHDLTESR 176 (176)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~ 176 (176)
.....+|+ ....+|+|||
T Consensus 315 ~~~~~~~~---~GsrIIiTTr 332 (1153)
T PLN03210 315 AGQTQWFG---SGSRIIVITK 332 (1153)
T ss_pred HhhCccCC---CCcEEEEEeC
Confidence 98777764 3456888887
No 4
>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=99.16 E-value=2.2e-10 Score=94.87 Aligned_cols=124 Identities=17% Similarity=0.035 Sum_probs=80.7
Q ss_pred CCCCCCCCCCeeeehHHHHHHHHHHhc--CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc------cceEEEEcCC
Q 043562 23 GISSSSKSRDMVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF------DCHAWVQEPY 94 (176)
Q Consensus 23 ~~~~~~~~~~~vG~~~~~~~l~~~L~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F------~~~~wv~vs~ 94 (176)
.+.+...+..++||++++++|...|.. .+.....+.|+|++|+|||++++.+++. ..... -..+|++...
T Consensus 7 ~l~~~~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~--l~~~~~~~~~~~~~v~in~~~ 84 (365)
T TIGR02928 7 LLEPDYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKE--LEEAAEDRDVRVVTVYVNCQI 84 (365)
T ss_pred hCCCCCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHH--HHHHhhccCCceEEEEEECCC
Confidence 344444455899999999999999875 2234457899999999999999999986 32211 1356777777
Q ss_pred CCCHHHHHHHHHHHhCCCCCccccC-CCCCCchhhhhhhhh--CCCceEEEecCCCCh
Q 043562 95 TCYADQILDIIITFLMPSSSRMVRA-DTDNEPSTNMGRPET--STSQRNIPTRDEYQP 149 (176)
Q Consensus 95 ~~~~~~ll~~il~~l~~~~~~~~~~-~~~~~~~~~~~~~~l--~~kr~LlVLDDV~~~ 149 (176)
..+...++..|+.++... +...+. .....+........+ .+++++||||++...
T Consensus 85 ~~~~~~~~~~i~~~l~~~-~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L 141 (365)
T TIGR02928 85 LDTLYQVLVELANQLRGS-GEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL 141 (365)
T ss_pred CCCHHHHHHHHHHHHhhc-CCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence 777788999999988531 111110 111111112223333 366889999998754
No 5
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=99.06 E-value=8.8e-10 Score=92.25 Aligned_cols=125 Identities=11% Similarity=0.029 Sum_probs=82.1
Q ss_pred hhCCCCCCCCCCeeeehHHHHHHHHHHhcC--CCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc--cceEEEEcCCCC
Q 043562 21 EAGISSSSKSRDMVGLDDRMEELLDLLIEG--PPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF--DCHAWVQEPYTC 96 (176)
Q Consensus 21 ~~~~~~~~~~~~~vG~~~~~~~l~~~L~~~--~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~vs~~~ 96 (176)
...+.+...+..++||++++++|...|... ......+.|+|+.|+|||++++.++++ ..... -..++++.....
T Consensus 20 ~~~l~~~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~--l~~~~~~~~~v~in~~~~~ 97 (394)
T PRK00411 20 EEVLEPDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEE--LEEIAVKVVYVYINCQIDR 97 (394)
T ss_pred hhhCCCCCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHH--HHHhcCCcEEEEEECCcCC
Confidence 334444445678999999999999998542 233445789999999999999999987 43332 235667777777
Q ss_pred CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhC--CCceEEEecCCCCh
Q 043562 97 YADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETS--TSQRNIPTRDEYQP 149 (176)
Q Consensus 97 ~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~--~kr~LlVLDDV~~~ 149 (176)
+...++..++.++...... ................+. ++.++||||+++..
T Consensus 98 ~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l 150 (394)
T PRK00411 98 TRYAIFSEIARQLFGHPPP--SSGLSFDELFDKIAEYLDERDRVLIVALDDINYL 150 (394)
T ss_pred CHHHHHHHHHHHhcCCCCC--CCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence 7888999999988642110 001110111222233433 56689999999763
No 6
>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=98.89 E-value=4.4e-09 Score=83.27 Aligned_cols=92 Identities=8% Similarity=-0.157 Sum_probs=61.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCC--CCHHHHHHHHHHHhCCCCCccccCCCCCCc-hhhhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYT--CYADQILDIIITFLMPSSSRMVRADTDNEP-STNMG 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~~ 130 (176)
-..++|+|++|+|||||++.+|++.... +|+.++|+.+... +++.++++.+...+........+ ..... .....
T Consensus 16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~--~~~~~~~~~~~ 92 (249)
T cd01128 16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPP--ERHVQVAEMVL 92 (249)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCH--HHHHHHHHHHH
Confidence 3468999999999999999999985443 8999999997666 78888888884443322111111 00000 00111
Q ss_pred ----hhhhCCCceEEEecCCCC
Q 043562 131 ----RPETSTSQRNIPTRDEYQ 148 (176)
Q Consensus 131 ----~~~l~~kr~LlVLDDV~~ 148 (176)
...-.++++++++|++..
T Consensus 93 ~~a~~~~~~G~~vll~iDei~r 114 (249)
T cd01128 93 EKAKRLVEHGKDVVILLDSITR 114 (249)
T ss_pred HHHHHHHHCCCCEEEEEECHHH
Confidence 122358999999999964
No 7
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=98.85 E-value=2e-09 Score=80.37 Aligned_cols=46 Identities=22% Similarity=0.289 Sum_probs=32.4
Q ss_pred CeeeehHHHHHHHHHHh-cCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~-~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|+||++++++|...|. ......+.+.|+|.+|+|||+|.+.++..
T Consensus 1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~ 47 (185)
T PF13191_consen 1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDR 47 (185)
T ss_dssp --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999994 23445789999999999999999999888
No 8
>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=98.83 E-value=3.5e-08 Score=78.32 Aligned_cols=97 Identities=10% Similarity=0.057 Sum_probs=58.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCc-hhhh---
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEP-STNM--- 129 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~--- 129 (176)
...+.|+|+.|+|||||++.+++.... ..+ ..+|+. ....+..+++..++..+..... ...... ...+
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~~-~~~~~~~~~l~~i~~~lG~~~~-----~~~~~~~~~~l~~~ 114 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKLV-NTRVDAEDLLRMVAADFGLETE-----GRDKAALLRELEDF 114 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeeee-CCCCCHHHHHHHHHHHcCCCCC-----CCCHHHHHHHHHHH
Confidence 457899999999999999999987321 111 123433 3345667888888777643211 111011 1111
Q ss_pred h-hhhhCCCceEEEecCCCCh--hhhHHHhcC
Q 043562 130 G-RPETSTSQRNIPTRDEYQP--EEYTDQRRI 158 (176)
Q Consensus 130 ~-~~~l~~kr~LlVLDDV~~~--~~w~~i~~~ 158 (176)
. .....+++++||+||++.. +.++.++.+
T Consensus 115 l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l 146 (269)
T TIGR03015 115 LIEQFAAGKRALLVVDEAQNLTPELLEELRML 146 (269)
T ss_pred HHHHHhCCCCeEEEEECcccCCHHHHHHHHHH
Confidence 1 2234688899999999864 466666543
No 9
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=98.80 E-value=2.8e-09 Score=88.78 Aligned_cols=86 Identities=12% Similarity=-0.038 Sum_probs=58.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC--CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC--YADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~--~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
.-.+|+|++|+||||||+.+|+..... +|++++|+.+.... .+.++++.+...+.... .+.....+..
T Consensus 170 QR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st-------~d~~~~~~~~~a 241 (416)
T PRK09376 170 QRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVAST-------FDEPAERHVQVA 241 (416)
T ss_pred ceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEEC-------CCCCHHHHHHHH
Confidence 356899999999999999999984433 89999999998887 66677777653222111 1111111111
Q ss_pred --------hhhhCCCceEEEecCCCC
Q 043562 131 --------RPETSTSQRNIPTRDEYQ 148 (176)
Q Consensus 131 --------~~~l~~kr~LlVLDDV~~ 148 (176)
+-.-.++++||++|++-.
T Consensus 242 ~~~ie~Ae~~~e~G~dVlL~iDsItR 267 (416)
T PRK09376 242 EMVIEKAKRLVEHGKDVVILLDSITR 267 (416)
T ss_pred HHHHHHHHHHHHcCCCEEEEEEChHH
Confidence 112468999999999964
No 10
>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=98.75 E-value=1.1e-07 Score=67.23 Aligned_cols=57 Identities=16% Similarity=0.130 Sum_probs=40.6
Q ss_pred eeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC
Q 043562 34 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY 94 (176)
Q Consensus 34 vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~ 94 (176)
+|++..+..+...+... ..+.+.|+|..|+|||+|++.+++. ....-...+++....
T Consensus 1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~~~ 57 (151)
T cd00009 1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANE--LFRPGAPFLYLNASD 57 (151)
T ss_pred CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHH--hhcCCCCeEEEehhh
Confidence 36777888888877653 3457889999999999999999987 322223345555443
No 11
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=98.69 E-value=1.5e-08 Score=71.72 Aligned_cols=102 Identities=10% Similarity=-0.007 Sum_probs=64.2
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCc-----ccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchh
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHY-----FDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPST 127 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-----F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~ 127 (176)
+.+.+.|+|..|+|||++++.+.+. .... -...+|++++...+...+...++..+...... ........
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~l~ 76 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQ--LNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS----RQTSDELR 76 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHH--HHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS----TS-HHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHH--hHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc----cCCHHHHH
Confidence 3568899999999999999999887 3322 23467999888889999999999999754322 01111122
Q ss_pred hhhhhhhC-CCceEEEecCCCC---hhhhHHHhcCCC
Q 043562 128 NMGRPETS-TSQRNIPTRDEYQ---PEEYTDQRRIPS 160 (176)
Q Consensus 128 ~~~~~~l~-~kr~LlVLDDV~~---~~~w~~i~~~~~ 160 (176)
+.....+. .+..+||+|++.. .+.++.++.+..
T Consensus 77 ~~~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~ 113 (131)
T PF13401_consen 77 SLLIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN 113 (131)
T ss_dssp HHHHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC
T ss_pred HHHHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh
Confidence 33344444 3446999999854 355566655544
No 12
>PF05729 NACHT: NACHT domain
Probab=98.64 E-value=2.5e-08 Score=72.87 Aligned_cols=86 Identities=8% Similarity=-0.039 Sum_probs=49.5
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCc----ccceEEEEcCCCCCHH---HHHHHHHHHhCCCCCccccCCCCCCchh
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHY----FDCHAWVQEPYTCYAD---QILDIIITFLMPSSSRMVRADTDNEPST 127 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~---~ll~~il~~l~~~~~~~~~~~~~~~~~~ 127 (176)
+++.|+|.+|+||||+++.++........ +...+|++........ .+...|..+..... ... ..
T Consensus 1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~--------~~~-~~ 71 (166)
T PF05729_consen 1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI--------API-EE 71 (166)
T ss_pred CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch--------hhh-HH
Confidence 57899999999999999998876422222 3456666654433322 23333333332110 000 11
Q ss_pred hhhhhhhCCCceEEEecCCCCh
Q 043562 128 NMGRPETSTSQRNIPTRDEYQP 149 (176)
Q Consensus 128 ~~~~~~l~~kr~LlVLDDV~~~ 149 (176)
.........++++||+|++.+.
T Consensus 72 ~~~~~~~~~~~~llilDglDE~ 93 (166)
T PF05729_consen 72 LLQELLEKNKRVLLILDGLDEL 93 (166)
T ss_pred HHHHHHHcCCceEEEEechHhc
Confidence 1112334689999999998754
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=98.61 E-value=4.3e-08 Score=75.39 Aligned_cols=43 Identities=26% Similarity=0.428 Sum_probs=35.8
Q ss_pred eeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 33 MVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 33 ~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
|+||+.++++|.+++..+. ...+.|+|+.|+|||+|++.+.+.
T Consensus 1 F~gR~~el~~l~~~l~~~~--~~~~~l~G~rg~GKTsLl~~~~~~ 43 (234)
T PF01637_consen 1 FFGREKELEKLKELLESGP--SQHILLYGPRGSGKTSLLKEFINE 43 (234)
T ss_dssp S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHhhc--CcEEEEEcCCcCCHHHHHHHHHHH
Confidence 6899999999999988643 567889999999999999999987
No 14
>PTZ00202 tuzin; Provisional
Probab=98.59 E-value=6.8e-07 Score=75.72 Aligned_cols=75 Identities=13% Similarity=0.054 Sum_probs=58.3
Q ss_pred CCCCeeeehHHHHHHHHHHhcC-CCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHH
Q 043562 29 KSRDMVGLDDRMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIIT 107 (176)
Q Consensus 29 ~~~~~vG~~~~~~~l~~~L~~~-~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~ 107 (176)
+...|+||+.+...|...|... ....+++.|.|++|+|||||++.+... .. + ..++..+. +..++++.++.
T Consensus 260 ~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~--l~--~--~qL~vNpr--g~eElLr~LL~ 331 (550)
T PTZ00202 260 VIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRK--EG--M--PAVFVDVR--GTEDTLRSVVK 331 (550)
T ss_pred CccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhc--CC--c--eEEEECCC--CHHHHHHHHHH
Confidence 4568999999999999999753 234568999999999999999999976 32 1 13333333 67899999999
Q ss_pred HhCC
Q 043562 108 FLMP 111 (176)
Q Consensus 108 ~l~~ 111 (176)
+|..
T Consensus 332 ALGV 335 (550)
T PTZ00202 332 ALGV 335 (550)
T ss_pred HcCC
Confidence 9974
No 15
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=98.58 E-value=1.5e-07 Score=78.75 Aligned_cols=91 Identities=8% Similarity=-0.132 Sum_probs=61.4
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCC--CCHHHHHHHHHHHhCCCCCccccCCCCCCch-hh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYT--CYADQILDIIITFLMPSSSRMVRADTDNEPS-TN--- 128 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~--~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~-~~--- 128 (176)
..++|+|++|+|||||++.+++.... ++|+..+|+.+... .++.++++.++..+........+ .. .... ..
T Consensus 169 q~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~-~~-~~~va~~v~e 245 (415)
T TIGR00767 169 QRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPA-SR-HVQVAEMVIE 245 (415)
T ss_pred CEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCCh-HH-HHHHHHHHHH
Confidence 46899999999999999999998332 36999999998765 78888998886655432211111 00 0000 00
Q ss_pred -hhhhhhCCCceEEEecCCCC
Q 043562 129 -MGRPETSTSQRNIPTRDEYQ 148 (176)
Q Consensus 129 -~~~~~l~~kr~LlVLDDV~~ 148 (176)
..+..-.+++++|++|.+-.
T Consensus 246 ~Ae~~~~~GkdVVLlIDEitR 266 (415)
T TIGR00767 246 KAKRLVEHKKDVVILLDSITR 266 (415)
T ss_pred HHHHHHHcCCCeEEEEEChhH
Confidence 11233468999999999964
No 16
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.57 E-value=4.3e-07 Score=75.74 Aligned_cols=129 Identities=12% Similarity=0.017 Sum_probs=87.4
Q ss_pred CCCCCCeeeehHHHHHHHHHHhc--CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccc--eEEEEcCCCCCHHHHH
Q 043562 27 SSKSRDMVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDC--HAWVQEPYTCYADQIL 102 (176)
Q Consensus 27 ~~~~~~~vG~~~~~~~l~~~L~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~--~~wv~vs~~~~~~~ll 102 (176)
+.|+ .+.+|+++++++...|.. .+....-+.|+|..|+|||+.++.+.+. +...... .+.|++-...+...++
T Consensus 14 ~iP~-~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~--l~~~~~~~~~~yINc~~~~t~~~i~ 90 (366)
T COG1474 14 YIPE-ELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEE--LEESSANVEVVYINCLELRTPYQVL 90 (366)
T ss_pred CCcc-cccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHH--HHhhhccCceEEEeeeeCCCHHHHH
Confidence 3444 499999999999988874 2222223889999999999999999988 4443222 6888888888999999
Q ss_pred HHHHHHhCCCCCccccCCCCCCchhhhhhhhh--CCCceEEEecCCCCh-----hhhHHHhcCCCCC
Q 043562 103 DIIITFLMPSSSRMVRADTDNEPSTNMGRPET--STSQRNIPTRDEYQP-----EEYTDQRRIPSRY 162 (176)
Q Consensus 103 ~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l--~~kr~LlVLDDV~~~-----~~w~~i~~~~~~~ 162 (176)
..|+.++...... +....+..+...+.+ .++.++||||++... +.+..|.+.+..+
T Consensus 91 ~~i~~~~~~~p~~----g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~ 153 (366)
T COG1474 91 SKILNKLGKVPLT----GDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN 153 (366)
T ss_pred HHHHHHcCCCCCC----CCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc
Confidence 9999988622111 122223333333343 468999999998632 3444555555444
No 17
>PRK04841 transcriptional regulator MalT; Provisional
Probab=98.45 E-value=6.5e-07 Score=82.08 Aligned_cols=69 Identities=16% Similarity=0.182 Sum_probs=49.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcC-CCCCHHHHHHHHHHHh
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEP-YTCYADQILDIIITFL 109 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~ll~~il~~l 109 (176)
..+|-|.. |.+.|.. ....+++.|+|++|.||||++.+.... ++.++|+++. ...++..++..++..+
T Consensus 14 ~~~~~R~r----l~~~l~~-~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l 82 (903)
T PRK04841 14 HNTVVRER----LLAKLSG-ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAAL 82 (903)
T ss_pred cccCcchH----HHHHHhc-ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHH
Confidence 45565654 5555543 235789999999999999999998854 2368999995 4456667777777777
Q ss_pred C
Q 043562 110 M 110 (176)
Q Consensus 110 ~ 110 (176)
.
T Consensus 83 ~ 83 (903)
T PRK04841 83 Q 83 (903)
T ss_pred H
Confidence 4
No 18
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=98.41 E-value=2.6e-06 Score=72.42 Aligned_cols=108 Identities=11% Similarity=0.004 Sum_probs=70.6
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLM 110 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~ 110 (176)
+++++.+...+.+...|.. .+.|.++|++|+|||++|+.+++.......|..+.|+++++.++..+++..+ .
T Consensus 175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~----r 246 (459)
T PRK11331 175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGY----R 246 (459)
T ss_pred hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhccc----C
Confidence 4577888888888888874 3467889999999999999999874444567888999999988876655322 1
Q ss_pred CCCCccccCCCCCCchhhhhhhhh--CCCceEEEecCCCCh
Q 043562 111 PSSSRMVRADTDNEPSTNMGRPET--STSQRNIPTRDEYQP 149 (176)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~~~l--~~kr~LlVLDDV~~~ 149 (176)
.. .... ....-...+++.... ..++++||+|++...
T Consensus 247 P~-~vgy--~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa 284 (459)
T PRK11331 247 PN-GVGF--RRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA 284 (459)
T ss_pred CC-CCCe--EecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence 11 0000 000001122222222 247899999999743
No 19
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.41 E-value=2e-06 Score=78.01 Aligned_cols=121 Identities=7% Similarity=-0.061 Sum_probs=75.9
Q ss_pred CCCCCCCCeeeehHHHHHHHHHHhc---CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCc---cCccc--ceEEEEcCCCC
Q 043562 25 SSSSKSRDMVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSSNYV---KHYFD--CHAWVQEPYTC 96 (176)
Q Consensus 25 ~~~~~~~~~vG~~~~~~~l~~~L~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~---~~~F~--~~~wv~vs~~~ 96 (176)
.+...+..+.|||+++++|...|.. +.....++-|+|+.|.|||+.++.|.+...- ..... ..++|+...-.
T Consensus 749 ~~DYVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Ls 828 (1164)
T PTZ00112 749 QLDVVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVV 828 (1164)
T ss_pred CcccCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccC
Confidence 3334456899999999999998875 2333467789999999999999999875210 11222 25677766666
Q ss_pred CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhh---CCCceEEEecCCCC
Q 043562 97 YADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPET---STSQRNIPTRDEYQ 148 (176)
Q Consensus 97 ~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l---~~kr~LlVLDDV~~ 148 (176)
....++..|..++.+.. .+...............+ .....+||||+|..
T Consensus 829 tp~sIYqvI~qqL~g~~---P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~ 880 (1164)
T PTZ00112 829 HPNAAYQVLYKQLFNKK---PPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDY 880 (1164)
T ss_pred CHHHHHHHHHHHHcCCC---CCccccHHHHHHHHHhhhhcccccceEEEeehHhh
Confidence 77888888888885422 111111111111112222 12345899999863
No 20
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=98.34 E-value=1.4e-06 Score=72.10 Aligned_cols=116 Identities=12% Similarity=0.049 Sum_probs=79.9
Q ss_pred CCCeeeehHHHHHHHHHHhcCCCC-cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHH
Q 043562 30 SRDMVGLDDRMEELLDLLIEGPPQ-LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITF 108 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~ 108 (176)
.+.+.+|+.+...|..++.+.+.. ...|-|+|-.|.|||.+.+++++.. -...+|+++-..++...++..|+.+
T Consensus 5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~-----n~~~vw~n~~ecft~~~lle~IL~~ 79 (438)
T KOG2543|consen 5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL-----NLENVWLNCVECFTYAILLEKILNK 79 (438)
T ss_pred ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc-----CCcceeeehHHhccHHHHHHHHHHH
Confidence 457889999999999999876653 3455889999999999999999984 2236899999999999999999999
Q ss_pred hCCCCCccccCCC--CCCc--hhhhh-hhhhC--CCceEEEecCCCChh
Q 043562 109 LMPSSSRMVRADT--DNEP--STNMG-RPETS--TSQRNIPTRDEYQPE 150 (176)
Q Consensus 109 l~~~~~~~~~~~~--~~~~--~~~~~-~~~l~--~kr~LlVLDDV~~~~ 150 (176)
+...+........ ++.. ...+. ..... +..++||||++....
T Consensus 80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lr 128 (438)
T KOG2543|consen 80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALR 128 (438)
T ss_pred hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhh
Confidence 8522111111000 1110 00111 12222 459999999987543
No 21
>PRK13342 recombination factor protein RarA; Reviewed
Probab=98.32 E-value=1.6e-06 Score=73.43 Aligned_cols=45 Identities=22% Similarity=0.349 Sum_probs=35.6
Q ss_pred CCeeeehHHHHH---HHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEE---LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~---l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++||.+.-+.. |..++... ....+.++|++|+||||||+.+++.
T Consensus 12 ~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 12 DEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred HHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHH
Confidence 368888877655 77777654 3556788999999999999999987
No 22
>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=98.32 E-value=1.5e-06 Score=70.41 Aligned_cols=47 Identities=19% Similarity=0.260 Sum_probs=39.1
Q ss_pred CCeeeehHHHHHHHHHHhc---CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||+++.+++|..++.. .......+.++|+.|+|||+||+.+.+.
T Consensus 4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999988863 2234556789999999999999999987
No 23
>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=98.31 E-value=1.7e-06 Score=69.36 Aligned_cols=115 Identities=9% Similarity=0.117 Sum_probs=67.4
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccc-eEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDC-HAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
.-++|.|..|+|||||++.++++ ++.+|+. ++++-+++... ..++.+.+...-.-+...-+....++....+..
T Consensus 70 Qr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~ 147 (274)
T cd01133 70 GKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVA 147 (274)
T ss_pred CEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence 46799999999999999999998 6666655 44455555443 445555544321100000111111221122211
Q ss_pred ------hhhh--C-CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 131 ------RPET--S-TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 ------~~~l--~-~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
.+++ + ++++||++||+... .++.++ .+.|.+=+||++-|..
T Consensus 148 ~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~A~reis~~~ge~p~~~gyp~~~f~~ 202 (274)
T cd01133 148 LTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATE 202 (274)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEeChhHHHHHHHHHHHHcCCCCCCcCcCccHHHH
Confidence 4555 3 89999999999753 334333 4667888888875543
No 24
>PF13173 AAA_14: AAA domain
Probab=98.25 E-value=2.4e-06 Score=60.71 Aligned_cols=79 Identities=6% Similarity=-0.066 Sum_probs=48.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPE 133 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~ 133 (176)
.+++.|.|+.|+|||||+++++.+ .. .....++++............++ .+...+.
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~--~~-~~~~~~yi~~~~~~~~~~~~~~~---------------------~~~~~~~ 57 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKD--LL-PPENILYINFDDPRDRRLADPDL---------------------LEYFLEL 57 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--hc-ccccceeeccCCHHHHHHhhhhh---------------------HHHHHHh
Confidence 468899999999999999999977 22 23445666654432211000000 1111112
Q ss_pred hCCCceEEEecCCCChhhhHHHh
Q 043562 134 TSTSQRNIPTRDEYQPEEYTDQR 156 (176)
Q Consensus 134 l~~kr~LlVLDDV~~~~~w~~i~ 156 (176)
...++.+|+||+|.....|....
T Consensus 58 ~~~~~~~i~iDEiq~~~~~~~~l 80 (128)
T PF13173_consen 58 IKPGKKYIFIDEIQYLPDWEDAL 80 (128)
T ss_pred hccCCcEEEEehhhhhccHHHHH
Confidence 23477889999999888886543
No 25
>PRK08118 topology modulation protein; Reviewed
Probab=98.21 E-value=7e-07 Score=66.61 Aligned_cols=35 Identities=20% Similarity=0.320 Sum_probs=28.5
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCcc-CcccceEEE
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVK-HYFDCHAWV 90 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv 90 (176)
-|.|+|++|+||||||+.+++...+. -+|+..+|-
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~ 38 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK 38 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence 58899999999999999999985444 467777753
No 26
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=98.20 E-value=5.1e-06 Score=68.24 Aligned_cols=47 Identities=21% Similarity=0.259 Sum_probs=39.7
Q ss_pred CCeeeehHHHHHHHHHHhc---CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|++..++.+..++.. .......+.++|+.|+|||+||+.+++.
T Consensus 25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~ 74 (328)
T PRK00080 25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANE 74 (328)
T ss_pred HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHH
Confidence 5799999999999888763 2334567889999999999999999987
No 27
>PRK04195 replication factor C large subunit; Provisional
Probab=98.15 E-value=1.2e-05 Score=69.42 Aligned_cols=47 Identities=21% Similarity=0.276 Sum_probs=40.1
Q ss_pred CCeeeehHHHHHHHHHHhc--CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+..++.|.+|+.. .....+.+-|+|+.|+||||+|+.+++.
T Consensus 14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~e 62 (482)
T PRK04195 14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALAND 62 (482)
T ss_pred HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999999875 2223678899999999999999999987
No 28
>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=98.14 E-value=2.8e-06 Score=66.06 Aligned_cols=53 Identities=19% Similarity=0.221 Sum_probs=37.2
Q ss_pred CCeeeehHHHHHHHHHHhc---CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCccc
Q 043562 31 RDMVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFD 85 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~ 85 (176)
+++||.++-++.+.-++.. ....+.-+-+||++|+||||||..+.+. ....|.
T Consensus 24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~~ 79 (233)
T PF05496_consen 24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANE--LGVNFK 79 (233)
T ss_dssp CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHH--CT--EE
T ss_pred HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhc--cCCCeE
Confidence 5899999988887666542 3446778899999999999999999998 555553
No 29
>PRK06893 DNA replication initiation factor; Validated
Probab=98.13 E-value=1.2e-05 Score=62.77 Aligned_cols=37 Identities=5% Similarity=-0.081 Sum_probs=28.2
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
.+.+.++|+.|+|||+|++.+++. .........|+++
T Consensus 39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~ 75 (229)
T PRK06893 39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPL 75 (229)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeH
Confidence 356899999999999999999987 3333344567765
No 30
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=98.12 E-value=4.5e-06 Score=69.04 Aligned_cols=73 Identities=11% Similarity=0.023 Sum_probs=52.3
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhh
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGR 131 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~ 131 (176)
+.+.-+-+||++|+||||||+.+.+..+-.. ..||+.|....-..-+++|+++... .
T Consensus 160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~-------------------~ 216 (554)
T KOG2028|consen 160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQN-------------------E 216 (554)
T ss_pred CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHH-------------------H
Confidence 3577788999999999999999998733222 5688887766655566677665421 2
Q ss_pred hhhCCCceEEEecCCC
Q 043562 132 PETSTSQRNIPTRDEY 147 (176)
Q Consensus 132 ~~l~~kr~LlVLDDV~ 147 (176)
..+.++|-.|.+|.|-
T Consensus 217 ~~l~krkTilFiDEiH 232 (554)
T KOG2028|consen 217 KSLTKRKTILFIDEIH 232 (554)
T ss_pred HhhhcceeEEEeHHhh
Confidence 3345778888888875
No 31
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=98.09 E-value=5.1e-05 Score=61.94 Aligned_cols=109 Identities=14% Similarity=0.150 Sum_probs=68.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCc----CccCcccceEEEE-cCCCCCHHHHHHHH
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSN----YVKHYFDCHAWVQ-EPYTCYADQILDII 105 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~-vs~~~~~~~ll~~i 105 (176)
.+++|.+.-++.|..++..+. -...+-++|+.|+||||+|+.++... ....|++...|.. -+.....++ .+++
T Consensus 4 ~~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~ 81 (313)
T PRK05564 4 HTIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNI 81 (313)
T ss_pred hhccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHH
Confidence 468899998999999887543 34577899999999999999988742 1234556555654 234444444 4444
Q ss_pred HHHhCCCCCccccCCCCCCchhhhhhhhhCCCceEEEec-CCCChhhhHHHhcCCC
Q 043562 106 ITFLMPSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTR-DEYQPEEYTDQRRIPS 160 (176)
Q Consensus 106 l~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLD-DV~~~~~w~~i~~~~~ 160 (176)
.+.+.. .....++|++||-| |..+.++++.+.+...
T Consensus 82 ~~~~~~-------------------~p~~~~~kv~iI~~ad~m~~~a~naLLK~LE 118 (313)
T PRK05564 82 IEEVNK-------------------KPYEGDKKVIIIYNSEKMTEQAQNAFLKTIE 118 (313)
T ss_pred HHHHhc-------------------CcccCCceEEEEechhhcCHHHHHHHHHHhc
Confidence 444421 01123455555555 5567777877766544
No 32
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=98.01 E-value=1.7e-05 Score=66.23 Aligned_cols=87 Identities=15% Similarity=0.117 Sum_probs=52.6
Q ss_pred CeeeehHHHH---HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHH
Q 043562 32 DMVGLDDRME---ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITF 108 (176)
Q Consensus 32 ~~vG~~~~~~---~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~ 108 (176)
++||.+.-+. -|..++..+ .+.-.-+||++|+||||||+.+... ....|.. ++...+-..-++.+++.
T Consensus 25 e~vGQ~HLlg~~~~lrr~v~~~--~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f~~-----~sAv~~gvkdlr~i~e~ 95 (436)
T COG2256 25 EVVGQEHLLGEGKPLRRAVEAG--HLHSMILWGPPGTGKTTLARLIAGT--TNAAFEA-----LSAVTSGVKDLREIIEE 95 (436)
T ss_pred HhcChHhhhCCCchHHHHHhcC--CCceeEEECCCCCCHHHHHHHHHHh--hCCceEE-----eccccccHHHHHHHHHH
Confidence 4566544332 233344433 4667779999999999999999987 5555543 33333322333444433
Q ss_pred hCCCCCccccCCCCCCchhhhhhhhhCCCceEEEecCCC
Q 043562 109 LMPSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEY 147 (176)
Q Consensus 109 l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~ 147 (176)
. .+....+++.+|.+|.|-
T Consensus 96 a--------------------~~~~~~gr~tiLflDEIH 114 (436)
T COG2256 96 A--------------------RKNRLLGRRTILFLDEIH 114 (436)
T ss_pred H--------------------HHHHhcCCceEEEEehhh
Confidence 2 123335889999999985
No 33
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=98.00 E-value=3.4e-05 Score=69.65 Aligned_cols=50 Identities=18% Similarity=0.289 Sum_probs=37.0
Q ss_pred CCeeeehHHHH---HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc
Q 043562 31 RDMVGLDDRME---ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF 84 (176)
Q Consensus 31 ~~~vG~~~~~~---~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F 84 (176)
++++|.+..+. .|..++..+ ....+-++|++|+||||||+.+++. ...+|
T Consensus 28 dd~vGQe~ii~~~~~L~~~i~~~--~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f 80 (725)
T PRK13341 28 EEFVGQDHILGEGRLLRRAIKAD--RVGSLILYGPPGVGKTTLARIIANH--TRAHF 80 (725)
T ss_pred HHhcCcHHHhhhhHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHH--hcCcc
Confidence 36899888774 455555543 3556789999999999999999987 44444
No 34
>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=97.96 E-value=4.4e-06 Score=65.74 Aligned_cols=36 Identities=19% Similarity=0.247 Sum_probs=29.8
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
--++|+|..|+|||||...+... ....|.+.++++-
T Consensus 14 fr~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 14 FRMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITP 49 (241)
T ss_pred ceEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEec
Confidence 35789999999999999999887 7788977666653
No 35
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=97.96 E-value=1.9e-05 Score=55.03 Aligned_cols=37 Identities=14% Similarity=0.097 Sum_probs=27.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEP 93 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs 93 (176)
..+.|+|+.|+||||+++.+... ........+.++.+
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~ 39 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGE 39 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCE
Confidence 47899999999999999999987 43333334555443
No 36
>PRK07261 topology modulation protein; Provisional
Probab=97.96 E-value=3.6e-05 Score=57.55 Aligned_cols=54 Identities=17% Similarity=0.159 Sum_probs=33.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCcc-CcccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVK-HYFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
-|.|+|++|+||||||+.+.....+. -+.+...|-......+..++...+...+
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~ 56 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL 56 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence 47899999999999999987653222 2455566654333334444554444433
No 37
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.92 E-value=8.3e-05 Score=65.09 Aligned_cols=46 Identities=15% Similarity=0.176 Sum_probs=38.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|...+..+. -...+-++|+.|+||||+|+.+++.
T Consensus 16 ~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~ 61 (546)
T PRK14957 16 AEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKC 61 (546)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999998887543 3455778999999999999998874
No 38
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.91 E-value=8.4e-05 Score=67.97 Aligned_cols=46 Identities=22% Similarity=0.223 Sum_probs=38.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-+..|.+++..+. -...+-++|+.|+||||+|+.+++.
T Consensus 16 ddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~ 61 (944)
T PRK14949 16 EQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKG 61 (944)
T ss_pred HHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 479999999999999887543 2345689999999999999999877
No 39
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=97.88 E-value=5.6e-05 Score=61.49 Aligned_cols=46 Identities=15% Similarity=0.098 Sum_probs=39.4
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++|.++..+.+..++..+. -..++-++|+.|+||||+|+.+++.
T Consensus 21 ~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 21 DECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred HHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHH
Confidence 578999999999999987533 4567788999999999999999886
No 40
>PRK08116 hypothetical protein; Validated
Probab=97.87 E-value=6.2e-05 Score=60.33 Aligned_cols=47 Identities=21% Similarity=0.126 Sum_probs=32.4
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
..+.++|..|+|||.||.++++. +..+-...++++ ..+++..+....
T Consensus 115 ~gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~------~~~ll~~i~~~~ 161 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVN------FPQLLNRIKSTY 161 (268)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHH
Confidence 35789999999999999999998 444333455554 344555554443
No 41
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=97.86 E-value=2.8e-05 Score=65.47 Aligned_cols=48 Identities=21% Similarity=0.279 Sum_probs=38.5
Q ss_pred CCCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 30 SRDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++.|+++.+++|.+.+.. +-...+-|.++|++|+|||++|+++++.
T Consensus 130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH
Confidence 34688999999999887642 1134566889999999999999999987
No 42
>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=97.84 E-value=2.5e-05 Score=64.79 Aligned_cols=48 Identities=13% Similarity=0.304 Sum_probs=41.3
Q ss_pred CCeeeehHHHHHHHHHHhcC----CCCcEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 31 RDMVGLDDRMEELLDLLIEG----PPQLSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~----~~~~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
.+++|+++.++++.+++... ....+++.++|+.|+||||||..+.+..
T Consensus 51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l 102 (361)
T smart00763 51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL 102 (361)
T ss_pred hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence 38999999999999998751 3456899999999999999999998773
No 43
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.84 E-value=0.00018 Score=60.04 Aligned_cols=46 Identities=24% Similarity=0.232 Sum_probs=38.7
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++|.+.-++.+...+..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 16 RDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred hhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHH
Confidence 478999999999998887543 3456789999999999999999876
No 44
>PRK06696 uridine kinase; Validated
Probab=97.83 E-value=3.2e-05 Score=60.12 Aligned_cols=42 Identities=21% Similarity=0.195 Sum_probs=34.5
Q ss_pred ehHHHHHHHHHHhc-CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 36 LDDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 36 ~~~~~~~l~~~L~~-~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
|+.-+++|.+.+.. ......+|+|.|.+|+||||||+.+.+.
T Consensus 3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~ 45 (223)
T PRK06696 3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEE 45 (223)
T ss_pred HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 55667778777764 4456889999999999999999999876
No 45
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=97.82 E-value=0.00014 Score=65.58 Aligned_cols=46 Identities=20% Similarity=0.203 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++||.+.-++.|.+++..+. -...+-++|..|+||||+|+.+.+.
T Consensus 16 dEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKa 61 (830)
T PRK07003 16 ASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKA 61 (830)
T ss_pred HHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999999987643 2345569999999999999988775
No 46
>PLN03025 replication factor C subunit; Provisional
Probab=97.82 E-value=0.00012 Score=60.01 Aligned_cols=45 Identities=20% Similarity=0.270 Sum_probs=36.1
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.++-++.|..++..+. ..-+-++|+.|+||||+|+.+.+.
T Consensus 13 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~~ 57 (319)
T PLN03025 13 DDIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAHE 57 (319)
T ss_pred HHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence 368898888888888776543 334678999999999999998876
No 47
>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=97.82 E-value=1.5e-05 Score=55.50 Aligned_cols=22 Identities=23% Similarity=0.252 Sum_probs=20.6
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|.|.|++|+||||+|+.+.+.
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 6899999999999999999886
No 48
>PRK08727 hypothetical protein; Validated
Probab=97.81 E-value=9e-05 Score=58.09 Aligned_cols=37 Identities=14% Similarity=0.084 Sum_probs=28.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
...+.|+|..|+|||+|++.+++. .........+++.
T Consensus 41 ~~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~~ 77 (233)
T PRK08727 41 SDWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLPL 77 (233)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEeH
Confidence 356999999999999999999876 3333334566664
No 49
>PRK07667 uridine kinase; Provisional
Probab=97.79 E-value=3.8e-05 Score=58.48 Aligned_cols=38 Identities=18% Similarity=0.163 Sum_probs=31.8
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.+.+.+........+|+|.|.+|+||||+|..+...
T Consensus 3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~ 40 (193)
T PRK07667 3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKEN 40 (193)
T ss_pred HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 46677777765666789999999999999999998875
No 50
>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=97.78 E-value=5.2e-05 Score=65.81 Aligned_cols=47 Identities=26% Similarity=0.290 Sum_probs=37.4
Q ss_pred CCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.|.+..++++.+.+.. +-...+-+.++|++|+|||++|+.+++.
T Consensus 182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e 239 (512)
T TIGR03689 182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS 239 (512)
T ss_pred HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence 5678899999998887642 1123456889999999999999999997
No 51
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.78 E-value=0.0002 Score=62.22 Aligned_cols=46 Identities=26% Similarity=0.208 Sum_probs=38.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-.+.|..++..+. -...+.++|+.|+||||+|+.+++.
T Consensus 14 ~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~ 59 (504)
T PRK14963 14 DEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMA 59 (504)
T ss_pred HHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 468999998888888887643 3356789999999999999999876
No 52
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.78 E-value=9.7e-05 Score=66.98 Aligned_cols=45 Identities=20% Similarity=0.305 Sum_probs=37.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++||+.+++.+.+.|.... ..-+.++|++|+|||++|+.+...
T Consensus 182 ~~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~~ 226 (731)
T TIGR02639 182 DPLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLALR 226 (731)
T ss_pred CcccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHH
Confidence 479999999999999887654 223468999999999999998876
No 53
>PRK12377 putative replication protein; Provisional
Probab=97.77 E-value=0.00013 Score=57.94 Aligned_cols=37 Identities=14% Similarity=-0.044 Sum_probs=28.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
...+.++|..|+|||+||.++.+. .......+.++++
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~ 137 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTV 137 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEH
Confidence 457899999999999999999998 4444444566654
No 54
>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=97.76 E-value=0.00018 Score=64.04 Aligned_cols=46 Identities=20% Similarity=0.261 Sum_probs=38.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
++++|.+..+..+...+... ....+.|+|+.|+||||||+.+++..
T Consensus 154 ~~iiGqs~~~~~l~~~ia~~--~~~~vlL~Gp~GtGKTTLAr~i~~~~ 199 (615)
T TIGR02903 154 SEIVGQERAIKALLAKVASP--FPQHIILYGPPGVGKTTAARLALEEA 199 (615)
T ss_pred HhceeCcHHHHHHHHHHhcC--CCCeEEEECCCCCCHHHHHHHHHHhh
Confidence 47999999999887777533 34579999999999999999998763
No 55
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.75 E-value=0.00026 Score=62.93 Aligned_cols=46 Identities=20% Similarity=0.189 Sum_probs=38.4
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-++.|.+++..+. -...+-++|..|+||||+|+.+.+.
T Consensus 16 ddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAka 61 (700)
T PRK12323 16 TTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKS 61 (700)
T ss_pred HHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999999987643 3456788999999999999998765
No 56
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.74 E-value=0.00022 Score=63.50 Aligned_cols=46 Identities=22% Similarity=0.214 Sum_probs=39.1
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-.+.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 15 ddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 15 NELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999999988653 3467789999999999999998776
No 57
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.74 E-value=0.00022 Score=62.12 Aligned_cols=46 Identities=15% Similarity=0.141 Sum_probs=38.4
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||-+.-++.|.+++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (509)
T PRK14958 16 QEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKC 61 (509)
T ss_pred HHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999999997643 2346789999999999999998775
No 58
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.72 E-value=0.00013 Score=67.16 Aligned_cols=45 Identities=16% Similarity=0.287 Sum_probs=37.8
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++||+.++..+++.|.... ..-+.++|.+|+|||++|+.+...
T Consensus 178 ~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~~ 222 (857)
T PRK10865 178 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQR 222 (857)
T ss_pred CcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHHH
Confidence 469999999999999998754 223458999999999999998876
No 59
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.71 E-value=0.00031 Score=60.52 Aligned_cols=46 Identities=24% Similarity=0.227 Sum_probs=38.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-+..|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 18 ~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~ 63 (484)
T PRK14956 18 RDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKR 63 (484)
T ss_pred HHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 478999999999998887644 2346789999999999999999876
No 60
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.70 E-value=0.0003 Score=62.49 Aligned_cols=46 Identities=22% Similarity=0.243 Sum_probs=37.7
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++||.+.-+..|.+++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~ 61 (618)
T PRK14951 16 SEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKS 61 (618)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 478999998888998887643 3456789999999999999998554
No 61
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=97.70 E-value=0.00014 Score=57.23 Aligned_cols=51 Identities=14% Similarity=0.259 Sum_probs=38.3
Q ss_pred CCCCCCeeeehHHHHHHHHHHhc--CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 27 SSKSRDMVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 27 ~~~~~~~vG~~~~~~~l~~~L~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.-++++|.+.+++.|.+=... ......-+-+||..|.|||+|++++.+.
T Consensus 23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~ 75 (249)
T PF05673_consen 23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNE 75 (249)
T ss_pred CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHH
Confidence 45556899999999988653322 2223455678999999999999999876
No 62
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.69 E-value=0.00036 Score=56.53 Aligned_cols=45 Identities=20% Similarity=0.249 Sum_probs=38.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+++.++.+..++.... ...+-++|..|+||||+|+.+.+.
T Consensus 17 ~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~ 61 (319)
T PRK00440 17 DEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARE 61 (319)
T ss_pred HHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999887543 345799999999999999999876
No 63
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.67 E-value=0.00018 Score=56.42 Aligned_cols=37 Identities=8% Similarity=0.078 Sum_probs=27.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
...+.|+|+.|+|||+|++.+++. ....-....++++
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~ 81 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPL 81 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEH
Confidence 457899999999999999998886 3333233556655
No 64
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=97.66 E-value=0.00021 Score=55.42 Aligned_cols=56 Identities=14% Similarity=0.058 Sum_probs=40.3
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHH
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQ 100 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ 100 (176)
.|-++|..+-..-.++.|+|.+|+|||+||.++... ....-..++|++.. .++...
T Consensus 11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r 66 (225)
T PRK09361 11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPER 66 (225)
T ss_pred HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHH
Confidence 355555554456679999999999999999998876 33334567888876 555544
No 65
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.66 E-value=0.00036 Score=60.23 Aligned_cols=46 Identities=22% Similarity=0.200 Sum_probs=37.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-...|...+..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 14 ~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 14 SEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 468999888888887776543 2356789999999999999999775
No 66
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=97.64 E-value=0.00058 Score=59.40 Aligned_cols=46 Identities=13% Similarity=0.095 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-+..|...+..+. -...+-++|+.|+||||+|+.+++.
T Consensus 21 ~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~ 66 (507)
T PRK06645 21 AELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKA 66 (507)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHH
Confidence 478999999998888776543 3456789999999999999999876
No 67
>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=97.63 E-value=0.0002 Score=65.95 Aligned_cols=45 Identities=16% Similarity=0.299 Sum_probs=37.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++||+.++..+...|..... .-+.++|++|+|||++|..+...
T Consensus 173 ~~~igr~~ei~~~~~~l~r~~~--~n~lL~G~pGvGKT~l~~~la~~ 217 (852)
T TIGR03346 173 DPVIGRDEEIRRTIQVLSRRTK--NNPVLIGEPGVGKTAIVEGLAQR 217 (852)
T ss_pred CcCCCcHHHHHHHHHHHhcCCC--CceEEEcCCCCCHHHHHHHHHHH
Confidence 4699999999999999976542 23347999999999999998876
No 68
>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=97.63 E-value=0.00039 Score=59.25 Aligned_cols=115 Identities=11% Similarity=0.060 Sum_probs=75.5
Q ss_pred CCCCCCeeeehHHHHHHHHHHhc--CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCccc--ceEEEEcCCCCCHHHHH
Q 043562 27 SSKSRDMVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFD--CHAWVQEPYTCYADQIL 102 (176)
Q Consensus 27 ~~~~~~~vG~~~~~~~l~~~L~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~~~~ll 102 (176)
..++..++||+.++..+.+++.. +.+..+-+-|.|-+|.|||.+...++.+ ...... +.+.++...-.....++
T Consensus 146 t~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~--~~~~~~~~~~v~inc~sl~~~~aiF 223 (529)
T KOG2227|consen 146 TAPPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDS--LSKSSKSPVTVYINCTSLTEASAIF 223 (529)
T ss_pred cCCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHh--hhhhcccceeEEEeeccccchHHHH
Confidence 45677899999999999999976 3456678889999999999999999988 333222 34666655444566788
Q ss_pred HHHHHHhCCCCCccccCCCCCCchhhhhhhhh-CC-CceEEEecCCC
Q 043562 103 DIIITFLMPSSSRMVRADTDNEPSTNMGRPET-ST-SQRNIPTRDEY 147 (176)
Q Consensus 103 ~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l-~~-kr~LlVLDDV~ 147 (176)
..|...+....... .. .++..+....+. +. +-+|+|||...
T Consensus 224 ~kI~~~~~q~~~s~---~~-~~~~~~~~~~h~~q~k~~~llVlDEmD 266 (529)
T KOG2227|consen 224 KKIFSSLLQDLVSP---GT-GMQHLEKFEKHTKQSKFMLLLVLDEMD 266 (529)
T ss_pred HHHHHHHHHHhcCC---ch-hHHHHHHHHHHHhcccceEEEEechhh
Confidence 88887774321111 11 122222222222 22 36899999764
No 69
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=97.63 E-value=6.5e-05 Score=60.27 Aligned_cols=48 Identities=21% Similarity=0.257 Sum_probs=40.2
Q ss_pred CCeeeehHHHHHHHHHHhc---CCCCcEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 31 RDMVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
.++||.++-++.|.-.+.. ....+--+-++|++|.||||||..+.+..
T Consensus 26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em 76 (332)
T COG2255 26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL 76 (332)
T ss_pred HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence 4799999988888766653 34567789999999999999999999983
No 70
>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=97.62 E-value=8.1e-05 Score=57.87 Aligned_cols=54 Identities=11% Similarity=0.132 Sum_probs=35.7
Q ss_pred hcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCccc-c-eEEEEcCCCCCHHHHHHHHHHHh
Q 043562 48 IEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFD-C-HAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 48 ~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~-~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...+.....+-|+|..|+|||.|.+++++. +..... . ++++ +..++...+...+
T Consensus 28 ~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~------~~~~f~~~~~~~~ 83 (219)
T PF00308_consen 28 ENPGERYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYL------SAEEFIREFADAL 83 (219)
T ss_dssp HSTTTSSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEE------EHHHHHHHHHHHH
T ss_pred hcCCCCCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceee------cHHHHHHHHHHHH
Confidence 333444567899999999999999999987 443322 2 3444 3445555555555
No 71
>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=97.62 E-value=0.00051 Score=53.09 Aligned_cols=59 Identities=15% Similarity=0.144 Sum_probs=40.9
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc------cceEEEEcCCCCCHHHHH
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF------DCHAWVQEPYTCYADQIL 102 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F------~~~~wv~vs~~~~~~~ll 102 (176)
.|-.+|..+-..-.++.|+|.+|+|||+||.++... ....- ..++|++....++...+.
T Consensus 7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~--~~~~~~~~g~~~~v~yi~~e~~~~~~rl~ 71 (226)
T cd01393 7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVE--AQLPGELGGLEGKVVYIDTEGAFRPERLV 71 (226)
T ss_pred HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHH--hhcccccCCCcceEEEEecCCCCCHHHHH
Confidence 344555444455679999999999999999998765 22222 456888877766665443
No 72
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=97.62 E-value=0.00023 Score=51.37 Aligned_cols=39 Identities=13% Similarity=0.076 Sum_probs=28.8
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC 96 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~ 96 (176)
++.|+|.+|+||||++..+... ....-...+|++.....
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~--~~~~~~~v~~~~~e~~~ 39 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALN--IATKGGKVVYVDIEEEI 39 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHH--HHhcCCEEEEEECCcch
Confidence 3689999999999999999876 33333456777765543
No 73
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=97.62 E-value=0.00032 Score=59.77 Aligned_cols=113 Identities=10% Similarity=0.005 Sum_probs=64.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|+|..|+|||||++.+... .. .+..+..-+++... ..+++..++..-.-+...-+....++....+..
T Consensus 162 GqrigI~G~sG~GKSTLL~~I~~~--~~--~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~ 237 (444)
T PRK08972 162 GQRMGLFAGSGVGKSVLLGMMTRG--TT--ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC 237 (444)
T ss_pred CCEEEEECCCCCChhHHHHHhccC--CC--CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence 357899999999999999999875 22 24555565655544 344444443221101000111111211122221
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ +++++||++||+-.. .++.++ .+.|.+-+||++=|.
T Consensus 238 ~~A~tiAEyfrd~G~~VLl~~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs 290 (444)
T PRK08972 238 ETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREIALAVGEPPATKGYPPSVFA 290 (444)
T ss_pred HHHHHHHHHHHHcCCCEEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHH
Confidence 4444 699999999999754 444443 366788888886544
No 74
>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=97.61 E-value=0.00026 Score=56.81 Aligned_cols=116 Identities=12% Similarity=0.015 Sum_probs=67.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCc--cCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYV--KHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~--~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|-.|+|||+|+..+.++..+ +.+-+.++++-+++... ..+++..+...-.-+...-+....++....+..
T Consensus 70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a 149 (276)
T cd01135 70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT 149 (276)
T ss_pred CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence 45799999999999999998877321 12245677887776554 445555443321101000111111211122222
Q ss_pred -------hhhhC---CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 -------RPETS---TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -------~~~l~---~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.++++ ++++|+++||+... .++.++ .+.|.+-+||++=|.
T Consensus 150 ~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rEisl~~gepP~~~gyp~~vf~ 204 (276)
T cd01135 150 PRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREISAAREEVPGRRGYPGYMYT 204 (276)
T ss_pred HHHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHHHHhccCCCCCccCcCccHHH
Confidence 45543 78999999999754 334443 366788888886443
No 75
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=97.61 E-value=0.00047 Score=61.49 Aligned_cols=46 Identities=22% Similarity=0.213 Sum_probs=38.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-++.|...+..+. -...+-++|..|+||||+|+.+.+.
T Consensus 16 ~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~ 61 (647)
T PRK07994 16 AEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKG 61 (647)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 479999999999998887643 2345689999999999999998776
No 76
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=97.60 E-value=0.00075 Score=60.49 Aligned_cols=46 Identities=28% Similarity=0.312 Sum_probs=38.7
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-+..|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~ 61 (709)
T PRK08691 16 ADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKS 61 (709)
T ss_pred HHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHH
Confidence 479999999999999988643 2456789999999999999998775
No 77
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=97.59 E-value=0.00022 Score=61.04 Aligned_cols=48 Identities=17% Similarity=0.265 Sum_probs=33.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcc-cc-eEEEEcCCCCCHHHHHHHHHHHh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYF-DC-HAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~-~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...+-|+|..|+|||+|++.+++. +.... .. ..|++. .+++..+...+
T Consensus 130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~~------~~f~~~~~~~~ 179 (440)
T PRK14088 130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITS------EKFLNDLVDSM 179 (440)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHH
Confidence 556999999999999999999987 44433 32 445542 34555555544
No 78
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=97.57 E-value=7.6e-05 Score=62.19 Aligned_cols=48 Identities=19% Similarity=0.230 Sum_probs=38.5
Q ss_pred CCCeeeehHHHHHHHHHHhcC-----------CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 30 SRDMVGLDDRMEELLDLLIEG-----------PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~~-----------~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++.|++..+++|.+.+... -...+-+.++|++|+|||+||+.+++.
T Consensus 121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 357899999999998877421 122455889999999999999999987
No 79
>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=97.54 E-value=0.00033 Score=56.16 Aligned_cols=112 Identities=15% Similarity=0.065 Sum_probs=61.9
Q ss_pred EEEEEEcCCCCcHHHHH-HHHhcCcCccCcccce-EEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFA-AEAYSSNYVKHYFDCH-AWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~~-~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|..|+|||+|| ..+.+. . +-+.+ +++-+++... ..++.+.+...-.-.....+....++-...+..
T Consensus 70 Qr~~Ifg~~g~GKt~L~l~~i~~~--~--~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a 145 (274)
T cd01132 70 QRELIIGDRQTGKTAIAIDTIINQ--K--GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLA 145 (274)
T ss_pred CEEEeeCCCCCCccHHHHHHHHHh--c--CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHH
Confidence 46799999999999996 556554 2 22333 5555555433 445555544321111001111111111112111
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ +++.+||++||+-.. .+|.++ .+.|.+=+||++-|.
T Consensus 146 ~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEisl~~ge~P~~~gYp~~~f~ 199 (274)
T cd01132 146 PYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFY 199 (274)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHHHhcCCCCCCcCcCchHHH
Confidence 2222 589999999999765 556554 367888889987553
No 80
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.54 E-value=0.0011 Score=58.15 Aligned_cols=46 Identities=22% Similarity=0.231 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++||.+.-++.|..++..+. -...+-++|+.|+||||+|+.+...
T Consensus 16 ~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (527)
T PRK14969 16 SELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKS 61 (527)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999998887643 2345679999999999999998765
No 81
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=97.54 E-value=0.00049 Score=62.46 Aligned_cols=116 Identities=9% Similarity=0.073 Sum_probs=66.9
Q ss_pred CCCeeeehHHHHHHHHHHhc-------CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHH
Q 043562 30 SRDMVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQIL 102 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll 102 (176)
...++|.+..++.+...+.. ......++.++|+.|+|||+||+.++.. . +...+.++++.-... .
T Consensus 453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~--l---~~~~~~~d~se~~~~-~-- 524 (731)
T TIGR02639 453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA--L---GVHLERFDMSEYMEK-H-- 524 (731)
T ss_pred hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH--h---cCCeEEEeCchhhhc-c--
Confidence 35689999999998888763 1223456889999999999999999886 3 222344444332111 0
Q ss_pred HHHHHHhCCCCCccccCCCCCCchhhhhhhhh-CCCceEEEecCCC--ChhhhHHHhcCCC
Q 043562 103 DIIITFLMPSSSRMVRADTDNEPSTNMGRPET-STSQRNIPTRDEY--QPEEYTDQRRIPS 160 (176)
Q Consensus 103 ~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l-~~kr~LlVLDDV~--~~~~w~~i~~~~~ 160 (176)
-...+.+.. ++... .+........+ +....+|+||++. +++.++.+.++..
T Consensus 525 --~~~~lig~~----~gyvg-~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld 578 (731)
T TIGR02639 525 --TVSRLIGAP----PGYVG-FEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMD 578 (731)
T ss_pred --cHHHHhcCC----CCCcc-cchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhc
Confidence 111122111 11111 11111122222 2345699999997 5677777777654
No 82
>PRK07952 DNA replication protein DnaC; Validated
Probab=97.53 E-value=0.00058 Score=54.05 Aligned_cols=48 Identities=10% Similarity=0.003 Sum_probs=30.9
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ 91 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~ 91 (176)
.+.++...-......+-++|.+|+|||+||.++.+. ....-..+++++
T Consensus 87 ~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~--l~~~g~~v~~it 134 (244)
T PRK07952 87 KARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNE--LLLRGKSVLIIT 134 (244)
T ss_pred HHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEE
Confidence 334444332223457889999999999999999987 333333445553
No 83
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.53 E-value=0.00066 Score=58.78 Aligned_cols=45 Identities=20% Similarity=0.223 Sum_probs=36.8
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhc
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
.++||.+.-++.|.+.+..+. -...+-++|+.|+||||+|+.+..
T Consensus 13 ~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 13 KDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHH
Confidence 478999998888888876543 234788999999999999998875
No 84
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=97.53 E-value=0.00026 Score=60.65 Aligned_cols=50 Identities=18% Similarity=0.184 Sum_probs=32.5
Q ss_pred eeeehHH--HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc
Q 043562 33 MVGLDDR--MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF 84 (176)
Q Consensus 33 ~vG~~~~--~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F 84 (176)
++|-... ...+..+....+.....+-|+|..|+|||+|++.+.+. +...+
T Consensus 125 v~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~--~~~~~ 176 (450)
T PRK00149 125 VVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNY--ILEKN 176 (450)
T ss_pred ccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHH--HHHhC
Confidence 4564332 23333333333334567899999999999999999988 54444
No 85
>PRK06002 fliI flagellum-specific ATP synthase; Validated
Probab=97.53 E-value=0.00062 Score=58.23 Aligned_cols=114 Identities=10% Similarity=0.014 Sum_probs=63.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
-..++|+|..|+|||||++.+.... . .....+++.-.+..++.++....+...... ....-...++....+..
T Consensus 165 Gqri~I~G~SGsGKTTLL~~Ia~l~--~-pd~gvv~liGergrev~e~~~~~l~~~r~r-tI~vV~qsd~~~~~r~~~~~ 240 (450)
T PRK06002 165 GQRIGIFAGSGVGKSTLLAMLARAD--A-FDTVVIALVGERGREVREFLEDTLADNLKK-AVAVVATSDESPMMRRLAPL 240 (450)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCCC--C-CCeeeeeecccCCccHHHHhHHHHHHhhCC-eEEEEEcCCCCHHHHHHHHH
Confidence 3478999999999999999988652 1 122344443334445555555444433211 00111011111111211
Q ss_pred -----hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 131 -----RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 -----~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
.+++ +++.+|+++||+... .+..++ .+.|.+-+||++-|..
T Consensus 241 ~a~~iAEyfrd~G~~Vll~~DslTr~A~A~rEisl~~ge~P~~~gyp~~vf~~ 293 (450)
T PRK06002 241 TATAIAEYFRDRGENVLLIVDSVTRFAHAAREVALAAGEPPVARGYPPSVFSE 293 (450)
T ss_pred HHHHHHHHHHHcCCCEEEeccchHHHHHHHHHHHHhcCCCCccccCCccHHHH
Confidence 3333 599999999999753 333333 3667888888876644
No 86
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=97.53 E-value=0.00027 Score=61.99 Aligned_cols=93 Identities=18% Similarity=0.163 Sum_probs=62.1
Q ss_pred CCeeeehHHHHHHHHHHhc----------CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHH
Q 043562 31 RDMVGLDDRMEELLDLLIE----------GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQ 100 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ 100 (176)
.++=|++..+.+|.+++.. +-...+=|-++|++|+|||.||+++.+...+ . |+.++.+
T Consensus 190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v--P-----f~~isAp----- 257 (802)
T KOG0733|consen 190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV--P-----FLSISAP----- 257 (802)
T ss_pred hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC--c-----eEeecch-----
Confidence 4677899999999998764 1133566789999999999999999998332 2 3444333
Q ss_pred HHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhCCCceEEEecCCC
Q 043562 101 ILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEY 147 (176)
Q Consensus 101 ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~ 147 (176)
.|++.+.++ .......+....-+.-.|++.+|++.
T Consensus 258 ---eivSGvSGE---------SEkkiRelF~~A~~~aPcivFiDeID 292 (802)
T KOG0733|consen 258 ---EIVSGVSGE---------SEKKIRELFDQAKSNAPCIVFIDEID 292 (802)
T ss_pred ---hhhcccCcc---------cHHHHHHHHHHHhccCCeEEEeeccc
Confidence 333333221 11223444456667889999999985
No 87
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.52 E-value=0.00099 Score=58.91 Aligned_cols=46 Identities=26% Similarity=0.159 Sum_probs=38.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-++.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 13 ~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~ 58 (584)
T PRK14952 13 AEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARS 58 (584)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999999987643 3446789999999999999998876
No 88
>PRK05922 type III secretion system ATPase; Validated
Probab=97.52 E-value=0.00081 Score=57.31 Aligned_cols=113 Identities=6% Similarity=-0.043 Sum_probs=62.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
..++|+|..|+|||||.+.+.+. .. .+.....-++. .....+.+.+...........-+....++-...+..
T Consensus 158 qrigI~G~nG~GKSTLL~~Ia~~--~~--~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~ 233 (434)
T PRK05922 158 QRIGVFSEPGSGKSSLLSTIAKG--SK--STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGR 233 (434)
T ss_pred cEEEEECCCCCChHHHHHHHhcc--CC--CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHH
Confidence 45899999999999999999876 22 23333333333 223344554443332211111111111211122211
Q ss_pred -----hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 131 -----RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 -----~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
.+++ .++++||++||+-.. .+..++ .+.|.+=+||++=|..
T Consensus 234 ~a~tiAEyfrd~G~~VLl~~DslTR~A~A~REisl~~ge~P~~~gyp~svfs~ 286 (434)
T PRK05922 234 AAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETLSAHHYAASVFHH 286 (434)
T ss_pred HHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCCcCCcCchHHHH
Confidence 3444 699999999999753 334333 3667888888865543
No 89
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=97.51 E-value=0.00025 Score=62.62 Aligned_cols=46 Identities=15% Similarity=0.209 Sum_probs=38.4
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|..++..+. -.+.+-++|+.|+||||+|+.+.+.
T Consensus 16 ~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~ 61 (605)
T PRK05896 16 KQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKA 61 (605)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999998886543 2356889999999999999998775
No 90
>PRK07594 type III secretion system ATPase SsaN; Validated
Probab=97.51 E-value=0.00046 Score=58.80 Aligned_cols=114 Identities=11% Similarity=0.043 Sum_probs=64.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhCCCCCccccCCCCCCc-hhhhh-
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLMPSSSRMVRADTDNEP-STNMG- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~~- 130 (176)
-..++|+|..|+|||||++.+.+.. +.+...+..++. ...+.+++......-..+....+. ...+.. ..+..
T Consensus 155 GqrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv-~tsd~p~~~r~~a 229 (433)
T PRK07594 155 GQRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVV-ATSDRPALERVRA 229 (433)
T ss_pred CCEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEE-ECCCCCHHHHHHH
Confidence 4578999999999999999998762 233445554444 333445555432210000000011 111111 22211
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCcccc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKEREHDL 172 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~~~~ 172 (176)
.+++ +++++||++||+-.. .+..+ ..+.|.+=+||++-|..|
T Consensus 230 ~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REisl~~ge~P~~~Gyp~svf~~l 285 (433)
T PRK07594 230 LFVATTIAEFFRDNGKRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSAL 285 (433)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEeCHHHHHHHHHHHHHhcCCCCCCCCcCchhHHHh
Confidence 3343 589999999999753 33333 346788889998866544
No 91
>PRK08149 ATP synthase SpaL; Validated
Probab=97.51 E-value=0.00066 Score=57.79 Aligned_cols=112 Identities=12% Similarity=0.022 Sum_probs=62.1
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|+|..|+|||||+..++.... -+..+...+.. .....++....+..........+....+.-...+..
T Consensus 151 Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~ 226 (428)
T PRK08149 151 GQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA 226 (428)
T ss_pred CCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence 35789999999999999999987622 22333333332 334455555554432211111111111111111111
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKERE 169 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~ 169 (176)
.+++ .++++||++||+-.. .+..+ +.+.|.+-+||++=|
T Consensus 227 ~~a~tiAE~fr~~G~~Vll~~DslTr~A~A~rEi~l~~ge~P~~~Gyp~~vf 278 (428)
T PRK08149 227 LVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALAAGELPARRGYPASVF 278 (428)
T ss_pred HHHHHHHHHHHHcCCCEEEEccchHHHHHHHHHhHhhcCCCCcccccCccHH
Confidence 3333 699999999999753 33333 346678888888644
No 92
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=97.51 E-value=0.00019 Score=56.06 Aligned_cols=28 Identities=21% Similarity=0.192 Sum_probs=24.2
Q ss_pred CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 50 GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 50 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
......+++|.|+.|.|||||++.+...
T Consensus 29 ~~~~~~iigi~G~~GsGKTTl~~~L~~~ 56 (229)
T PRK09270 29 EPQRRTIVGIAGPPGAGKSTLAEFLEAL 56 (229)
T ss_pred cCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 3456889999999999999999988765
No 93
>PRK08927 fliI flagellum-specific ATP synthase; Validated
Probab=97.51 E-value=0.00057 Score=58.33 Aligned_cols=115 Identities=10% Similarity=-0.064 Sum_probs=64.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|+|..|+|||||++.+++. .. -+..+++-++.... ..++....+..-.-+...-+....++-...+..
T Consensus 158 Gqri~I~G~sG~GKTtLL~~I~~~--~~--~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~ 233 (442)
T PRK08927 158 GQRMGIFAGSGVGKSVLLSMLARN--AD--ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAA 233 (442)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhc--cC--CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHH
Confidence 457899999999999999999986 22 23445555554433 334444333321100000011111111122221
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcccc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHDL 172 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~~ 172 (176)
.+++ .++++|+++||+-.. .++.++ ...|.+-+||++=|..|
T Consensus 234 ~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gyp~~~f~~l 288 (442)
T PRK08927 234 YLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGEPPTTKGYTPTVFAEL 288 (442)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeCcHHHHhhhhHHHHhcCCCCcccCCCcchHHHh
Confidence 3444 699999999999643 333333 35678888998766543
No 94
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=97.50 E-value=0.00013 Score=63.96 Aligned_cols=47 Identities=15% Similarity=0.306 Sum_probs=40.2
Q ss_pred CCeeeehHHHHHHHHHHh----cCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLI----EGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~----~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+++.++++.+.|. .-....+++.++|+.|+||||||+.+.+-
T Consensus 76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~ 126 (644)
T PRK15455 76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL 126 (644)
T ss_pred hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence 368999999999999883 23445679999999999999999999875
No 95
>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=97.50 E-value=7.8e-05 Score=56.65 Aligned_cols=22 Identities=23% Similarity=0.199 Sum_probs=20.4
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
||+|.|.+|+||||||+.+...
T Consensus 1 IIgI~G~sgSGKTTla~~L~~~ 22 (194)
T PF00485_consen 1 IIGIAGPSGSGKTTLAKRLAQI 22 (194)
T ss_dssp EEEEEESTTSSHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 6999999999999999998775
No 96
>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=97.49 E-value=0.00049 Score=58.16 Aligned_cols=25 Identities=20% Similarity=0.270 Sum_probs=22.3
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
....+.|+|..|+|||+|++++++.
T Consensus 135 ~~n~l~l~G~~G~GKThL~~ai~~~ 159 (405)
T TIGR00362 135 AYNPLFIYGGVGLGKTHLLHAIGNE 159 (405)
T ss_pred cCCeEEEECCCCCcHHHHHHHHHHH
Confidence 3457899999999999999999987
No 97
>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=97.49 E-value=0.0003 Score=60.17 Aligned_cols=115 Identities=10% Similarity=0.128 Sum_probs=67.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
.-++|.|..|+|||+|+..+..+.. +.+-+.++++-++.... ..+++..+...-.-+...-+....++-...+..
T Consensus 139 Qr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~ 217 (449)
T TIGR03305 139 GKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGH 217 (449)
T ss_pred CEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHH
Confidence 4679999999999999999877722 22336677877765544 444555544321111001111111111122221
Q ss_pred -----hhhhC---CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 -----RPETS---TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -----~~~l~---~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.++++ ++++||++||+-.. .++.++ .+.|.+-+||++=+.
T Consensus 218 ~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REisl~~ge~P~~~GYP~~vfs 270 (449)
T TIGR03305 218 TALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGT 270 (449)
T ss_pred HHHHHHHHHHHhcCCceEEEecChHHHHHHHHHHHHHcCCCCCccCcCchHHH
Confidence 45554 69999999999754 344443 367888888886543
No 98
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=97.49 E-value=0.00034 Score=60.04 Aligned_cols=117 Identities=11% Similarity=0.119 Sum_probs=67.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
.-++|.|..|+|||||+..+.++.. +.+-+.++++-+++... ..+++..+...-..+....+-...+.-...+..
T Consensus 144 QR~gIfa~~G~GKt~Ll~~~~~~~~-~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~ 222 (461)
T PRK12597 144 GKTGLFGGAGVGKTVLMMELIFNIS-KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVL 222 (461)
T ss_pred CEEEeecCCCCChhHHHHHHHHHHH-hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHH
Confidence 4679999999999999988887732 12456677776665443 445555544321111111111111111122222
Q ss_pred -----hhhh---CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCcccc
Q 043562 131 -----RPET---STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKEREHDL 172 (176)
Q Consensus 131 -----~~~l---~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~~~~ 172 (176)
.+++ .++++||++|++-.. .+..+ +.+.|.+=+||++=+.+|
T Consensus 223 ~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l 277 (461)
T PRK12597 223 TGLTIAEYLRDEEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSRVGYQPTLASEV 277 (461)
T ss_pred HHHHHHHHHHHhcCCceEEEeccchHHHHHHHHHHHhcCCCCCcCCcCchhHHHH
Confidence 4555 389999999999643 33333 345677788888765543
No 99
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=97.48 E-value=0.00014 Score=59.47 Aligned_cols=45 Identities=22% Similarity=0.235 Sum_probs=37.7
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|++..++.|..++..+. ...+-++|+.|+||||+|+.+.+.
T Consensus 15 ~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 15 EDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred HHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999998887543 345779999999999999998876
No 100
>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=97.48 E-value=0.00018 Score=55.57 Aligned_cols=53 Identities=9% Similarity=0.041 Sum_probs=37.0
Q ss_pred ehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 36 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 36 ~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
.+..++.+..++.. .....+.|+|+.|+|||+||+.+++. .........++++
T Consensus 22 ~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~ 74 (226)
T TIGR03420 22 NAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPL 74 (226)
T ss_pred cHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeH
Confidence 45566777777543 24568899999999999999999886 3333334455554
No 101
>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=97.48 E-value=0.002 Score=52.30 Aligned_cols=118 Identities=13% Similarity=0.014 Sum_probs=73.7
Q ss_pred CCCCCCeeeehH---HHHHHHHHHhcC-CCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCccc----ceEEEEcCCCCCH
Q 043562 27 SSKSRDMVGLDD---RMEELLDLLIEG-PPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFD----CHAWVQEPYTCYA 98 (176)
Q Consensus 27 ~~~~~~~vG~~~---~~~~l~~~L~~~-~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~----~~~wv~vs~~~~~ 98 (176)
++..+..||... -++.|.++|... .....-+.|+|.+|.|||++++++....-....=+ .++.+.....++.
T Consensus 30 ~i~~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~ 109 (302)
T PF05621_consen 30 YIRADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDE 109 (302)
T ss_pred HHhcCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCCh
Confidence 455678888654 344455555543 23456789999999999999999886532111111 3566778889999
Q ss_pred HHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhh-CCCceEEEecCCCC
Q 043562 99 DQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPET-STSQRNIPTRDEYQ 148 (176)
Q Consensus 99 ~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l-~~kr~LlVLDDV~~ 148 (176)
..+...|+.++......... .....+.....+ .-+--+||+|.+-+
T Consensus 110 ~~~Y~~IL~~lgaP~~~~~~----~~~~~~~~~~llr~~~vrmLIIDE~H~ 156 (302)
T PF05621_consen 110 RRFYSAILEALGAPYRPRDR----VAKLEQQVLRLLRRLGVRMLIIDEFHN 156 (302)
T ss_pred HHHHHHHHHHhCcccCCCCC----HHHHHHHHHHHHHHcCCcEEEeechHH
Confidence 99999999999754221111 111222222222 23555899999865
No 102
>PTZ00301 uridine kinase; Provisional
Probab=97.47 E-value=0.00013 Score=56.42 Aligned_cols=24 Identities=17% Similarity=0.264 Sum_probs=21.1
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+.+|+|.|.+|+||||||+.+.+.
T Consensus 3 ~~iIgIaG~SgSGKTTla~~l~~~ 26 (210)
T PTZ00301 3 CTVIGISGASGSGKSSLSTNIVSE 26 (210)
T ss_pred CEEEEEECCCcCCHHHHHHHHHHH
Confidence 579999999999999999877654
No 103
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=97.47 E-value=0.00033 Score=63.67 Aligned_cols=45 Identities=18% Similarity=0.281 Sum_probs=37.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+.++||+.++.++.+.|..... .-+-++|.+|+|||++|+.++..
T Consensus 186 ~~liGR~~ei~~~i~iL~r~~~--~n~LLvGppGvGKT~lae~la~~ 230 (758)
T PRK11034 186 DPLIGREKELERAIQVLCRRRK--NNPLLVGESGVGKTAIAEGLAWR 230 (758)
T ss_pred CcCcCCCHHHHHHHHHHhccCC--CCeEEECCCCCCHHHHHHHHHHH
Confidence 4699999999999998887432 23357999999999999998865
No 104
>PRK12608 transcription termination factor Rho; Provisional
Probab=97.45 E-value=0.00046 Score=57.66 Aligned_cols=102 Identities=9% Similarity=-0.053 Sum_probs=58.9
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc-cc-eEEEEcCC-CCCHHHHHHHHHHHhCCCCCcccc
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF-DC-HAWVQEPY-TCYADQILDIIITFLMPSSSRMVR 118 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~-~~wv~vs~-~~~~~~ll~~il~~l~~~~~~~~~ 118 (176)
++++++..-... .-+.|+|..|+|||||++.+.+. +...- +. ++|+.+.+ ...+.++++.+...+........+
T Consensus 122 RvID~l~PiGkG-QR~LIvG~pGtGKTTLl~~la~~--i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~ 198 (380)
T PRK12608 122 RVVDLVAPIGKG-QRGLIVAPPRAGKTVLLQQIAAA--VAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPP 198 (380)
T ss_pred hhhhheeecCCC-ceEEEECCCCCCHHHHHHHHHHH--HHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCH
Confidence 355655532222 34589999999999999998886 43322 33 35666654 445778888877755432111111
Q ss_pred CCCCCCchhhhh-----hhhhCCCceEEEecCCCC
Q 043562 119 ADTDNEPSTNMG-----RPETSTSQRNIPTRDEYQ 148 (176)
Q Consensus 119 ~~~~~~~~~~~~-----~~~l~~kr~LlVLDDV~~ 148 (176)
.......... .-.-.+++++||+|++-.
T Consensus 199 --~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr 231 (380)
T PRK12608 199 --DEHIRVAELVLERAKRLVEQGKDVVILLDSLTR 231 (380)
T ss_pred --HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence 0001111011 222369999999999864
No 105
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=97.45 E-value=0.001 Score=60.96 Aligned_cols=46 Identities=24% Similarity=0.154 Sum_probs=38.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-++.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 15 ~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~ 60 (824)
T PRK07764 15 AEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARS 60 (824)
T ss_pred HHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999999887643 2346789999999999999998776
No 106
>PRK05642 DNA replication initiation factor; Validated
Probab=97.43 E-value=0.00046 Score=54.15 Aligned_cols=37 Identities=8% Similarity=0.068 Sum_probs=27.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
...+.|+|..|+|||.|++.+++. ....-..+++++.
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~~--~~~~~~~v~y~~~ 81 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACLR--FEQRGEPAVYLPL 81 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCcEEEeeH
Confidence 467899999999999999999875 3222234566653
No 107
>PRK06936 type III secretion system ATPase; Provisional
Probab=97.43 E-value=0.00082 Score=57.36 Aligned_cols=114 Identities=11% Similarity=0.007 Sum_probs=64.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|.|..|+|||||.+.+++. .. -+.++++-+++... ..++....+..-.-+...-+....+.....+..
T Consensus 162 Gq~~~I~G~sG~GKStLl~~Ia~~--~~--~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~ 237 (439)
T PRK06936 162 GQRMGIFAAAGGGKSTLLASLIRS--AE--VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAG 237 (439)
T ss_pred CCEEEEECCCCCChHHHHHHHhcC--CC--CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHH
Confidence 357899999999999999999987 32 24566666655543 334443322211000000111111111122221
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
.+++ .++++|+++||+-.. .+..++ ...|.+-+||++=|..
T Consensus 238 ~~a~tiAEyfrd~G~~Vll~~DslTR~A~A~REisl~~gepP~~~gyp~svfs~ 291 (439)
T PRK06936 238 FVATSIAEYFRDQGKRVLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAA 291 (439)
T ss_pred HHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHH
Confidence 3444 699999999999753 334333 3668888888875543
No 108
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=97.43 E-value=0.00044 Score=54.37 Aligned_cols=99 Identities=17% Similarity=0.109 Sum_probs=60.1
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLM 110 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~ 110 (176)
.++||-++-++.|.-...++ +..-+-|.||+|+||||-+..+.+..-=..+=+...=++.|...++.-+-..|-....
T Consensus 27 ~dIVGNe~tv~rl~via~~g--nmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~FAQ 104 (333)
T KOG0991|consen 27 QDIVGNEDTVERLSVIAKEG--NMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMFAQ 104 (333)
T ss_pred HHhhCCHHHHHHHHHHHHcC--CCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHHHH
Confidence 47899999998887665554 3667789999999999988777765211112234445555666555433333322221
Q ss_pred CCCCccccCCCCCCchhhhhhhhhCCCceEEEecCCCCh
Q 043562 111 PSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEYQP 149 (176)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~~~ 149 (176)
. +.. .-.++.-.|+||...+.
T Consensus 105 ~--kv~----------------lp~grhKIiILDEADSM 125 (333)
T KOG0991|consen 105 K--KVT----------------LPPGRHKIIILDEADSM 125 (333)
T ss_pred h--hcc----------------CCCCceeEEEeeccchh
Confidence 1 011 11456667888887653
No 109
>PRK05480 uridine/cytidine kinase; Provisional
Probab=97.43 E-value=0.00013 Score=55.88 Aligned_cols=25 Identities=24% Similarity=0.294 Sum_probs=23.0
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+..+|+|.|.+|+||||||+.++..
T Consensus 5 ~~~iI~I~G~sGsGKTTl~~~l~~~ 29 (209)
T PRK05480 5 KPIIIGIAGGSGSGKTTVASTIYEE 29 (209)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHH
Confidence 5679999999999999999999876
No 110
>PRK08233 hypothetical protein; Provisional
Probab=97.42 E-value=0.00014 Score=54.19 Aligned_cols=24 Identities=21% Similarity=0.165 Sum_probs=22.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|+|.|.+|+||||||..+...
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~ 26 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHK 26 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 478999999999999999999876
No 111
>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=97.42 E-value=0.00039 Score=53.19 Aligned_cols=55 Identities=13% Similarity=0.032 Sum_probs=39.8
Q ss_pred HHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHH
Q 043562 46 LLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILD 103 (176)
Q Consensus 46 ~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~ 103 (176)
+|..+-..-.++-|+|++|+|||+|+.++... ........+|++... ++...+.+
T Consensus 4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~ 58 (209)
T TIGR02237 4 LLGGGVERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ 58 (209)
T ss_pred hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH
Confidence 34444456789999999999999999998766 333456788998765 56555443
No 112
>PTZ00185 ATPase alpha subunit; Provisional
Probab=97.42 E-value=0.0012 Score=57.29 Aligned_cols=115 Identities=12% Similarity=0.064 Sum_probs=64.2
Q ss_pred EEEEEEcCCCCcHHHHH-HHHhcCcCcc-----CcccceEEEEcCCCCCHHHHHHHHHHHhCC-CCCccccCCCCCCchh
Q 043562 55 SAVTILDSIGLDKTAFA-AEAYSSNYVK-----HYFDCHAWVQEPYTCYADQILDIIITFLMP-SSSRMVRADTDNEPST 127 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA-~~v~~~~~~~-----~~F~~~~wv~vs~~~~~~~ll~~il~~l~~-~~~~~~~~~~~~~~~~ 127 (176)
.-++|.|-.|+|||+|| -.+.+...+. .+-..++++-+++..+...-+.+.+.+-.. +....+....++....
T Consensus 190 QR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~ 269 (574)
T PTZ00185 190 QRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGL 269 (574)
T ss_pred CEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHH
Confidence 35789999999999997 5556653221 233457777787766543223333332221 1001111111211122
Q ss_pred hhh--------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 128 NMG--------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 128 ~~~--------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
+.. .+++ +++.+|||+||+-.. .++.++ .+.|.+=+||++=|
T Consensus 270 r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REISLllgrpPgRegYPgdVF 326 (574)
T PTZ00185 270 QYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQISLLLRRPPGREAYPGDVF 326 (574)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHHHHhcCCCCCCCCcCccHH
Confidence 221 3333 589999999999754 445443 56788888888533
No 113
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=97.41 E-value=0.0005 Score=58.95 Aligned_cols=114 Identities=8% Similarity=0.101 Sum_probs=63.8
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCc-ccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHY-FDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
.-++|.|..|+|||||+..+..+ .... =+.++++-+++... +.+++..++..-..+...-+-...+.-...+..
T Consensus 145 QR~gIfa~~GvGKt~Ll~~i~~~--~~~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~ 222 (463)
T PRK09280 145 GKIGLFGGAGVGKTVLIQELINN--IAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA 222 (463)
T ss_pred CEEEeecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence 46799999999999999987665 2221 13456666655433 445555554321111001111111111122211
Q ss_pred ------hhhh---CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 ------RPET---STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 ------~~~l---~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ +++++||++|++-.. .++.++ ...|.+=+||++=|.
T Consensus 223 ~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs 276 (463)
T PRK09280 223 LTGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLAT 276 (463)
T ss_pred HHHHHHHHHHHHhcCCceEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHHH
Confidence 4555 689999999999753 334333 366788888886543
No 114
>PRK09099 type III secretion system ATPase; Provisional
Probab=97.40 E-value=0.00096 Score=57.04 Aligned_cols=116 Identities=10% Similarity=0.004 Sum_probs=63.5
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCc-hhhhh-
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEP-STNMG- 130 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~~- 130 (176)
+-..++|.|..|+|||||++.+.... ... .+.++..-.+.....++.+.+...-.-.....+. ...+.. ..+..
T Consensus 162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~--~~d-~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~-~tsd~p~~~r~~a 237 (441)
T PRK09099 162 EGQRMGIFAPAGVGKSTLMGMFARGT--QCD-VNVIALIGERGREVREFIELILGEDGMARSVVVC-ATSDRSSIERAKA 237 (441)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCCC--CCC-eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEE-ECCCCCHHHHHHH
Confidence 34578999999999999999998762 221 1233333233333444444443221100000011 111111 22211
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCcccc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKEREHDL 172 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~~~~ 172 (176)
.+++ +++++|+++||+-.. .+..+ +...|.+-+||++-|..|
T Consensus 238 ~~~a~tiAEyfrd~G~~VLl~~DslTr~A~A~REisl~~gepP~~~gyP~~vf~~l 293 (441)
T PRK09099 238 AYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREIGLAAGEPPARRGFPPSVFAEL 293 (441)
T ss_pred HHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHh
Confidence 3444 589999999999753 33333 346688889998766543
No 115
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.40 E-value=0.00018 Score=66.12 Aligned_cols=45 Identities=18% Similarity=0.313 Sum_probs=37.8
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++||+.+++.+.+.|.....+ -+.++|++|+|||++|..++..
T Consensus 179 ~~~igr~~ei~~~~~~L~r~~~~--n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 179 DPVIGREKEIERVIQILGRRTKN--NPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred CCCCCcHHHHHHHHHHHcccccC--CeEEECCCCCCHHHHHHHHHHH
Confidence 46899999999999999865422 3359999999999999998776
No 116
>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=97.39 E-value=0.00017 Score=55.32 Aligned_cols=25 Identities=24% Similarity=0.218 Sum_probs=22.6
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|+|+|++|+||||||+.+...
T Consensus 5 ~g~vi~I~G~sGsGKSTl~~~l~~~ 29 (207)
T TIGR00235 5 KGIIIGIGGGSGSGKTTVARKIYEQ 29 (207)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHH
Confidence 4579999999999999999999865
No 117
>PRK10865 protein disaggregation chaperone; Provisional
Probab=97.39 E-value=0.0011 Score=61.15 Aligned_cols=47 Identities=13% Similarity=0.260 Sum_probs=37.6
Q ss_pred CCeeeehHHHHHHHHHHhc-------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|.+.-++.+...+.. .+....++.++|+.|+|||+||+.+++.
T Consensus 568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~ 621 (857)
T PRK10865 568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF 621 (857)
T ss_pred CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999988887763 1222357889999999999999999875
No 118
>PRK05541 adenylylsulfate kinase; Provisional
Probab=97.39 E-value=0.00017 Score=53.76 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=28.5
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEE
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWV 90 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv 90 (176)
...+|.++|+.|+||||+|+.+++. ....+....++
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 4568999999999999999999987 54455555555
No 119
>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=97.39 E-value=0.00013 Score=50.94 Aligned_cols=21 Identities=29% Similarity=0.219 Sum_probs=19.6
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|.|..|+||||+|+.+...
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 689999999999999999887
No 120
>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=97.38 E-value=0.00083 Score=57.09 Aligned_cols=115 Identities=9% Similarity=-0.059 Sum_probs=61.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
-..++|+|..|+|||||++.+... .+.. ...+...-.+.....++....+..-.-+...-+....++....+..
T Consensus 140 Gq~i~I~G~sG~GKTtLl~~I~~~--~~~~-~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~ 216 (418)
T TIGR03498 140 GQRLGIFAGSGVGKSTLLSMLARN--TDAD-VVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY 216 (418)
T ss_pred CcEEEEECCCCCChHHHHHHHhCC--CCCC-EEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence 357899999999999999999876 3221 2222222222333444444433221101000111112221122221
Q ss_pred -----hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCccc
Q 043562 131 -----RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 -----~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~~~ 171 (176)
.+++ +++++||++||+-.. .++.+ ..+.|.+=+||++=|..
T Consensus 217 ~a~~iAEyfrd~G~~Vll~~DslTr~A~A~REisl~~gepP~~~gyp~~vf~~ 269 (418)
T TIGR03498 217 TATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSE 269 (418)
T ss_pred HHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCchhhhh
Confidence 4444 689999999999753 33333 34667888888875543
No 121
>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=97.38 E-value=0.0004 Score=53.08 Aligned_cols=91 Identities=13% Similarity=0.013 Sum_probs=47.6
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhh
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPET 134 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l 134 (176)
.+|.|+|+.|.||||++..+... +......+++.- ..+.. ...... ..+... ... ..+........+..+
T Consensus 2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t~-e~~~E--~~~~~~-~~~i~q--~~v--g~~~~~~~~~i~~aL 71 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILTI-EDPIE--FVHESK-RSLINQ--REV--GLDTLSFENALKAAL 71 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEEE-cCCcc--ccccCc-cceeee--ccc--CCCccCHHHHHHHHh
Confidence 47899999999999999987766 433333443331 11111 000000 000000 000 111122334446666
Q ss_pred CCCceEEEecCCCChhhhHHH
Q 043562 135 STSQRNIPTRDEYQPEEYTDQ 155 (176)
Q Consensus 135 ~~kr~LlVLDDV~~~~~w~~i 155 (176)
+...=.|++|.+.+.+.+...
T Consensus 72 r~~pd~ii~gEird~e~~~~~ 92 (198)
T cd01131 72 RQDPDVILVGEMRDLETIRLA 92 (198)
T ss_pred cCCcCEEEEcCCCCHHHHHHH
Confidence 666778888888887766543
No 122
>PRK08939 primosomal protein DnaI; Reviewed
Probab=97.37 E-value=0.00037 Score=56.95 Aligned_cols=73 Identities=5% Similarity=-0.002 Sum_probs=43.8
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhh
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRP 132 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~ 132 (176)
...-+-++|..|+|||.||.++++. ....-..+.++++ ..++..+...... ....... .
T Consensus 155 ~~~gl~L~G~~G~GKThLa~Aia~~--l~~~g~~v~~~~~------~~l~~~lk~~~~~------------~~~~~~l-~ 213 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLAAIANE--LAKKGVSSTLLHF------PEFIRELKNSISD------------GSVKEKI-D 213 (306)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEEEH------HHHHHHHHHHHhc------------CcHHHHH-H
Confidence 3456889999999999999999998 3333233455643 2455555443311 0111111 2
Q ss_pred hhCCCceEEEecCCC
Q 043562 133 ETSTSQRNIPTRDEY 147 (176)
Q Consensus 133 ~l~~kr~LlVLDDV~ 147 (176)
.+ .+-=||||||+-
T Consensus 214 ~l-~~~dlLiIDDiG 227 (306)
T PRK08939 214 AV-KEAPVLMLDDIG 227 (306)
T ss_pred Hh-cCCCEEEEecCC
Confidence 23 245589999985
No 123
>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=97.37 E-value=0.00029 Score=56.06 Aligned_cols=46 Identities=22% Similarity=0.177 Sum_probs=32.8
Q ss_pred CeeeehHHHHHHHHHHh---c----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLI---E----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~---~----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++|++.-+++|.++.. . ..+...-+.++|++|+||||+|+.+++.
T Consensus 7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~ 65 (261)
T TIGR02881 7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKL 65 (261)
T ss_pred HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHH
Confidence 47888777766654322 1 1234566789999999999999998764
No 124
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=0.0011 Score=59.15 Aligned_cols=66 Identities=12% Similarity=0.062 Sum_probs=41.0
Q ss_pred CCCCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcC
Q 043562 27 SSKSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEP 93 (176)
Q Consensus 27 ~~~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs 93 (176)
...+.+++-...-.++..+.....--...-|-|.|..|+|||+||+.+++... +++.-...+++++
T Consensus 404 ~~~e~d~i~~~s~kke~~n~~~spv~~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs 469 (952)
T KOG0735|consen 404 SPFEHDFIQVPSYKKENANQELSPVFRHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCS 469 (952)
T ss_pred CcCCCceeecchhhhhhhhhhcccccccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEech
Confidence 34445666655555555544333333456788999999999999999998733 2332233445443
No 125
>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=97.37 E-value=0.0016 Score=60.15 Aligned_cols=47 Identities=21% Similarity=0.319 Sum_probs=38.3
Q ss_pred CCeeeehHHHHHHHHHHhcC-------CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEG-------PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~-------~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|.+..++.+...+... .....++.++|+.|+|||++|+.+...
T Consensus 565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~ 618 (852)
T TIGR03346 565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF 618 (852)
T ss_pred cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence 46899999999998888641 122457889999999999999999876
No 126
>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=97.36 E-value=0.00077 Score=57.73 Aligned_cols=114 Identities=11% Similarity=0.121 Sum_probs=65.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccC-cccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCc-hhhhh-
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKH-YFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEP-STNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~~- 130 (176)
.-++|.|..|+|||||+..+..+ +.. +=..++++-+++... ..+++..+...-.-+...-+- ...+.. ..+..
T Consensus 144 Qr~~If~~~G~GKt~L~~~~~~~--~~~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~-atsd~p~~~R~~a 220 (461)
T TIGR01039 144 GKIGLFGGAGVGKTVLIQELINN--IAKEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVY-GQMNEPPGARMRV 220 (461)
T ss_pred CEEEeecCCCCChHHHHHHHHHH--HHhcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEE-ECCCCCHHHHHHH
Confidence 46799999999999999998766 322 223566666655433 455555553321101000011 111221 22211
Q ss_pred -------hhhh---CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 131 -------RPET---STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 -------~~~l---~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
.+++ +++++||++||+-.. .++.++ .+.|.+=+||++=|..
T Consensus 221 ~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~ 276 (461)
T TIGR01039 221 ALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATE 276 (461)
T ss_pred HHHHHHHHHHHHHhcCCeeEEEecchhHHHHHHHHHHHhcCCCCCCCCcCCcHHHH
Confidence 4555 468999999999754 344443 3678888888875543
No 127
>CHL00095 clpC Clp protease ATP binding subunit
Probab=97.36 E-value=0.0015 Score=60.04 Aligned_cols=47 Identities=13% Similarity=0.226 Sum_probs=37.2
Q ss_pred CCeeeehHHHHHHHHHHhc-------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|.+.-++.+...+.. .......+-++|+.|+|||+||+.+.+.
T Consensus 509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~ 562 (821)
T CHL00095 509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY 562 (821)
T ss_pred CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHH
Confidence 5789999999999887752 1223456678999999999999998875
No 128
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.36 E-value=0.0015 Score=54.32 Aligned_cols=46 Identities=22% Similarity=0.218 Sum_probs=38.6
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-.+.+.+.+..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 17 ~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~ 62 (367)
T PRK14970 17 DDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARK 62 (367)
T ss_pred HhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999999887643 3457889999999999999998775
No 129
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=0.00023 Score=63.30 Aligned_cols=53 Identities=19% Similarity=0.311 Sum_probs=43.6
Q ss_pred CCCeeeehHHHHHHHHHHhc----CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc
Q 043562 30 SRDMVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF 84 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F 84 (176)
+.+-.|.+.-++++.+.|.- ..-+-.+++++|++|+|||+|++.++.- ....|
T Consensus 322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~a--l~Rkf 378 (782)
T COG0466 322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKA--LGRKF 378 (782)
T ss_pred cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHH--hCCCE
Confidence 46789999999999998863 2333469999999999999999999987 66665
No 130
>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=97.35 E-value=0.00075 Score=57.95 Aligned_cols=116 Identities=12% Similarity=0.053 Sum_probs=64.8
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCccc--ceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFD--CHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|-.|+|||||+..+.+.......+. .++++-+++..+ ..+++..+...-.-+....+....+.....+..
T Consensus 142 QR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a 221 (458)
T TIGR01041 142 QKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVT 221 (458)
T ss_pred CEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHH
Confidence 4579999999999999999988743321121 455666655443 445555543221101000111111111122221
Q ss_pred -------hhhhC---CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 -------RPETS---TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -------~~~l~---~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.++++ ++++||++||+-.. +++-+| .+.|.+=+||++=|.
T Consensus 222 ~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~GYP~svfs 276 (458)
T TIGR01041 222 PRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYT 276 (458)
T ss_pred HHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHHHHhcCCCCCCCCcCccHHH
Confidence 55555 78999999999753 344443 366788888876443
No 131
>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=97.35 E-value=0.00075 Score=57.76 Aligned_cols=117 Identities=10% Similarity=0.047 Sum_probs=67.8
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccC--ccc---------ceEEEEcCCCCCHHHHHHHHHHHhC-CCCCccccCCCC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKH--YFD---------CHAWVQEPYTCYADQILDIIITFLM-PSSSRMVRADTD 122 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~--~F~---------~~~wv~vs~~~~~~~ll~~il~~l~-~~~~~~~~~~~~ 122 (176)
.-++|.|-.|+|||||+..+.++..... -.+ .+++.-+++.....+.+.+.+..-. -+....+-...+
T Consensus 142 QRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd 221 (466)
T TIGR01040 142 QKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAN 221 (466)
T ss_pred CeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCC
Confidence 4679999999999999999987743100 011 4566667777555555555444432 111111111112
Q ss_pred CCchhhhh--------hhhhC---CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 123 NEPSTNMG--------RPETS---TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 123 ~~~~~~~~--------~~~l~---~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
+....+.. .++++ ++++|+++||+... .++.++ .+.|.+=+||++=|..
T Consensus 222 ~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~A~REisl~~gepP~~~GYP~svfs~ 286 (466)
T TIGR01040 222 DPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTD 286 (466)
T ss_pred CCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHHHHHHHHHhcCCCCCCcCcCchHHHH
Confidence 21122222 55555 69999999999653 444443 3668888888864433
No 132
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=97.35 E-value=0.00037 Score=55.48 Aligned_cols=49 Identities=14% Similarity=0.127 Sum_probs=33.5
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...-+.++|.+|+|||.||.++.+. +...=-.+.+++ ..+++..+....
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~--l~~~g~sv~f~~------~~el~~~Lk~~~ 152 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNE--LLKAGISVLFIT------APDLLSKLKAAF 152 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHH
Confidence 4556889999999999999999998 443222344553 345566655544
No 133
>CHL00176 ftsH cell division protein; Validated
Probab=97.33 E-value=0.00044 Score=61.72 Aligned_cols=47 Identities=21% Similarity=0.338 Sum_probs=35.7
Q ss_pred CCeeeehHHHHHHHHHHh---cC-------CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLI---EG-------PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~---~~-------~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.++..+++.+++. .. ....+-+.++|++|+|||+||+.+++.
T Consensus 183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 568898888877766653 21 122456889999999999999999886
No 134
>PRK08181 transposase; Validated
Probab=97.33 E-value=0.0006 Score=54.71 Aligned_cols=35 Identities=11% Similarity=-0.005 Sum_probs=25.6
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ 91 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~ 91 (176)
.-+.++|+.|+|||.||..+.+. .......+.|++
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~--a~~~g~~v~f~~ 141 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLA--LIENGWRVLFTR 141 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHH--HHHcCCceeeee
Confidence 34899999999999999999876 333333345554
No 135
>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=97.32 E-value=0.00043 Score=52.15 Aligned_cols=36 Identities=11% Similarity=0.025 Sum_probs=24.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ 91 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~ 91 (176)
..-+.++|..|+|||.||..+.+. ...+=..+.|++
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~--~~~~g~~v~f~~ 82 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANE--AIRKGYSVLFIT 82 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEE
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHH--hccCCcceeEee
Confidence 345899999999999999999876 322222355664
No 136
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.0014 Score=59.39 Aligned_cols=114 Identities=12% Similarity=0.141 Sum_probs=70.7
Q ss_pred CCeeeehHHHHHHHHHHhc-------CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc---cceEEEEcCCCCCHHH
Q 043562 31 RDMVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF---DCHAWVQEPYTCYADQ 100 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~vs~~~~~~~ 100 (176)
..++|.+.-+..+.+.+.. ......+.-..|+.|||||.||+++... -| +..+-+.+|.-
T Consensus 491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-----Lfg~e~aliR~DMSEy----- 560 (786)
T COG0542 491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-----LFGDEQALIRIDMSEY----- 560 (786)
T ss_pred cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-----hcCCCccceeechHHH-----
Confidence 5799999999999888863 2334567777999999999999998775 34 23333333322
Q ss_pred HHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhCCCce-EEEecCCC--ChhhhHHHhcCC
Q 043562 101 ILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETSTSQR-NIPTRDEY--QPEEYTDQRRIP 159 (176)
Q Consensus 101 ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~-LlVLDDV~--~~~~w~~i~~~~ 159 (176)
.-+.-.+.|.+. +|+-+.-. .....-+..+.+.| +|.||.|. .++.++-+.++.
T Consensus 561 ~EkHsVSrLIGa----PPGYVGye-eGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVl 617 (786)
T COG0542 561 MEKHSVSRLIGA----PPGYVGYE-EGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVL 617 (786)
T ss_pred HHHHHHHHHhCC----CCCCceec-cccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHh
Confidence 111223334332 22222211 12333556677777 88889997 567777777664
No 137
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=97.30 E-value=0.0002 Score=52.96 Aligned_cols=24 Identities=17% Similarity=0.170 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..-|.|.||+|+|||||++.+.+.
T Consensus 5 ~mki~ITG~PGvGKtTl~~ki~e~ 28 (179)
T COG1618 5 AMKIFITGRPGVGKTTLVLKIAEK 28 (179)
T ss_pred ceEEEEeCCCCccHHHHHHHHHHH
Confidence 346899999999999999999987
No 138
>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=97.28 E-value=0.0015 Score=48.79 Aligned_cols=45 Identities=18% Similarity=0.186 Sum_probs=34.0
Q ss_pred eeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 33 MVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 33 ~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+||....+.++.+.+..-......|-|+|..|+||+.+|+.+++.
T Consensus 1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~ 45 (168)
T PF00158_consen 1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN 45 (168)
T ss_dssp SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence 478888888888887753223356679999999999999999996
No 139
>PRK06762 hypothetical protein; Provisional
Probab=97.27 E-value=0.00025 Score=52.29 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|.|+|+.|+||||+|+.+.+.
T Consensus 2 ~~li~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 2 TTLIIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 368899999999999999999876
No 140
>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=97.27 E-value=0.0012 Score=51.33 Aligned_cols=60 Identities=17% Similarity=0.120 Sum_probs=41.3
Q ss_pred HHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc----ccceEEEEcCCCCCHHHHH
Q 043562 43 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY----FDCHAWVQEPYTCYADQIL 102 (176)
Q Consensus 43 l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~ll 102 (176)
|-.+|..+-..-.++.|+|.+|+|||+||.+++-....... ...++|++....++...+.
T Consensus 8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~ 71 (235)
T cd01123 8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV 71 (235)
T ss_pred hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH
Confidence 44445544456689999999999999999998744212221 3568899887776665443
No 141
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=97.27 E-value=0.0025 Score=53.89 Aligned_cols=47 Identities=17% Similarity=0.126 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCC--------CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPP--------QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~--------~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++|.+.-++.|..++..+.. -..-+-++|+.|+|||++|+.+...
T Consensus 5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~ 59 (394)
T PRK07940 5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAA 59 (394)
T ss_pred hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 4688999999999999876421 2456889999999999999998664
No 142
>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=97.27 E-value=0.0022 Score=52.88 Aligned_cols=113 Identities=10% Similarity=-0.009 Sum_probs=61.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcC-CCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEP-YTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|+|..|.|||||.+.+.+. ... ++....-+. +.....++....+..-.-....-+....+.....+..
T Consensus 69 Gqri~I~G~sG~GKTtLl~~Ia~~--~~~--~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~ 144 (326)
T cd01136 69 GQRLGIFAGSGVGKSTLLGMIARG--TTA--DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA 144 (326)
T ss_pred CcEEEEECCCCCChHHHHHHHhCC--CCC--CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence 357899999999999999999887 322 233333333 3334445544443321111001111111211122221
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ +++.+||++||+... .+..++ .+.|.+=+||++=+.
T Consensus 145 ~~a~~~AEyfr~~g~~Vll~~Dsltr~a~A~rei~~~~ge~p~~~gyp~~~~~ 197 (326)
T cd01136 145 YTATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFA 197 (326)
T ss_pred HHHHHHHHHHHHcCCCeEEEeccchHHHHHHHHHHHhcCCCCCcCCcChHHHH
Confidence 3333 599999999998754 333332 456777788876443
No 143
>PRK06921 hypothetical protein; Provisional
Probab=97.26 E-value=0.00086 Score=53.70 Aligned_cols=37 Identities=14% Similarity=0.046 Sum_probs=28.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCc-ccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHY-FDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-F~~~~wv~v 92 (176)
...+.++|..|+|||+||.++.+. +... -..+++++.
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 467899999999999999999987 4433 334566653
No 144
>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=97.26 E-value=0.00069 Score=54.44 Aligned_cols=34 Identities=32% Similarity=0.383 Sum_probs=26.1
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.+.+... -+-+-++|+.|+|||++++.....
T Consensus 23 ~~ll~~l~~~---~~pvLl~G~~GtGKT~li~~~l~~ 56 (272)
T PF12775_consen 23 SYLLDLLLSN---GRPVLLVGPSGTGKTSLIQNFLSS 56 (272)
T ss_dssp HHHHHHHHHC---TEEEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHHHHHc---CCcEEEECCCCCchhHHHHhhhcc
Confidence 4455555543 356789999999999999998765
No 145
>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=97.26 E-value=0.00033 Score=64.53 Aligned_cols=45 Identities=20% Similarity=0.353 Sum_probs=37.6
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++|||+.++.++++.|.... ..-+.++|.+|+||||+|+.+...
T Consensus 187 d~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~ 231 (852)
T TIGR03345 187 DPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALR 231 (852)
T ss_pred CcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHH
Confidence 478999999999999887654 223459999999999999998876
No 146
>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=97.26 E-value=0.0012 Score=60.87 Aligned_cols=47 Identities=17% Similarity=0.245 Sum_probs=38.0
Q ss_pred CCeeeehHHHHHHHHHHhc-------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|.+.-++.+.+.+.. ......++.++|+.|+|||.||+.+...
T Consensus 566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~ 619 (852)
T TIGR03345 566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL 619 (852)
T ss_pred CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999888753 2234557889999999999999988765
No 147
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.26 E-value=0.00069 Score=58.17 Aligned_cols=49 Identities=16% Similarity=0.282 Sum_probs=32.7
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccc--eEEEEcCCCCCHHHHHHHHHHHh
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDC--HAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~--~~wv~vs~~~~~~~ll~~il~~l 109 (176)
....+-|+|..|+|||+|++++.+. +...... +++++ ..++...+...+
T Consensus 140 ~~npl~i~G~~G~GKTHLl~Ai~~~--l~~~~~~~~v~yv~------~~~f~~~~~~~l 190 (450)
T PRK14087 140 SYNPLFIYGESGMGKTHLLKAAKNY--IESNFSDLKVSYMS------GDEFARKAVDIL 190 (450)
T ss_pred ccCceEEECCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEE------HHHHHHHHHHHH
Confidence 3567899999999999999999885 3322222 23342 345666666655
No 148
>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha. A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, 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 alpha subunit of this apparent second ATP synthase.
Probab=97.25 E-value=0.0013 Score=56.78 Aligned_cols=111 Identities=16% Similarity=0.104 Sum_probs=64.4
Q ss_pred EEEEEEcCCCCcHHHHH-HHHhcCcCccCcccc-eEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFA-AEAYSSNYVKHYFDC-HAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~-~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|-.|+|||||| ..+.+. . .-+. ++++-+++... ..++...+...=.-+....+....++....+..
T Consensus 163 QR~~Ifg~~g~GKT~Lal~~I~~q--~--~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~a 238 (497)
T TIGR03324 163 QRELILGDRQTGKTAIAIDTILNQ--K--GRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIA 238 (497)
T ss_pred CEEEeecCCCCCHHHHHHHHHHHh--c--CCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHHH
Confidence 46799999999999997 467776 2 2344 56777766644 444444443321111000111111221122222
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
.+++ +++++|||+||+-.. .++.++ .+.|.+=+||++=|
T Consensus 239 p~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL~lgepPgr~gYPg~vF 291 (497)
T TIGR03324 239 PYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIF 291 (497)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEcChhHHHHHHHHHHhhccCCCccCcCCccHH
Confidence 3444 689999999999754 455544 56788888888654
No 149
>PRK05688 fliI flagellum-specific ATP synthase; Validated
Probab=97.25 E-value=0.0022 Score=54.96 Aligned_cols=114 Identities=9% Similarity=-0.004 Sum_probs=62.1
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC-CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC-YADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|+|..|+|||||++.+... .. .+..+...+.... ...++...+...-.-.....+....++....+..
T Consensus 168 GqrigI~G~sG~GKSTLl~~I~g~--~~--~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~ 243 (451)
T PRK05688 168 GQRLGLFAGTGVGKSVLLGMMTRF--TE--ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA 243 (451)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC--CC--CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence 346899999999999999999875 21 2333333343332 3344443333221111111111112222222221
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
.+++ +++++||++||+-.. .+..++ .+.|.+=+||++=|..
T Consensus 244 ~~a~aiAEyfrd~G~~VLl~~DslTR~A~A~REisl~~gepP~~~GYp~svfs~ 297 (451)
T PRK05688 244 MYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREIALAIGEPPATKGYPPSVFAK 297 (451)
T ss_pred HHHHHHHHHHHHCCCCEEEEecchhHHHHHHHHHHHhcCCCCcccCCCchHHHH
Confidence 3444 699999999999754 334333 3667888888865443
No 150
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=97.25 E-value=0.0023 Score=54.87 Aligned_cols=25 Identities=16% Similarity=0.263 Sum_probs=22.3
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
....+.|+|+.|+|||+|++.+.+.
T Consensus 140 ~~npl~L~G~~G~GKTHLl~Ai~~~ 164 (445)
T PRK12422 140 PFNPIYLFGPEGSGKTHLMQAAVHA 164 (445)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHH
Confidence 3467889999999999999999987
No 151
>PRK06547 hypothetical protein; Provisional
Probab=97.24 E-value=0.00055 Score=51.30 Aligned_cols=26 Identities=23% Similarity=0.162 Sum_probs=23.5
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
....+|+|.|++|+||||+|+.+.+.
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 45789999999999999999999876
No 152
>PRK06835 DNA replication protein DnaC; Validated
Probab=97.24 E-value=0.00076 Score=55.63 Aligned_cols=35 Identities=9% Similarity=0.009 Sum_probs=26.5
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ 91 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~ 91 (176)
.-+.++|..|+|||+||.++.+. +...-..+.+++
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~--l~~~g~~V~y~t 218 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKE--LLDRGKSVIYRT 218 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHH--HHHCCCeEEEEE
Confidence 56899999999999999999887 333323455564
No 153
>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=97.23 E-value=0.00023 Score=49.84 Aligned_cols=21 Identities=19% Similarity=0.177 Sum_probs=19.7
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|-|+|+.|+|||++|+.+++.
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 154
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=97.22 E-value=0.0017 Score=59.10 Aligned_cols=114 Identities=8% Similarity=0.038 Sum_probs=65.0
Q ss_pred CCeeeehHHHHHHHHHHhc-------CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHH
Q 043562 31 RDMVGLDDRMEELLDLLIE-------GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILD 103 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~ 103 (176)
..++|.++.++.|.+.+.. .......+-++|+.|+|||+||+.+... ... ..+.++++.-... .
T Consensus 458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~--l~~---~~i~id~se~~~~-~--- 528 (758)
T PRK11034 458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--LGI---ELLRFDMSEYMER-H--- 528 (758)
T ss_pred ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH--hCC---CcEEeechhhccc-c---
Confidence 4689999999999888763 1223457889999999999999999876 322 2233333321111 0
Q ss_pred HHHHHhCCCCCccccCCCCCCchhhhhhhhh-CCCceEEEecCCC--ChhhhHHHhcCC
Q 043562 104 IIITFLMPSSSRMVRADTDNEPSTNMGRPET-STSQRNIPTRDEY--QPEEYTDQRRIP 159 (176)
Q Consensus 104 ~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l-~~kr~LlVLDDV~--~~~~w~~i~~~~ 159 (176)
-...+.+.. ++... .+......+.+ +....+|+||++. +++.++.+.++.
T Consensus 529 -~~~~LiG~~----~gyvg-~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~l 581 (758)
T PRK11034 529 -TVSRLIGAP----PGYVG-FDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVM 581 (758)
T ss_pred -cHHHHcCCC----CCccc-ccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHH
Confidence 122333221 11111 11111222222 3345699999997 456777776554
No 155
>PRK06526 transposase; Provisional
Probab=97.22 E-value=0.0003 Score=55.98 Aligned_cols=23 Identities=26% Similarity=0.177 Sum_probs=20.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.-+.++|++|+|||+||..+...
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHH
Confidence 35789999999999999998765
No 156
>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=97.22 E-value=0.0003 Score=50.26 Aligned_cols=22 Identities=14% Similarity=0.173 Sum_probs=19.9
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|-++|++|+||||+|+.+...
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 5789999999999999999865
No 157
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=97.20 E-value=0.0017 Score=52.30 Aligned_cols=65 Identities=14% Similarity=0.022 Sum_probs=49.1
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHH
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITF 108 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~ 108 (176)
..|-++|..+-+.-+++=|+|+.|.||||+|.+++-. ....-...+|++--..+++..+. .+...
T Consensus 47 ~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~--aq~~g~~a~fIDtE~~l~p~r~~-~l~~~ 111 (279)
T COG0468 47 LALDEALGGGLPRGRITEIYGPESSGKTTLALQLVAN--AQKPGGKAAFIDTEHALDPERAK-QLGVD 111 (279)
T ss_pred hhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHH--hhcCCCeEEEEeCCCCCCHHHHH-HHHHh
Confidence 3455566655567789999999999999999998877 55555578999998888886543 44444
No 158
>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=97.18 E-value=0.0006 Score=61.89 Aligned_cols=48 Identities=21% Similarity=0.270 Sum_probs=37.5
Q ss_pred CCCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 30 SRDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-+++.|++..++++.+++.. +-...+-+.++|+.|+|||+||+.+++.
T Consensus 177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~ 235 (733)
T TIGR01243 177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE 235 (733)
T ss_pred HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH
Confidence 34588999999998887642 1123456889999999999999999887
No 159
>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=97.18 E-value=0.00026 Score=53.83 Aligned_cols=22 Identities=27% Similarity=0.283 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|.+|+||||||+.+...
T Consensus 1 iigi~G~~GsGKSTl~~~l~~~ 22 (198)
T cd02023 1 IIGIAGGSGSGKTTVAEEIIEQ 22 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999998775
No 160
>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=97.18 E-value=0.0014 Score=55.63 Aligned_cols=112 Identities=11% Similarity=0.009 Sum_probs=60.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC-CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC-YADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
..++|+|..|+|||||+..+.+. ... +..+...+.... ...++...+...-.-+....+....++....+..
T Consensus 138 q~~~I~G~sG~GKTtLl~~I~~~--~~~--~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~ 213 (411)
T TIGR03496 138 QRMGIFAGSGVGKSTLLGMMARY--TEA--DVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAF 213 (411)
T ss_pred cEEEEECCCCCCHHHHHHHHhcC--CCC--CEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHH
Confidence 46899999999999999998876 222 233344444432 2333333332221000000111111211122221
Q ss_pred -----hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCcc
Q 043562 131 -----RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -----~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~~ 170 (176)
.+++ .++++||++||+... .++.+ +.+.|.+-+||++=+.
T Consensus 214 ~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~REisl~~ge~P~~~gyp~~~f~ 265 (411)
T TIGR03496 214 YATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFA 265 (411)
T ss_pred HHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHHhcCCCCCccCcCHHHHH
Confidence 3444 689999999999653 33333 3455777788876443
No 161
>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=97.17 E-value=0.00032 Score=44.45 Aligned_cols=22 Identities=18% Similarity=0.222 Sum_probs=20.0
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|..|+||||+++.+.+.
T Consensus 1 ~i~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 1 IIAITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999998876
No 162
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=97.17 E-value=0.0014 Score=54.89 Aligned_cols=26 Identities=12% Similarity=0.042 Sum_probs=24.0
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.....++|||+.|.|||.+|+++++.
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA~e 171 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVFKK 171 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence 45788999999999999999999998
No 163
>PRK07960 fliI flagellum-specific ATP synthase; Validated
Probab=97.17 E-value=0.0016 Score=55.76 Aligned_cols=111 Identities=9% Similarity=0.016 Sum_probs=61.1
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhCCCCCcc---ccCCCCCCc-hhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLMPSSSRM---VRADTDNEP-STN 128 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~~~~~~~---~~~~~~~~~-~~~ 128 (176)
-..++|+|..|+|||||.+.+.+. ... +..+...+.. .....++... +....... +-....+.. ..+
T Consensus 175 Gqri~I~G~sG~GKTTLL~~Ia~~--~~~--d~iv~g~Igerg~ev~e~~~~----~~~~~~~~~tvVv~~~ad~~~~~r 246 (455)
T PRK07960 175 GQRMGLFAGSGVGKSVLLGMMARY--TQA--DVIVVGLIGERGREVKDFIEN----ILGAEGRARSVVIAAPADVSPLLR 246 (455)
T ss_pred CcEEEEECCCCCCccHHHHHHhCC--CCC--CEEEEEEEEECCeEHHHHHHh----hcCcCCCceEEEEEECCCCCHHHH
Confidence 457899999999999999999876 322 2222222222 2233333333 22211110 101111221 222
Q ss_pred hh--------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcccc
Q 043562 129 MG--------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHDL 172 (176)
Q Consensus 129 ~~--------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~~ 172 (176)
.. .+++ .++++|+++||+-.. .++.++ ...|.+-+||++=|..|
T Consensus 247 ~~~~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~rEisl~~ge~P~~~gypp~~f~~l 305 (455)
T PRK07960 247 MQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKL 305 (455)
T ss_pred HHHHHHHHHHHHHHHHcCCCeEEEecchhHHHHHHHHHHHhcCCCCccccCCcchhhhh
Confidence 11 3333 589999999999753 344443 36788889998766553
No 164
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=97.17 E-value=0.00081 Score=54.57 Aligned_cols=115 Identities=13% Similarity=0.100 Sum_probs=70.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceE-EEEcCCCCCHHHHHHHHHH--
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHA-WVQEPYTCYADQILDIIIT-- 107 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-wv~vs~~~~~~~ll~~il~-- 107 (176)
.+++|.+..+..|.+.+.. ........+|+.|.|||+-|+.+....--.+.|.|++ =.+.|...+.. +.+.=+.
T Consensus 36 de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~Kik~f 112 (346)
T KOG0989|consen 36 DELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVREKIKNF 112 (346)
T ss_pred HhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhhhhcCH
Confidence 4789999999999998887 3467888999999999999888776633345566643 34555444432 1111000
Q ss_pred -HhCCCCCccccCCCCCCchhhhhhhhhCCCceEEEecCCC--ChhhhHHHhcCCCCC
Q 043562 108 -FLMPSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEY--QPEEYTDQRRIPSRY 162 (176)
Q Consensus 108 -~l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~--~~~~w~~i~~~~~~~ 162 (176)
++..... .. ...-...--.+|||++. ..+.|..+++...+|
T Consensus 113 akl~~~~~------------~~--~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~ 156 (346)
T KOG0989|consen 113 AKLTVLLK------------RS--DGYPCPPFKIIILDECDSMTSDAQAALRRTMEDF 156 (346)
T ss_pred HHHhhccc------------cc--cCCCCCcceEEEEechhhhhHHHHHHHHHHHhcc
Confidence 1100000 00 00001111478999987 468999999887663
No 165
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=97.16 E-value=0.00076 Score=52.32 Aligned_cols=36 Identities=14% Similarity=0.190 Sum_probs=26.4
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.++.. .......+.|+|..|+|||+||+.+++.
T Consensus 30 ~~l~~~~~-~~~~~~~~~l~G~~G~GKT~La~ai~~~ 65 (227)
T PRK08903 30 ARLRELAA-GPVADRFFYLWGEAGSGRSHLLQALVAD 65 (227)
T ss_pred HHHHHHHh-ccCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 34444433 2234567889999999999999999886
No 166
>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=97.16 E-value=0.0016 Score=50.16 Aligned_cols=53 Identities=17% Similarity=0.073 Sum_probs=36.5
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC 96 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~ 96 (176)
.|-.+|..+=..-.++.|.|.+|+||||||.++... ....-...+|++....+
T Consensus 7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~ 59 (218)
T cd01394 7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLS 59 (218)
T ss_pred HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCC
Confidence 455555544455689999999999999999998766 32233346677654444
No 167
>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase.
Probab=97.16 E-value=0.0033 Score=53.60 Aligned_cols=112 Identities=8% Similarity=0.008 Sum_probs=60.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhCCCCCccccCCCCCCc-hhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLMPSSSRMVRADTDNEP-STNM-- 129 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~-- 129 (176)
-..++|.|..|+|||||.+.+... ... +......+.. .....++..........+. ..+-....+.. ..+.
T Consensus 145 Gq~~~I~G~sG~GKStLl~~I~~~--~~~--~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~-tvvv~~~s~~p~~~r~~~ 219 (422)
T TIGR02546 145 GQRIGIFAGAGVGKSTLLGMIARG--ASA--DVNVIALIGERGREVREFIEHHLGEEGRKR-SVLVVSTSDRPSLERLKA 219 (422)
T ss_pred CCEEEEECCCCCChHHHHHHHhCC--CCC--CEEEEEEEccCCcCHHHHHHHHhccccccc-eEEEeccccCCHHHHHHH
Confidence 457799999999999999999986 322 2333333333 3344444444332211110 00100111111 1111
Q ss_pred ------hhhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 130 ------GRPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 130 ------~~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
..+++ .++++|+++|++-.. .++.++ .+.|.+-+||++=|.
T Consensus 220 ~~~a~~~AE~f~~~g~~Vl~~~Dsltr~a~A~rei~l~~ge~P~~~gyp~~~f~ 273 (422)
T TIGR02546 220 AYTATAIAEYFRDQGKRVLLMMDSLTRFARALREIGLAAGEPPARGGYPPSVFS 273 (422)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEeCchHHHHHHHHHHHhcCCCCcccccChhHHH
Confidence 13333 578999999999753 333333 466888888886553
No 168
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.15 E-value=0.0008 Score=59.60 Aligned_cols=46 Identities=22% Similarity=0.267 Sum_probs=38.1
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++||.+.-++.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~ 61 (585)
T PRK14950 16 AELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKA 61 (585)
T ss_pred HHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999988887543 2356679999999999999998865
No 169
>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=97.15 E-value=0.00073 Score=51.71 Aligned_cols=54 Identities=19% Similarity=0.150 Sum_probs=32.4
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcC-CCCCHHHHHHHHHHHh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEP-YTCYADQILDIIITFL 109 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs-~~~~~~~ll~~il~~l 109 (176)
+++|.++|+.|+||||.+.+++.. .+.+-.....++.. ......+-++...+.+
T Consensus 1 p~vi~lvGptGvGKTTt~aKLAa~--~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l 55 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTIAKLAAR--LKLKGKKVALISADTYRIGAVEQLKTYAEIL 55 (196)
T ss_dssp SEEEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEEESTSSTHHHHHHHHHHHHH
T ss_pred CEEEEEECCCCCchHhHHHHHHHH--HhhccccceeecCCCCCccHHHHHHHHHHHh
Confidence 368999999999999988888766 33332335566542 2222333344444444
No 170
>PRK09183 transposase/IS protein; Provisional
Probab=97.14 E-value=0.0013 Score=52.47 Aligned_cols=23 Identities=22% Similarity=0.271 Sum_probs=20.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.|+|+.|+|||+||..+.+.
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~ 125 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYE 125 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHH
Confidence 45779999999999999999765
No 171
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=97.13 E-value=0.00043 Score=53.63 Aligned_cols=26 Identities=23% Similarity=0.227 Sum_probs=23.7
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.+|||.|.+|+||||+|+.+++.
T Consensus 6 ~~~iiIgIaG~SgSGKTTva~~l~~~ 31 (218)
T COG0572 6 EKVIIIGIAGGSGSGKTTVAKELSEQ 31 (218)
T ss_pred CceEEEEEeCCCCCCHHHHHHHHHHH
Confidence 45789999999999999999999887
No 172
>PRK13343 F0F1 ATP synthase subunit alpha; Provisional
Probab=97.13 E-value=0.0017 Score=56.28 Aligned_cols=112 Identities=16% Similarity=0.134 Sum_probs=62.1
Q ss_pred EEEEEEcCCCCcHHHHH-HHHhcCcCccCcccc-eEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFA-AEAYSSNYVKHYFDC-HAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~-~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|..|+|||+|| ..+.+. . .-+. ++++-+++... +.++...+...-.-+....+....++....+..
T Consensus 163 QR~~I~g~~g~GKt~Lal~~i~~~--~--~~dv~~V~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atsd~~~~~r~~a 238 (502)
T PRK13343 163 QRELIIGDRQTGKTAIAIDAIINQ--K--DSDVICVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLA 238 (502)
T ss_pred CEEEeeCCCCCCccHHHHHHHHhh--c--CCCEEEEEEEeccChHHHHHHHHHHHhcCccceeEEEEecccccHHHHHHH
Confidence 46799999999999996 556654 1 2344 36666666543 344444443321101000111111221122211
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ +++++|||+||+-.. .++.++ .+.|.+=+||++-|.
T Consensus 239 p~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL~l~epPgr~gYP~~vf~ 292 (502)
T PRK13343 239 PFAGCAIAEYFRDQGQDALIVYDDLSKHAAAYRELSLLLRRPPGREAYPGDIFY 292 (502)
T ss_pred HHHHHHHHHHHHhCCCCEEEEecchHHHHHHHHHHHHhcCCCCCcCCcCcchHh
Confidence 3333 689999999999754 445443 467888889886443
No 173
>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=97.13 E-value=0.0018 Score=54.99 Aligned_cols=76 Identities=12% Similarity=0.183 Sum_probs=48.1
Q ss_pred CCeeeehHHHHHHHHHHhcC------------CCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc---cceEEEEcCC-
Q 043562 31 RDMVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF---DCHAWVQEPY- 94 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~------------~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~vs~- 94 (176)
..++|.++.++.+...+... ....+-|-++|+.|+|||++|+.+... ....| +...+...+.
T Consensus 12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~--l~~~fi~vdat~~~e~g~v 89 (441)
T TIGR00390 12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPFIKVEATKFTEVGYV 89 (441)
T ss_pred hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH--hCCeEEEeecceeecCCcc
Confidence 35789988888887666531 122467889999999999999999887 44333 2222332222
Q ss_pred CCCHHHHHHHHHHH
Q 043562 95 TCYADQILDIIITF 108 (176)
Q Consensus 95 ~~~~~~ll~~il~~ 108 (176)
..+.+.+++.+...
T Consensus 90 G~dvE~i~r~l~e~ 103 (441)
T TIGR00390 90 GRDVESMVRDLTDA 103 (441)
T ss_pred cCCHHHHHHHHHHH
Confidence 22455555555444
No 174
>PRK06820 type III secretion system ATPase; Validated
Probab=97.13 E-value=0.0015 Score=55.81 Aligned_cols=109 Identities=9% Similarity=0.071 Sum_probs=60.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCC---ccccCCCCCCc-hhhhh
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSS---RMVRADTDNEP-STNMG 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~---~~~~~~~~~~~-~~~~~ 130 (176)
..++|+|..|+|||||++.+... .. -+..+..-++.... + ...+++....... ..+-....+.. ..+..
T Consensus 164 qri~I~G~sG~GKStLl~~I~~~--~~--~dv~V~~~iGergr--E-v~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~ 236 (440)
T PRK06820 164 QRIGIFAAAGVGKSTLLGMLCAD--SA--ADVMVLALIGERGR--E-VREFLEQVLTPEARARTVVVVATSDRPALERLK 236 (440)
T ss_pred CEEEEECCCCCChHHHHHHHhcc--CC--CCEEEEEEEccChH--H-HHHHHHHhhccCCceeEEEEEeCCCCCHHHHHH
Confidence 47899999999999999998876 22 23334444444422 2 3333333322110 00101111221 12211
Q ss_pred --------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 --------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 --------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ +++++||++||+-.. .+..++ ...|.+-+||++=|.
T Consensus 237 a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REisl~~gepP~~~GYP~~vf~ 291 (440)
T PRK06820 237 GLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFA 291 (440)
T ss_pred HHHHHHHHHHHHHHcCCCEEEEccchhHHHHHHHHHHHhcCCCCccccCCccHHH
Confidence 3343 599999999999653 333333 356788888887543
No 175
>PRK03839 putative kinase; Provisional
Probab=97.12 E-value=0.00038 Score=52.08 Aligned_cols=22 Identities=18% Similarity=0.219 Sum_probs=20.3
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|.|.|++|+||||+|+.+++.
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~ 23 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999887
No 176
>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=97.11 E-value=0.00048 Score=51.50 Aligned_cols=25 Identities=12% Similarity=0.118 Sum_probs=22.3
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+..+|.|+|+.|+||||+|+.+...
T Consensus 2 ~~~ii~i~G~~GsGKsTl~~~l~~~ 26 (188)
T TIGR01360 2 KCKIIFIVGGPGSGKGTQCEKIVEK 26 (188)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 4678999999999999999999865
No 177
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=97.10 E-value=0.0016 Score=55.26 Aligned_cols=47 Identities=17% Similarity=0.212 Sum_probs=37.1
Q ss_pred CCeeeehHHHHHHHHHHhcC------------CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEG------------PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~------------~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|.+..++.+..++... +....-|.++|+.|+|||+||+.+...
T Consensus 15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~ 73 (443)
T PRK05201 15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL 73 (443)
T ss_pred cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence 35889999999988877531 112367899999999999999999876
No 178
>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=97.08 E-value=0.0011 Score=47.66 Aligned_cols=40 Identities=13% Similarity=0.106 Sum_probs=29.1
Q ss_pred HHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 39 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 39 ~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
+..++.+.|...-..-.+|.+.|.-|.|||||++.+....
T Consensus 7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l 46 (133)
T TIGR00150 7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL 46 (133)
T ss_pred HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence 3445555554422334589999999999999999998874
No 179
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=97.08 E-value=0.0046 Score=52.34 Aligned_cols=82 Identities=9% Similarity=0.002 Sum_probs=48.2
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETS 135 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~ 135 (176)
++.|.|+-++|||||++.+... .... .++++.........-+.+.+..+. .....
T Consensus 39 i~~i~GpR~~GKTtll~~l~~~--~~~~---~iy~~~~d~~~~~~~l~d~~~~~~--------------------~~~~~ 93 (398)
T COG1373 39 IILILGPRQVGKTTLLKLLIKG--LLEE---IIYINFDDLRLDRIELLDLLRAYI--------------------ELKER 93 (398)
T ss_pred EEEEECCccccHHHHHHHHHhh--CCcc---eEEEEecchhcchhhHHHHHHHHH--------------------Hhhcc
Confidence 9999999999999999776655 2222 444443222111111122222221 11111
Q ss_pred CCceEEEecCCCChhhhHHH-hcCCCCCC
Q 043562 136 TSQRNIPTRDEYQPEEYTDQ-RRIPSRYP 163 (176)
Q Consensus 136 ~kr~LlVLDDV~~~~~w~~i-~~~~~~~~ 163 (176)
++.+|+||.|.....|+.. +.+.++..
T Consensus 94 -~~~yifLDEIq~v~~W~~~lk~l~d~~~ 121 (398)
T COG1373 94 -EKSYIFLDEIQNVPDWERALKYLYDRGN 121 (398)
T ss_pred -CCceEEEecccCchhHHHHHHHHHcccc
Confidence 7889999999999999864 44444443
No 180
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=97.07 E-value=0.0027 Score=57.62 Aligned_cols=67 Identities=21% Similarity=0.186 Sum_probs=50.1
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhC
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLM 110 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~ 110 (176)
+..|.+.|.... ..+++.|.-+.|-|||||+-+.... . ..=..+.|+++.. +.++..+++.++..+.
T Consensus 24 R~rL~~~L~~~~-~~RL~li~APAGfGKttl~aq~~~~--~-~~~~~v~Wlslde~dndp~rF~~yLi~al~ 91 (894)
T COG2909 24 RPRLLDRLRRAN-DYRLILISAPAGFGKTTLLAQWREL--A-ADGAAVAWLSLDESDNDPARFLSYLIAALQ 91 (894)
T ss_pred cHHHHHHHhcCC-CceEEEEeCCCCCcHHHHHHHHHHh--c-CcccceeEeecCCccCCHHHHHHHHHHHHH
Confidence 345777776543 6899999999999999999998753 2 1234589999855 4557778888888775
No 181
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=97.07 E-value=0.00043 Score=53.29 Aligned_cols=24 Identities=21% Similarity=0.225 Sum_probs=22.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|+|-||-|+||||||+.+.++
T Consensus 4 ~~~IvI~G~IG~GKSTLa~~La~~ 27 (216)
T COG1428 4 AMVIVIEGMIGAGKSTLAQALAEH 27 (216)
T ss_pred ccEEEEecccccCHHHHHHHHHHH
Confidence 468999999999999999999987
No 182
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=97.07 E-value=0.0007 Score=59.93 Aligned_cols=24 Identities=21% Similarity=0.169 Sum_probs=21.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+.|+|..|+|||.|++.+++.
T Consensus 314 ~NpL~LyG~sGsGKTHLL~AIa~~ 337 (617)
T PRK14086 314 YNPLFIYGESGLGKTHLLHAIGHY 337 (617)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHH
Confidence 456899999999999999999987
No 183
>PRK14738 gmk guanylate kinase; Provisional
Probab=97.06 E-value=0.00059 Score=52.45 Aligned_cols=32 Identities=25% Similarity=0.264 Sum_probs=26.1
Q ss_pred HHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 46 LLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 46 ~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
|+.++....+.|.|+|++|+|||||++.+...
T Consensus 5 ~~~~~~~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 5 WLFNKPAKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred cccCCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 34445567789999999999999999999764
No 184
>PRK08472 fliI flagellum-specific ATP synthase; Validated
Probab=97.06 E-value=0.0037 Score=53.35 Aligned_cols=111 Identities=9% Similarity=-0.032 Sum_probs=61.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCH-HHHHHHHHHHhCCCCCc--cccCCCCCCchhhh-
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYA-DQILDIIITFLMPSSSR--MVRADTDNEPSTNM- 129 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~-~~ll~~il~~l~~~~~~--~~~~~~~~~~~~~~- 129 (176)
-..++|+|..|+|||||++.+... .. -+.....-++..... .+.... .+.+.-.. -+....++....+.
T Consensus 157 Gq~~~i~G~sG~GKStLl~~i~~~--~~--~~v~vi~~iGergrev~e~~~~---~l~~~l~~tvvV~atsddsp~~R~~ 229 (434)
T PRK08472 157 GQKLGIFAGSGVGKSTLMGMIVKG--CL--APIKVVALIGERGREIPEFIEK---NLGGDLENTVIVVATSDDSPLMRKY 229 (434)
T ss_pred CCEEEEECCCCCCHHHHHHHHhhc--cC--CCEEEEEeeCccchhHHHHHHH---HhcCcccceEEEEECCCCCHHHhhH
Confidence 347899999999999999999876 22 233344444444333 233322 22211001 11111111111111
Q ss_pred -------hhhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 130 -------GRPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 130 -------~~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
..+++ +++++||++||+-.. .++.++ ...|.+=+||++=|..
T Consensus 230 ~~~~a~~iAEyFrd~G~~Vll~~DslTr~A~A~REi~l~~ge~P~~~Gyp~~vf~~ 285 (434)
T PRK08472 230 GAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIGLALGEPPTSKGYPPSVLSL 285 (434)
T ss_pred HHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHHHhcCCCCCccCcCchHHHH
Confidence 13333 599999999999754 344443 3667888888875543
No 185
>PRK04196 V-type ATP synthase subunit B; Provisional
Probab=97.06 E-value=0.0022 Score=55.24 Aligned_cols=113 Identities=14% Similarity=0.110 Sum_probs=64.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCcc---CcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCc-hhhh
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVK---HYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEP-STNM 129 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~---~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~-~~~~ 129 (176)
.-++|.|-.|+|||+|+..+.+..... ..| .++++-+++..+ +.+++..+...-.-+....+. ...+.. ..+.
T Consensus 144 QR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~-v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~-atsd~p~~~R~ 221 (460)
T PRK04196 144 QKLPIFSGSGLPHNELAAQIARQAKVLGEEENF-AVVFAAMGITFEEANFFMEDFEETGALERSVVFL-NLADDPAIERI 221 (460)
T ss_pred CEEEeeCCCCCCccHHHHHHHHhhhhccCCCce-EEEEEEeccccHHHHHHHHHHHhcCCcceEEEEE-EcCCCCHHHHH
Confidence 457899999999999999988874322 112 456666655443 455555554421100000111 111122 2222
Q ss_pred h--------hhhhC---CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 130 G--------RPETS---TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 130 ~--------~~~l~---~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
. .++++ ++++||++||+-.. .++-+| .+.|.+=+||++=|
T Consensus 222 ~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~gYP~~vf 277 (460)
T PRK04196 222 LTPRMALTAAEYLAFEKGMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMY 277 (460)
T ss_pred HHHHHHHHHHHHHHHhcCCcEEEEEcChHHHHHHHHHHHHhcCCCCCCCCcCccHH
Confidence 1 56655 59999999999653 334333 36677878887644
No 186
>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=97.06 E-value=0.00036 Score=54.28 Aligned_cols=22 Identities=18% Similarity=0.167 Sum_probs=19.9
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|..|+||||||+.+...
T Consensus 1 IigI~G~sGSGKTTla~~L~~~ 22 (220)
T cd02025 1 IIGIAGSVAVGKSTTARVLQAL 22 (220)
T ss_pred CEEeeCCCCCCHHHHHHHHHHH
Confidence 5899999999999999998765
No 187
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00074 Score=60.30 Aligned_cols=53 Identities=23% Similarity=0.388 Sum_probs=44.2
Q ss_pred CCCeeeehHHHHHHHHHHhc----CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc
Q 043562 30 SRDMVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF 84 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F 84 (176)
+.+-.|+++-++++.+.+.- +..+-.+++.+|++|||||++|+.++.- ....|
T Consensus 410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkF 466 (906)
T KOG2004|consen 410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKF 466 (906)
T ss_pred cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCce
Confidence 45789999999999998863 4456689999999999999999999887 55555
No 188
>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=97.06 E-value=0.0018 Score=53.22 Aligned_cols=58 Identities=17% Similarity=0.060 Sum_probs=40.5
Q ss_pred HHHHHHHHHh-cCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCH
Q 043562 39 RMEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYA 98 (176)
Q Consensus 39 ~~~~l~~~L~-~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~ 98 (176)
-...|-.+|. .+=+.-+++-|+|++|+||||||.++... ....-..++|++....++.
T Consensus 39 Gi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~ 97 (321)
T TIGR02012 39 GSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDP 97 (321)
T ss_pred CCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHH
Confidence 3455666665 44456679999999999999999987765 3333345778876655554
No 189
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.06 E-value=0.0054 Score=54.31 Aligned_cols=46 Identities=20% Similarity=0.198 Sum_probs=38.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-...|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~ 61 (576)
T PRK14965 16 SDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKA 61 (576)
T ss_pred HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 479999999999999887643 3456688999999999999988765
No 190
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=97.06 E-value=0.0025 Score=57.05 Aligned_cols=73 Identities=11% Similarity=0.025 Sum_probs=50.9
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhh
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGR 131 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~ 131 (176)
+.-+++-++|++|+||||||+-++.+.- | .++=|+.|...+...+-..|...+...
T Consensus 324 P~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~------------------- 379 (877)
T KOG1969|consen 324 PPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNH------------------- 379 (877)
T ss_pred CccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhc-------------------
Confidence 4568999999999999999999998732 2 245567788877766666665554321
Q ss_pred hhh--CCCceEEEecCCCC
Q 043562 132 PET--STSQRNIPTRDEYQ 148 (176)
Q Consensus 132 ~~l--~~kr~LlVLDDV~~ 148 (176)
..+ .++..-||+|.+.-
T Consensus 380 s~l~adsrP~CLViDEIDG 398 (877)
T KOG1969|consen 380 SVLDADSRPVCLVIDEIDG 398 (877)
T ss_pred cccccCCCcceEEEecccC
Confidence 111 25677788898874
No 191
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=97.05 E-value=0.0031 Score=54.41 Aligned_cols=111 Identities=15% Similarity=0.092 Sum_probs=61.0
Q ss_pred EEEEEEcCCCCcHHHHHH-HHhcCcCccCcccc-eEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFAA-EAYSSNYVKHYFDC-HAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~-~v~~~~~~~~~F~~-~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|-.|+|||+||. .+.+. . .-+. ++++-+++... ..++...+...-.-+....+....++....+..
T Consensus 142 QR~~I~g~~g~GKt~Lal~~I~~q--~--~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~a 217 (485)
T CHL00059 142 QRELIIGDRQTGKTAVATDTILNQ--K--GQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLA 217 (485)
T ss_pred CEEEeecCCCCCHHHHHHHHHHhc--c--cCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHHH
Confidence 357999999999999965 45554 1 2233 36666765543 444444443321101001111111211122211
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
.+++ +++++|||+||+-.. .++.++ .+.|.+=+||++-|
T Consensus 218 p~~a~aiAEyfr~~G~~VLlv~DdlTr~A~A~REisl~l~epPgr~gYP~~vF 270 (485)
T CHL00059 218 PYTGAALAEYFMYRGRHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVF 270 (485)
T ss_pred HHHHhhHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhcCCCCCcCCcCchHH
Confidence 2333 589999999999754 455544 36678888888644
No 192
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=97.05 E-value=0.006 Score=49.39 Aligned_cols=46 Identities=20% Similarity=0.203 Sum_probs=36.8
Q ss_pred CeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++|-+.....+..+......-...+-++|+.|+||||+|..+.+.
T Consensus 2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~ 47 (325)
T COG0470 2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKE 47 (325)
T ss_pred CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHH
Confidence 4677888888888888754433445899999999999999998876
No 193
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=97.04 E-value=0.00099 Score=56.35 Aligned_cols=48 Identities=23% Similarity=0.230 Sum_probs=38.2
Q ss_pred CCCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 30 SRDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.++.|.+..+++|.+.+.- +-...+-+.++|++|+|||+||+.+++.
T Consensus 144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 35688999999988876641 1134567889999999999999999987
No 194
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=97.04 E-value=0.0026 Score=55.28 Aligned_cols=112 Identities=16% Similarity=0.073 Sum_probs=61.7
Q ss_pred EEEEEEcCCCCcHHHHH-HHHhcCcCccCcccc-eEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFA-AEAYSSNYVKHYFDC-HAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~-~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|..|+|||+|| ..+.+. . .-+. ++++-+++... ..++...+...=.-+....+....++....+..
T Consensus 163 Qr~~Ifg~~g~GKt~lal~~i~~~--~--~~dv~~V~~~IGer~~ev~e~~~~~~~~~~l~~tvvv~atsd~p~~~r~~a 238 (502)
T PRK09281 163 QRELIIGDRQTGKTAIAIDTIINQ--K--GKDVICIYVAIGQKASTVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLA 238 (502)
T ss_pred cEEEeecCCCCCchHHHHHHHHHh--c--CCCeEEEEEEecCChHHHHHHHHHHhhcCCccceEEEEeCCCCCHHHHHHH
Confidence 46799999999999995 445544 2 2234 36666666544 344444443321101001111111221122222
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
.+++ .++++|||+||+-.. .++.++ .+.|.+=+||++-|.
T Consensus 239 ~~~a~tiAEyfrd~G~~VLli~DdlTr~A~A~REisl~~gepPgr~gyP~~vf~ 292 (502)
T PRK09281 239 PYAGCAMGEYFMDNGKDALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFY 292 (502)
T ss_pred HHHHHHHHHHHHHcCCCEEEEecCchHHHHHHHHHHHhcCCCCCCCCcCccHHH
Confidence 2332 489999999999754 455543 467888888886443
No 195
>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=97.03 E-value=0.00055 Score=51.07 Aligned_cols=23 Identities=13% Similarity=0.176 Sum_probs=20.5
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.|+|+.|+|||||++.+...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 37899999999999999998765
No 196
>PRK00131 aroK shikimate kinase; Reviewed
Probab=97.03 E-value=0.00057 Score=50.30 Aligned_cols=24 Identities=8% Similarity=0.135 Sum_probs=21.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...|.++|++|+||||+|+.+...
T Consensus 4 ~~~i~l~G~~GsGKstla~~La~~ 27 (175)
T PRK00131 4 GPNIVLIGFMGAGKSTIGRLLAKR 27 (175)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHHH
Confidence 457899999999999999999887
No 197
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=97.02 E-value=0.0029 Score=51.57 Aligned_cols=94 Identities=12% Similarity=0.017 Sum_probs=55.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhh
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPET 134 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l 134 (176)
..|.|+|..|+||||+++.+.+. +....+..--+++...... . +...................+.+..|
T Consensus 133 ~~ilI~G~tGSGKTTll~al~~~--i~~~~~~~ri~tiEd~~El---~------~~~~~~v~~~~~~~~~~~~~~l~~aL 201 (299)
T TIGR02782 133 KNILVVGGTGSGKTTLANALLAE--IAKNDPTDRVVIIEDTREL---Q------CAAPNVVQLRTSDDAISMTRLLKATL 201 (299)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH--hhccCCCceEEEECCchhh---c------CCCCCEEEEEecCCCCCHHHHHHHHh
Confidence 45679999999999999999876 4332221112333222111 0 01111001100111113556668888
Q ss_pred CCCceEEEecCCCChhhhHHHhcCC
Q 043562 135 STSQRNIPTRDEYQPEEYTDQRRIP 159 (176)
Q Consensus 135 ~~kr~LlVLDDV~~~~~w~~i~~~~ 159 (176)
+...=.||+..+.+.+.|+.+....
T Consensus 202 R~~pD~iivGEiR~~ea~~~l~a~~ 226 (299)
T TIGR02782 202 RLRPDRIIVGEVRGGEALDLLKAWN 226 (299)
T ss_pred cCCCCEEEEeccCCHHHHHHHHHHH
Confidence 9899999999999999988765443
No 198
>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=97.01 E-value=0.00083 Score=50.49 Aligned_cols=37 Identities=11% Similarity=0.115 Sum_probs=30.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
.++|.|+|+.|+|||||++.+... ....|...+..+-
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~~--~~~~~~~~v~~TT 38 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQE--FPDKFGRVVSHTT 38 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHHH--STTTEEEEEEEES
T ss_pred CCEEEEECCCCCCHHHHHHHHHHh--cccccccceeecc
Confidence 468899999999999999999987 6677865566554
No 199
>CHL00181 cbbX CbbX; Provisional
Probab=97.00 E-value=0.0013 Score=53.24 Aligned_cols=46 Identities=17% Similarity=0.148 Sum_probs=32.1
Q ss_pred CeeeehHHHHHHHHHHh---c---------C-CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLI---E---------G-PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~---~---------~-~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++|.+.-+++|.++.. - . ......+.++|++|+||||+|+.+++.
T Consensus 24 ~l~Gl~~vK~~i~e~~~~~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~ 82 (287)
T CHL00181 24 ELVGLAPVKTRIREIAALLLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADI 82 (287)
T ss_pred hcCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 57888877776655432 1 0 112234788999999999999999664
No 200
>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=97.00 E-value=0.00063 Score=50.68 Aligned_cols=23 Identities=13% Similarity=0.221 Sum_probs=21.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|.|+|+.|+||||||+.+...
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHcc
Confidence 47899999999999999999885
No 201
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.99 E-value=0.0011 Score=55.93 Aligned_cols=46 Identities=15% Similarity=0.066 Sum_probs=37.7
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~ 61 (397)
T PRK14955 16 ADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKA 61 (397)
T ss_pred hhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHH
Confidence 478999998888888887543 2345788999999999999998775
No 202
>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=96.99 E-value=0.0031 Score=54.00 Aligned_cols=113 Identities=9% Similarity=-0.011 Sum_probs=58.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC-CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC-YADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
-..++|+|..|+|||||++.+... ... +......+.... ...++....+..-.-+....+....++....+..
T Consensus 163 Gq~~~I~G~sG~GKStLl~~I~~~--~~~--~~~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~ 238 (440)
T TIGR01026 163 GQRIGIFAGSGVGKSTLLGMIARN--TEA--DVNVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGA 238 (440)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC--CCC--CEEEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHH
Confidence 346899999999999999999876 222 222223333322 2333333322210000000011111111122211
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCCCcc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKEREH 170 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~~~~ 170 (176)
.+++ .++++||++||+-.. .++.+ +...|..-+||++=+.
T Consensus 239 ~~a~t~AE~frd~G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gypp~~~~ 291 (440)
T TIGR01026 239 YVATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPATKGYTPSVFS 291 (440)
T ss_pred HHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHHhcCCCCcccccChhHHH
Confidence 2333 689999999999753 33333 2356788888876443
No 203
>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=96.98 E-value=0.004 Score=52.92 Aligned_cols=113 Identities=10% Similarity=-0.029 Sum_probs=59.8
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCC-CHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTC-YADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~-~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-..++|+|..|+|||||++.+.+. ... +.....-++... ...++....+.+-.......+-...++-...+..
T Consensus 136 ~Gqri~I~G~sG~GKTtLl~~i~~~--~~~--~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~ 211 (413)
T TIGR03497 136 KGQRVGIFAGSGVGKSTLLGMIARN--AKA--DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKA 211 (413)
T ss_pred CCCEEEEECCCCCCHHHHHHHHhCC--CCC--CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHH
Confidence 3457899999999999999988876 222 222222333332 3334444332221000000011111111122211
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
.+++ .++++||++||+-.. .++.++ .+.|.+-+||++=|
T Consensus 212 ~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~gyp~~~f 264 (413)
T TIGR03497 212 AFTATAIAEYFRDQGKDVLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTPSVF 264 (413)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEcCcHHHHHHHHHHHHhcCCCCCCCCcCchHH
Confidence 3344 589999999999753 334333 35677778887644
No 204
>PRK07721 fliI flagellum-specific ATP synthase; Validated
Probab=96.97 E-value=0.0033 Score=53.79 Aligned_cols=114 Identities=8% Similarity=-0.077 Sum_probs=58.8
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh--
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG-- 130 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~-- 130 (176)
.-..++|+|..|+|||||++.+... .... ...+++.--+.....++....+..-.-......-...++....+..
T Consensus 157 ~Gq~i~I~G~sG~GKStLl~~I~~~--~~~~-~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~ 233 (438)
T PRK07721 157 KGQRVGIFAGSGVGKSTLMGMIARN--TSAD-LNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGA 233 (438)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhcc--cCCC-eEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHH
Confidence 3468899999999999999998876 2221 1233332223333444333321110000000000011111111111
Q ss_pred ------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 131 ------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 131 ------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
.+++ +++++||++||+-.. .++.++ ...|..-++|++-+
T Consensus 234 ~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~G~dp~~~ 285 (438)
T PRK07721 234 YTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTPSVF 285 (438)
T ss_pred HHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHHHHhcCCCCccccCCHHHH
Confidence 3444 699999999999754 334433 35677777776544
No 205
>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=96.97 E-value=0.011 Score=44.43 Aligned_cols=35 Identities=20% Similarity=0.157 Sum_probs=25.6
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|.+.+..+. -...+-++|+.|+||||+|+.+...
T Consensus 3 ~l~~~i~~~~-~~~~~L~~G~~G~gkt~~a~~~~~~ 37 (188)
T TIGR00678 3 QLKRALEKGR-LAHAYLFAGPEGVGKELLALALAKA 37 (188)
T ss_pred HHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3455554332 3367889999999999999988665
No 206
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=96.96 E-value=0.0013 Score=56.35 Aligned_cols=52 Identities=21% Similarity=0.307 Sum_probs=39.5
Q ss_pred CCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc
Q 043562 31 RDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF 84 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F 84 (176)
.++.|++..+++|.+.+.- +-...+-+.++|++|+|||+||+.+++. ....|
T Consensus 183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e--l~~~f 245 (438)
T PTZ00361 183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE--TSATF 245 (438)
T ss_pred HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh--hCCCE
Confidence 4678999999998887642 1123456789999999999999999997 44444
No 207
>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=96.95 E-value=0.00055 Score=52.04 Aligned_cols=22 Identities=23% Similarity=0.046 Sum_probs=20.4
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|.+|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKTtla~~l~~~ 22 (187)
T cd02024 1 IVGISGVTNSGKTTLAKLLQRI 22 (187)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999886
No 208
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.95 E-value=0.0097 Score=52.98 Aligned_cols=46 Identities=17% Similarity=0.098 Sum_probs=37.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 16 AEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred HHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHh
Confidence 468898888888888887542 2456778999999999999998876
No 209
>PRK06217 hypothetical protein; Validated
Probab=96.95 E-value=0.0006 Score=51.29 Aligned_cols=35 Identities=17% Similarity=0.220 Sum_probs=25.9
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCccCcc--cceEEEE
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVKHYF--DCHAWVQ 91 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~ 91 (176)
-|.|.|++|+||||||+.+.....+. +| +...|..
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~l~~~-~~~~D~~~~~~ 39 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAERLDIP-HLDTDDYFWLP 39 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCc-EEEcCceeecc
Confidence 48999999999999999999874332 33 3355643
No 210
>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=96.94 E-value=0.0016 Score=46.41 Aligned_cols=82 Identities=11% Similarity=0.021 Sum_probs=46.7
Q ss_pred EEEEcCCCCcHHHHHHHHhcCcCccCcccc-eEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhC
Q 043562 57 VTILDSIGLDKTAFAAEAYSSNYVKHYFDC-HAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETS 135 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~ 135 (176)
|-++|+.|+|||+||+.++.. . .. ..-+.++...+..+++...--. . .........+....
T Consensus 2 vlL~G~~G~GKt~l~~~la~~--~----~~~~~~i~~~~~~~~~dl~g~~~~~----~------~~~~~~~~~l~~a~-- 63 (139)
T PF07728_consen 2 VLLVGPPGTGKTTLARELAAL--L----GRPVIRINCSSDTTEEDLIGSYDPS----N------GQFEFKDGPLVRAM-- 63 (139)
T ss_dssp EEEEESSSSSHHHHHHHHHHH--H----TCEEEEEE-TTTSTHHHHHCEEET-----T------TTTCEEE-CCCTTH--
T ss_pred EEEECCCCCCHHHHHHHHHHH--h----hcceEEEEeccccccccceeeeeec----c------cccccccccccccc--
Confidence 578999999999999999887 3 32 2345677777776655322111 0 00001111111111
Q ss_pred CCceEEEecCCC--ChhhhHHHh
Q 043562 136 TSQRNIPTRDEY--QPEEYTDQR 156 (176)
Q Consensus 136 ~kr~LlVLDDV~--~~~~w~~i~ 156 (176)
.+..++|||++. +++.++.+.
T Consensus 64 ~~~~il~lDEin~a~~~v~~~L~ 86 (139)
T PF07728_consen 64 RKGGILVLDEINRAPPEVLESLL 86 (139)
T ss_dssp HEEEEEEESSCGG--HHHHHTTH
T ss_pred cceeEEEECCcccCCHHHHHHHH
Confidence 288899999998 555555543
No 211
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.94 E-value=0.0014 Score=51.98 Aligned_cols=57 Identities=23% Similarity=0.194 Sum_probs=42.2
Q ss_pred HHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHH
Q 043562 45 DLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDII 105 (176)
Q Consensus 45 ~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~i 105 (176)
++|..+=+.-+++.|+|.+|+|||+++.++... ...+.+.++||+..... .++.+..
T Consensus 14 ~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~--~~~~ge~vlyvs~~e~~--~~l~~~~ 70 (260)
T COG0467 14 EILGGGLPRGSVVLITGPPGTGKTIFALQFLYE--GAREGEPVLYVSTEESP--EELLENA 70 (260)
T ss_pred HHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHH--HHhcCCcEEEEEecCCH--HHHHHHH
Confidence 344444456789999999999999999998877 55668889999876553 3444443
No 212
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=96.94 E-value=0.0021 Score=54.62 Aligned_cols=46 Identities=20% Similarity=0.202 Sum_probs=34.8
Q ss_pred CeeeehHHHHHHHHHHhc-------C-----C--CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLIE-------G-----P--PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~~-------~-----~--~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+||.+.-++.|...+.+ . + ....-+.++|+.|+|||+||+.+...
T Consensus 72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~ 131 (412)
T PRK05342 72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARI 131 (412)
T ss_pred HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence 589999988888665521 0 0 12356889999999999999999875
No 213
>PRK04040 adenylate kinase; Provisional
Probab=96.93 E-value=0.0008 Score=51.11 Aligned_cols=24 Identities=21% Similarity=0.307 Sum_probs=21.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|.|+|++|+||||+++.+.+.
T Consensus 2 ~~~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 2 MKVVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHH
Confidence 358999999999999999999887
No 214
>PRK09354 recA recombinase A; Provisional
Probab=96.92 E-value=0.003 Score=52.44 Aligned_cols=59 Identities=19% Similarity=0.061 Sum_probs=43.1
Q ss_pred HHHHHHHHHHh-cCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCH
Q 043562 38 DRMEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYA 98 (176)
Q Consensus 38 ~~~~~l~~~L~-~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~ 98 (176)
.-...|-.+|. .+=+.-+++-|+|+.|+||||||.++... ....-..++|+.....++.
T Consensus 43 TGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~ 102 (349)
T PRK09354 43 TGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDP 102 (349)
T ss_pred CCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHH
Confidence 33455666776 44456678999999999999999998766 3334456789987776665
No 215
>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=96.92 E-value=0.00078 Score=50.70 Aligned_cols=22 Identities=32% Similarity=0.350 Sum_probs=20.2
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|.+|+||||||+.+...
T Consensus 1 ii~i~G~sgsGKttla~~l~~~ 22 (179)
T cd02028 1 VVGIAGPSGSGKTTFAKKLSNQ 22 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999998876
No 216
>PRK00625 shikimate kinase; Provisional
Probab=96.92 E-value=0.00071 Score=50.76 Aligned_cols=22 Identities=14% Similarity=0.093 Sum_probs=19.9
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|.++||.|+||||+++.+.+.
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~ 23 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKF 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999999999876
No 217
>PLN02318 phosphoribulokinase/uridine kinase
Probab=96.92 E-value=0.0014 Score=57.88 Aligned_cols=34 Identities=21% Similarity=0.253 Sum_probs=27.4
Q ss_pred HHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 44 LDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 44 ~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++|......+.+|+|.|..|.||||||+.+...
T Consensus 55 ~qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl 88 (656)
T PLN02318 55 CQLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF 88 (656)
T ss_pred HHHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence 3444445556889999999999999999999875
No 218
>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=96.91 E-value=0.0019 Score=52.43 Aligned_cols=24 Identities=17% Similarity=0.099 Sum_probs=21.0
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHh
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAY 75 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~ 75 (176)
....+|||.|..|+||||+|+.+.
T Consensus 60 ~~p~IIGIaG~~GSGKSTlar~L~ 83 (290)
T TIGR00554 60 KIPYIISIAGSVAVGKSTTARILQ 83 (290)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHH
Confidence 457899999999999999998663
No 219
>PRK00300 gmk guanylate kinase; Provisional
Probab=96.91 E-value=0.00077 Score=51.32 Aligned_cols=24 Identities=8% Similarity=0.087 Sum_probs=21.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+|+|+|+.|+||||||+.+...
T Consensus 5 g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 5 GLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh
Confidence 458999999999999999999876
No 220
>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=96.90 E-value=0.00083 Score=48.34 Aligned_cols=22 Identities=9% Similarity=0.231 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|.|+|+.|+|||||++.+...
T Consensus 1 ~i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 1 LIVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred CEEEECCCCCCHHHHHHHHHhc
Confidence 3789999999999999999886
No 221
>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=96.90 E-value=0.00059 Score=51.00 Aligned_cols=22 Identities=23% Similarity=0.219 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|.|+|++|+||||+|+.+...
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~ 22 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVEN 22 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5789999999999999999876
No 222
>PRK00889 adenylylsulfate kinase; Provisional
Probab=96.90 E-value=0.001 Score=49.55 Aligned_cols=24 Identities=21% Similarity=0.037 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+|.|+|++|+||||+|+.+...
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~ 27 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEK 27 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 458999999999999999998876
No 223
>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=96.90 E-value=0.0011 Score=51.51 Aligned_cols=109 Identities=13% Similarity=0.120 Sum_probs=57.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCC-CCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYT-CYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~-~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
.-++|.|..|+|||+|+..+.++ .. -+..+++-+++. ....++.+.+...-..+.........++....+..
T Consensus 16 qr~~I~g~~g~GKt~Ll~~i~~~--~~--~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~ 91 (215)
T PF00006_consen 16 QRIGIFGGAGVGKTVLLQEIANN--QD--ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY 91 (215)
T ss_dssp SEEEEEESTTSSHHHHHHHHHHH--CT--TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred CEEEEEcCcccccchhhHHHHhc--cc--ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence 35799999999999999999887 32 223366666544 33445555543321100000011111111112211
Q ss_pred -----hhhh--CCCceEEEecCCCCh-hhhHH----HhcCCCCCCCCCC
Q 043562 131 -----RPET--STSQRNIPTRDEYQP-EEYTD----QRRIPSRYPFPKE 167 (176)
Q Consensus 131 -----~~~l--~~kr~LlVLDDV~~~-~~w~~----i~~~~~~~~~~~~ 167 (176)
.+++ .++++|+++||+-.. +++.. +.+.|..=+||++
T Consensus 92 ~a~t~AEyfrd~G~dVlli~Dsltr~a~A~reis~~~g~~p~~~Gyp~~ 140 (215)
T PF00006_consen 92 TALTIAEYFRDQGKDVLLIIDSLTRWAQAYREISLLLGEPPGREGYPPS 140 (215)
T ss_dssp HHHHHHHHHHHTTSEEEEEEETHHHHHHHHHHHHHHTTSSBBGGGSBTT
T ss_pred cchhhhHHHhhcCCceeehhhhhHHHHHHHHhhhcccccccccccccch
Confidence 2333 599999999998542 22322 2344555566654
No 224
>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=96.89 E-value=0.00069 Score=48.44 Aligned_cols=22 Identities=18% Similarity=0.132 Sum_probs=20.2
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|.|.|+.|+||||+|+.+...
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~ 22 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKK 22 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999999876
No 225
>PRK13531 regulatory ATPase RavA; Provisional
Probab=96.88 E-value=0.0014 Score=56.54 Aligned_cols=43 Identities=16% Similarity=0.195 Sum_probs=36.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|+++.++.+...+..+. -|-|.|++|+|||+||+.+...
T Consensus 20 ~~i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~~ 62 (498)
T PRK13531 20 KGLYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFA 62 (498)
T ss_pred hhccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHHH
Confidence 468999999998888777543 5789999999999999999876
No 226
>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=96.88 E-value=0.007 Score=50.78 Aligned_cols=101 Identities=14% Similarity=-0.002 Sum_probs=54.6
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccC
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRA 119 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~ 119 (176)
..+|-+.|..+-..-.++.|.|.+|+|||||+.++... ....-...+|++.... ..++... +..+...... ..
T Consensus 68 i~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~--~a~~g~~VlYvs~EEs--~~qi~~R-a~rlg~~~~~-l~- 140 (372)
T cd01121 68 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAAR--LAKRGGKVLYVSGEES--PEQIKLR-ADRLGISTEN-LY- 140 (372)
T ss_pred CHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCcC--HHHHHHH-HHHcCCCccc-EE-
Confidence 34455656544344579999999999999999998876 3333345667765432 3333221 2333211110 00
Q ss_pred CCCCCchhhhhhhhhCCCceEEEecCCC
Q 043562 120 DTDNEPSTNMGRPETSTSQRNIPTRDEY 147 (176)
Q Consensus 120 ~~~~~~~~~~~~~~l~~kr~LlVLDDV~ 147 (176)
-........+....-..+.-+||+|.+.
T Consensus 141 l~~e~~le~I~~~i~~~~~~lVVIDSIq 168 (372)
T cd01121 141 LLAETNLEDILASIEELKPDLVIIDSIQ 168 (372)
T ss_pred EEccCcHHHHHHHHHhcCCcEEEEcchH
Confidence 0011122233333334567789999974
No 227
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=96.88 E-value=0.0018 Score=48.89 Aligned_cols=97 Identities=8% Similarity=-0.020 Sum_probs=52.4
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPE 133 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~ 133 (176)
-..+.|+|..|.|||||++.+... +... ...+-+.-....... ..... ++... ................+..
T Consensus 25 g~~i~I~G~tGSGKTTll~aL~~~--i~~~-~~~i~ied~~E~~~~--~~~~~-~~~~~--~~~~~~~~~~~~~~~l~~~ 96 (186)
T cd01130 25 RKNILISGGTGSGKTTLLNALLAF--IPPD-ERIITIEDTAELQLP--HPNWV-RLVTR--PGNVEGSGEVTMADLLRSA 96 (186)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh--cCCC-CCEEEECCccccCCC--CCCEE-EEEEe--cCCCCCCCccCHHHHHHHH
Confidence 457899999999999999998876 3322 122222111110000 00000 00000 0000001122344555677
Q ss_pred hCCCceEEEecCCCChhhhHHHhcC
Q 043562 134 TSTSQRNIPTRDEYQPEEYTDQRRI 158 (176)
Q Consensus 134 l~~kr~LlVLDDV~~~~~w~~i~~~ 158 (176)
++...=.++++.+++.+.|+.+...
T Consensus 97 lR~~pd~i~igEir~~ea~~~~~a~ 121 (186)
T cd01130 97 LRMRPDRIIVGEVRGGEALDLLQAM 121 (186)
T ss_pred hccCCCEEEEEccCcHHHHHHHHHH
Confidence 7888889999999999988766543
No 228
>PRK13947 shikimate kinase; Provisional
Probab=96.88 E-value=0.0008 Score=49.71 Aligned_cols=22 Identities=14% Similarity=0.326 Sum_probs=20.2
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|.|+|++|+||||+|+.+.+.
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~ 24 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATT 24 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 3789999999999999999886
No 229
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=96.86 E-value=0.0057 Score=48.83 Aligned_cols=92 Identities=3% Similarity=-0.063 Sum_probs=50.0
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE------cCCCCCHHHHHHHHHHHhCCCCCc--cccCCCCCC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ------EPYTCYADQILDIIITFLMPSSSR--MVRADTDNE 124 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~------vs~~~~~~~ll~~il~~l~~~~~~--~~~~~~~~~ 124 (176)
+-.+++|+|.+|+|||||++.+..- .... .+.+++. ++ .....+...+++..+...... ..|-....-
T Consensus 38 ~ge~~glVGESG~GKSTlgr~i~~L--~~pt-~G~i~f~g~~i~~~~-~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGG 113 (268)
T COG4608 38 EGETLGLVGESGCGKSTLGRLILGL--EEPT-SGEILFEGKDITKLS-KEERRERVLELLEKVGLPEEFLYRYPHELSGG 113 (268)
T ss_pred CCCEEEEEecCCCCHHHHHHHHHcC--cCCC-CceEEEcCcchhhcc-hhHHHHHHHHHHHHhCCCHHHhhcCCcccCch
Confidence 3458999999999999999999886 3222 2222222 12 222333445555555422111 111011111
Q ss_pred chhhh-hhhhhCCCceEEEecCCCC
Q 043562 125 PSTNM-GRPETSTSQRNIPTRDEYQ 148 (176)
Q Consensus 125 ~~~~~-~~~~l~~kr~LlVLDDV~~ 148 (176)
..++. +.+.|.-+.-|||.|.--+
T Consensus 114 QrQRi~IARALal~P~liV~DEpvS 138 (268)
T COG4608 114 QRQRIGIARALALNPKLIVADEPVS 138 (268)
T ss_pred hhhhHHHHHHHhhCCcEEEecCchh
Confidence 11111 2677778888999997543
No 230
>PRK02118 V-type ATP synthase subunit B; Provisional
Probab=96.86 E-value=0.0054 Score=52.34 Aligned_cols=114 Identities=14% Similarity=0.028 Sum_probs=66.4
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
.-++|.|-.|+|||+|+..+.+... -+..+++-++.... ..++...+...-.-+...-+-...++-...+..
T Consensus 141 QkigIF~gaGvgk~~L~~~ia~~~~----~~v~Vfa~iGeR~rE~~ef~~~~~~~~~l~rtvlv~~~adep~~~R~~~~~ 216 (436)
T PRK02118 141 QKIPIFSVSGEPYNALLARIALQAE----ADIIILGGMGLTFDDYLFFKDTFENAGALDRTVMFIHTASDPPVECLLVPD 216 (436)
T ss_pred CEEEEEeCCCCCHHHHHHHHHHhhC----CCeEEEEEeccchhHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHH
Confidence 4579999999999999999987622 24567777766644 333444333221101000111111111122222
Q ss_pred -----hhhhC---CCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcccc
Q 043562 131 -----RPETS---TSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHDL 172 (176)
Q Consensus 131 -----~~~l~---~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~~ 172 (176)
.++++ ++++|+++||+... ++..++ .+.|.+-+||++=+.+|
T Consensus 217 ~AltiAEyfrd~g~~~VLli~DdlTr~a~A~REIsl~~ge~P~r~GYpp~lfs~L 271 (436)
T PRK02118 217 MALAVAEKFALEGKKKVLVLLTDMTNFADALKEISITMDQIPSNRGYPGSLYSDL 271 (436)
T ss_pred HHHHHHHHHHhcCCCCEEEeccCchHHHHHHHHHHHhcCCCCCCCCcCCcHHHHH
Confidence 44443 48999999999864 444443 47789999998755443
No 231
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=96.86 E-value=0.001 Score=50.18 Aligned_cols=23 Identities=13% Similarity=0.174 Sum_probs=20.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.|+|+.|+|||||++.+...
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~~ 25 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQR 25 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhcc
Confidence 36899999999999999999876
No 232
>PRK05439 pantothenate kinase; Provisional
Probab=96.86 E-value=0.0022 Score=52.50 Aligned_cols=27 Identities=15% Similarity=0.035 Sum_probs=23.2
Q ss_pred CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 51 PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 51 ~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
....-+|+|.|.+|+||||+|+.+...
T Consensus 83 ~~~~~iIgIaG~~gsGKSTla~~L~~~ 109 (311)
T PRK05439 83 QKVPFIIGIAGSVAVGKSTTARLLQAL 109 (311)
T ss_pred CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 356789999999999999999988763
No 233
>PRK03846 adenylylsulfate kinase; Provisional
Probab=96.86 E-value=0.0012 Score=50.31 Aligned_cols=26 Identities=12% Similarity=-0.002 Sum_probs=23.1
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+..+|.|+|++|+||||||+.+...
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~~ 47 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEEA 47 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 35679999999999999999999875
No 234
>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=96.85 E-value=0.0025 Score=47.78 Aligned_cols=22 Identities=14% Similarity=0.007 Sum_probs=20.6
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|+.|+||||+++.+.+.
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~ 23 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAER 23 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999876
No 235
>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=96.85 E-value=0.00085 Score=50.05 Aligned_cols=23 Identities=13% Similarity=0.092 Sum_probs=21.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|.+.|++|+||||+|+.+...
T Consensus 3 ~~i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 3 RIIILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred CEEEEECCCCCCHHHHHHHHHHh
Confidence 47899999999999999999876
No 236
>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=96.85 E-value=0.002 Score=53.13 Aligned_cols=46 Identities=20% Similarity=0.231 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+..++.|.+++..+. -...+-++|+.|+||||+|+.+...
T Consensus 14 ~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~ 59 (355)
T TIGR02397 14 EDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKA 59 (355)
T ss_pred hhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999887543 3456789999999999999888655
No 237
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=96.85 E-value=0.0014 Score=49.29 Aligned_cols=25 Identities=16% Similarity=0.185 Sum_probs=22.3
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+++|+|..|+|||||++.+...
T Consensus 5 ~~~ii~ivG~sgsGKTTLi~~li~~ 29 (173)
T PRK10751 5 MIPLLAIAAWSGTGKTTLLKKLIPA 29 (173)
T ss_pred CceEEEEECCCCChHHHHHHHHHHH
Confidence 4679999999999999999998865
No 238
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.002 Score=53.38 Aligned_cols=48 Identities=23% Similarity=0.336 Sum_probs=38.0
Q ss_pred CCCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 30 SRDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++=|.++++++|.+.+.- +-...+=|-++|++|.|||-||++|+++
T Consensus 150 Y~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~ 208 (406)
T COG1222 150 YEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ 208 (406)
T ss_pred hhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc
Confidence 34566789999999887642 1134667789999999999999999998
No 239
>TIGR00962 atpA proton translocating ATP synthase, F1 alpha 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. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.
Probab=96.84 E-value=0.0042 Score=54.01 Aligned_cols=111 Identities=17% Similarity=0.090 Sum_probs=62.6
Q ss_pred EEEEEEcCCCCcHHHHH-HHHhcCcCccCcccc-eEEEEcCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFA-AEAYSSNYVKHYFDC-HAWVQEPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~-~~wv~vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-++|.|..|+|||+|| ..+.+. . .-+. ++++-+++..+ +.+++..+...=.-+....+....++....+..
T Consensus 162 Qr~~I~g~~g~GKt~Lal~~i~~~--~--~~dv~~V~~~IGer~rev~e~~~~~~~~~~l~~tvvV~atsd~p~~~r~~a 237 (501)
T TIGR00962 162 QRELIIGDRQTGKTAVAIDTIINQ--K--DSDVYCVYVAIGQKASTVAQVVRKLEEHGAMDYTIVVAATASDSASLQYLA 237 (501)
T ss_pred CEEEeecCCCCCccHHHHHHHHhh--c--CCCeEEEEEEccCChHHHHHHHHHHHhcCccceeEEEEecCCCCHHHHHHH
Confidence 46799999999999996 556665 2 3345 36777766544 444554443321101001111111211122222
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKERE 169 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~ 169 (176)
.+++ +++++|||+||+-.. .++.++ .+.|.+=+||++-|
T Consensus 238 ~~~a~aiAEyfrd~G~~VLlv~Ddltr~A~A~REisl~lgepP~~~gYP~~vf 290 (501)
T TIGR00962 238 PYTGCTMAEYFRDNGKHALIIYDDLSKHAVAYRQISLLLRRPPGREAYPGDVF 290 (501)
T ss_pred HHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHH
Confidence 2333 489999999999754 445543 46678888888644
No 240
>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=96.83 E-value=0.0015 Score=59.71 Aligned_cols=47 Identities=21% Similarity=0.325 Sum_probs=37.5
Q ss_pred CCeeeehHHHHHHHHHHhc----CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.+|.+.-++.+.+++.. ......++.++|+.|+|||++|+.+.+.
T Consensus 320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~ 370 (775)
T TIGR00763 320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA 370 (775)
T ss_pred hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 3588999988888886642 2223457899999999999999999987
No 241
>PRK06620 hypothetical protein; Validated
Probab=96.82 E-value=0.0032 Score=48.80 Aligned_cols=23 Identities=13% Similarity=-0.087 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+.+-|+|+.|+|||+|++.+++.
T Consensus 45 ~~l~l~Gp~G~GKThLl~a~~~~ 67 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTKIWQNL 67 (214)
T ss_pred ceEEEECCCCCCHHHHHHHHHhc
Confidence 56899999999999999998876
No 242
>PHA00729 NTP-binding motif containing protein
Probab=96.81 E-value=0.0022 Score=50.17 Aligned_cols=25 Identities=20% Similarity=0.296 Sum_probs=21.9
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...-|.|+|.+|+||||||..+.+.
T Consensus 16 ~f~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 16 GFVSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHH
Confidence 3457889999999999999999876
No 243
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.81 E-value=0.015 Score=51.04 Aligned_cols=46 Identities=17% Similarity=0.054 Sum_probs=37.6
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||-+.-.+.|...+..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 14 deiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~ 59 (535)
T PRK08451 14 DELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARA 59 (535)
T ss_pred HHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHH
Confidence 478999999999998887543 3456789999999999999987655
No 244
>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=96.81 E-value=0.0063 Score=49.55 Aligned_cols=62 Identities=16% Similarity=0.169 Sum_probs=43.0
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc----ccceEEEEcCCCCCHHHHHH
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY----FDCHAWVQEPYTCYADQILD 103 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~ll~ 103 (176)
.+..+|..+-..-.++-|+|.+|+|||+|+.+++-....... =...+||+....++...+..
T Consensus 83 ~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~ 148 (310)
T TIGR02236 83 ELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQ 148 (310)
T ss_pred HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHH
Confidence 344555544455678899999999999999998765222111 12689999888888776543
No 245
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=96.81 E-value=0.013 Score=50.14 Aligned_cols=25 Identities=20% Similarity=0.167 Sum_probs=22.5
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|.++|..|+||||+|..++..
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~ 118 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARY 118 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHH
Confidence 4789999999999999999998765
No 246
>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=96.81 E-value=0.0014 Score=48.35 Aligned_cols=36 Identities=11% Similarity=-0.159 Sum_probs=26.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ 91 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~ 91 (176)
..+|=++|.+|.||||||+.+... ....-....++.
T Consensus 2 g~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~LD 37 (156)
T PF01583_consen 2 GFVIWLTGLSGSGKTTLARALERR--LFARGIKVYLLD 37 (156)
T ss_dssp -EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEEE
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEec
Confidence 357889999999999999999987 444444455553
No 247
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=96.81 E-value=0.0052 Score=50.30 Aligned_cols=64 Identities=17% Similarity=0.135 Sum_probs=44.0
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcc----cceEEEEcCCCCCHHHHHHH
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYF----DCHAWVQEPYTCYADQILDI 104 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F----~~~~wv~vs~~~~~~~ll~~ 104 (176)
..+.++|..+-..-.++-|+|.+|+|||+|+.+++-.......+ ...+|++....++...+...
T Consensus 89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~ 156 (317)
T PRK04301 89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM 156 (317)
T ss_pred HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence 33445555444567788999999999999999987552221111 36889998888887665543
No 248
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=96.80 E-value=0.0018 Score=50.89 Aligned_cols=24 Identities=17% Similarity=0.102 Sum_probs=20.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.++||+|.+|+|||||++.+..-
T Consensus 33 Ge~lgivGeSGsGKSTL~r~l~Gl 56 (252)
T COG1124 33 GETLGIVGESGSGKSTLARLLAGL 56 (252)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhcc
Confidence 358999999999999999998653
No 249
>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=96.80 E-value=0.00091 Score=48.38 Aligned_cols=22 Identities=9% Similarity=0.187 Sum_probs=19.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++.++|+.|+||||+|+.+...
T Consensus 1 li~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHhh
Confidence 3678999999999999999876
No 250
>PRK13949 shikimate kinase; Provisional
Probab=96.80 E-value=0.0011 Score=49.54 Aligned_cols=22 Identities=14% Similarity=0.246 Sum_probs=20.3
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|.|+|+.|+||||+++.+.+.
T Consensus 3 ~I~liG~~GsGKstl~~~La~~ 24 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALARE 24 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4889999999999999999876
No 251
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.79 E-value=0.014 Score=52.05 Aligned_cols=46 Identities=17% Similarity=0.145 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-.+.|..++..+. -...+-++|+.|+||||+|+.+...
T Consensus 17 ~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~ 62 (614)
T PRK14971 17 ESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKT 62 (614)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHH
Confidence 478999999999999887643 3456789999999999999987664
No 252
>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=96.79 E-value=0.0022 Score=51.82 Aligned_cols=46 Identities=15% Similarity=0.226 Sum_probs=31.0
Q ss_pred CeeeehHHHHHHHHHHh---c-------C---CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLI---E-------G---PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~---~-------~---~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++|.++-+++|.++.. . + .....-+.++|++|+|||++|+.+...
T Consensus 23 ~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~ 81 (284)
T TIGR02880 23 ELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQI 81 (284)
T ss_pred hccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHH
Confidence 46888877777655432 1 0 111235789999999999999766553
No 253
>PRK12678 transcription termination factor Rho; Provisional
Probab=96.78 E-value=0.0014 Score=57.60 Aligned_cols=107 Identities=12% Similarity=0.088 Sum_probs=56.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCcc-CcccceEEEE-cCCCCC-HHHHHHHHHHHhCCCCCccccCCCCCCchhhhh-
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVK-HYFDCHAWVQ-EPYTCY-ADQILDIIITFLMPSSSRMVRADTDNEPSTNMG- 130 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~-vs~~~~-~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~- 130 (176)
.-..|+|..|+|||||++.+.+. +. .+-++.++|. |.+... +.++ ...+.+. .+....+.....+..
T Consensus 417 QR~LIvgpp~aGKTtLL~~IAn~--i~~n~~~~~~ivvLIgERpeEVtdm----~rsVkge---VVasT~D~p~~~~~~~ 487 (672)
T PRK12678 417 QRGLIVSPPKAGKTTILQNIANA--ITTNNPECHLMVVLVDERPEEVTDM----QRSVKGE---VIASTFDRPPSDHTTV 487 (672)
T ss_pred CEeEEeCCCCCCHHHHHHHHHHH--HhhcCCCeEEEEEEEeCchhhHHHH----HHhccce---EEEECCCCCHHHHHHH
Confidence 35689999999999999999986 32 2334444433 333322 3333 2333110 011011111111111
Q ss_pred -------hhhh--CCCceEEEecCCCCh-hhhHHHhc---------CCCCCCCCCCCcc
Q 043562 131 -------RPET--STSQRNIPTRDEYQP-EEYTDQRR---------IPSRYPFPKEREH 170 (176)
Q Consensus 131 -------~~~l--~~kr~LlVLDDV~~~-~~w~~i~~---------~~~~~~~~~~~~~ 170 (176)
.+++ .++.+||++|++-.. .++..+-. +|..-.||+++|-
T Consensus 488 a~~ai~~Ae~fre~G~dVlillDSlTR~ArAyrev~~~sGr~lSGG~d~~a~ypP~~F~ 546 (672)
T PRK12678 488 AELAIERAKRLVELGKDVVVLLDSITRLGRAYNLAAPASGRILSGGVDSTALYPPKRFF 546 (672)
T ss_pred HHHHHHHHHHHHHcCCCEEEEEeCchHHHHHHHHhhcCCCCccCCCCchhhccCccHHH
Confidence 3344 699999999998653 34444422 2334477777653
No 254
>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=96.77 E-value=0.0038 Score=54.67 Aligned_cols=49 Identities=18% Similarity=0.143 Sum_probs=40.4
Q ss_pred CCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 29 KSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 29 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
....++|....+.++.+.+..-...-..|-|+|..|+|||++|+.+++.
T Consensus 194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~ 242 (534)
T TIGR01817 194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYL 242 (534)
T ss_pred ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHh
Confidence 4468999999999998888753334456789999999999999999986
No 255
>CHL00060 atpB ATP synthase CF1 beta subunit
Probab=96.76 E-value=0.0053 Score=53.12 Aligned_cols=115 Identities=10% Similarity=0.090 Sum_probs=66.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccC-cccceEEEEcCCCCC-HHHHHHHHHHHhCC-CCC----c-cccCCCCCCc-
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKH-YFDCHAWVQEPYTCY-ADQILDIIITFLMP-SSS----R-MVRADTDNEP- 125 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~wv~vs~~~~-~~~ll~~il~~l~~-~~~----~-~~~~~~~~~~- 125 (176)
.-++|.|-.|+|||+|+..+..+ +.. +=+.++++-+++... ..+++..++..-.. ... . ..-....+..
T Consensus 162 QR~gIfgg~GvGKs~L~~~~~~~--~~~~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~ 239 (494)
T CHL00060 162 GKIGLFGGAGVGKTVLIMELINN--IAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPP 239 (494)
T ss_pred CEEeeecCCCCChhHHHHHHHHH--HHHhcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCCH
Confidence 46799999999999999987765 221 115677777766544 45556555441111 110 0 0100111222
Q ss_pred hhhhh--------hhhhC--C-CceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCccc
Q 043562 126 STNMG--------RPETS--T-SQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREHD 171 (176)
Q Consensus 126 ~~~~~--------~~~l~--~-kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~~ 171 (176)
..+.. .++++ + +++||++||+... .++.++ .+.|.+=+||++=|..
T Consensus 240 ~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~ 301 (494)
T CHL00060 240 GARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTE 301 (494)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHHHHHHHHHHHhcCCCCCCCCcCCCHHHH
Confidence 22211 56663 3 4999999999754 344443 3668888888865443
No 256
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=96.76 E-value=0.0012 Score=47.71 Aligned_cols=38 Identities=11% Similarity=0.119 Sum_probs=26.5
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCcc-CcccceEEEEcCC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVK-HYFDCHAWVQEPY 94 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~vs~ 94 (176)
.+|.|+|..|+|||||++.+.+. .. ..+...+......
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~--l~~~g~~v~~ik~~~~ 39 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINE--LKRRGYRVAVIKHTDH 39 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEEE-ST
T ss_pred CEEEEECCCCCCHHHHHHHHHHH--HhHcCCceEEEEEccC
Confidence 47999999999999999999887 33 3444444555444
No 257
>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=96.76 E-value=0.0031 Score=50.64 Aligned_cols=26 Identities=15% Similarity=0.171 Sum_probs=22.3
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.++|.++|++|+||||++..+...
T Consensus 70 ~~~~vi~l~G~~G~GKTTt~akLA~~ 95 (272)
T TIGR00064 70 NKPNVILFVGVNGVGKTTTIAKLANK 95 (272)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 34689999999999999998888765
No 258
>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=96.75 E-value=0.0053 Score=54.72 Aligned_cols=72 Identities=10% Similarity=0.053 Sum_probs=47.3
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc-ccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY-FDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~-F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
++++|.++-++.+...+.... -+.++|+.|+||||+|+.+.+. +... |...+++.-+.. +...+++.+...+
T Consensus 18 ~~viG~~~a~~~l~~a~~~~~----~~ll~G~pG~GKT~la~~la~~--l~~~~~~~~~~~~n~~~-~~~~~~~~v~~~~ 90 (608)
T TIGR00764 18 DQVIGQEEAVEIIKKAAKQKR----NVLLIGEPGVGKSMLAKAMAEL--LPDEELEDILVYPNPED-PNMPRIVEVPAGE 90 (608)
T ss_pred hhccCHHHHHHHHHHHHHcCC----CEEEECCCCCCHHHHHHHHHHH--cCchhheeEEEEeCCCC-CchHHHHHHHHhh
Confidence 578999988887777776532 4459999999999999999987 4443 344444433322 3334455555444
No 259
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=96.75 E-value=0.0018 Score=49.04 Aligned_cols=24 Identities=8% Similarity=0.138 Sum_probs=22.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.++.|.|++|+||+||++.++++
T Consensus 4 G~l~vlsgPSG~GKsTl~k~L~~~ 27 (191)
T COG0194 4 GLLIVLSGPSGVGKSTLVKALLED 27 (191)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 357899999999999999999998
No 260
>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=96.75 E-value=0.003 Score=44.92 Aligned_cols=46 Identities=11% Similarity=0.134 Sum_probs=34.2
Q ss_pred CeeeehHHHHHHHHHHhc-----CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLIE-----GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~~-----~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++|..--.+.+.+.|.+ .+.+.-|++..|..|+|||.+++.+.+.
T Consensus 26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ 76 (127)
T PF06309_consen 26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH 76 (127)
T ss_pred HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence 567766656666555543 3567789999999999999988877665
No 261
>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=96.74 E-value=0.0012 Score=47.65 Aligned_cols=21 Identities=14% Similarity=0.267 Sum_probs=19.4
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|+|++|.||||+|+.+...
T Consensus 2 i~l~G~~GsGKstla~~la~~ 22 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKA 22 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 689999999999999999876
No 262
>PRK13975 thymidylate kinase; Provisional
Probab=96.73 E-value=0.0013 Score=49.73 Aligned_cols=23 Identities=17% Similarity=-0.026 Sum_probs=21.5
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..|.|.|+.|+||||+|+.+.+.
T Consensus 3 ~~I~ieG~~GsGKtT~~~~L~~~ 25 (196)
T PRK13975 3 KFIVFEGIDGSGKTTQAKLLAEK 25 (196)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999999999987
No 263
>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=96.72 E-value=0.0015 Score=45.05 Aligned_cols=23 Identities=17% Similarity=0.442 Sum_probs=20.1
Q ss_pred EEEEcCCCCcHHHHHHHHhcCcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSSNY 79 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~~ 79 (176)
|.|+|..|+|||||.+.+.+...
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 68999999999999999987753
No 264
>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=96.71 E-value=0.001 Score=48.77 Aligned_cols=21 Identities=14% Similarity=0.234 Sum_probs=19.0
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|+|+.|+||||+|+.+...
T Consensus 1 i~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999998876
No 265
>PRK07196 fliI flagellum-specific ATP synthase; Validated
Probab=96.70 E-value=0.0065 Score=51.89 Aligned_cols=113 Identities=9% Similarity=-0.072 Sum_probs=57.4
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC-CCCHHHHHHHHHHHhCCCCCc--cccCCC---CCCchh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY-TCYADQILDIIITFLMPSSSR--MVRADT---DNEPST 127 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~-~~~~~~ll~~il~~l~~~~~~--~~~~~~---~~~~~~ 127 (176)
-..++|+|..|+|||||++.+..... .+..+...+.. .....++....+..-...... ..+... ......
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 GQRVGLMAGSGVGKSVLLGMITRYTQ----ADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKAT 230 (434)
T ss_pred ceEEEEECCCCCCccHHHHHHhcccC----CCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHHH
Confidence 46789999999999999999887621 12222222322 222333333332221110000 001000 001111
Q ss_pred -h--hhhhh--hCCCceEEEecCCCCh-hhhHHH----hcCCCCCCCCCCCcc
Q 043562 128 -N--MGRPE--TSTSQRNIPTRDEYQP-EEYTDQ----RRIPSRYPFPKEREH 170 (176)
Q Consensus 128 -~--~~~~~--l~~kr~LlVLDDV~~~-~~w~~i----~~~~~~~~~~~~~~~ 170 (176)
. ...++ -.++++||++||+... .++.++ .+.|.+=+||++=|.
T Consensus 231 e~a~~iAEyfr~~g~~Vll~~Dsltr~a~A~REisl~~ge~P~~~Gyp~svf~ 283 (434)
T PRK07196 231 ELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIALSLGEPPATKGYPPSAFS 283 (434)
T ss_pred HHHHHHHHHhhhccCCEEEeecchhHHHhhhhHHHHhcCCCCcccCcCHHHHH
Confidence 1 11222 3589999999999753 334333 356777788876443
No 266
>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=96.69 E-value=0.00097 Score=45.85 Aligned_cols=21 Identities=24% Similarity=0.336 Sum_probs=18.6
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|-|+|.+|+|||+||+.+...
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~ 21 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKD 21 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 458999999999999998776
No 267
>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=96.68 E-value=0.0032 Score=50.09 Aligned_cols=39 Identities=18% Similarity=0.194 Sum_probs=28.0
Q ss_pred HHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 39 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 39 ~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...++...+.....+..+|+|.|++|.|||||.-.+...
T Consensus 14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~ 52 (266)
T PF03308_consen 14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRE 52 (266)
T ss_dssp HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHH
Confidence 345566666555556789999999999999998877554
No 268
>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]
Probab=96.68 E-value=0.0036 Score=52.25 Aligned_cols=111 Identities=9% Similarity=0.094 Sum_probs=68.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccc-eEEEEcCCCC-CHHHHHHHHHHHhCCCCCccccCCCCCCchhh----
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDC-HAWVQEPYTC-YADQILDIIITFLMPSSSRMVRADTDNEPSTN---- 128 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~vs~~~-~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~---- 128 (176)
.-|++.|-.|+|||-|.+.+-++ +...... .+|.-++... .-.++...+.+.-....-.-+-+.+..-.-.+
T Consensus 148 gKiGLFGGAGVGKTVl~~ELI~N--ia~~h~g~SVFaGvGERtREGndLy~Em~es~vl~ktalv~gQMNEpPGaR~RVa 225 (468)
T COG0055 148 GKIGLFGGAGVGKTVLIQELINN--IAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRVA 225 (468)
T ss_pred ceeeeeccCCccceeeHHHHHHH--HHHHcCCeEEEEeccccccchHHHHHHHHhcCCCCceeEEEeecCCCCcceeeeh
Confidence 56899999999999999999888 6554444 6788776543 34567777655422111000000000000001
Q ss_pred ---h-hhhhhC---CCceEEEecCCCCh-----hhhHHHhcCCCCCCCCCC
Q 043562 129 ---M-GRPETS---TSQRNIPTRDEYQP-----EEYTDQRRIPSRYPFPKE 167 (176)
Q Consensus 129 ---~-~~~~l~---~kr~LlVLDDV~~~-----~~w~~i~~~~~~~~~~~~ 167 (176)
+ ..++++ ++.+|+.+||+... |.-..+-++|+-.+|++.
T Consensus 226 ltGlT~AEyfRD~~gqdVLlFIDNIfRftQAGsEVSalLGr~PSavGYQpT 276 (468)
T COG0055 226 LTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPT 276 (468)
T ss_pred hhhhhHHHHhhcccCCeEEEEehhhhHHhhcchHHHHHhccCccccccCch
Confidence 1 144444 77999999999753 444566789999999885
No 269
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=96.68 E-value=0.0021 Score=49.89 Aligned_cols=25 Identities=16% Similarity=0.116 Sum_probs=22.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
-.|++|+|++|+|||||.+.+..-.
T Consensus 28 Gevv~iiGpSGSGKSTlLRclN~LE 52 (240)
T COG1126 28 GEVVVIIGPSGSGKSTLLRCLNGLE 52 (240)
T ss_pred CCEEEEECCCCCCHHHHHHHHHCCc
Confidence 4589999999999999999987754
No 270
>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=96.67 E-value=0.0076 Score=48.03 Aligned_cols=54 Identities=15% Similarity=0.140 Sum_probs=33.2
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHH
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQIL 102 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll 102 (176)
++.+..++..+ ..+-+.|+.|+|||+||+.+... ... ....++........+++
T Consensus 11 ~~~~l~~l~~g----~~vLL~G~~GtGKT~lA~~la~~--lg~---~~~~i~~~~~~~~~dll 64 (262)
T TIGR02640 11 TSRALRYLKSG----YPVHLRGPAGTGKTTLAMHVARK--RDR---PVMLINGDAELTTSDLV 64 (262)
T ss_pred HHHHHHHHhcC----CeEEEEcCCCCCHHHHHHHHHHH--hCC---CEEEEeCCccCCHHHHh
Confidence 44444444432 34568999999999999999874 222 23455555554544443
No 271
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=96.67 E-value=0.0025 Score=56.58 Aligned_cols=46 Identities=20% Similarity=0.240 Sum_probs=38.8
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|.+++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 24 ~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~ 69 (598)
T PRK09111 24 DDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARA 69 (598)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHh
Confidence 479999999999999887543 3446789999999999999998876
No 272
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=96.66 E-value=0.0033 Score=53.17 Aligned_cols=53 Identities=13% Similarity=0.061 Sum_probs=36.0
Q ss_pred CCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 51 PPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 51 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
+.....+-|||..|.|||.|++++.+. ...+......+.++ .+.....++..+
T Consensus 110 g~~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~~----se~f~~~~v~a~ 162 (408)
T COG0593 110 GGAYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYLT----SEDFTNDFVKAL 162 (408)
T ss_pred CCcCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEecc----HHHHHHHHHHHH
Confidence 335789999999999999999999998 55555543344432 234444444444
No 273
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=96.66 E-value=0.0067 Score=49.52 Aligned_cols=97 Identities=10% Similarity=0.040 Sum_probs=53.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPE 133 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~ 133 (176)
...+.|+|..|.|||||++.+... +.... ..+.+.-........ .... .+.... ... .........+....
T Consensus 144 ~~~ili~G~tGsGKTTll~al~~~--~~~~~-~iv~ied~~El~~~~--~~~~-~l~~~~--~~~-~~~~~~~~~~l~~~ 214 (308)
T TIGR02788 144 RKNIIISGGTGSGKTTFLKSLVDE--IPKDE-RIITIEDTREIFLPH--PNYV-HLFYSK--GGQ-GLAKVTPKDLLQSC 214 (308)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcc--CCccc-cEEEEcCccccCCCC--CCEE-EEEecC--CCC-CcCccCHHHHHHHH
Confidence 468999999999999999998876 33222 222222111111100 0000 000000 000 11123345555777
Q ss_pred hCCCceEEEecCCCChhhhHHHhcCC
Q 043562 134 TSTSQRNIPTRDEYQPEEYTDQRRIP 159 (176)
Q Consensus 134 l~~kr~LlVLDDV~~~~~w~~i~~~~ 159 (176)
|+...=.|++|.+.+.+.|+.+....
T Consensus 215 Lr~~pd~ii~gE~r~~e~~~~l~a~~ 240 (308)
T TIGR02788 215 LRMRPDRIILGELRGDEAFDFIRAVN 240 (308)
T ss_pred hcCCCCeEEEeccCCHHHHHHHHHHh
Confidence 88888889999999988887666543
No 274
>COG3899 Predicted ATPase [General function prediction only]
Probab=96.66 E-value=0.0027 Score=58.62 Aligned_cols=46 Identities=17% Similarity=0.267 Sum_probs=39.8
Q ss_pred CeeeehHHHHHHHHHHhc-CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 32 DMVGLDDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~~-~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||+.+.+.|...+.. ....-.++.+.|..|||||+|++.|...
T Consensus 1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~ 47 (849)
T COG3899 1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKP 47 (849)
T ss_pred CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHH
Confidence 378999999999988875 3445669999999999999999999987
No 275
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=96.66 E-value=0.0092 Score=48.50 Aligned_cols=72 Identities=13% Similarity=0.153 Sum_probs=46.5
Q ss_pred hHHHHHHHHHHhcCC-CCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc----ccc---eEEEEcCCCCCHHHHHHHHHHH
Q 043562 37 DDRMEELLDLLIEGP-PQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY----FDC---HAWVQEPYTCYADQILDIIITF 108 (176)
Q Consensus 37 ~~~~~~l~~~L~~~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~---~~wv~vs~~~~~~~ll~~il~~ 108 (176)
+.-.+.|.+.|.+.+ ....+|+|.|.=|+||||+.+.+.+. .+.. +.. -+|..-....-...++..|..+
T Consensus 2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~--L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~ 79 (325)
T PF07693_consen 2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEE--LKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQ 79 (325)
T ss_pred hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHH--HhcccccceeeEEEccccCCCcchHHHHHHHHHHHH
Confidence 345667888887643 67889999999999999999999887 3333 111 2333333232344555555555
Q ss_pred hC
Q 043562 109 LM 110 (176)
Q Consensus 109 l~ 110 (176)
+.
T Consensus 80 l~ 81 (325)
T PF07693_consen 80 LE 81 (325)
T ss_pred HH
Confidence 54
No 276
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=96.65 E-value=0.0013 Score=49.51 Aligned_cols=22 Identities=23% Similarity=0.303 Sum_probs=20.2
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|.|.|.+|.||||+|+.+.+.
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3679999999999999999987
No 277
>PRK06793 fliI flagellum-specific ATP synthase; Validated
Probab=96.65 E-value=0.014 Score=49.84 Aligned_cols=93 Identities=9% Similarity=-0.082 Sum_probs=49.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhh---
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMG--- 130 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~--- 130 (176)
-..++|+|..|+|||||+..++.. .+.. ...+.+.-.+.....+++...+..-.-.....+....+.-...+..
T Consensus 156 Gqri~I~G~sG~GKTtLl~~Ia~~--~~~~-~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~ 232 (432)
T PRK06793 156 GQKIGIFAGSGVGKSTLLGMIAKN--AKAD-INVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAK 232 (432)
T ss_pred CcEEEEECCCCCChHHHHHHHhcc--CCCC-eEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHH
Confidence 347799999999999999999887 3221 1222222223355556655544432111101111111111111111
Q ss_pred -----hhhh--CCCceEEEecCCCCh
Q 043562 131 -----RPET--STSQRNIPTRDEYQP 149 (176)
Q Consensus 131 -----~~~l--~~kr~LlVLDDV~~~ 149 (176)
.+++ +++.+||++||+-..
T Consensus 233 ~a~~iAEyfr~~G~~VLlilDslTr~ 258 (432)
T PRK06793 233 LATSIAEYFRDQGNNVLLMMDSVTRF 258 (432)
T ss_pred HHHHHHHHHHHcCCcEEEEecchHHH
Confidence 2232 489999999999753
No 278
>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=96.65 E-value=0.0037 Score=51.80 Aligned_cols=47 Identities=15% Similarity=0.304 Sum_probs=41.3
Q ss_pred CCeeeehHHHHHHHHHHhc----CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|+++.++++++.+.. .+..-+++-+.|+-|.||||||..+-+-
T Consensus 61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~ 111 (358)
T PF08298_consen 61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG 111 (358)
T ss_pred ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH
Confidence 4799999999999998875 3456789999999999999999998775
No 279
>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=96.64 E-value=0.031 Score=46.57 Aligned_cols=109 Identities=15% Similarity=0.158 Sum_probs=61.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCC-----c-cccCCCCCCc-h
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSS-----R-MVRADTDNEP-S 126 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~-----~-~~~~~~~~~~-~ 126 (176)
..++|.|..|+|||+|+.++.+.. +-+.++++-+++..+ +.+++.++-+.-....+ . .+-....++. .
T Consensus 158 qr~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~ 233 (369)
T cd01134 158 GTAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVA 233 (369)
T ss_pred CEEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCHH
Confidence 478999999999999999999872 234677777765443 45555554321110000 0 0111222233 2
Q ss_pred hhhh--------hhhh--CCCceEEEecCCCC-hhhhHHH----hcCCCCCCCCCC
Q 043562 127 TNMG--------RPET--STSQRNIPTRDEYQ-PEEYTDQ----RRIPSRYPFPKE 167 (176)
Q Consensus 127 ~~~~--------~~~l--~~kr~LlVLDDV~~-~~~w~~i----~~~~~~~~~~~~ 167 (176)
.+.. .+++ .++.+|+++|++-. .++..++ ...|.+=+||+.
T Consensus 234 ~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~REIs~~l~E~P~~~GYP~y 289 (369)
T cd01134 234 AREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALREISGRLEEMPGEEGYPAY 289 (369)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhcCCCCCccCcCcc
Confidence 2211 3444 58999999999843 2333333 355666677764
No 280
>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=96.63 E-value=0.0019 Score=46.17 Aligned_cols=28 Identities=25% Similarity=0.218 Sum_probs=19.6
Q ss_pred EEEEcCCCCcHHHHHHHHhcCcCccCcccc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSNYVKHYFDC 86 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~ 86 (176)
|-|+|..|+||||+|+.+... +...|..
T Consensus 2 vLleg~PG~GKT~la~~lA~~--~~~~f~R 29 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARS--LGLSFKR 29 (131)
T ss_dssp EEEES---HHHHHHHHHHHHH--TT--EEE
T ss_pred EeeECCCccHHHHHHHHHHHH--cCCceeE
Confidence 578999999999999999988 6666754
No 281
>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=96.63 E-value=0.0058 Score=55.57 Aligned_cols=47 Identities=23% Similarity=0.280 Sum_probs=36.2
Q ss_pred CCeeeehHHHHHHHHHHhc-----------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE-----------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~-----------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.|.+..+++|.+.+.- +-...+-+.++|+.|+|||+||+++++.
T Consensus 453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh
Confidence 4678888888888776641 1123455788999999999999999987
No 282
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=96.63 E-value=0.0027 Score=58.10 Aligned_cols=47 Identities=17% Similarity=0.280 Sum_probs=39.0
Q ss_pred CCeeeehHHHHHHHHHHhc----CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.+|.+.-++.+.++|.. ....-.++.++|++|+||||+|+.+...
T Consensus 322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~ 372 (784)
T PRK10787 322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKA 372 (784)
T ss_pred hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHH
Confidence 5689999999999988863 2234457999999999999999999976
No 283
>PRK13948 shikimate kinase; Provisional
Probab=96.63 E-value=0.0019 Score=48.89 Aligned_cols=25 Identities=16% Similarity=0.185 Sum_probs=22.4
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.|.++||.|+||||+++.+.+.
T Consensus 9 ~~~~I~LiG~~GsGKSTvg~~La~~ 33 (182)
T PRK13948 9 PVTWVALAGFMGTGKSRIGWELSRA 33 (182)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHH
Confidence 4568899999999999999999876
No 284
>PRK14737 gmk guanylate kinase; Provisional
Probab=96.62 E-value=0.0023 Score=48.51 Aligned_cols=25 Identities=12% Similarity=0.052 Sum_probs=22.6
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|.|+|++|+|||||++.+...
T Consensus 3 ~~~~ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 3 SPKLFIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHhc
Confidence 4578999999999999999999876
No 285
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.62 E-value=0.0087 Score=52.14 Aligned_cols=35 Identities=29% Similarity=0.226 Sum_probs=26.8
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEE
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWV 90 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv 90 (176)
..+..+.+.|++|+|||+||.++... ..|+-+--+
T Consensus 536 s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKii 570 (744)
T KOG0741|consen 536 SPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKII 570 (744)
T ss_pred CcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEe
Confidence 44566778899999999999999865 567754333
No 286
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.62 E-value=0.0029 Score=56.48 Aligned_cols=47 Identities=13% Similarity=0.096 Sum_probs=39.6
Q ss_pred CCeeeehHHHHHHHHHHhcC---CCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEG---PPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~---~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+..+++|..++... ....+++.|+|+.|+||||+++.+...
T Consensus 84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999998752 223467999999999999999999876
No 287
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=96.61 E-value=0.0043 Score=51.64 Aligned_cols=50 Identities=18% Similarity=0.197 Sum_probs=40.6
Q ss_pred CCCCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 27 SSKSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 27 ~~~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
......++|.+.-...|...+..+. -...+-|+|+.|+||||||..+.+.
T Consensus 19 P~~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~ 68 (351)
T PRK09112 19 PSENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANH 68 (351)
T ss_pred CCchhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHH
Confidence 3445679999999999998887543 3456889999999999999988776
No 288
>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=96.60 E-value=0.0022 Score=44.35 Aligned_cols=22 Identities=32% Similarity=0.321 Sum_probs=19.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAY 75 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~ 75 (176)
-..++|.|++|.|||||++.+.
T Consensus 15 ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCCCCCHHHHHHHhh
Confidence 4678999999999999999976
No 289
>PRK04182 cytidylate kinase; Provisional
Probab=96.60 E-value=0.0017 Score=48.01 Aligned_cols=22 Identities=27% Similarity=0.176 Sum_probs=20.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|.|.|+.|+||||+|+.+.+.
T Consensus 2 ~I~i~G~~GsGKstia~~la~~ 23 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEK 23 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999876
No 290
>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=96.60 E-value=0.012 Score=48.86 Aligned_cols=92 Identities=13% Similarity=-0.009 Sum_probs=54.1
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPE 133 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~ 133 (176)
...|.|+|+.|.||||+++.+.+. +......+++. +.++... ..... ..+... ... ...........+..
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~--i~~~~~~~i~t-iEdp~E~--~~~~~-~~~i~q--~ev--g~~~~~~~~~l~~~ 191 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDY--INKNAAGHIIT-IEDPIEY--VHRNK-RSLINQ--REV--GLDTLSFANALRAA 191 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccCc-cceEEc--ccc--CCCCcCHHHHHHHh
Confidence 468999999999999999998876 54444455443 2222111 00000 000000 000 11122344556778
Q ss_pred hCCCceEEEecCCCChhhhHHH
Q 043562 134 TSTSQRNIPTRDEYQPEEYTDQ 155 (176)
Q Consensus 134 l~~kr~LlVLDDV~~~~~w~~i 155 (176)
|+...=.|++|.+.+.+.+...
T Consensus 192 lr~~pd~i~vgEird~~~~~~~ 213 (343)
T TIGR01420 192 LREDPDVILIGEMRDLETVELA 213 (343)
T ss_pred hccCCCEEEEeCCCCHHHHHHH
Confidence 8888899999999998877653
No 291
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=96.59 E-value=0.0062 Score=54.48 Aligned_cols=72 Identities=11% Similarity=0.087 Sum_probs=52.4
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCcc-CcccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVK-HYFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
++++|.++-++.|...+... +.+.++|..|+||||+|+.+.+. +. .+|+..+|+.-+.. +...+++.+...+
T Consensus 31 ~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~--l~~~~~~~~~~~~np~~-~~~~~~~~v~~~~ 103 (637)
T PRK13765 31 DQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAEL--LPKEELQDILVYPNPED-PNNPKIRTVPAGK 103 (637)
T ss_pred HHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHH--cChHhHHHheEeeCCCc-chHHHHHHHHHhc
Confidence 46889988888888777653 36889999999999999999876 33 34577788765333 5555666665444
No 292
>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=96.59 E-value=0.0082 Score=47.07 Aligned_cols=61 Identities=15% Similarity=0.144 Sum_probs=40.7
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHH
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDII 105 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~i 105 (176)
..|-++|..+=+.-.++.|.|.+|+|||+||.++.... . ..-+.++|++... ++.++.+.+
T Consensus 8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~-~-~~ge~~lyvs~ee--~~~~i~~~~ 68 (237)
T TIGR03877 8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGIYVALEE--HPVQVRRNM 68 (237)
T ss_pred HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCcEEEEEeeC--CHHHHHHHH
Confidence 34555665555567899999999999999999864431 2 2345677887644 444555543
No 293
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.59 E-value=0.0031 Score=56.18 Aligned_cols=46 Identities=13% Similarity=0.019 Sum_probs=37.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++||.+.-+..|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk~ 61 (620)
T PRK14954 16 ADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAKA 61 (620)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHH
Confidence 478999998899988887542 3345889999999999999988765
No 294
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=96.59 E-value=0.002 Score=48.13 Aligned_cols=24 Identities=8% Similarity=0.228 Sum_probs=21.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...|.|+|+.|.||||||+.+.+.
T Consensus 4 ~~~I~liG~~GaGKStl~~~La~~ 27 (172)
T PRK05057 4 KRNIFLVGPMGAGKSTIGRQLAQQ 27 (172)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHH
Confidence 346899999999999999999876
No 295
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=96.58 E-value=0.011 Score=48.63 Aligned_cols=94 Identities=9% Similarity=-0.052 Sum_probs=54.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPE 133 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~ 133 (176)
..-+.|+|..|.|||||++.+... +...++..--+++....... +......... .........+.+..
T Consensus 148 ~~~ilI~G~tGSGKTTll~aL~~~--~~~~~~~~rivtIEd~~El~---------~~~~~~v~~~-~~~~~~~~~ll~~a 215 (319)
T PRK13894 148 HRNILVIGGTGSGKTTLVNAIINE--MVIQDPTERVFIIEDTGEIQ---------CAAENYVQYH-TSIDVNMTALLKTT 215 (319)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHh--hhhcCCCceEEEEcCCCccc---------cCCCCEEEEe-cCCCCCHHHHHHHH
Confidence 456889999999999999998865 21111111122332222110 0000000000 01123456667888
Q ss_pred hCCCceEEEecCCCChhhhHHHhcCC
Q 043562 134 TSTSQRNIPTRDEYQPEEYTDQRRIP 159 (176)
Q Consensus 134 l~~kr~LlVLDDV~~~~~w~~i~~~~ 159 (176)
|+.+.=-||+..|.+.+.|+-+....
T Consensus 216 LR~~PD~IivGEiR~~Ea~~~l~A~~ 241 (319)
T PRK13894 216 LRMRPDRILVGEVRGPEALDLLMAWN 241 (319)
T ss_pred hcCCCCEEEEeccCCHHHHHHHHHHH
Confidence 88888899999999999988765443
No 296
>PRK09087 hypothetical protein; Validated
Probab=96.58 E-value=0.0056 Score=47.83 Aligned_cols=25 Identities=20% Similarity=0.189 Sum_probs=21.9
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.+.|+|+.|+|||+|++.+++.
T Consensus 43 ~~~~l~l~G~~GsGKThLl~~~~~~ 67 (226)
T PRK09087 43 PSPVVVLAGPVGSGKTHLASIWREK 67 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHh
Confidence 3456899999999999999998876
No 297
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=96.58 E-value=0.0021 Score=49.18 Aligned_cols=24 Identities=17% Similarity=0.023 Sum_probs=22.1
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|.|.|.+|+||||+|+.+...
T Consensus 3 ~~~i~i~G~~G~GKst~a~~l~~~ 26 (197)
T PRK12339 3 STIHFIGGIPGVGKTSISGYIARH 26 (197)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHh
Confidence 468999999999999999999887
No 298
>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=96.58 E-value=0.0038 Score=46.30 Aligned_cols=36 Identities=22% Similarity=0.375 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 38 DRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 38 ~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
+.+++|.++|.+ +++.++|.+|+|||||...+....
T Consensus 24 ~g~~~l~~~l~~-----k~~vl~G~SGvGKSSLiN~L~~~~ 59 (161)
T PF03193_consen 24 EGIEELKELLKG-----KTSVLLGQSGVGKSSLINALLPEA 59 (161)
T ss_dssp TTHHHHHHHHTT-----SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred cCHHHHHHHhcC-----CEEEEECCCCCCHHHHHHHHHhhc
Confidence 446677777763 588999999999999999998873
No 299
>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=96.58 E-value=0.0025 Score=46.02 Aligned_cols=23 Identities=17% Similarity=0.287 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCc
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
-|+++|.+|+|||||+..+.+..
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~~ 24 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYDE 24 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCC
Confidence 47899999999999999998653
No 300
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.58 E-value=0.0047 Score=52.25 Aligned_cols=25 Identities=16% Similarity=0.301 Sum_probs=22.0
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+.++|+++|++|+||||++..+...
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~~ 264 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAWQ 264 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHHH
Confidence 4579999999999999999998754
No 301
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.58 E-value=0.0033 Score=48.04 Aligned_cols=52 Identities=19% Similarity=0.097 Sum_probs=29.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcC-----ccCcccceEEEEcCCCCCHHHHHHHHHH
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNY-----VKHYFDCHAWVQEPYTCYADQILDIIIT 107 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~-----~~~~F~~~~wv~vs~~~~~~~ll~~il~ 107 (176)
+..|+|++|.||||++..+..... ....-...+-++...+..+..++..+..
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 788999999999987766655520 1123344555554555455666666555
No 302
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=96.58 E-value=0.019 Score=45.88 Aligned_cols=98 Identities=15% Similarity=0.040 Sum_probs=54.1
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccC
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRA 119 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~ 119 (176)
.+.+..++.. ...+|.|.|..|.||||++..+.+. +...-...+.+.-+..+.... + .++ ...
T Consensus 69 ~~~l~~~~~~---~~GlilisG~tGSGKTT~l~all~~--i~~~~~~iitiEdp~E~~~~~----~-~q~------~v~- 131 (264)
T cd01129 69 LEIFRKLLEK---PHGIILVTGPTGSGKTTTLYSALSE--LNTPEKNIITVEDPVEYQIPG----I-NQV------QVN- 131 (264)
T ss_pred HHHHHHHHhc---CCCEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEEEECCCceecCCC----c-eEE------EeC-
Confidence 3344444432 2458999999999999999988665 322111222332222211110 0 000 011
Q ss_pred CCCCCchhhhhhhhhCCCceEEEecCCCChhhhHH
Q 043562 120 DTDNEPSTNMGRPETSTSQRNIPTRDEYQPEEYTD 154 (176)
Q Consensus 120 ~~~~~~~~~~~~~~l~~kr~LlVLDDV~~~~~w~~ 154 (176)
...........+..++...=.|+++.+.+.+....
T Consensus 132 ~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~ 166 (264)
T cd01129 132 EKAGLTFARGLRAILRQDPDIIMVGEIRDAETAEI 166 (264)
T ss_pred CcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHHH
Confidence 01112345556778888888999999999876543
No 303
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.58 E-value=0.01 Score=49.76 Aligned_cols=24 Identities=17% Similarity=0.232 Sum_probs=21.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.++.++|+.|+||||++.++...
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~ 160 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAAR 160 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 469999999999999999999876
No 304
>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=96.57 E-value=0.0056 Score=46.12 Aligned_cols=23 Identities=22% Similarity=-0.022 Sum_probs=21.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..|+|.|..|+||||+++.+.+.
T Consensus 4 ~~IvieG~~GsGKsT~~~~L~~~ 26 (195)
T TIGR00041 4 MFIVIEGIDGAGKTTQANLLKKL 26 (195)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 57999999999999999999876
No 305
>PLN02348 phosphoribulokinase
Probab=96.57 E-value=0.0035 Score=52.75 Aligned_cols=28 Identities=14% Similarity=0.152 Sum_probs=24.2
Q ss_pred CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 50 GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 50 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+...+|+|.|.+|+||||||+.+.+.
T Consensus 45 ~~~~p~IIGIaG~SGSGKSTfA~~L~~~ 72 (395)
T PLN02348 45 ADDGTVVIGLAADSGCGKSTFMRRLTSV 72 (395)
T ss_pred cCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 3346789999999999999999998875
No 306
>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=96.57 E-value=0.0021 Score=45.55 Aligned_cols=23 Identities=17% Similarity=0.177 Sum_probs=21.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|+|||||.+.++..
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 47899999999999999999876
No 307
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=96.57 E-value=0.0019 Score=49.35 Aligned_cols=24 Identities=17% Similarity=0.256 Sum_probs=21.5
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
.-|.|+|++|+|||||+..+..+.
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~ 29 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDE 29 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCc
Confidence 568999999999999999998774
No 308
>PRK13946 shikimate kinase; Provisional
Probab=96.56 E-value=0.0019 Score=48.68 Aligned_cols=24 Identities=13% Similarity=0.206 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.|.++|+.|+||||+++.+.+.
T Consensus 10 ~~~I~l~G~~GsGKsti~~~LA~~ 33 (184)
T PRK13946 10 KRTVVLVGLMGAGKSTVGRRLATM 33 (184)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 357999999999999999999887
No 309
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=96.56 E-value=0.0055 Score=50.45 Aligned_cols=47 Identities=19% Similarity=0.226 Sum_probs=38.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|....+.++.+.+..-...-..|-|+|..|+||+++|+.++..
T Consensus 6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~ 52 (326)
T PRK11608 6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL 52 (326)
T ss_pred CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence 46899999999998888763334457889999999999999999865
No 310
>PRK10867 signal recognition particle protein; Provisional
Probab=96.55 E-value=0.015 Score=49.82 Aligned_cols=25 Identities=16% Similarity=0.142 Sum_probs=20.6
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|.++|..|+||||.+..++..
T Consensus 99 ~p~vI~~vG~~GsGKTTtaakLA~~ 123 (433)
T PRK10867 99 PPTVIMMVGLQGAGKTTTAGKLAKY 123 (433)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHH
Confidence 4689999999999999977766543
No 311
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=96.55 E-value=0.0021 Score=50.64 Aligned_cols=24 Identities=21% Similarity=0.105 Sum_probs=21.0
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
--.++|+|++|+|||||.+.+..-
T Consensus 29 GEfvsilGpSGcGKSTLLriiAGL 52 (248)
T COG1116 29 GEFVAILGPSGCGKSTLLRLIAGL 52 (248)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 348999999999999999998764
No 312
>PRK14530 adenylate kinase; Provisional
Probab=96.55 E-value=0.0019 Score=49.79 Aligned_cols=22 Identities=14% Similarity=0.188 Sum_probs=20.0
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|.|+|++|+||||+|+.+...
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~ 26 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEE 26 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5889999999999999999765
No 313
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.55 E-value=0.0042 Score=49.69 Aligned_cols=51 Identities=18% Similarity=0.238 Sum_probs=39.7
Q ss_pred CCCCeeeehHHHHH---HHHHHhc----CCCCcEEEEEEcCCCCcHHHHHHHHhcCcC
Q 043562 29 KSRDMVGLDDRMEE---LLDLLIE----GPPQLSAVTILDSIGLDKTAFAAEAYSSNY 79 (176)
Q Consensus 29 ~~~~~vG~~~~~~~---l~~~L~~----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~ 79 (176)
.-+++||.++.+.+ |++.|.+ +++..+-|..+|++|.|||.+|+++.+...
T Consensus 119 t~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~k 176 (368)
T COG1223 119 TLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAK 176 (368)
T ss_pred cHhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccC
Confidence 34578998776554 4556654 457788899999999999999999999843
No 314
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=96.54 E-value=0.002 Score=51.73 Aligned_cols=32 Identities=16% Similarity=0.156 Sum_probs=26.0
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcCcCccCccc
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFD 85 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~ 85 (176)
.+...|-++||.|.||||+.+.++.+ +...+.
T Consensus 17 ~~p~~ilVvGMAGSGKTTF~QrL~~h--l~~~~~ 48 (366)
T KOG1532|consen 17 QRPVIILVVGMAGSGKTTFMQRLNSH--LHAKKT 48 (366)
T ss_pred cCCcEEEEEecCCCCchhHHHHHHHH--HhhccC
Confidence 45668888999999999999999988 555554
No 315
>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=96.54 E-value=0.0018 Score=51.65 Aligned_cols=23 Identities=13% Similarity=0.235 Sum_probs=19.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+.|+|.|-||+||||++..+..-
T Consensus 1 ~~ia~~gKGGVGKTT~a~nLA~~ 23 (275)
T TIGR01287 1 RQIAIYGKGGIGKSTTTQNIAAA 23 (275)
T ss_pred CeeEEeCCCcCcHHHHHHHHHHH
Confidence 46899999999999988776543
No 316
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.53 E-value=0.0066 Score=51.65 Aligned_cols=24 Identities=21% Similarity=0.149 Sum_probs=21.4
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++.++|++|+||||++.++...
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~ 246 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAK 246 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHH
Confidence 568999999999999999998764
No 317
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=96.53 E-value=0.003 Score=46.33 Aligned_cols=24 Identities=21% Similarity=0.095 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...|+|+|..|+|||||.+.+.+.
T Consensus 14 ~~~v~i~G~~g~GKStLl~~l~~~ 37 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLASE 37 (173)
T ss_pred ccEEEEEccCCCCHHHHHHHHhcC
Confidence 456899999999999999999886
No 318
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=96.53 E-value=0.0017 Score=48.13 Aligned_cols=23 Identities=30% Similarity=0.190 Sum_probs=21.3
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCc
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
+|+|-|++|+||||+|+.+.++.
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~ 24 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHL 24 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHh
Confidence 68999999999999999999873
No 319
>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=96.53 E-value=0.0052 Score=50.61 Aligned_cols=58 Identities=17% Similarity=0.063 Sum_probs=40.3
Q ss_pred HHHHHHHHHh-cCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCH
Q 043562 39 RMEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYA 98 (176)
Q Consensus 39 ~~~~l~~~L~-~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~ 98 (176)
-...|-.+|. .+=+.-+++-|+|++|+||||||.+++-. ....-..++|++....++.
T Consensus 39 Gi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~ 97 (325)
T cd00983 39 GSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDP 97 (325)
T ss_pred CCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHH
Confidence 3445666666 44455678899999999999999998765 3333445778876555554
No 320
>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=96.52 E-value=0.0018 Score=47.15 Aligned_cols=22 Identities=14% Similarity=0.101 Sum_probs=19.8
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|.|+|.+|+||||||+.+...
T Consensus 1 ~i~i~G~~GsGKSTla~~L~~~ 22 (149)
T cd02027 1 VIWLTGLSGSGKSTIARALEEK 22 (149)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH
Confidence 4789999999999999998775
No 321
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=96.52 E-value=0.007 Score=48.18 Aligned_cols=103 Identities=13% Similarity=0.112 Sum_probs=59.0
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccce-EEEEcCCCCCHHHHHHHHHHHhCCCCCcccc
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCH-AWVQEPYTCYADQILDIIITFLMPSSSRMVR 118 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~-~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~ 118 (176)
.+.+.++|...-...+.|.|.|..|.||||++..+... +... ..+ +-+.-+..+.. .........
T Consensus 113 ~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~--i~~~-~~~iv~iEd~~E~~l-----------~~~~~~~~~ 178 (270)
T PF00437_consen 113 PEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEE--IPPE-DERIVTIEDPPELRL-----------PGPNQIQIQ 178 (270)
T ss_dssp HHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHH--CHTT-TSEEEEEESSS-S-------------SCSSEEEEE
T ss_pred HHHHHHHHhhccccceEEEEECCCccccchHHHHHhhh--cccc-ccceEEeccccceee-----------cccceEEEE
Confidence 34555555543234678999999999999999999876 4444 222 22322222111 111000110
Q ss_pred CCCCCCchhhhhhhhhCCCceEEEecCCCChhhhHHHh
Q 043562 119 ADTDNEPSTNMGRPETSTSQRNIPTRDEYQPEEYTDQR 156 (176)
Q Consensus 119 ~~~~~~~~~~~~~~~l~~kr~LlVLDDV~~~~~w~~i~ 156 (176)
...+......+.+..|+...=.|+++.+.+.+.+..+.
T Consensus 179 ~~~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~~~ 216 (270)
T PF00437_consen 179 TRRDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEAIQ 216 (270)
T ss_dssp EETTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHHHH
T ss_pred eecCcccHHHHHHHHhcCCCCcccccccCCHhHHHHHH
Confidence 01123445666688888888899999999998887754
No 322
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=96.52 E-value=0.0054 Score=50.66 Aligned_cols=37 Identities=24% Similarity=0.284 Sum_probs=27.8
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.+.+.....+..+|+|.|.+|+|||||+..+...
T Consensus 43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~ 79 (332)
T PRK09435 43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMH 79 (332)
T ss_pred HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 4455555443456789999999999999999986554
No 323
>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=96.50 E-value=0.0024 Score=46.91 Aligned_cols=22 Identities=27% Similarity=0.181 Sum_probs=20.5
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|+.|+||||+|+.+.+.
T Consensus 2 iI~i~G~~GSGKstia~~la~~ 23 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAEK 23 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999999999875
No 324
>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=96.50 E-value=0.0033 Score=54.56 Aligned_cols=47 Identities=26% Similarity=0.441 Sum_probs=34.9
Q ss_pred CCeeeehHHHHHHHHHHh---c-------CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLI---E-------GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~---~-------~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++|.+..++++.+++. . +....+-+-++|++|+|||+||+.+++.
T Consensus 55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 468898887777766543 1 1223345789999999999999999886
No 325
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.0059 Score=50.19 Aligned_cols=39 Identities=8% Similarity=0.055 Sum_probs=30.4
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCcc--CcccceEEEEc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVK--HYFDCHAWVQE 92 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~--~~F~~~~wv~v 92 (176)
-++|-++|++|.|||+|.++++++..++ +.+.....+.+
T Consensus 177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi 217 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI 217 (423)
T ss_pred eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEE
Confidence 4788999999999999999999987554 34555555554
No 326
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=96.50 E-value=0.002 Score=47.34 Aligned_cols=21 Identities=14% Similarity=0.128 Sum_probs=17.4
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|+|.|..|+|||||++.+...
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 789999999999999999865
No 327
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=96.49 E-value=0.0096 Score=46.40 Aligned_cols=61 Identities=21% Similarity=0.117 Sum_probs=40.6
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHH
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDII 105 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~i 105 (176)
..|-++|..+=+.-+++.|+|.+|+|||+||.++.... .+ +=..++|++..+. ...+++.+
T Consensus 12 ~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~-~~-~g~~~~y~~~e~~--~~~~~~~~ 72 (234)
T PRK06067 12 EELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGA-LK-QGKKVYVITTENT--SKSYLKQM 72 (234)
T ss_pred HHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHH-Hh-CCCEEEEEEcCCC--HHHHHHHH
Confidence 34555665555567899999999999999999985431 22 2345778877543 44555543
No 328
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=96.49 E-value=0.0027 Score=51.19 Aligned_cols=25 Identities=20% Similarity=0.262 Sum_probs=22.2
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++++++|+.|+||||++..+...
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~ 217 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAAR 217 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4569999999999999999998766
No 329
>PRK14527 adenylate kinase; Provisional
Probab=96.48 E-value=0.0024 Score=48.25 Aligned_cols=25 Identities=20% Similarity=0.133 Sum_probs=22.1
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|.|+|++|+||||+|+.+.+.
T Consensus 5 ~~~~i~i~G~pGsGKsT~a~~La~~ 29 (191)
T PRK14527 5 KNKVVIFLGPPGAGKGTQAERLAQE 29 (191)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHH
Confidence 3568999999999999999999865
No 330
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=96.48 E-value=0.0028 Score=48.62 Aligned_cols=26 Identities=19% Similarity=0.258 Sum_probs=23.4
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++++|+++|..|+|||||..++...
T Consensus 20 ~~~~~i~~~G~~gsGKTTli~~l~~~ 45 (207)
T TIGR00073 20 HGLVVLNFMSSPGSGKTTLIEKLIDN 45 (207)
T ss_pred cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 46999999999999999999998765
No 331
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.48 E-value=0.012 Score=50.49 Aligned_cols=101 Identities=15% Similarity=-0.026 Sum_probs=55.1
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccC
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRA 119 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~ 119 (176)
..+|-++|..+=..-.++.|.|.+|+|||||+.++... ....-...+|++.... ..++... ++.+...... +.
T Consensus 66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~--~a~~g~~vlYvs~Ees--~~qi~~r-a~rlg~~~~~-l~- 138 (446)
T PRK11823 66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAAR--LAAAGGKVLYVSGEES--ASQIKLR-AERLGLPSDN-LY- 138 (446)
T ss_pred cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEEcccc--HHHHHHH-HHHcCCChhc-EE-
Confidence 45566666654445669999999999999999998876 3222234577765433 3333222 3333221111 10
Q ss_pred CCCCCchhhhhhhhhCCCceEEEecCCC
Q 043562 120 DTDNEPSTNMGRPETSTSQRNIPTRDEY 147 (176)
Q Consensus 120 ~~~~~~~~~~~~~~l~~kr~LlVLDDV~ 147 (176)
-....+..++....-..+.-+||+|.+.
T Consensus 139 ~~~e~~l~~i~~~i~~~~~~lVVIDSIq 166 (446)
T PRK11823 139 LLAETNLEAILATIEEEKPDLVVIDSIQ 166 (446)
T ss_pred EeCCCCHHHHHHHHHhhCCCEEEEechh
Confidence 0111222333333333466789999975
No 332
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=96.47 E-value=0.0043 Score=54.23 Aligned_cols=56 Identities=18% Similarity=0.315 Sum_probs=42.9
Q ss_pred CeeeehHHHHHHHHHHhc---CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEE
Q 043562 32 DMVGLDDRMEELLDLLIE---GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQ 91 (176)
Q Consensus 32 ~~vG~~~~~~~l~~~L~~---~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~ 91 (176)
+++--..-++++..||.. +....+++.+.|++|+||||.++.+++. . .|+..-|.+
T Consensus 20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~e--l--g~~v~Ew~n 78 (519)
T PF03215_consen 20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKE--L--GFEVQEWIN 78 (519)
T ss_pred HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHH--h--CCeeEEecC
Confidence 455556778889999975 3334678999999999999999999987 2 466666764
No 333
>PRK10536 hypothetical protein; Provisional
Probab=96.47 E-value=0.0058 Score=48.71 Aligned_cols=43 Identities=12% Similarity=0.124 Sum_probs=35.0
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.++......+..+|.+. .++.+.|+.|+|||+||.++..+
T Consensus 55 ~~i~p~n~~Q~~~l~al~~~----~lV~i~G~aGTGKT~La~a~a~~ 97 (262)
T PRK10536 55 SPILARNEAQAHYLKAIESK----QLIFATGEAGCGKTWISAAKAAE 97 (262)
T ss_pred ccccCCCHHHHHHHHHHhcC----CeEEEECCCCCCHHHHHHHHHHH
Confidence 34667888888888888652 38999999999999999998764
No 334
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=96.47 E-value=0.0026 Score=47.76 Aligned_cols=23 Identities=9% Similarity=0.153 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.|+|+.|.|||||++.++..
T Consensus 4 e~i~l~G~sGsGKSTl~~~la~~ 26 (176)
T PRK09825 4 ESYILMGVSGSGKSLIGSKIAAL 26 (176)
T ss_pred cEEEEECCCCCCHHHHHHHHHHh
Confidence 47899999999999999999876
No 335
>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=96.47 E-value=0.0042 Score=54.50 Aligned_cols=45 Identities=22% Similarity=0.274 Sum_probs=36.6
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+..++.+...+.... ...+-|+|..|+|||++|+.+++.
T Consensus 65 ~~iiGqs~~i~~l~~al~~~~--~~~vLi~Ge~GtGKt~lAr~i~~~ 109 (531)
T TIGR02902 65 DEIIGQEEGIKALKAALCGPN--PQHVIIYGPPGVGKTAAARLVLEE 109 (531)
T ss_pred HHeeCcHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHH
Confidence 369999999999988765432 345678999999999999999864
No 336
>PRK06761 hypothetical protein; Provisional
Probab=96.46 E-value=0.0058 Score=49.36 Aligned_cols=24 Identities=17% Similarity=0.043 Sum_probs=22.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
++|.|.|++|+||||+++.+++..
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L 27 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDIL 27 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhc
Confidence 579999999999999999999883
No 337
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=96.46 E-value=0.0047 Score=50.81 Aligned_cols=45 Identities=16% Similarity=-0.014 Sum_probs=28.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHH
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQ 100 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ 100 (176)
.+++.+.|.||+||||+|-+..-. .........-|+.....++.+
T Consensus 2 ~riv~f~GKGGVGKTT~aaA~A~~--lA~~g~kvLlvStDPAhsL~d 46 (322)
T COG0003 2 TRIVFFTGKGGVGKTTIAAATAVK--LAESGKKVLLVSTDPAHSLGD 46 (322)
T ss_pred cEEEEEecCCcccHHHHHHHHHHH--HHHcCCcEEEEEeCCCCchHh
Confidence 478999999999999999885433 222223355555444444333
No 338
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=96.45 E-value=0.0027 Score=48.84 Aligned_cols=24 Identities=17% Similarity=0.041 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||++.++..
T Consensus 30 G~~~~l~G~nGsGKSTLl~~i~Gl 53 (218)
T cd03255 30 GEFVAIVGPSGSGKSTLLNILGGL 53 (218)
T ss_pred CCEEEEEcCCCCCHHHHHHHHhCC
Confidence 358999999999999999999775
No 339
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=96.45 E-value=0.0016 Score=46.74 Aligned_cols=45 Identities=24% Similarity=0.152 Sum_probs=31.9
Q ss_pred eeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCc
Q 043562 34 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 34 vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
||....+.++.+.+..-......|-|+|..|+||+++|+.++...
T Consensus 1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~ 45 (138)
T PF14532_consen 1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS 45 (138)
T ss_dssp --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence 466666777776665422334567899999999999999998873
No 340
>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=96.44 E-value=0.0022 Score=47.17 Aligned_cols=22 Identities=14% Similarity=0.173 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++|+|+.|+|||||+..+...
T Consensus 1 vi~i~G~~gsGKTtl~~~l~~~ 22 (155)
T TIGR00176 1 VLQIVGPKNSGKTTLIERLVKA 22 (155)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 5899999999999999998886
No 341
>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=96.43 E-value=0.02 Score=48.98 Aligned_cols=25 Identities=12% Similarity=0.069 Sum_probs=21.2
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...++.++|..|+||||.|..++..
T Consensus 98 ~p~vi~~vG~~GsGKTTtaakLA~~ 122 (428)
T TIGR00959 98 PPTVILMVGLQGSGKTTTCGKLAYY 122 (428)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHH
Confidence 3679999999999999998777654
No 342
>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=96.43 E-value=0.0031 Score=51.47 Aligned_cols=22 Identities=23% Similarity=0.080 Sum_probs=18.8
Q ss_pred EEEEEEcCCCCcHHHHHHHHhc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
+++.+.|-||+||||+|.+..-
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 5788999999999999976554
No 343
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=96.42 E-value=0.0029 Score=48.41 Aligned_cols=24 Identities=17% Similarity=0.032 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||++.++..
T Consensus 27 G~~~~l~G~nGsGKSTLl~~l~G~ 50 (211)
T cd03225 27 GEFVLIVGPNGSGKSTLLRLLNGL 50 (211)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcC
Confidence 458999999999999999999875
No 344
>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=96.42 E-value=0.0026 Score=48.89 Aligned_cols=22 Identities=14% Similarity=0.235 Sum_probs=18.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
++|+|.|-||+||||++..+..
T Consensus 1 ~~iav~gKGGvGKTt~~~nLA~ 22 (212)
T cd02117 1 RQIAIYGKGGIGKSTTSQNLSA 22 (212)
T ss_pred CEEEEECCCcCcHHHHHHHHHH
Confidence 4789999999999997776544
No 345
>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=96.42 E-value=0.004 Score=46.86 Aligned_cols=24 Identities=17% Similarity=0.236 Sum_probs=21.9
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++|.|+|++|+||+||+..+...
T Consensus 2 ~r~ivl~Gpsg~GK~tl~~~L~~~ 25 (184)
T smart00072 2 RRPIVLSGPSGVGKGTLLAELIQE 25 (184)
T ss_pred CcEEEEECCCCCCHHHHHHHHHhc
Confidence 468999999999999999999887
No 346
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=96.41 E-value=0.033 Score=45.91 Aligned_cols=93 Identities=11% Similarity=0.027 Sum_probs=55.6
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCCccccCCCCCCchhhhhhhhhC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSSRMVRADTDNEPSTNMGRPETS 135 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~l~ 135 (176)
-|.|+|..|.||||+++.+.+. +....+..--+++-...... +.......+. ..+......+.+..|+
T Consensus 146 nilI~G~tGSGKTTll~aL~~~--i~~~~~~~rivtiEd~~El~---------~~~~n~v~l~-~~~~~~~~~lv~~aLR 213 (323)
T PRK13833 146 NIVISGGTGSGKTTLANAVIAE--IVASAPEDRLVILEDTAEIQ---------CAAENAVALH-TSDTVDMARLLKSTMR 213 (323)
T ss_pred eEEEECCCCCCHHHHHHHHHHH--HhcCCCCceEEEecCCcccc---------cCCCCEEEec-cCCCcCHHHHHHHHhC
Confidence 4679999999999999998875 32111111223333222210 0000000110 1112345566688899
Q ss_pred CCceEEEecCCCChhhhHHHhcCCC
Q 043562 136 TSQRNIPTRDEYQPEEYTDQRRIPS 160 (176)
Q Consensus 136 ~kr~LlVLDDV~~~~~w~~i~~~~~ 160 (176)
.+.=.||+..+.+.+.|+.+.....
T Consensus 214 ~~PD~IivGEiRg~ea~~~l~a~~t 238 (323)
T PRK13833 214 LRPDRIIVGEVRDGAALTLLKAWNT 238 (323)
T ss_pred CCCCEEEEeecCCHHHHHHHHHHcC
Confidence 9999999999999999987765543
No 347
>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=96.41 E-value=0.0049 Score=50.10 Aligned_cols=35 Identities=20% Similarity=0.171 Sum_probs=26.2
Q ss_pred HHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 43 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 43 l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+..-+........+|+|+|++|+|||||+..+...
T Consensus 23 ~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~ 57 (300)
T TIGR00750 23 LLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGME 57 (300)
T ss_pred HHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence 44434334456789999999999999999987653
No 348
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=96.41 E-value=0.025 Score=51.71 Aligned_cols=105 Identities=13% Similarity=0.044 Sum_probs=59.8
Q ss_pred ehHHHHHHHHHHh-cCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 043562 36 LDDRMEELLDLLI-EGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITFLMPSSS 114 (176)
Q Consensus 36 ~~~~~~~l~~~L~-~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~l~~~~~ 114 (176)
...-...|-.+|. .+=+.-+++-|+|..|+||||||.+++.. ....=..++|+.....++.. .++.+.....
T Consensus 41 isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~--a~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~ 113 (790)
T PRK09519 41 IPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPD-----YAKKLGVDTD 113 (790)
T ss_pred ecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhHH-----HHHHcCCChh
Confidence 3444566777776 44456778889999999999999886554 22233557899877766642 3444432211
Q ss_pred ccccCCCCCCc-hhhhhhhhh-CCCceEEEecCCC
Q 043562 115 RMVRADTDNEP-STNMGRPET-STSQRNIPTRDEY 147 (176)
Q Consensus 115 ~~~~~~~~~~~-~~~~~~~~l-~~kr~LlVLDDV~ 147 (176)
.-.-......+ ........+ .++--|||+|-|-
T Consensus 114 ~llv~~~~~~E~~l~~i~~lv~~~~~~LVVIDSI~ 148 (790)
T PRK09519 114 SLLVSQPDTGEQALEIADMLIRSGALDIVVIDSVA 148 (790)
T ss_pred HeEEecCCCHHHHHHHHHHHhhcCCCeEEEEcchh
Confidence 11100111111 111223333 3467789999875
No 349
>PRK00698 tmk thymidylate kinase; Validated
Probab=96.41 E-value=0.0078 Score=45.55 Aligned_cols=23 Identities=17% Similarity=-0.041 Sum_probs=21.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+|+|.|+.|+||||+++.+.+.
T Consensus 4 ~~I~ieG~~gsGKsT~~~~L~~~ 26 (205)
T PRK00698 4 MFITIEGIDGAGKSTQIELLKEL 26 (205)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999999999875
No 350
>PLN02796 D-glycerate 3-kinase
Probab=96.40 E-value=0.0033 Score=52.06 Aligned_cols=25 Identities=16% Similarity=0.037 Sum_probs=22.6
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..-+|+|.|..|+|||||++.+...
T Consensus 99 ~pliIGI~G~sGSGKSTLa~~L~~l 123 (347)
T PLN02796 99 PPLVIGISAPQGCGKTTLVFALVYL 123 (347)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHH
Confidence 5678999999999999999999876
No 351
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=96.40 E-value=0.003 Score=48.54 Aligned_cols=24 Identities=17% Similarity=0.144 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||++.+...
T Consensus 29 Ge~~~i~G~nGsGKSTLl~~l~Gl 52 (216)
T TIGR00960 29 GEMVFLVGHSGAGKSTFLKLILGI 52 (216)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 352
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=96.39 E-value=0.0029 Score=47.35 Aligned_cols=20 Identities=20% Similarity=0.225 Sum_probs=18.6
Q ss_pred EEEEEcCCCCcHHHHHHHHh
Q 043562 56 AVTILDSIGLDKTAFAAEAY 75 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~ 75 (176)
.|+|.|.+|+||||+++.+.
T Consensus 2 ~I~ITGTPGvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTPGVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCCCCchHHHHHHHH
Confidence 58999999999999999987
No 353
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=96.38 E-value=0.0029 Score=50.66 Aligned_cols=23 Identities=9% Similarity=0.133 Sum_probs=19.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|+|+|-||+||||+|..+..-
T Consensus 2 ~~i~~~gKGGVGKTT~a~nLA~~ 24 (279)
T PRK13230 2 RKFCFYGKGGIGKSTTVCNIAAA 24 (279)
T ss_pred cEEEEECCCCCcHHHHHHHHHHH
Confidence 57899999999999988776543
No 354
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=96.37 E-value=0.013 Score=48.26 Aligned_cols=66 Identities=20% Similarity=0.187 Sum_probs=46.7
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHH
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDII 105 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~i 105 (176)
..++|.++....+...+..+ +-+-+.|..|+|||+||+.+... .. -....+.+.......++....
T Consensus 24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~--l~---~~~~~i~~t~~l~p~d~~G~~ 89 (329)
T COG0714 24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARA--LG---LPFVRIQCTPDLLPSDLLGTY 89 (329)
T ss_pred CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHH--hC---CCeEEEecCCCCCHHHhcCch
Confidence 34889888777776666643 35789999999999999999887 33 234566666666666655443
No 355
>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=96.37 E-value=0.0093 Score=47.48 Aligned_cols=68 Identities=18% Similarity=0.152 Sum_probs=45.3
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc---c-cceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY---F-DCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~---F-~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
+.|-++|..+-..-.++=|+|.+|+|||.|+.+++-...+... . ...+|++-...+....+. +|++..
T Consensus 25 ~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~ 96 (256)
T PF08423_consen 25 KSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERF 96 (256)
T ss_dssp HHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHT
T ss_pred HHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhcc
Confidence 3466666544344568999999999999999988654222221 1 238899988888887665 455543
No 356
>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]
Probab=96.37 E-value=0.037 Score=49.56 Aligned_cols=123 Identities=14% Similarity=0.031 Sum_probs=78.4
Q ss_pred CCCCeeeehHHHHHHHHHHhc--CC-CCcEEEEEEcCCCCcHHHHHHHHhcCcC------ccCcccceEEEEcCCCCCHH
Q 043562 29 KSRDMVGLDDRMEELLDLLIE--GP-PQLSAVTILDSIGLDKTAFAAEAYSSNY------VKHYFDCHAWVQEPYTCYAD 99 (176)
Q Consensus 29 ~~~~~vG~~~~~~~l~~~L~~--~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~------~~~~F~~~~wv~vs~~~~~~ 99 (176)
.+..+-+|+.+..+|...+.. .+ ..-+.+-|.|-+|.|||..+..|.+... --..|+ ++.|+-..-..+.
T Consensus 394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~ 472 (767)
T KOG1514|consen 394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPR 472 (767)
T ss_pred ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHH
Confidence 344677999999999998874 22 3445889999999999999999988421 112232 3445545555688
Q ss_pred HHHHHHHHHhCCCCCccccCCCCCCchhhhhhhh-----hCCCceEEEecCCC---C--hhhhHHHhcCC
Q 043562 100 QILDIIITFLMPSSSRMVRADTDNEPSTNMGRPE-----TSTSQRNIPTRDEY---Q--PEEYTDQRRIP 159 (176)
Q Consensus 100 ~ll~~il~~l~~~~~~~~~~~~~~~~~~~~~~~~-----l~~kr~LlVLDDV~---~--~~~w~~i~~~~ 159 (176)
++...|+.++.+..... .....+...+ -..+.++|++|.+. + .+.+..|.+-|
T Consensus 473 ~~Y~~I~~~lsg~~~~~-------~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWp 535 (767)
T KOG1514|consen 473 EIYEKIWEALSGERVTW-------DAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWP 535 (767)
T ss_pred HHHHHHHHhcccCcccH-------HHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCC
Confidence 89999999887542111 0111222222 24677888988863 3 45555555443
No 357
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=96.37 E-value=0.0033 Score=45.85 Aligned_cols=22 Identities=27% Similarity=0.379 Sum_probs=19.6
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|+|+|.+|+|||||+..+.+.
T Consensus 2 ki~viG~~~~GKSsl~~~l~~~ 23 (172)
T cd01862 2 KVIILGDSGVGKTSLMNQYVNK 23 (172)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 3789999999999999998766
No 358
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=96.37 E-value=0.01 Score=49.26 Aligned_cols=68 Identities=18% Similarity=0.110 Sum_probs=45.8
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccC----cccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKH----YFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
..|-++|..+=..-.++-|+|..|+|||+|+.+++-...... .-...+|++....|.+.++.. +++.+
T Consensus 113 ~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~ 184 (344)
T PLN03187 113 QALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERF 184 (344)
T ss_pred HhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHc
Confidence 345555554445567888999999999999998853311211 123579999988888877654 44544
No 359
>PRK13236 nitrogenase reductase; Reviewed
Probab=96.36 E-value=0.0038 Score=50.69 Aligned_cols=25 Identities=8% Similarity=0.256 Sum_probs=20.9
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhc
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
.+.++|++.|-||+||||+|..+..
T Consensus 4 ~~~~~~~~~GKGGVGKTt~a~NLA~ 28 (296)
T PRK13236 4 ENIRQIAFYGKGGIGKSTTSQNTLA 28 (296)
T ss_pred cCceEEEEECCCcCCHHHHHHHHHH
Confidence 4579999999999999997776544
No 360
>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=96.36 E-value=0.0024 Score=50.32 Aligned_cols=22 Identities=18% Similarity=0.306 Sum_probs=19.4
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|.++|++|+||||+|+.+...
T Consensus 1 LIvl~G~pGSGKST~a~~La~~ 22 (249)
T TIGR03574 1 LIILTGLPGVGKSTFSKELAKK 22 (249)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH
Confidence 3789999999999999998765
No 361
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=96.35 E-value=0.0082 Score=50.26 Aligned_cols=49 Identities=20% Similarity=0.172 Sum_probs=39.1
Q ss_pred CCCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 28 SKSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 28 ~~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
....+++|.+.-.+.|.+.+..+. -...+-++|+.|+||+|+|..+...
T Consensus 16 ~~~~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~ 64 (365)
T PRK07471 16 RETTALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARF 64 (365)
T ss_pred CchhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHH
Confidence 334579999999999998887643 3446889999999999999877654
No 362
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=96.35 E-value=0.0056 Score=48.01 Aligned_cols=22 Identities=27% Similarity=0.277 Sum_probs=18.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|+|+|-||+||||+|..+...
T Consensus 2 kIaI~GKGG~GKTtiaalll~~ 23 (255)
T COG3640 2 KIAITGKGGVGKTTIAALLLKR 23 (255)
T ss_pred eEEEecCCCccHHHHHHHHHHH
Confidence 5899999999999999885443
No 363
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=96.34 E-value=0.0035 Score=47.25 Aligned_cols=23 Identities=13% Similarity=0.211 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||.+.+...
T Consensus 19 e~~~i~G~nGsGKSTLl~~i~G~ 41 (190)
T TIGR01166 19 EVLALLGANGAGKSTLLLHLNGL 41 (190)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 48999999999999999998875
No 364
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=96.34 E-value=0.0035 Score=45.33 Aligned_cols=22 Identities=14% Similarity=0.231 Sum_probs=19.7
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|.++|.+|+|||||...+.+..
T Consensus 3 i~~vG~~~vGKTsli~~l~~~~ 24 (168)
T cd04119 3 VISMGNSGVGKSCIIKRYCEGR 24 (168)
T ss_pred EEEECCCCCCHHHHHHHHHhCC
Confidence 6899999999999999988763
No 365
>PRK08356 hypothetical protein; Provisional
Probab=96.34 E-value=0.0044 Score=47.09 Aligned_cols=22 Identities=23% Similarity=0.093 Sum_probs=19.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHh
Q 043562 54 LSAVTILDSIGLDKTAFAAEAY 75 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~ 75 (176)
..+|+|+|+.|+||||+|+.+-
T Consensus 5 ~~~i~~~G~~gsGK~t~a~~l~ 26 (195)
T PRK08356 5 KMIVGVVGKIAAGKTTVAKFFE 26 (195)
T ss_pred cEEEEEECCCCCCHHHHHHHHH
Confidence 3578999999999999999994
No 366
>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=96.33 E-value=0.003 Score=47.11 Aligned_cols=21 Identities=19% Similarity=0.283 Sum_probs=18.4
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|.|..|+|||||.+.+.+.
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 679999999999999999877
No 367
>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=96.33 E-value=0.0038 Score=43.04 Aligned_cols=21 Identities=14% Similarity=0.224 Sum_probs=19.6
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|+|+|+.|+|||||...+.+.
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 789999999999999999974
No 368
>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=96.33 E-value=0.0031 Score=49.94 Aligned_cols=23 Identities=13% Similarity=0.234 Sum_probs=19.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|+|.|-||+||||++..+..-
T Consensus 2 ~~iav~~KGGvGKTT~~~nLA~~ 24 (270)
T cd02040 2 RQIAIYGKGGIGKSTTTQNLSAA 24 (270)
T ss_pred cEEEEEeCCcCCHHHHHHHHHHH
Confidence 47888899999999988876654
No 369
>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=96.33 E-value=0.0028 Score=47.53 Aligned_cols=21 Identities=19% Similarity=0.213 Sum_probs=19.3
Q ss_pred EEEEEcCCCCcHHHHHHHHhc
Q 043562 56 AVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~ 76 (176)
+|+|+|+.|+||||+++.+.+
T Consensus 1 ii~itG~~gsGKst~~~~l~~ 21 (179)
T cd02022 1 IIGLTGGIGSGKSTVAKLLKE 21 (179)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 489999999999999999876
No 370
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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=96.33 E-value=0.0039 Score=47.87 Aligned_cols=25 Identities=12% Similarity=0.118 Sum_probs=22.4
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.. .+++|+|..|.|||||++.+...
T Consensus 22 ~~-e~~~i~G~nGsGKSTLl~~l~G~ 46 (214)
T cd03297 22 NE-EVTGIFGASGAGKSTLLRCIAGL 46 (214)
T ss_pred cc-eeEEEECCCCCCHHHHHHHHhCC
Confidence 35 79999999999999999999875
No 371
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=96.33 E-value=0.0032 Score=50.28 Aligned_cols=23 Identities=13% Similarity=0.234 Sum_probs=18.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|+|+|-||+||||++..+..-
T Consensus 2 ~~iav~gKGGVGKTT~a~nLA~~ 24 (273)
T PRK13232 2 RQIAIYGKGGIGKSTTTQNLTAA 24 (273)
T ss_pred CEEEEECCCCCcHHHHHHHHHHH
Confidence 57888899999999988776543
No 372
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=96.33 E-value=0.0035 Score=48.86 Aligned_cols=23 Identities=13% Similarity=0.161 Sum_probs=21.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|+.|.|||||++.+...
T Consensus 27 e~~~l~G~nGsGKSTLl~~l~G~ 49 (235)
T cd03261 27 EILAIIGPSGSGKSTLLRLIVGL 49 (235)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 58999999999999999999875
No 373
>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=96.33 E-value=0.0086 Score=46.39 Aligned_cols=51 Identities=24% Similarity=0.145 Sum_probs=34.4
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY 94 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~ 94 (176)
.|-++|..+=+.-..+.|.|.+|.||||||.++.... .+ .-+..+|++...
T Consensus 8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~-~~-~g~~~~~is~e~ 58 (229)
T TIGR03881 8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKG-LR-DGDPVIYVTTEE 58 (229)
T ss_pred hHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHH-Hh-cCCeEEEEEccC
Confidence 4555554444456799999999999999999865431 22 234567887633
No 374
>PLN02200 adenylate kinase family protein
Probab=96.32 E-value=0.0037 Score=49.15 Aligned_cols=25 Identities=12% Similarity=0.044 Sum_probs=22.1
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|.|.|++|+||||+|+.+...
T Consensus 42 ~~~ii~I~G~PGSGKsT~a~~La~~ 66 (234)
T PLN02200 42 TPFITFVLGGPGSGKGTQCEKIVET 66 (234)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHH
Confidence 4568899999999999999998765
No 375
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=96.32 E-value=0.0066 Score=49.22 Aligned_cols=38 Identities=18% Similarity=0.156 Sum_probs=29.9
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+|...+.....+..+|||.|.+|+|||||.-.+-..
T Consensus 37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~ 74 (323)
T COG1703 37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRE 74 (323)
T ss_pred HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHH
Confidence 34566666666667889999999999999998876554
No 376
>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=96.32 E-value=0.0035 Score=49.42 Aligned_cols=32 Identities=16% Similarity=0.050 Sum_probs=21.2
Q ss_pred EEcCCCCcHHHHHHHHhcCcCccCcccceEEEEc
Q 043562 59 ILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQE 92 (176)
Q Consensus 59 I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v 92 (176)
|+||+|+||||+++.+.+. ....-...+-|+.
T Consensus 1 ViGpaGSGKTT~~~~~~~~--~~~~~~~~~~vNL 32 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEW--LESNGRDVYIVNL 32 (238)
T ss_dssp -EESTTSSHHHHHHHHHHH--HTTT-S-EEEEE-
T ss_pred CCCCCCCCHHHHHHHHHHH--HHhccCCceEEEc
Confidence 6899999999999999887 3333333444443
No 377
>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=96.32 E-value=0.0028 Score=47.57 Aligned_cols=21 Identities=19% Similarity=0.174 Sum_probs=19.4
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|.|++|+||||+|+.+...
T Consensus 2 I~i~G~pGsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 689999999999999999876
No 378
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=96.32 E-value=0.0032 Score=46.52 Aligned_cols=22 Identities=14% Similarity=0.193 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.|.|+|+.|+||||+|+.+.+.
T Consensus 4 ~i~~~G~~GsGKst~~~~la~~ 25 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALAQA 25 (171)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5788999999999999999876
No 379
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=96.32 E-value=0.0039 Score=51.88 Aligned_cols=49 Identities=16% Similarity=0.176 Sum_probs=37.7
Q ss_pred CCCCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 27 SSKSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 27 ~~~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+-+.+||.++-+..|...+.+. ...-+-|.|..|+||||+|+.+++-
T Consensus 13 ~~pf~~ivGq~~~k~al~~~~~~p--~~~~vli~G~~GtGKs~~ar~~~~~ 61 (350)
T CHL00081 13 VFPFTAIVGQEEMKLALILNVIDP--KIGGVMIMGDRGTGKSTTIRALVDL 61 (350)
T ss_pred CCCHHHHhChHHHHHHHHHhccCC--CCCeEEEEcCCCCCHHHHHHHHHHH
Confidence 345568999998777777665543 3555669999999999999998664
No 380
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. 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=96.32 E-value=0.0037 Score=46.70 Aligned_cols=24 Identities=17% Similarity=0.098 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 26 G~~~~i~G~nGsGKSTLl~~l~G~ 49 (178)
T cd03229 26 GEIVALLGPSGSGKSTLLRCIAGL 49 (178)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 381
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=96.32 E-value=0.011 Score=47.89 Aligned_cols=26 Identities=19% Similarity=0.244 Sum_probs=23.9
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+..++.|.|..|.|||||...+.+.
T Consensus 102 ~~~~~v~l~G~pGsGKTTLl~~l~~~ 127 (290)
T PRK10463 102 RKQLVLNLVSSPGSGKTTLLTETLMR 127 (290)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence 56889999999999999999999887
No 382
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.32 E-value=0.0095 Score=46.62 Aligned_cols=59 Identities=14% Similarity=0.085 Sum_probs=35.2
Q ss_pred HHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHH
Q 043562 43 LLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDII 105 (176)
Q Consensus 43 l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~i 105 (176)
|...+..+=+.-.++.|.|..|+||||||.++.... .+.. ...++++. ..+..++++.+
T Consensus 13 ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~~--e~~~~~~~~~~ 71 (230)
T PRK08533 13 LHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVST--QLTTTEFIKQM 71 (230)
T ss_pred eehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEeC--CCCHHHHHHHH
Confidence 334443333345699999999999999986654431 2222 34566653 23445666665
No 383
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=96.31 E-value=0.0037 Score=48.03 Aligned_cols=23 Identities=17% Similarity=0.205 Sum_probs=20.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
..+|+|+|+.|+||||.|+.+-+
T Consensus 2 ~~iIglTG~igsGKStva~~~~~ 24 (201)
T COG0237 2 MLIIGLTGGIGSGKSTVAKILAE 24 (201)
T ss_pred ceEEEEecCCCCCHHHHHHHHHH
Confidence 46899999999999999998765
No 384
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=96.31 E-value=0.0069 Score=49.51 Aligned_cols=26 Identities=8% Similarity=0.155 Sum_probs=22.7
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..-..|.++|+.|+||||+++.+...
T Consensus 131 ~~~~~I~l~G~~GsGKStvg~~La~~ 156 (309)
T PRK08154 131 ARRRRIALIGLRGAGKSTLGRMLAAR 156 (309)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHHH
Confidence 34568999999999999999999876
No 385
>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=96.31 E-value=0.0072 Score=51.57 Aligned_cols=25 Identities=12% Similarity=0.084 Sum_probs=21.8
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+|.++|+.|+||||++..++..
T Consensus 99 ~~~vi~lvG~~GvGKTTtaaKLA~~ 123 (429)
T TIGR01425 99 KQNVIMFVGLQGSGKTTTCTKLAYY 123 (429)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4689999999999999999888654
No 386
>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=96.30 E-value=0.0069 Score=50.17 Aligned_cols=46 Identities=20% Similarity=0.238 Sum_probs=34.9
Q ss_pred CCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 30 SRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 30 ~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-..+||.+.-+..|.-.+.+. ...-+.|.|..|+|||||++.+..-
T Consensus 3 f~~ivgq~~~~~al~~~~~~~--~~g~vli~G~~G~gKttl~r~~~~~ 48 (337)
T TIGR02030 3 FTAIVGQDEMKLALLLNVIDP--KIGGVMVMGDRGTGKSTAVRALAAL 48 (337)
T ss_pred ccccccHHHHHHHHHHHhcCC--CCCeEEEEcCCCCCHHHHHHHHHHh
Confidence 356889988887776555542 2445779999999999999999754
No 387
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=96.30 E-value=0.0038 Score=48.80 Aligned_cols=22 Identities=18% Similarity=0.142 Sum_probs=19.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
-.++|+|++|+|||||...+..
T Consensus 32 e~vaI~GpSGSGKSTLLniig~ 53 (226)
T COG1136 32 EFVAIVGPSGSGKSTLLNLLGG 53 (226)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4899999999999999998864
No 388
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.30 E-value=0.013 Score=46.22 Aligned_cols=97 Identities=14% Similarity=0.107 Sum_probs=59.9
Q ss_pred CCeeeehHHHHHHHHHHhc--CCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHH
Q 043562 31 RDMVGLDDRMEELLDLLIE--GPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITF 108 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~ 108 (176)
..++|.|..++.|.+=-.. .+..-.-|-+||--|.||++|++++.+. +....-. -|.|.+. ++ .-+..|+..
T Consensus 60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glr--LVEV~k~-dl-~~Lp~l~~~ 133 (287)
T COG2607 60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNE--YADEGLR--LVEVDKE-DL-ATLPDLVEL 133 (287)
T ss_pred HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHH--HHhcCCe--EEEEcHH-HH-hhHHHHHHH
Confidence 4689999998888653321 2223445689999999999999999887 4444333 4444333 11 122334444
Q ss_pred hCCCCCccccCCCCCCchhhhhhhhhCCCceEEEecCCC---ChhhhHHHh
Q 043562 109 LMPSSSRMVRADTDNEPSTNMGRPETSTSQRNIPTRDEY---QPEEYTDQR 156 (176)
Q Consensus 109 l~~~~~~~~~~~~~~~~~~~~~~~~l~~kr~LlVLDDV~---~~~~w~~i~ 156 (176)
|. .+..||.|..||+- ..+.+..++
T Consensus 134 Lr-----------------------~~~~kFIlFcDDLSFe~gd~~yK~LK 161 (287)
T COG2607 134 LR-----------------------ARPEKFILFCDDLSFEEGDDAYKALK 161 (287)
T ss_pred Hh-----------------------cCCceEEEEecCCCCCCCchHHHHHH
Confidence 42 14578888889885 234444444
No 389
>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=96.30 E-value=0.012 Score=48.19 Aligned_cols=69 Identities=16% Similarity=0.118 Sum_probs=46.6
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccC----cccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKH----YFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...|-++|..+=..-+++-|+|.+|+|||+|+.+++-...... .=...+|++....++++.+.. +++.+
T Consensus 82 ~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~ 154 (313)
T TIGR02238 82 SQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERF 154 (313)
T ss_pred CHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHc
Confidence 3445666665445667889999999999999998763311211 123578999888888877654 45544
No 390
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=96.30 E-value=0.0036 Score=44.52 Aligned_cols=22 Identities=14% Similarity=0.145 Sum_probs=19.9
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|+|+|..|+|||||.+.+.+..
T Consensus 2 i~i~G~~~~GKssl~~~l~~~~ 23 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGGQ 23 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccCC
Confidence 6899999999999999998763
No 391
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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=96.30 E-value=0.0038 Score=47.76 Aligned_cols=24 Identities=17% Similarity=0.037 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 26 G~~~~i~G~nGsGKSTLl~~l~G~ 49 (210)
T cd03269 26 GEIFGLLGPNGAGKTTTIRMILGI 49 (210)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 392
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=96.29 E-value=0.0037 Score=49.76 Aligned_cols=25 Identities=16% Similarity=0.046 Sum_probs=22.2
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.-.+++|+|+.|+|||||.+.++.-
T Consensus 27 ~G~i~~iiGpNG~GKSTLLk~l~g~ 51 (258)
T COG1120 27 KGEITGILGPNGSGKSTLLKCLAGL 51 (258)
T ss_pred CCcEEEEECCCCCCHHHHHHHHhcc
Confidence 3468999999999999999999884
No 393
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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=96.29 E-value=0.0037 Score=48.77 Aligned_cols=24 Identities=13% Similarity=0.079 Sum_probs=21.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 27 Ge~~~i~G~nGsGKSTLl~~l~Gl 50 (241)
T cd03256 27 GEFVALIGPSGAGKSTLLRCLNGL 50 (241)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 348999999999999999999765
No 394
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=96.29 E-value=0.0037 Score=48.88 Aligned_cols=23 Identities=17% Similarity=0.160 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||++.+...
T Consensus 29 e~~~l~G~nGsGKSTLl~~l~Gl 51 (243)
T TIGR02315 29 EFVAIIGPSGAGKSTLLRCINRL 51 (243)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 58999999999999999999765
No 395
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=96.29 E-value=0.0038 Score=45.28 Aligned_cols=22 Identities=23% Similarity=0.344 Sum_probs=19.4
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|.|+|.+|+|||||+..+.+.
T Consensus 2 ki~v~G~~~~GKTsli~~~~~~ 23 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQG 23 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 3789999999999999998765
No 396
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=96.29 E-value=0.0038 Score=47.84 Aligned_cols=23 Identities=17% Similarity=0.222 Sum_probs=21.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||++.+...
T Consensus 29 ~~~~l~G~nGsGKSTLl~~i~Gl 51 (214)
T TIGR02673 29 EFLFLTGPSGAGKTTLLKLLYGA 51 (214)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 58999999999999999999775
No 397
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=96.29 E-value=0.0038 Score=48.04 Aligned_cols=24 Identities=17% Similarity=0.022 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.++..
T Consensus 28 Ge~~~i~G~nGsGKSTLl~~l~Gl 51 (220)
T cd03263 28 GEIFGLLGHNGAGKTTTLKMLTGE 51 (220)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 348999999999999999999875
No 398
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=96.28 E-value=0.0034 Score=41.04 Aligned_cols=22 Identities=23% Similarity=0.335 Sum_probs=19.4
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++.+.|.+|+||||++..+...
T Consensus 1 ~~~~~g~~G~Gktt~~~~l~~~ 22 (99)
T cd01983 1 VIVVTGKGGVGKTTLAANLAAA 22 (99)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4688999999999999988776
No 399
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=96.28 E-value=0.0041 Score=43.84 Aligned_cols=23 Identities=9% Similarity=0.232 Sum_probs=20.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCc
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
-|+++|..|+|||||...+....
T Consensus 3 ki~~~G~~~~GKstl~~~l~~~~ 25 (161)
T TIGR00231 3 KIVIVGDPNVGKSTLLNRLLGNK 25 (161)
T ss_pred EEEEECCCCCCHHHHHHHHhCCC
Confidence 47899999999999999998775
No 400
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. 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=96.27 E-value=0.0039 Score=48.08 Aligned_cols=23 Identities=13% Similarity=0.125 Sum_probs=21.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||++.++..
T Consensus 31 ~~~~i~G~nGsGKSTLl~~l~Gl 53 (220)
T cd03293 31 EFVALVGPSGCGKSTLLRIIAGL 53 (220)
T ss_pred cEEEEECCCCCCHHHHHHHHhCC
Confidence 58999999999999999999876
No 401
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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=96.27 E-value=0.0039 Score=47.77 Aligned_cols=24 Identities=17% Similarity=0.080 Sum_probs=21.4
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||++.+...
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~l~G~ 49 (213)
T cd03259 26 GEFLALLGPSGCGKTTLLRLIAGL 49 (213)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 402
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=96.27 E-value=0.0037 Score=47.92 Aligned_cols=24 Identities=13% Similarity=0.115 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 25 Ge~~~l~G~nGsGKSTLl~~l~G~ 48 (213)
T cd03235 25 GEFLAIVGPNGAGKSTLLKAILGL 48 (213)
T ss_pred CCEEEEECCCCCCHHHHHHHHcCC
Confidence 358999999999999999999875
No 403
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=96.27 E-value=0.0039 Score=50.20 Aligned_cols=23 Identities=13% Similarity=0.169 Sum_probs=21.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|+|+|.+|+|||||+..+...
T Consensus 2 ~~i~i~G~~gSGKTTLi~~Li~~ 24 (274)
T PRK14493 2 KVLSIVGYKATGKTTLVERLVDR 24 (274)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 57999999999999999998776
No 404
>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=96.27 E-value=0.0043 Score=45.93 Aligned_cols=23 Identities=13% Similarity=0.203 Sum_probs=21.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++|+|..|+|||||+..+...
T Consensus 2 ~vi~i~G~~gsGKTTli~~L~~~ 24 (159)
T cd03116 2 KVIGFVGYSGSGKTTLLEKLIPA 24 (159)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 58999999999999999998876
No 405
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.27 E-value=0.0064 Score=52.77 Aligned_cols=46 Identities=15% Similarity=0.086 Sum_probs=37.8
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-+..|..++..+. -...+-++|+.|+||||+|+.+...
T Consensus 16 ~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~ 61 (486)
T PRK14953 16 KEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKV 61 (486)
T ss_pred HHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 468999999999999987643 2345678999999999999998765
No 406
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=96.27 E-value=0.007 Score=52.07 Aligned_cols=46 Identities=20% Similarity=0.123 Sum_probs=37.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|.+++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 17 ~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~ 62 (451)
T PRK06305 17 SEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKA 62 (451)
T ss_pred HHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHH
Confidence 478999999999999887543 2356788999999999999988765
No 407
>COG4639 Predicted kinase [General function prediction only]
Probab=96.27 E-value=0.0067 Score=44.70 Aligned_cols=26 Identities=31% Similarity=0.452 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcCcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSSNY 79 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~~~ 79 (176)
+.++.++|..|.||+|+|+.-+....
T Consensus 2 ~~LvvL~G~~~sGKsT~ak~n~~~~~ 27 (168)
T COG4639 2 RILVVLRGASGSGKSTFAKENFLQNY 27 (168)
T ss_pred ceEEEEecCCCCchhHHHHHhCCCcc
Confidence 46789999999999999999665543
No 408
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=96.26 E-value=0.0046 Score=50.82 Aligned_cols=25 Identities=12% Similarity=0.129 Sum_probs=22.5
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...+++++|+.|+||||++..+...
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~ 137 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHK 137 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHH
Confidence 4689999999999999999998765
No 409
>PRK13768 GTPase; Provisional
Probab=96.26 E-value=0.006 Score=48.42 Aligned_cols=23 Identities=22% Similarity=0.168 Sum_probs=19.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++.|.|++|+||||++..+...
T Consensus 3 ~~i~v~G~~G~GKTt~~~~~~~~ 25 (253)
T PRK13768 3 YIVFFLGTAGSGKTTLTKALSDW 25 (253)
T ss_pred EEEEEECCCCccHHHHHHHHHHH
Confidence 57899999999999988776543
No 410
>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme 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=96.25 E-value=0.0031 Score=50.70 Aligned_cols=22 Identities=18% Similarity=0.229 Sum_probs=20.0
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|..|+|||||++.+...
T Consensus 1 iigI~G~sGsGKSTl~~~L~~l 22 (273)
T cd02026 1 IIGVAGDSGCGKSTFLRRLTSL 22 (273)
T ss_pred CEEEECCCCCCHHHHHHHHHHh
Confidence 5899999999999999999865
No 411
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=96.24 E-value=0.0042 Score=48.11 Aligned_cols=24 Identities=8% Similarity=0.043 Sum_probs=21.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~i~G~ 49 (227)
T cd03260 26 GEITALIGPSGCGKSTLLRLLNRL 49 (227)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhh
Confidence 358999999999999999998765
No 412
>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=96.24 E-value=0.0042 Score=46.71 Aligned_cols=23 Identities=17% Similarity=0.164 Sum_probs=20.3
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhc
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
-.+++|+|+.|+|||||.+.+..
T Consensus 21 G~~~~l~G~nG~GKSTLl~~il~ 43 (176)
T cd03238 21 NVLVVVTGVSGSGKSTLVNEGLY 43 (176)
T ss_pred CCEEEEECCCCCCHHHHHHHHhh
Confidence 35889999999999999999863
No 413
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=96.24 E-value=0.0086 Score=52.95 Aligned_cols=44 Identities=16% Similarity=0.054 Sum_probs=30.9
Q ss_pred eeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 34 VGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 34 vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+-|.+-.+.|.++.......-.+|.++|+.|+||||+|+.++..
T Consensus 372 f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~ 415 (568)
T PRK05537 372 FSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVK 415 (568)
T ss_pred hcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHH
Confidence 33444444444444443444568899999999999999999876
No 414
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=96.24 E-value=0.0034 Score=53.18 Aligned_cols=26 Identities=15% Similarity=0.105 Sum_probs=23.2
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.-.+.|+|+|..|+|||||++.+.+.
T Consensus 217 ~~~~~IvI~G~~gsGKTTL~~~La~~ 242 (399)
T PRK08099 217 FFVRTVAILGGESSGKSTLVNKLANI 242 (399)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence 34788999999999999999998875
No 415
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=96.23 E-value=0.0043 Score=47.49 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 27 G~~~~i~G~nGsGKSTLl~~l~G~ 50 (214)
T cd03292 27 GEFVFLVGPSGAGKSTLLKLIYKE 50 (214)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 348999999999999999999875
No 416
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=96.22 E-value=0.0044 Score=47.28 Aligned_cols=24 Identities=17% Similarity=0.080 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||.+.++..
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~l~Gl 49 (205)
T cd03226 26 GEIIALTGKNGAGKTTLAKILAGL 49 (205)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 358999999999999999999875
No 417
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=96.22 E-value=0.013 Score=48.73 Aligned_cols=73 Identities=14% Similarity=0.067 Sum_probs=48.8
Q ss_pred ehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc----ccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 36 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY----FDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 36 ~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...-...|-.+|..+-..-.++-|+|.+|+|||+|+..++-....... -..++|++....+.++++. ++++.+
T Consensus 105 i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~ 181 (342)
T PLN03186 105 ITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERF 181 (342)
T ss_pred eCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHc
Confidence 333344566666655456778889999999999999987744212111 1258999998888887654 445544
No 418
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=96.22 E-value=0.0056 Score=43.77 Aligned_cols=24 Identities=13% Similarity=0.134 Sum_probs=21.2
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|+++|..|+|||||...+...
T Consensus 3 ~~~i~~~G~~g~GKttl~~~l~~~ 26 (168)
T cd04163 3 SGFVAIVGRPNVGKSTLLNALVGQ 26 (168)
T ss_pred eeEEEEECCCCCCHHHHHHHHhCC
Confidence 457999999999999999998765
No 419
>PRK15453 phosphoribulokinase; Provisional
Probab=96.21 E-value=0.0048 Score=49.82 Aligned_cols=24 Identities=13% Similarity=0.115 Sum_probs=21.3
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhc
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
+..+|+|.|.+|+||||+|+.+.+
T Consensus 4 k~piI~ItG~SGsGKTTva~~l~~ 27 (290)
T PRK15453 4 KHPIIAVTGSSGAGTTTVKRAFEK 27 (290)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHH
Confidence 457999999999999999998764
No 420
>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=96.21 E-value=0.0045 Score=46.60 Aligned_cols=24 Identities=17% Similarity=0.072 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||.+.+...
T Consensus 25 Ge~~~l~G~nGsGKSTLl~~l~Gl 48 (177)
T cd03222 25 GEVIGIVGPNGTGKTTAVKILAGQ 48 (177)
T ss_pred CCEEEEECCCCChHHHHHHHHHcC
Confidence 348999999999999999999875
No 421
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=96.21 E-value=0.0044 Score=48.01 Aligned_cols=24 Identities=13% Similarity=0.134 Sum_probs=21.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.++.-
T Consensus 36 Ge~~~i~G~nGsGKSTLl~~i~Gl 59 (228)
T PRK10584 36 GETIALIGESGSGKSTLLAILAGL 59 (228)
T ss_pred CCEEEEECCCCCCHHHHHHHHHcC
Confidence 358999999999999999999875
No 422
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=96.21 E-value=0.0091 Score=46.02 Aligned_cols=43 Identities=21% Similarity=0.169 Sum_probs=31.6
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-+..|.-.... ..-+.++|..|+|||+||+.+..-
T Consensus 3 ~dI~GQe~aKrAL~iAAaG----~h~lLl~GppGtGKTmlA~~l~~l 45 (206)
T PF01078_consen 3 SDIVGQEEAKRALEIAAAG----GHHLLLIGPPGTGKTMLARRLPSL 45 (206)
T ss_dssp CCSSSTHHHHHHHHHHHHC----C--EEEES-CCCTHHHHHHHHHHC
T ss_pred hhhcCcHHHHHHHHHHHcC----CCCeEEECCCCCCHHHHHHHHHHh
Confidence 4688888877777655553 246789999999999999998653
No 423
>PRK04328 hypothetical protein; Provisional
Probab=96.21 E-value=0.014 Score=46.21 Aligned_cols=51 Identities=16% Similarity=0.202 Sum_probs=35.6
Q ss_pred HHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC
Q 043562 42 ELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY 94 (176)
Q Consensus 42 ~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~ 94 (176)
.|-++|..+=+.-.++.|.|.+|.|||+||.++.... . ..-+..+|++...
T Consensus 11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~-~-~~ge~~lyis~ee 61 (249)
T PRK04328 11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGVYVALEE 61 (249)
T ss_pred hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHH-H-hcCCcEEEEEeeC
Confidence 4555565544556799999999999999999865441 2 2345677887655
No 424
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=96.21 E-value=0.0044 Score=44.50 Aligned_cols=23 Identities=13% Similarity=0.327 Sum_probs=19.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCc
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
-|.++|.+|+|||||...+.+..
T Consensus 3 ki~iiG~~~vGKTsl~~~~~~~~ 25 (162)
T cd04138 3 KLVVVGAGGVGKSALTIQLIQNH 25 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHhCC
Confidence 36889999999999999987653
No 425
>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=96.21 E-value=0.0062 Score=48.50 Aligned_cols=41 Identities=12% Similarity=0.064 Sum_probs=29.5
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY 94 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~ 94 (176)
..-.++.|.|.+|+|||+||.++.... .+ .=+.+++++...
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~-a~-~Ge~vlyis~Ee 74 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQ-AS-RGNPVLFVTVES 74 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHH-Hh-CCCcEEEEEecC
Confidence 456789999999999999999975541 22 234567777653
No 426
>PRK14532 adenylate kinase; Provisional
Probab=96.20 E-value=0.0037 Score=46.96 Aligned_cols=21 Identities=10% Similarity=0.064 Sum_probs=19.2
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.+.|++|+||||+|+.+...
T Consensus 3 i~~~G~pGsGKsT~a~~la~~ 23 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEE 23 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999999999876
No 427
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=96.20 E-value=0.004 Score=46.61 Aligned_cols=22 Identities=9% Similarity=0.270 Sum_probs=19.9
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|.++||.|+||||+.+.+...
T Consensus 4 ~IvLiG~mGaGKSTIGr~LAk~ 25 (172)
T COG0703 4 NIVLIGFMGAGKSTIGRALAKA 25 (172)
T ss_pred cEEEEcCCCCCHhHHHHHHHHH
Confidence 4788999999999999999876
No 428
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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=96.20 E-value=0.0044 Score=48.43 Aligned_cols=24 Identities=21% Similarity=0.109 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||++.+...
T Consensus 28 Ge~~~i~G~nGsGKSTLl~~l~Gl 51 (239)
T cd03296 28 GELVALLGPSGSGKTTLLRLIAGL 51 (239)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 429
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. 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=96.20 E-value=0.004 Score=47.65 Aligned_cols=22 Identities=18% Similarity=0.114 Sum_probs=20.5
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+++|+|+.|.|||||++.++..
T Consensus 27 ~~~i~G~nGsGKSTLl~~l~Gl 48 (211)
T cd03264 27 MYGLLGPNGAGKTTLMRILATL 48 (211)
T ss_pred cEEEECCCCCCHHHHHHHHhCC
Confidence 8899999999999999999864
No 430
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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=96.19 E-value=0.0046 Score=47.68 Aligned_cols=24 Identities=17% Similarity=0.019 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||.+.+...
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~i~G~ 49 (220)
T cd03265 26 GEIFGLLGPNGAGKTTTIKMLTTL 49 (220)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 431
>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=96.19 E-value=0.01 Score=48.91 Aligned_cols=45 Identities=22% Similarity=0.242 Sum_probs=35.4
Q ss_pred eeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 33 MVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 33 ~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+||....+.++.+.+..-...-..|-|+|..|+||+++|+.+++.
T Consensus 1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~ 45 (329)
T TIGR02974 1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL 45 (329)
T ss_pred CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence 467777777777777653334556799999999999999999876
No 432
>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.
Probab=96.19 E-value=0.0046 Score=48.24 Aligned_cols=24 Identities=17% Similarity=0.077 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 27 Ge~~~i~G~nGsGKSTLl~~l~G~ 50 (236)
T TIGR03864 27 GEFVALLGPNGAGKSTLFSLLTRL 50 (236)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999865
No 433
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=96.19 E-value=0.0048 Score=44.54 Aligned_cols=22 Identities=9% Similarity=0.320 Sum_probs=19.6
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|.++|.+|+|||||+..+.+..
T Consensus 3 v~v~G~~~~GKTtli~~l~~~~ 24 (164)
T smart00175 3 IILIGDSGVGKSSLLSRFTDGK 24 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcCC
Confidence 6899999999999999997653
No 434
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=96.18 E-value=0.0047 Score=44.68 Aligned_cols=22 Identities=18% Similarity=0.249 Sum_probs=19.5
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|.|+|.+|+|||||+..+.+..
T Consensus 3 i~v~G~~~vGKTsli~~l~~~~ 24 (161)
T cd04113 3 FIIIGSSGTGKSCLLHRFVENK 24 (161)
T ss_pred EEEECCCCCCHHHHHHHHHhCC
Confidence 6899999999999999987653
No 435
>PRK13695 putative NTPase; Provisional
Probab=96.18 E-value=0.0042 Score=46.21 Aligned_cols=22 Identities=18% Similarity=0.217 Sum_probs=19.8
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|+|+|.+|+|||||++.+++.
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~~ 23 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAEL 23 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999999998876
No 436
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=96.18 E-value=0.014 Score=50.88 Aligned_cols=64 Identities=17% Similarity=0.138 Sum_probs=47.3
Q ss_pred CCCCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCC
Q 043562 29 KSRDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPY 94 (176)
Q Consensus 29 ~~~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~ 94 (176)
....++|....+.++.+.+..-...-..|-|+|..|+||+++|+.+++.. ...-...+.++++.
T Consensus 185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s--~r~~~p~v~v~c~~ 248 (509)
T PRK05022 185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAAS--PRADKPLVYLNCAA 248 (509)
T ss_pred cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC--CcCCCCeEEEEccc
Confidence 45679999999999988887644445678999999999999999999862 22222344555443
No 437
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=96.18 E-value=0.0053 Score=45.73 Aligned_cols=44 Identities=14% Similarity=0.134 Sum_probs=28.8
Q ss_pred EEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHH
Q 043562 57 VTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDI 104 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~ 104 (176)
+.|.|.+|+|||+||.++.... .+ .=..++|++... +..++.+.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~-~~-~g~~v~~~s~e~--~~~~~~~~ 45 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAG-LA-RGEPGLYVTLEE--SPEELIEN 45 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHH-HH-CCCcEEEEECCC--CHHHHHHH
Confidence 5789999999999999876542 12 224467776543 34444443
No 438
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.
Probab=96.18 E-value=0.0049 Score=47.47 Aligned_cols=24 Identities=21% Similarity=0.173 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 26 Ge~~~i~G~nGsGKSTLl~~l~Gl 49 (222)
T cd03224 26 GEIVALLGRNGAGKTTLLKTIMGL 49 (222)
T ss_pred CeEEEEECCCCCCHHHHHHHHhCC
Confidence 458999999999999999998765
No 439
>COG3903 Predicted ATPase [General function prediction only]
Probab=96.18 E-value=0.0035 Score=52.67 Aligned_cols=85 Identities=11% Similarity=-0.011 Sum_probs=51.9
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCCHHHHHHHHHHH-hCCCCCccccCCCCCCchhhhhh
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCYADQILDIIITF-LMPSSSRMVRADTDNEPSTNMGR 131 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~~~~ll~~il~~-l~~~~~~~~~~~~~~~~~~~~~~ 131 (176)
..+.++++|.|||||||++-++.. +...|..-.|+..-.+.+-..++--++.. +.-.. ...........
T Consensus 13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~-------~~g~~~~~~~~ 82 (414)
T COG3903 13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHV-------QPGDSAVDTLV 82 (414)
T ss_pred hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhccccc-------ccchHHHHHHH
Confidence 478999999999999999999887 45667765444433333333434333333 32111 00011222235
Q ss_pred hhhCCCceEEEecCCC
Q 043562 132 PETSTSQRNIPTRDEY 147 (176)
Q Consensus 132 ~~l~~kr~LlVLDDV~ 147 (176)
....++|.++|+||..
T Consensus 83 ~~~~~rr~llvldnce 98 (414)
T COG3903 83 RRIGDRRALLVLDNCE 98 (414)
T ss_pred HHHhhhhHHHHhcCcH
Confidence 5667899999999964
No 440
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=96.17 E-value=0.0046 Score=49.39 Aligned_cols=23 Identities=13% Similarity=0.252 Sum_probs=19.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|+|.|-||+||||+|..+..-
T Consensus 3 ~vIav~~KGGVGKTT~a~nLA~~ 25 (275)
T PRK13233 3 RKIAIYGKGGIGKSTTTQNTAAA 25 (275)
T ss_pred eEEEEEcCCCCcHHHHHHHHHHH
Confidence 58899999999999988865443
No 441
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=96.17 E-value=0.0044 Score=49.98 Aligned_cols=23 Identities=17% Similarity=0.211 Sum_probs=20.7
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+|-++|++|+||||+|+.+...
T Consensus 3 ~liil~G~pGSGKSTla~~L~~~ 25 (300)
T PHA02530 3 KIILTVGVPGSGKSTWAREFAAK 25 (300)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHH
Confidence 57888999999999999998876
No 442
>PRK01184 hypothetical protein; Provisional
Probab=96.17 E-value=0.0047 Score=46.24 Aligned_cols=21 Identities=14% Similarity=0.216 Sum_probs=17.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
.+|+|+|+.|+||||+|+ ++.
T Consensus 2 ~~i~l~G~~GsGKsT~a~-~~~ 22 (184)
T PRK01184 2 KIIGVVGMPGSGKGEFSK-IAR 22 (184)
T ss_pred cEEEEECCCCCCHHHHHH-HHH
Confidence 479999999999999987 443
No 443
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=96.17 E-value=0.013 Score=42.80 Aligned_cols=43 Identities=12% Similarity=0.074 Sum_probs=28.7
Q ss_pred eehHHHHHHHHHHhc-CCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 35 GLDDRMEELLDLLIE-GPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 35 G~~~~~~~l~~~L~~-~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.+.-++.+.+.+.. .......|+++|++|+|||||...+...
T Consensus 82 ~~~~L~~~l~~~~~~~~~~~~~~v~~~G~~nvGKStliN~l~~~ 125 (157)
T cd01858 82 GKGSLIQLLRQFSKLHSDKKQISVGFIGYPNVGKSSIINTLRSK 125 (157)
T ss_pred cHHHHHHHHHHHHhhhccccceEEEEEeCCCCChHHHHHHHhcC
Confidence 444445555544321 1123456789999999999999999875
No 444
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=96.17 E-value=0.0048 Score=47.53 Aligned_cols=24 Identities=21% Similarity=0.079 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||.+.++..
T Consensus 31 G~~~~i~G~nGsGKSTLl~~i~G~ 54 (221)
T TIGR02211 31 GEIVAIVGSSGSGKSTLLHLLGGL 54 (221)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999765
No 445
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=96.17 E-value=0.0049 Score=43.73 Aligned_cols=22 Identities=14% Similarity=0.321 Sum_probs=19.7
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|.++|..|+|||||...+.+..
T Consensus 3 i~~~G~~~~GKStl~~~l~~~~ 24 (159)
T cd00154 3 IVLIGDSGVGKTSLLLRFVDGK 24 (159)
T ss_pred EEEECCCCCCHHHHHHHHHhCc
Confidence 6899999999999999987764
No 446
>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=96.16 E-value=0.014 Score=47.95 Aligned_cols=73 Identities=16% Similarity=0.044 Sum_probs=47.6
Q ss_pred ehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCccCc----ccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 36 LDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVKHY----FDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 36 ~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...-...|-.+|..+-..-.++.|+|.+|+|||+|+..++........ -...+|++....+....+ ..+.+.+
T Consensus 78 ~~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~ 154 (316)
T TIGR02239 78 LTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERY 154 (316)
T ss_pred eCCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHc
Confidence 333445566666665556789999999999999999988753112111 124689988777777653 3344443
No 447
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=96.16 E-value=0.0089 Score=44.62 Aligned_cols=24 Identities=13% Similarity=0.005 Sum_probs=20.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...|+|+|++|+|||||...+...
T Consensus 19 ~~ki~ilG~~~~GKStLi~~l~~~ 42 (190)
T cd00879 19 EAKILFLGLDNAGKTTLLHMLKDD 42 (190)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 445699999999999999998874
No 448
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. 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=96.15 E-value=0.0049 Score=47.92 Aligned_cols=24 Identities=13% Similarity=0.050 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 31 Ge~~~l~G~nGsGKSTLl~~l~G~ 54 (233)
T cd03258 31 GEIFGIIGRSGAGKSTLIRCINGL 54 (233)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999775
No 449
>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=96.15 E-value=0.081 Score=42.51 Aligned_cols=36 Identities=17% Similarity=0.227 Sum_probs=26.7
Q ss_pred HHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 41 EELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 41 ~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+.+...|... ....-++|+|+.|.|||||.+.+...
T Consensus 99 ~~~l~~l~~~-~~~~~~~i~g~~g~GKttl~~~l~~~ 134 (270)
T TIGR02858 99 DKLLPYLVRN-NRVLNTLIISPPQCGKTTLLRDLARI 134 (270)
T ss_pred HHHHHHHHhC-CCeeEEEEEcCCCCCHHHHHHHHhCc
Confidence 3344444432 23567899999999999999999987
No 450
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=96.15 E-value=0.0063 Score=45.63 Aligned_cols=25 Identities=12% Similarity=0.040 Sum_probs=22.3
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
...++.|.|.+|+||||+|+.+...
T Consensus 17 ~~~~i~i~G~~GsGKstla~~l~~~ 41 (184)
T TIGR00455 17 RGVVIWLTGLSGSGKSTIANALEKK 41 (184)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 4579999999999999999998875
No 451
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=96.14 E-value=0.0051 Score=46.60 Aligned_cols=24 Identities=13% Similarity=0.022 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~l~G~ 49 (195)
T PRK13541 26 SAITYIKGANGCGKSSLLRMIAGI 49 (195)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcC
Confidence 348999999999999999999886
No 452
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=96.14 E-value=0.005 Score=47.94 Aligned_cols=24 Identities=17% Similarity=0.055 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.++..
T Consensus 35 Ge~~~l~G~nGsGKSTLl~~l~Gl 58 (233)
T PRK11629 35 GEMMAIVGSSGSGKSTLLHLLGGL 58 (233)
T ss_pred CcEEEEECCCCCCHHHHHHHHhcC
Confidence 348999999999999999999875
No 453
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=96.14 E-value=0.0049 Score=47.60 Aligned_cols=24 Identities=13% Similarity=0.160 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||.+.+...
T Consensus 31 Ge~~~i~G~nGsGKSTLl~~l~G~ 54 (228)
T cd03257 31 GETLGLVGESGSGKSTLARAILGL 54 (228)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999865
No 454
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.14 E-value=0.0077 Score=51.40 Aligned_cols=24 Identities=21% Similarity=0.239 Sum_probs=20.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++.++|++|+||||++..+...
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~ 244 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAAR 244 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH
Confidence 368999999999999988887654
No 455
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=96.14 E-value=0.0052 Score=44.05 Aligned_cols=21 Identities=24% Similarity=0.357 Sum_probs=18.9
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|+|+.|+|||||...+.+.
T Consensus 2 i~i~G~~~~GKTsli~~l~~~ 22 (160)
T cd00876 2 VVVLGAGGVGKSAITIQFVKG 22 (160)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 689999999999999998764
No 456
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=96.14 E-value=0.0085 Score=52.93 Aligned_cols=46 Identities=20% Similarity=0.114 Sum_probs=39.1
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-++.|..++..+. -...+-++|+.|+||||+|+.+.+.
T Consensus 16 ~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~ 61 (563)
T PRK06647 16 NSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARC 61 (563)
T ss_pred HHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHh
Confidence 479999999999999987643 3456789999999999999998876
No 457
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=96.13 E-value=0.0044 Score=45.21 Aligned_cols=22 Identities=14% Similarity=0.209 Sum_probs=19.4
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++.|.+|+||||++..+...
T Consensus 1 ~i~~~G~~GsGKTt~~~~l~~~ 22 (148)
T cd03114 1 VIGITGVPGAGKSTLIDALITA 22 (148)
T ss_pred CEEEECCCCCcHHHHHHHHHHH
Confidence 4789999999999999988765
No 458
>PRK14974 cell division protein FtsY; Provisional
Probab=96.13 E-value=0.0093 Score=49.39 Aligned_cols=25 Identities=16% Similarity=0.077 Sum_probs=21.4
Q ss_pred CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 53 QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 53 ~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+..+|.++|+.|+||||++..++..
T Consensus 139 ~~~vi~~~G~~GvGKTTtiakLA~~ 163 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIAKLAYY 163 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence 4689999999999999988877754
No 459
>PRK07429 phosphoribulokinase; Provisional
Probab=96.12 E-value=0.0059 Score=50.36 Aligned_cols=26 Identities=15% Similarity=0.112 Sum_probs=23.3
Q ss_pred CCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 52 PQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 52 ~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+.-+|+|.|..|+||||+++.+...
T Consensus 6 ~~~~IIgI~G~SGSGKSTla~~L~~l 31 (327)
T PRK07429 6 DRPVLLGVAGDSGCGKTTFLRGLADL 31 (327)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHhH
Confidence 45679999999999999999998865
No 460
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=96.12 E-value=0.0053 Score=47.35 Aligned_cols=24 Identities=21% Similarity=0.174 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|+.|.|||||.+.++..
T Consensus 13 Ge~~~l~G~NGsGKSTLlk~i~Gl 36 (213)
T PRK15177 13 HEHIGILAAPGSGKTTLTRLLCGL 36 (213)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 461
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=96.12 E-value=0.0053 Score=46.72 Aligned_cols=23 Identities=13% Similarity=0.044 Sum_probs=21.1
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||.+.+...
T Consensus 25 e~~~i~G~nGsGKSTLl~~l~G~ 47 (206)
T TIGR03608 25 KMYAIIGESGSGKSTLLNIIGLL 47 (206)
T ss_pred cEEEEECCCCCCHHHHHHHHhcC
Confidence 47999999999999999999875
No 462
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=96.12 E-value=0.0047 Score=49.35 Aligned_cols=22 Identities=18% Similarity=0.268 Sum_probs=18.6
Q ss_pred EEEEEEcCCCCcHHHHHHHHhc
Q 043562 55 SAVTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~ 76 (176)
++|+|.|-||+||||++..+..
T Consensus 2 ~~iav~~KGGVGKTT~~~nLA~ 23 (274)
T PRK13235 2 RKVAIYGKGGIGKSTTTQNTVA 23 (274)
T ss_pred CEEEEeCCCCccHHHHHHHHHH
Confidence 5789999999999998877654
No 463
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=96.12 E-value=0.0045 Score=45.93 Aligned_cols=24 Identities=13% Similarity=0.133 Sum_probs=21.2
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.++++|+|+.++|||||...+...
T Consensus 2 ~~Il~ivG~k~SGKTTLie~lv~~ 25 (161)
T COG1763 2 MKILGIVGYKNSGKTTLIEKLVRK 25 (161)
T ss_pred CcEEEEEecCCCChhhHHHHHHHH
Confidence 468999999999999999998654
No 464
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=96.11 E-value=0.014 Score=52.81 Aligned_cols=47 Identities=21% Similarity=0.210 Sum_probs=38.5
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|....+..+.+.+..-......|-|+|..|+|||++|+.+++.
T Consensus 376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~ 422 (686)
T PRK15429 376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNL 422 (686)
T ss_pred cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence 47999999998887777643333457889999999999999999986
No 465
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=96.10 E-value=0.0054 Score=46.94 Aligned_cols=24 Identities=21% Similarity=0.047 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|.|..|.|||||++.+...
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~l~G~ 49 (213)
T cd03301 26 GEFVVLLGPSGCGKTTTLRMIAGL 49 (213)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 347999999999999999999876
No 466
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=96.10 E-value=0.0053 Score=48.68 Aligned_cols=23 Identities=17% Similarity=0.153 Sum_probs=21.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||++.+...
T Consensus 28 e~~~i~G~nGsGKSTLl~~l~Gl 50 (255)
T PRK11248 28 ELLVVLGPSGCGKTTLLNLIAGF 50 (255)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 58999999999999999999875
No 467
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=96.10 E-value=0.0054 Score=47.56 Aligned_cols=24 Identities=17% Similarity=-0.024 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 33 Ge~~~i~G~nGsGKSTLl~~l~G~ 56 (225)
T PRK10247 33 GEFKLITGPSGCGKSTLLKIVASL 56 (225)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcc
Confidence 358999999999999999999875
No 468
>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.
Probab=96.10 E-value=0.0054 Score=47.77 Aligned_cols=23 Identities=9% Similarity=0.147 Sum_probs=21.2
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||++.+...
T Consensus 12 e~~~i~G~nGsGKSTLl~~l~Gl 34 (230)
T TIGR01184 12 EFISLIGHSGCGKSTLLNLISGL 34 (230)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 48999999999999999999876
No 469
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L 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 of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=96.10 E-value=0.0053 Score=48.50 Aligned_cols=24 Identities=25% Similarity=0.300 Sum_probs=21.8
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|+|||||++.+...
T Consensus 25 Ge~~~i~G~NGsGKSTLlk~L~G~ 48 (246)
T cd03237 25 SEVIGILGPNGIGKTTFIKMLAGV 48 (246)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999876
No 470
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=96.08 E-value=0.0043 Score=46.76 Aligned_cols=22 Identities=23% Similarity=0.357 Sum_probs=19.9
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
+|+|.|+.|+||||+++.+.+.
T Consensus 1 ~I~ieG~~GsGKSTl~~~L~~~ 22 (193)
T cd01673 1 VIVVEGNIGAGKSTLAKELAEH 22 (193)
T ss_pred CEEEECCCCCCHHHHHHHHHHH
Confidence 4789999999999999999875
No 471
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=96.08 E-value=0.0052 Score=47.80 Aligned_cols=24 Identities=13% Similarity=-0.018 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.++..
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~l~Gl 49 (236)
T cd03219 26 GEIHGLIGPNGAGKTTLFNLISGF 49 (236)
T ss_pred CcEEEEECCCCCCHHHHHHHHcCC
Confidence 358999999999999999999865
No 472
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=96.08 E-value=0.0056 Score=43.44 Aligned_cols=23 Identities=17% Similarity=0.343 Sum_probs=20.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCc
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
-|.|+|.+|+|||||...+.+..
T Consensus 2 kv~liG~~~vGKSsL~~~l~~~~ 24 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQGEE 24 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcCCc
Confidence 37899999999999999987763
No 473
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=96.08 E-value=0.0055 Score=47.93 Aligned_cols=24 Identities=13% Similarity=0.093 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|.|..|.|||||++.++..
T Consensus 28 Ge~~~i~G~nGsGKSTLl~~l~G~ 51 (242)
T PRK11124 28 GETLVLLGPSGAGKSSLLRVLNLL 51 (242)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999876
No 474
>PTZ00088 adenylate kinase 1; Provisional
Probab=96.06 E-value=0.0045 Score=48.50 Aligned_cols=21 Identities=19% Similarity=0.343 Sum_probs=19.6
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.|.|++|+||||+|+.+.+.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~ 29 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKK 29 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 889999999999999999776
No 475
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=96.05 E-value=0.0059 Score=44.46 Aligned_cols=24 Identities=17% Similarity=0.207 Sum_probs=20.2
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..-|.|+|.+|+|||||+..+...
T Consensus 3 ~~kv~vvG~~~~GKTsli~~l~~~ 26 (165)
T cd01864 3 LFKIILIGDSNVGKTCVVQRFKSG 26 (165)
T ss_pred eeEEEEECCCCCCHHHHHHHHhhC
Confidence 346789999999999999998653
No 476
>PRK10908 cell division protein FtsE; Provisional
Probab=96.05 E-value=0.0059 Score=47.13 Aligned_cols=24 Identities=8% Similarity=-0.021 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|+|||||++.++..
T Consensus 28 Ge~~~i~G~nGsGKSTLl~~l~G~ 51 (222)
T PRK10908 28 GEMAFLTGHSGAGKSTLLKLICGI 51 (222)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 458999999999999999999775
No 477
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=96.05 E-value=0.0053 Score=44.06 Aligned_cols=20 Identities=5% Similarity=0.142 Sum_probs=18.6
Q ss_pred EEEEcCCCCcHHHHHHHHhc
Q 043562 57 VTILDSIGLDKTAFAAEAYS 76 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~ 76 (176)
|+++|..|+|||||.+.+.+
T Consensus 2 i~l~G~~g~GKTtL~~~l~~ 21 (170)
T cd01876 2 IAFAGRSNVGKSSLINALTN 21 (170)
T ss_pred EEEEcCCCCCHHHHHHHHhc
Confidence 68999999999999999993
No 478
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=96.04 E-value=0.0058 Score=47.73 Aligned_cols=23 Identities=13% Similarity=0.179 Sum_probs=21.3
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|..|.|||||.+.+...
T Consensus 27 e~~~i~G~nGsGKSTLl~~l~Gl 49 (243)
T TIGR01978 27 EIHAIMGPNGSGKSTLSKTIAGH 49 (243)
T ss_pred CEEEEECCCCCCHHHHHHHHhCC
Confidence 48999999999999999999875
No 479
>PTZ00035 Rad51 protein; Provisional
Probab=96.04 E-value=0.026 Score=46.79 Aligned_cols=69 Identities=14% Similarity=0.027 Sum_probs=44.6
Q ss_pred HHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCcCcc---C-cccceEEEEcCCCCCHHHHHHHHHHHh
Q 043562 40 MEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSNYVK---H-YFDCHAWVQEPYTCYADQILDIIITFL 109 (176)
Q Consensus 40 ~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~~---~-~F~~~~wv~vs~~~~~~~ll~~il~~l 109 (176)
...|-++|..+=..-.++.|+|..|+|||+|+..++-..... . .=...+|++-...++...+ ..+.+.+
T Consensus 104 ~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~ 176 (337)
T PTZ00035 104 STQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERF 176 (337)
T ss_pred cHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHh
Confidence 344666666554567899999999999999999886542211 0 1123568887776777663 3444443
No 480
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=96.04 E-value=0.011 Score=52.24 Aligned_cols=46 Identities=22% Similarity=0.192 Sum_probs=38.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++++|.+.-.+.|.+++..+. -.+.+-++|+.|+||||+|+.+...
T Consensus 16 ~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 16 EDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred HhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 479999999999999988644 3456678999999999999988664
No 481
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=96.04 E-value=0.006 Score=46.54 Aligned_cols=24 Identities=21% Similarity=0.025 Sum_probs=21.6
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||.+.++..
T Consensus 27 Ge~~~l~G~nGsGKSTLl~~l~G~ 50 (204)
T PRK13538 27 GELVQIEGPNGAGKTSLLRILAGL 50 (204)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 482
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=96.04 E-value=0.0094 Score=54.15 Aligned_cols=79 Identities=13% Similarity=0.156 Sum_probs=48.9
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcCc---CccCcccc-e-EEEEc-------CCCCCH
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSSN---YVKHYFDC-H-AWVQE-------PYTCYA 98 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~~---~~~~~F~~-~-~wv~v-------s~~~~~ 98 (176)
+.++||++++.++++.|.....+-. .++|.+|+|||+++.-++.+- .+...... . .-+.+ ...-..
T Consensus 170 DPvIGRd~EI~r~iqIL~RR~KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGeF 247 (786)
T COG0542 170 DPVIGRDEEIRRTIQILSRRTKNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEF 247 (786)
T ss_pred CCCcChHHHHHHHHHHHhccCCCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCcH
Confidence 5799999999999999987443332 357999999999776555431 12222222 2 22221 222345
Q ss_pred HHHHHHHHHHhCC
Q 043562 99 DQILDIIITFLMP 111 (176)
Q Consensus 99 ~~ll~~il~~l~~ 111 (176)
++-++.++..+..
T Consensus 248 EeRlk~vl~ev~~ 260 (786)
T COG0542 248 EERLKAVLKEVEK 260 (786)
T ss_pred HHHHHHHHHHHhc
Confidence 6667777777654
No 483
>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. 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=96.04 E-value=0.006 Score=47.78 Aligned_cols=23 Identities=13% Similarity=0.076 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|+|+.|.|||||++.++..
T Consensus 28 e~~~i~G~nGsGKSTLl~~l~G~ 50 (242)
T cd03295 28 EFLVLIGPSGSGKTTTMKMINRL 50 (242)
T ss_pred CEEEEECCCCCCHHHHHHHHhcC
Confidence 47899999999999999999875
No 484
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=96.03 E-value=0.0062 Score=44.01 Aligned_cols=23 Identities=9% Similarity=0.218 Sum_probs=20.2
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCc
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~ 78 (176)
-|.|+|.+|+|||||+..+.+..
T Consensus 3 ki~v~G~~~~GKSsli~~l~~~~ 25 (163)
T cd01860 3 KLVLLGDSSVGKSSLVLRFVKNE 25 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCC
Confidence 37899999999999999988764
No 485
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=96.03 E-value=0.0053 Score=47.69 Aligned_cols=23 Identities=17% Similarity=0.166 Sum_probs=21.0
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+|+|.|+.|+||||+|+.+...
T Consensus 3 ~~i~i~G~~GsGKst~~~~la~~ 25 (217)
T TIGR00017 3 MIIAIDGPSGAGKSTVAKAVAEK 25 (217)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 47999999999999999999865
No 486
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=96.03 E-value=0.0061 Score=47.31 Aligned_cols=24 Identities=21% Similarity=0.021 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||.+.+...
T Consensus 26 Ge~~~l~G~nGsGKSTLl~~l~Gl 49 (232)
T cd03218 26 GEIVGLLGPNGAGKTTTFYMIVGL 49 (232)
T ss_pred CcEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999865
No 487
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=96.03 E-value=0.0063 Score=43.68 Aligned_cols=22 Identities=18% Similarity=0.208 Sum_probs=19.5
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|+|+|.+|+|||||...+.+..
T Consensus 3 i~i~G~~~~GKStli~~l~~~~ 24 (162)
T cd04123 3 VVLLGEGRVGKTSLVLRYVENK 24 (162)
T ss_pred EEEECCCCCCHHHHHHHHHhCC
Confidence 7899999999999999887653
No 488
>PRK12338 hypothetical protein; Provisional
Probab=96.02 E-value=0.006 Score=50.07 Aligned_cols=24 Identities=21% Similarity=0.250 Sum_probs=22.2
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+|.|.|.+|+||||+|+.+...
T Consensus 4 p~ii~i~G~sGsGKST~a~~la~~ 27 (319)
T PRK12338 4 PYVILIGSASGIGKSTIASELART 27 (319)
T ss_pred cEEEEEECCCCCCHHHHHHHHHHH
Confidence 578999999999999999999887
No 489
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=96.02 E-value=0.0062 Score=46.57 Aligned_cols=24 Identities=17% Similarity=0.079 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||.+.+...
T Consensus 26 G~~~~l~G~nGsGKSTLl~~l~G~ 49 (213)
T cd03262 26 GEVVVIIGPSGSGKSTLLRCINLL 49 (213)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCC
Confidence 358999999999999999999875
No 490
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=96.02 E-value=0.0065 Score=48.20 Aligned_cols=23 Identities=13% Similarity=0.250 Sum_probs=20.9
Q ss_pred EEEEEEcCCCCcHHHHHHHHhcC
Q 043562 55 SAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 55 ~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++|+|.|-||+||||++..+...
T Consensus 3 ~~iav~~KGGvGKTT~a~nLA~~ 25 (264)
T PRK13231 3 KKIAIYGKGGIGKSTTVSNMAAA 25 (264)
T ss_pred eEEEEECCCCCcHHHHHHHHhcc
Confidence 67899999999999999998876
No 491
>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=96.02 E-value=0.0066 Score=44.98 Aligned_cols=22 Identities=23% Similarity=0.211 Sum_probs=19.7
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
++.++|++|+||||++..+...
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~ 23 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALY 23 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 6789999999999999988765
No 492
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.02 E-value=0.013 Score=44.72 Aligned_cols=36 Identities=17% Similarity=0.201 Sum_probs=25.8
Q ss_pred HHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 39 RMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 39 ~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..+.+...+... -++..|.|.+|.||||+++.+...
T Consensus 6 Q~~a~~~~l~~~---~~~~~l~G~aGtGKT~~l~~~~~~ 41 (196)
T PF13604_consen 6 QREAVRAILTSG---DRVSVLQGPAGTGKTTLLKALAEA 41 (196)
T ss_dssp HHHHHHHHHHCT---CSEEEEEESTTSTHHHHHHHHHHH
T ss_pred HHHHHHHHHhcC---CeEEEEEECCCCCHHHHHHHHHHH
Confidence 344444444432 357888999999999999998765
No 493
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=96.02 E-value=0.0063 Score=43.92 Aligned_cols=22 Identities=27% Similarity=0.382 Sum_probs=19.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcC
Q 043562 56 AVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-|.|+|.+|+|||||+..+...
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~~ 24 (163)
T cd04136 3 KVVVLGSGGVGKSALTVQFVQG 24 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 4789999999999999987754
No 494
>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD. This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.
Probab=96.01 E-value=0.006 Score=47.42 Aligned_cols=24 Identities=8% Similarity=0.059 Sum_probs=21.7
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|.|+.|.|||||++.++..
T Consensus 12 Ge~~~i~G~nGsGKSTLl~~l~Gl 35 (230)
T TIGR02770 12 GEVLALVGESGSGKSLTCLAILGL 35 (230)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcC
Confidence 358999999999999999999876
No 495
>PRK04192 V-type ATP synthase subunit A; Provisional
Probab=96.01 E-value=0.074 Score=47.06 Aligned_cols=108 Identities=15% Similarity=0.146 Sum_probs=63.1
Q ss_pred EEEEEcCCCCcHHHHHHHHhcCcCccCcccceEEEEcCCCCC-HHHHHHHHHHHhCCCCCc------cccCCCCCCc-hh
Q 043562 56 AVTILDSIGLDKTAFAAEAYSSNYVKHYFDCHAWVQEPYTCY-ADQILDIIITFLMPSSSR------MVRADTDNEP-ST 127 (176)
Q Consensus 56 vi~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~vs~~~~-~~~ll~~il~~l~~~~~~------~~~~~~~~~~-~~ 127 (176)
.++|.|..|+|||+|+.++.+.. +-+.++++-++...+ +.+++..+-+...+..+. .+-.+..++. ..
T Consensus 229 ~~~Ipg~~G~GKTvl~~~iak~a----~adivVyvg~GERg~E~~e~l~ef~~l~dp~~g~~~m~RTvlVanTSn~Pv~a 304 (586)
T PRK04192 229 TAAIPGPFGSGKTVTQHQLAKWA----DADIVIYVGCGERGNEMTEVLEEFPELIDPKTGRPLMERTVLIANTSNMPVAA 304 (586)
T ss_pred eEEEecCCCCCHHHHHHHHHhcC----CCCEEEEEEcCcChHHHHHHHHHHHhhcccccccccceeEEEEEECCCCCHHH
Confidence 48999999999999999998872 346778887766544 455555543321111110 0111223333 12
Q ss_pred hhh--------hhhh--CCCceEEEecCCCC-hhhhHHH----hcCCCCCCCCCC
Q 043562 128 NMG--------RPET--STSQRNIPTRDEYQ-PEEYTDQ----RRIPSRYPFPKE 167 (176)
Q Consensus 128 ~~~--------~~~l--~~kr~LlVLDDV~~-~~~w~~i----~~~~~~~~~~~~ 167 (176)
+.. .+++ .++.+|+++|++-. .++..++ ..+|..=+||+.
T Consensus 305 R~~s~ytgiTiAEYfRd~G~~Vllm~DStSR~AeAlREIS~~l~E~P~~eGYP~y 359 (586)
T PRK04192 305 REASIYTGITIAEYYRDMGYDVLLMADSTSRWAEALREISGRLEEMPGEEGYPAY 359 (586)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEecChHHHHHHHHHHHHhcCCCCccCCcCcc
Confidence 111 3444 58999999999843 2333333 355666677764
No 496
>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=96.01 E-value=0.0059 Score=44.15 Aligned_cols=22 Identities=14% Similarity=0.360 Sum_probs=19.8
Q ss_pred EEEEcCCCCcHHHHHHHHhcCc
Q 043562 57 VTILDSIGLDKTAFAAEAYSSN 78 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~~ 78 (176)
|.++|.+|+|||||...+.+..
T Consensus 2 i~vvG~~~vGKtsl~~~~~~~~ 23 (162)
T PF00071_consen 2 IVVVGDSGVGKTSLINRLINGE 23 (162)
T ss_dssp EEEEESTTSSHHHHHHHHHHSS
T ss_pred EEEECCCCCCHHHHHHHHHhhc
Confidence 6899999999999999988764
No 497
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=96.01 E-value=0.0062 Score=47.89 Aligned_cols=24 Identities=8% Similarity=0.069 Sum_probs=21.5
Q ss_pred cEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 54 LSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 54 ~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
-.+++|+|..|.|||||++.+...
T Consensus 29 Ge~~~i~G~nGsGKSTLl~~i~G~ 52 (250)
T PRK14247 29 NTITALMGPSGSGKSTLLRVFNRL 52 (250)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcc
Confidence 358999999999999999999865
No 498
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=96.00 E-value=0.0075 Score=51.27 Aligned_cols=47 Identities=15% Similarity=0.121 Sum_probs=35.3
Q ss_pred CCeeeehHHHHHHHHHHhc------C---CC-------CcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIE------G---PP-------QLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~------~---~~-------~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
..++|.+.-++.+...+.. . .. .-..+.++|+.|+|||+||+.+...
T Consensus 77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~ 139 (413)
T TIGR00382 77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARI 139 (413)
T ss_pred ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHh
Confidence 4589999988888665521 0 10 1256889999999999999999876
No 499
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=96.00 E-value=0.0065 Score=44.29 Aligned_cols=21 Identities=10% Similarity=0.226 Sum_probs=18.4
Q ss_pred EEEEcCCCCcHHHHHHHHhcC
Q 043562 57 VTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 57 i~I~G~gGiGKTtLA~~v~~~ 77 (176)
|.++|.+|+|||||+..+.+.
T Consensus 3 i~vvG~~~vGKTsli~~~~~~ 23 (161)
T cd04124 3 IILLGDSAVGKSKLVERFLMD 23 (161)
T ss_pred EEEECCCCCCHHHHHHHHHhC
Confidence 688999999999999887654
No 500
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.99 E-value=0.01 Score=53.01 Aligned_cols=46 Identities=24% Similarity=0.189 Sum_probs=38.2
Q ss_pred CCeeeehHHHHHHHHHHhcCCCCcEEEEEEcCCCCcHHHHHHHHhcC
Q 043562 31 RDMVGLDDRMEELLDLLIEGPPQLSAVTILDSIGLDKTAFAAEAYSS 77 (176)
Q Consensus 31 ~~~vG~~~~~~~l~~~L~~~~~~~~vi~I~G~gGiGKTtLA~~v~~~ 77 (176)
.+++|.+.-...|..++..+. -...+-++|+.|+||||+|+.++..
T Consensus 16 ~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~ 61 (620)
T PRK14948 16 DELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKS 61 (620)
T ss_pred hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHH
Confidence 478999999999999888643 2346778999999999999999876
Done!