Query 041028
Match_columns 283
No_of_seqs 232 out of 1363
Neff 9.5
Searched_HMMs 46136
Date Fri Mar 29 03:06:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041028.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041028hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4658 Apoptotic ATPase [Sign 100.0 7E-50 1.5E-54 383.9 22.7 277 1-282 187-540 (889)
2 PF00931 NB-ARC: NB-ARC domain 100.0 2.9E-31 6.2E-36 229.3 12.0 187 1-189 27-284 (287)
3 PLN03210 Resistant to P. syrin 100.0 2E-28 4.4E-33 245.6 19.6 251 1-279 215-546 (1153)
4 PRK04841 transcriptional regul 99.0 2.7E-08 5.8E-13 99.1 17.0 127 92-241 205-335 (903)
5 COG3903 Predicted ATPase [Gene 98.4 9.7E-07 2.1E-11 77.6 7.0 226 2-241 23-317 (414)
6 COG2909 MalT ATP-dependent tra 98.2 4.6E-05 1E-09 72.7 14.8 211 2-241 46-341 (894)
7 cd01128 rho_factor Transcripti 98.1 1.4E-05 3E-10 67.4 7.5 44 1-45 24-69 (249)
8 PRK09376 rho transcription ter 98.0 1.1E-05 2.4E-10 71.4 6.7 45 1-46 177-223 (416)
9 TIGR03015 pepcterm_ATPase puta 97.9 0.00035 7.6E-09 59.6 12.7 73 1-76 51-128 (269)
10 PF13401 AAA_22: AAA domain; P 97.7 0.00011 2.4E-09 55.4 6.0 76 2-77 13-94 (131)
11 TIGR00767 rho transcription te 97.5 0.00049 1.1E-08 61.4 8.0 46 2-48 177-224 (415)
12 PRK00080 ruvB Holliday junctio 97.2 0.013 2.8E-07 51.7 13.9 105 93-218 203-312 (328)
13 PRK08118 topology modulation p 97.2 0.00018 4E-09 56.9 1.6 28 1-28 9-37 (167)
14 PF05621 TniB: Bacterial TniB 97.1 0.0085 1.8E-07 51.5 11.6 75 2-76 70-151 (302)
15 TIGR00635 ruvB Holliday juncti 97.1 0.02 4.2E-07 49.9 13.5 62 144-218 226-291 (305)
16 PRK00411 cdc6 cell division co 97.0 0.0042 9.2E-08 56.1 9.5 70 1-70 63-135 (394)
17 TIGR02928 orc1/cdc6 family rep 96.7 0.011 2.3E-07 52.8 9.1 76 1-76 48-134 (365)
18 PRK11331 5-methylcytosine-spec 96.6 0.0029 6.2E-08 57.5 5.0 42 1-42 202-243 (459)
19 PF05729 NACHT: NACHT domain 96.6 0.0049 1.1E-07 48.1 5.5 33 2-34 9-45 (166)
20 PTZ00202 tuzin; Provisional 96.6 0.012 2.7E-07 53.2 8.4 67 1-76 294-366 (550)
21 PF05496 RuvB_N: Holliday junc 96.1 0.011 2.4E-07 48.6 5.2 69 2-76 59-133 (233)
22 COG1474 CDC6 Cdc6-related prot 96.1 0.034 7.3E-07 49.7 8.5 75 2-76 51-127 (366)
23 PRK07261 topology modulation p 95.9 0.014 2.9E-07 46.4 4.9 28 1-28 8-36 (171)
24 PF13207 AAA_17: AAA domain; P 95.4 0.011 2.3E-07 43.7 2.3 17 1-17 7-23 (121)
25 PRK14722 flhF flagellar biosyn 95.4 0.071 1.5E-06 47.6 7.7 74 2-76 146-221 (374)
26 PRK12608 transcription termina 95.2 0.15 3.3E-06 45.4 9.0 50 2-52 142-193 (380)
27 COG1618 Predicted nucleotide k 95.0 0.027 5.8E-07 43.8 3.4 24 1-25 13-36 (179)
28 TIGR03499 FlhF flagellar biosy 95.0 0.12 2.5E-06 44.7 7.7 73 2-76 203-278 (282)
29 PF13238 AAA_18: AAA domain; P 94.9 0.02 4.3E-07 42.6 2.3 17 1-17 6-22 (129)
30 PRK08233 hypothetical protein; 94.7 0.096 2.1E-06 41.6 6.0 18 1-18 11-28 (182)
31 PRK12323 DNA polymerase III su 94.6 0.44 9.5E-06 45.6 11.0 18 2-19 47-64 (700)
32 cd00009 AAA The AAA+ (ATPases 94.5 0.059 1.3E-06 40.5 4.3 32 2-35 28-59 (151)
33 smart00382 AAA ATPases associa 94.5 0.14 3E-06 38.0 6.3 31 2-34 11-41 (148)
34 PHA02518 ParA-like protein; Pr 94.4 0.19 4.2E-06 40.9 7.5 36 2-39 10-45 (211)
35 cd00983 recA RecA is a bacter 94.3 0.18 3.9E-06 44.2 7.2 70 2-78 64-141 (325)
36 PRK12727 flagellar biosynthesi 94.3 0.17 3.7E-06 47.2 7.3 75 2-77 359-435 (559)
37 PRK03839 putative kinase; Prov 94.3 0.03 6.5E-07 44.7 2.2 19 1-19 8-26 (180)
38 PRK05541 adenylylsulfate kinas 94.3 0.052 1.1E-06 43.1 3.6 28 1-30 15-42 (176)
39 PF13191 AAA_16: AAA ATPase do 94.2 0.04 8.7E-07 43.8 2.8 20 1-20 32-51 (185)
40 COG0003 ArsA Predicted ATPase 94.1 0.078 1.7E-06 46.4 4.6 41 1-43 10-50 (322)
41 PF02374 ArsA_ATPase: Anion-tr 94.1 0.069 1.5E-06 46.6 4.2 40 2-43 10-49 (305)
42 PRK06217 hypothetical protein; 94.0 0.1 2.2E-06 41.8 4.9 28 1-29 9-38 (183)
43 PF07728 AAA_5: AAA domain (dy 94.0 0.11 2.3E-06 39.4 4.8 37 2-43 8-44 (139)
44 TIGR02012 tigrfam_recA protein 94.0 0.22 4.8E-06 43.6 7.2 70 2-78 64-141 (321)
45 TIGR02237 recomb_radB DNA repa 93.9 0.11 2.4E-06 42.4 5.1 38 2-42 21-58 (209)
46 PRK07003 DNA polymerase III su 93.9 2.6 5.6E-05 41.3 14.6 17 2-18 47-63 (830)
47 COG1428 Deoxynucleoside kinase 93.8 0.041 8.8E-07 44.7 2.1 39 1-44 12-50 (216)
48 PRK00625 shikimate kinase; Pro 93.8 0.044 9.6E-07 43.6 2.4 18 1-18 8-25 (173)
49 cd01393 recA_like RecA is a b 93.8 0.4 8.6E-06 39.6 8.2 46 2-48 28-77 (226)
50 COG1192 Soj ATPases involved i 93.8 0.079 1.7E-06 44.9 4.1 32 2-34 12-43 (259)
51 COG1484 DnaC DNA replication p 93.8 0.19 4.2E-06 42.6 6.3 61 2-77 114-174 (254)
52 PRK09354 recA recombinase A; P 93.8 0.27 5.9E-06 43.5 7.4 70 2-78 69-146 (349)
53 PF00448 SRP54: SRP54-type pro 93.7 0.33 7.1E-06 39.5 7.3 73 2-76 10-89 (196)
54 PF07726 AAA_3: ATPase family 93.7 0.053 1.2E-06 40.6 2.4 21 2-24 8-28 (131)
55 PF13173 AAA_14: AAA domain 93.6 0.068 1.5E-06 40.1 2.9 30 2-34 11-40 (128)
56 PF01583 APS_kinase: Adenylyls 93.6 0.091 2E-06 40.9 3.7 28 1-30 10-37 (156)
57 cd01133 F1-ATPase_beta F1 ATP 93.5 0.12 2.6E-06 44.1 4.6 43 2-46 78-122 (274)
58 PF01656 CbiA: CobQ/CobB/MinD/ 93.4 0.13 2.8E-06 41.2 4.5 38 1-40 7-44 (195)
59 PF13671 AAA_33: AAA domain; P 93.4 0.059 1.3E-06 41.0 2.3 18 1-18 7-24 (143)
60 COG1102 Cmk Cytidylate kinase 93.4 0.1 2.2E-06 40.7 3.5 38 2-52 9-46 (179)
61 COG3640 CooC CO dehydrogenase 93.4 0.13 2.7E-06 42.6 4.3 35 2-37 9-43 (255)
62 cd01123 Rad51_DMC1_radA Rad51_ 93.3 0.16 3.5E-06 42.2 5.1 48 2-50 28-79 (235)
63 COG3899 Predicted ATPase [Gene 93.3 1.5 3.2E-05 43.9 12.4 132 90-240 238-388 (849)
64 PRK08116 hypothetical protein; 93.3 0.42 9.1E-06 40.8 7.6 63 2-77 123-185 (268)
65 cd02040 NifH NifH gene encodes 93.2 0.14 2.9E-06 43.6 4.5 31 2-34 10-40 (270)
66 PF00004 AAA: ATPase family as 93.1 0.065 1.4E-06 39.9 2.2 17 2-18 7-23 (132)
67 COG2256 MGS1 ATPase related to 93.1 0.16 3.5E-06 45.3 4.8 19 2-20 57-75 (436)
68 PRK05703 flhF flagellar biosyn 93.1 0.29 6.3E-06 44.7 6.8 74 2-77 230-306 (424)
69 TIGR03420 DnaA_homol_Hda DnaA 93.1 0.077 1.7E-06 43.8 2.8 29 2-32 47-75 (226)
70 PRK07952 DNA replication prote 93.1 0.43 9.4E-06 40.1 7.3 62 2-77 108-169 (244)
71 KOG2028 ATPase related to the 93.1 0.18 3.8E-06 44.6 5.0 29 2-34 171-199 (554)
72 cd01122 GP4d_helicase GP4d_hel 93.1 0.73 1.6E-05 39.2 8.9 43 2-47 39-81 (271)
73 KOG3347 Predicted nucleotide k 93.0 0.14 3.1E-06 39.3 3.8 17 2-18 16-32 (176)
74 TIGR02238 recomb_DMC1 meiotic 93.0 0.46 9.9E-06 41.6 7.5 49 2-51 105-157 (313)
75 PRK13947 shikimate kinase; Pro 92.9 0.072 1.6E-06 42.0 2.3 20 1-20 9-28 (171)
76 PRK13849 putative crown gall t 92.9 0.2 4.4E-06 41.8 5.0 38 2-41 11-48 (231)
77 PRK09361 radB DNA repair and r 92.9 0.2 4.4E-06 41.4 5.1 36 2-40 32-67 (225)
78 PRK12377 putative replication 92.9 0.39 8.5E-06 40.5 6.8 61 2-77 110-170 (248)
79 PRK06762 hypothetical protein; 92.9 0.074 1.6E-06 41.7 2.3 17 1-17 10-26 (166)
80 PRK06893 DNA replication initi 92.9 0.091 2E-06 43.8 2.9 29 2-32 48-76 (229)
81 cd01394 radB RadB. The archaea 92.8 0.22 4.8E-06 40.9 5.2 33 2-36 28-60 (218)
82 PRK14721 flhF flagellar biosyn 92.8 0.64 1.4E-05 42.3 8.4 75 2-77 200-276 (420)
83 PRK00771 signal recognition pa 92.7 0.71 1.5E-05 42.3 8.6 73 2-76 104-181 (437)
84 PRK06995 flhF flagellar biosyn 92.6 0.56 1.2E-05 43.4 7.9 75 2-77 265-341 (484)
85 cd02042 ParA ParA and ParB of 92.6 0.079 1.7E-06 38.0 2.0 17 2-18 9-25 (104)
86 PF00910 RNA_helicase: RNA hel 92.6 0.087 1.9E-06 38.2 2.2 17 2-18 7-23 (107)
87 cd02019 NK Nucleoside/nucleoti 92.6 0.1 2.2E-06 34.5 2.3 16 2-17 8-23 (69)
88 PRK00131 aroK shikimate kinase 92.6 0.086 1.9E-06 41.4 2.3 18 1-18 12-29 (175)
89 PRK13231 nitrogenase reductase 92.6 0.15 3.3E-06 43.3 3.9 30 2-34 11-40 (264)
90 cd02036 MinD Bacterial cell di 92.4 0.095 2.1E-06 41.4 2.4 31 1-33 8-38 (179)
91 PHA00729 NTP-binding motif con 92.3 0.091 2E-06 43.5 2.2 16 2-17 26-41 (226)
92 cd00544 CobU Adenosylcobinamid 92.3 0.77 1.7E-05 36.3 7.3 70 2-77 8-80 (169)
93 cd02025 PanK Pantothenate kina 92.3 0.91 2E-05 37.6 8.1 33 2-35 8-41 (220)
94 PF03029 ATP_bind_1: Conserved 92.1 0.22 4.7E-06 41.8 4.3 32 1-34 4-35 (238)
95 cd02037 MRP-like MRP (Multiple 92.0 0.11 2.3E-06 41.0 2.2 29 2-32 9-37 (169)
96 cd01120 RecA-like_NTPases RecA 91.9 0.21 4.6E-06 38.4 3.8 33 2-36 8-40 (165)
97 PRK12724 flagellar biosynthesi 91.9 0.56 1.2E-05 42.6 6.8 72 2-77 232-306 (432)
98 PF00485 PRK: Phosphoribulokin 91.9 0.13 2.8E-06 41.6 2.6 18 2-19 8-25 (194)
99 PRK10037 cell division protein 91.8 0.12 2.5E-06 43.7 2.3 30 2-33 11-40 (250)
100 cd02021 GntK Gluconate kinase 91.8 0.12 2.6E-06 39.8 2.2 17 1-17 7-23 (150)
101 TIGR01281 DPOR_bchL light-inde 91.8 0.12 2.5E-06 44.1 2.3 17 2-18 9-25 (268)
102 PRK12723 flagellar biosynthesi 91.8 0.69 1.5E-05 41.7 7.3 75 2-77 183-261 (388)
103 COG2255 RuvB Holliday junction 91.8 0.13 2.7E-06 43.9 2.4 19 2-20 61-79 (332)
104 COG3265 GntK Gluconate kinase 91.7 0.52 1.1E-05 36.2 5.4 40 2-50 4-44 (161)
105 PRK13185 chlL protochlorophyll 91.7 0.24 5.2E-06 42.2 4.2 18 2-19 11-28 (270)
106 TIGR01287 nifH nitrogenase iro 91.7 0.19 4.1E-06 43.0 3.6 29 2-32 9-37 (275)
107 PRK14723 flhF flagellar biosyn 91.7 0.8 1.7E-05 44.8 8.0 75 2-77 194-270 (767)
108 COG0703 AroK Shikimate kinase 91.6 0.15 3.2E-06 40.3 2.4 20 1-20 10-29 (172)
109 COG0467 RAD55 RecA-superfamily 91.5 0.2 4.4E-06 42.5 3.5 31 2-34 32-62 (260)
110 TIGR02640 gas_vesic_GvpN gas v 91.5 0.33 7.2E-06 41.3 4.8 36 2-42 30-65 (262)
111 PRK13230 nitrogenase reductase 91.5 0.13 2.9E-06 44.1 2.4 19 2-20 10-28 (279)
112 cd00227 CPT Chloramphenicol (C 91.4 0.14 3E-06 40.6 2.2 17 1-17 10-26 (175)
113 PRK13949 shikimate kinase; Pro 91.3 0.15 3.3E-06 40.3 2.4 18 1-18 9-26 (169)
114 PRK11889 flhF flagellar biosyn 91.3 1 2.3E-05 40.6 7.8 74 2-77 250-327 (436)
115 PRK13975 thymidylate kinase; P 91.3 0.15 3.2E-06 41.1 2.3 19 1-19 10-28 (196)
116 TIGR02236 recomb_radA DNA repa 91.2 0.49 1.1E-05 41.3 5.7 48 2-50 104-155 (310)
117 TIGR01969 minD_arch cell divis 91.2 0.15 3.2E-06 42.8 2.3 17 2-18 10-26 (251)
118 PTZ00301 uridine kinase; Provi 91.2 0.14 3.1E-06 42.0 2.1 17 2-18 12-28 (210)
119 cd02032 Bchl_like This family 91.2 0.15 3.2E-06 43.4 2.4 18 2-19 9-26 (267)
120 PLN03187 meiotic recombination 91.2 0.54 1.2E-05 41.7 5.8 49 2-51 135-187 (344)
121 COG0563 Adk Adenylate kinase a 91.2 0.14 3.1E-06 40.8 2.1 18 2-19 9-26 (178)
122 PRK04301 radA DNA repair and r 91.2 0.47 1E-05 41.6 5.5 48 2-50 111-162 (317)
123 PRK13233 nifH nitrogenase redu 91.2 0.13 2.8E-06 44.1 1.9 17 2-18 11-27 (275)
124 PRK13946 shikimate kinase; Pro 91.1 0.16 3.6E-06 40.6 2.4 19 1-19 18-36 (184)
125 PF02367 UPF0079: Uncharacteri 91.1 0.17 3.6E-06 37.8 2.2 17 3-19 25-41 (123)
126 cd03115 SRP The signal recogni 91.1 1.1 2.4E-05 35.2 7.2 74 1-76 8-88 (173)
127 cd01121 Sms Sms (bacterial rad 91.1 0.76 1.7E-05 41.2 6.8 45 2-51 91-135 (372)
128 PTZ00088 adenylate kinase 1; P 91.0 0.19 4E-06 42.0 2.7 18 1-18 14-31 (229)
129 KOG1969 DNA replication checkp 91.0 0.38 8.2E-06 46.2 4.9 43 2-49 335-377 (877)
130 PF01695 IstB_IS21: IstB-like 90.9 0.51 1.1E-05 37.6 5.1 60 2-77 56-115 (178)
131 TIGR00362 DnaA chromosomal rep 90.9 0.76 1.7E-05 41.7 6.8 29 2-30 145-173 (405)
132 TIGR01359 UMP_CMP_kin_fam UMP- 90.9 0.17 3.6E-06 40.3 2.3 18 1-18 7-24 (183)
133 PRK05480 uridine/cytidine kina 90.9 0.16 3.5E-06 41.5 2.2 16 2-17 15-30 (209)
134 PRK12726 flagellar biosynthesi 90.8 1.4 3E-05 39.6 8.1 74 2-77 215-292 (407)
135 cd01983 Fer4_NifH The Fer4_Nif 90.8 0.19 4.2E-06 34.8 2.3 18 2-19 8-25 (99)
136 PRK13235 nifH nitrogenase redu 90.8 0.15 3.2E-06 43.7 2.0 18 2-19 10-27 (274)
137 PRK06547 hypothetical protein; 90.8 0.18 3.8E-06 40.1 2.3 18 1-18 23-40 (172)
138 PRK13232 nifH nitrogenase redu 90.8 0.15 3.2E-06 43.6 2.0 17 2-18 10-26 (273)
139 COG0125 Tmk Thymidylate kinase 90.8 0.54 1.2E-05 38.5 5.1 43 2-46 12-54 (208)
140 PRK04040 adenylate kinase; Pro 90.7 0.18 3.8E-06 40.7 2.3 39 1-50 10-48 (188)
141 PF07015 VirC1: VirC1 protein; 90.7 0.45 9.9E-06 39.4 4.6 35 2-38 11-45 (231)
142 PRK13342 recombination factor 90.7 0.44 9.5E-06 43.5 5.1 17 2-18 45-61 (413)
143 COG0529 CysC Adenylylsulfate k 90.7 0.2 4.3E-06 39.7 2.4 20 1-20 31-50 (197)
144 PF03266 NTPase_1: NTPase; In 90.7 0.18 3.9E-06 39.9 2.2 17 2-18 8-24 (168)
145 PF01202 SKI: Shikimate kinase 90.5 0.16 3.4E-06 39.7 1.8 19 2-20 1-19 (158)
146 cd03110 Fer4_NifH_child This p 90.5 0.17 3.6E-06 40.3 1.9 16 2-17 9-24 (179)
147 PRK05973 replicative DNA helic 90.5 0.7 1.5E-05 38.7 5.6 39 2-44 73-111 (237)
148 PRK06921 hypothetical protein; 90.5 1.1 2.4E-05 38.3 7.0 29 2-31 126-154 (266)
149 PRK08727 hypothetical protein; 90.4 0.21 4.6E-06 41.7 2.6 29 2-32 50-78 (233)
150 cd01124 KaiC KaiC is a circadi 90.4 0.35 7.5E-06 38.5 3.8 38 2-43 8-45 (187)
151 PRK13948 shikimate kinase; Pro 90.4 0.19 4.2E-06 40.3 2.2 18 1-18 18-35 (182)
152 cd02024 NRK1 Nicotinamide ribo 90.4 0.19 4.1E-06 40.5 2.1 16 2-17 8-23 (187)
153 PRK06696 uridine kinase; Valid 90.4 0.18 4E-06 41.7 2.2 18 2-19 31-48 (223)
154 cd00464 SK Shikimate kinase (S 90.4 0.21 4.5E-06 38.4 2.3 18 1-18 7-24 (154)
155 PF00308 Bac_DnaA: Bacterial d 90.4 0.93 2E-05 37.5 6.3 62 2-77 43-104 (219)
156 PRK05564 DNA polymerase III su 90.3 1.1 2.4E-05 39.1 7.1 47 2-49 35-86 (313)
157 cd01672 TMPK Thymidine monopho 90.3 0.72 1.6E-05 36.9 5.6 18 2-19 9-26 (200)
158 PRK14087 dnaA chromosomal repl 90.3 0.93 2E-05 41.8 6.8 30 2-31 150-179 (450)
159 PRK08939 primosomal protein Dn 90.2 1 2.3E-05 39.2 6.8 60 2-77 165-224 (306)
160 PLN03186 DNA repair protein RA 90.1 0.6 1.3E-05 41.4 5.2 49 2-51 132-184 (342)
161 cd02117 NifH_like This family 90.1 0.21 4.6E-06 40.9 2.3 19 2-20 9-27 (212)
162 PRK00889 adenylylsulfate kinas 90.1 0.22 4.8E-06 39.4 2.3 19 1-19 12-30 (175)
163 TIGR01313 therm_gnt_kin carboh 90.0 0.22 4.8E-06 38.9 2.2 16 2-17 7-22 (163)
164 PF08423 Rad51: Rad51; InterP 90.0 0.59 1.3E-05 39.7 5.0 47 2-49 47-97 (256)
165 TIGR02322 phosphon_PhnN phosph 90.0 0.22 4.8E-06 39.5 2.3 18 1-18 9-26 (179)
166 TIGR02881 spore_V_K stage V sp 90.0 0.2 4.4E-06 42.5 2.1 16 2-17 51-66 (261)
167 PF02223 Thymidylate_kin: Thym 89.9 0.47 1E-05 37.9 4.1 42 2-46 5-47 (186)
168 PF06564 YhjQ: YhjQ protein; 89.8 0.24 5.1E-06 41.6 2.3 28 2-31 11-38 (243)
169 PF13481 AAA_25: AAA domain; P 89.8 0.9 1.9E-05 36.4 5.7 42 2-45 41-90 (193)
170 COG1066 Sms Predicted ATP-depe 89.8 0.86 1.9E-05 41.0 5.9 45 2-52 102-146 (456)
171 TIGR03371 cellulose_yhjQ cellu 89.8 0.24 5.2E-06 41.5 2.4 30 2-33 11-40 (246)
172 TIGR00150 HI0065_YjeE ATPase, 89.8 0.25 5.4E-06 37.4 2.2 18 2-19 31-48 (133)
173 TIGR00959 ffh signal recogniti 89.8 1.5 3.3E-05 40.1 7.7 74 2-76 108-188 (428)
174 PF08303 tRNA_lig_kinase: tRNA 89.8 0.21 4.6E-06 39.0 1.9 38 2-48 8-50 (168)
175 COG4088 Predicted nucleotide k 89.7 0.2 4.4E-06 40.7 1.7 20 1-20 9-28 (261)
176 CHL00181 cbbX CbbX; Provisiona 89.7 0.31 6.7E-06 42.1 3.1 17 2-18 68-84 (287)
177 TIGR00235 udk uridine kinase. 89.7 0.23 4.9E-06 40.6 2.2 17 2-18 15-31 (207)
178 PRK08903 DnaA regulatory inact 89.7 0.23 4.9E-06 41.2 2.1 17 2-18 51-67 (227)
179 TIGR03453 partition_RepA plasm 89.6 0.48 1E-05 42.8 4.4 35 2-38 114-148 (387)
180 PRK12422 chromosomal replicati 89.6 1.4 3E-05 40.6 7.4 28 2-31 150-177 (445)
181 PRK14532 adenylate kinase; Pro 89.6 0.25 5.3E-06 39.6 2.2 17 1-17 8-24 (188)
182 PRK12339 2-phosphoglycerate ki 89.6 0.25 5.4E-06 40.2 2.3 17 1-17 11-27 (197)
183 PRK03731 aroL shikimate kinase 89.6 0.26 5.5E-06 38.8 2.3 18 1-18 10-27 (171)
184 TIGR03574 selen_PSTK L-seryl-t 89.5 0.24 5.3E-06 41.7 2.3 19 1-19 7-25 (249)
185 PRK10646 ADP-binding protein; 89.5 0.23 5.1E-06 38.5 1.9 18 3-20 38-55 (153)
186 PRK08084 DNA replication initi 89.4 0.39 8.5E-06 40.1 3.4 30 2-33 54-83 (235)
187 cd02020 CMPK Cytidine monophos 89.4 0.27 5.9E-06 37.3 2.3 18 1-18 7-24 (147)
188 PRK05057 aroK shikimate kinase 89.4 0.26 5.7E-06 39.0 2.2 18 1-18 12-29 (172)
189 TIGR01360 aden_kin_iso1 adenyl 89.4 0.26 5.6E-06 39.3 2.2 17 1-17 11-27 (188)
190 PF13521 AAA_28: AAA domain; P 89.4 0.24 5.3E-06 38.7 2.0 15 2-16 8-22 (163)
191 CHL00072 chlL photochlorophyll 89.4 0.26 5.7E-06 42.6 2.4 18 2-19 9-26 (290)
192 PRK13695 putative NTPase; Prov 89.3 0.44 9.6E-06 37.7 3.5 27 2-29 9-35 (174)
193 PRK11545 gntK gluconate kinase 89.3 0.27 5.9E-06 38.6 2.3 17 2-18 4-20 (163)
194 PRK14529 adenylate kinase; Pro 89.3 0.84 1.8E-05 37.8 5.2 19 1-19 8-26 (223)
195 PRK05642 DNA replication initi 89.2 0.43 9.3E-06 39.9 3.5 29 2-32 54-82 (234)
196 PRK13869 plasmid-partitioning 89.2 0.52 1.1E-05 42.9 4.2 35 2-38 131-165 (405)
197 TIGR01968 minD_bact septum sit 89.2 0.27 5.9E-06 41.4 2.3 18 2-19 11-28 (261)
198 cd00984 DnaB_C DnaB helicase C 89.1 0.84 1.8E-05 38.1 5.2 43 2-47 22-64 (242)
199 PLN03025 replication factor C 89.1 0.67 1.5E-05 40.6 4.8 17 2-18 43-59 (319)
200 cd02023 UMPK Uridine monophosp 89.0 0.26 5.7E-06 39.8 2.0 16 2-17 8-23 (198)
201 PRK07004 replicative DNA helic 89.0 2.5 5.5E-05 39.1 8.6 98 2-107 222-327 (460)
202 TIGR00041 DTMP_kinase thymidyl 89.0 0.99 2.1E-05 36.2 5.4 19 2-20 12-30 (195)
203 PRK09519 recA DNA recombinatio 89.0 1.5 3.3E-05 43.1 7.3 70 2-78 69-146 (790)
204 PRK14530 adenylate kinase; Pro 88.9 0.3 6.4E-06 40.2 2.3 18 1-18 11-28 (215)
205 TIGR03877 thermo_KaiC_1 KaiC d 88.9 1 2.2E-05 37.7 5.5 43 2-49 30-72 (237)
206 KOG1532 GTPase XAB1, interacts 88.8 0.37 7.9E-06 40.9 2.7 74 1-76 27-121 (366)
207 COG1149 MinD superfamily P-loo 88.8 0.35 7.6E-06 40.9 2.6 24 2-27 11-34 (284)
208 TIGR02880 cbbX_cfxQ probable R 88.7 0.46 9.9E-06 41.0 3.4 17 2-18 67-83 (284)
209 cd02028 UMPK_like Uridine mono 88.7 0.29 6.3E-06 39.1 2.0 17 2-18 8-24 (179)
210 PRK13973 thymidylate kinase; P 88.7 1.2 2.6E-05 36.6 5.7 43 2-46 12-54 (213)
211 TIGR03881 KaiC_arch_4 KaiC dom 88.6 1.3 2.9E-05 36.6 6.1 44 2-50 29-72 (229)
212 PRK08533 flagellar accessory p 88.6 1.2 2.6E-05 37.1 5.8 44 2-50 33-76 (230)
213 COG0468 RecA RecA/RadA recombi 88.6 0.91 2E-05 38.9 5.1 43 2-47 69-111 (279)
214 PF08477 Miro: Miro-like prote 88.6 0.32 7E-06 35.4 2.1 17 2-18 8-24 (119)
215 PRK00149 dnaA chromosomal repl 88.5 1.7 3.7E-05 40.1 7.2 30 2-31 157-186 (450)
216 cd02034 CooC The accessory pro 88.5 0.37 8.1E-06 35.5 2.4 19 1-19 7-25 (116)
217 PF03796 DnaB_C: DnaB-like hel 88.5 1.2 2.7E-05 37.6 5.9 44 2-48 28-71 (259)
218 COG0572 Udk Uridine kinase [Nu 88.5 0.34 7.4E-06 39.8 2.3 19 2-20 17-35 (218)
219 PRK10818 cell division inhibit 88.4 0.29 6.3E-06 41.7 2.0 30 2-33 12-41 (270)
220 cd03111 CpaE_like This protein 88.4 0.31 6.8E-06 35.2 1.9 18 2-19 9-26 (106)
221 PRK07667 uridine kinase; Provi 88.3 0.33 7.2E-06 39.2 2.2 18 1-18 25-42 (193)
222 COG1936 Predicted nucleotide k 88.3 0.28 6.2E-06 38.6 1.6 13 2-14 9-21 (180)
223 cd02027 APSK Adenosine 5'-phos 88.3 0.35 7.5E-06 37.3 2.2 17 2-18 8-24 (149)
224 TIGR02239 recomb_RAD51 DNA rep 88.3 0.97 2.1E-05 39.6 5.2 48 2-50 105-156 (316)
225 CHL00175 minD septum-site dete 88.2 0.3 6.5E-06 41.9 2.0 30 2-33 25-54 (281)
226 cd01428 ADK Adenylate kinase ( 88.2 0.35 7.6E-06 38.8 2.3 17 1-17 7-23 (194)
227 cd00550 ArsA_ATPase Oxyanion-t 88.2 0.69 1.5E-05 39.2 4.1 38 2-41 9-46 (254)
228 PRK03846 adenylylsulfate kinas 88.1 0.34 7.5E-06 39.3 2.2 18 1-18 32-49 (198)
229 KOG2543 Origin recognition com 88.1 1.3 2.7E-05 39.6 5.6 43 2-49 39-81 (438)
230 PRK13976 thymidylate kinase; P 88.1 1 2.2E-05 36.9 4.9 18 2-19 9-26 (209)
231 KOG0744 AAA+-type ATPase [Post 88.1 0.69 1.5E-05 40.3 3.9 65 2-75 186-252 (423)
232 COG1222 RPT1 ATP-dependent 26S 87.9 0.28 6.1E-06 43.2 1.5 19 2-20 194-212 (406)
233 PF02562 PhoH: PhoH-like prote 87.9 0.52 1.1E-05 38.5 3.0 29 2-30 28-56 (205)
234 TIGR00764 lon_rel lon-related 87.9 0.84 1.8E-05 43.8 4.9 48 1-50 45-92 (608)
235 PRK10867 signal recognition pa 87.9 2.5 5.4E-05 38.8 7.7 74 2-76 109-189 (433)
236 PF04665 Pox_A32: Poxvirus A32 87.8 0.67 1.5E-05 38.8 3.7 28 2-31 22-49 (241)
237 PF00406 ADK: Adenylate kinase 87.7 0.4 8.8E-06 36.9 2.3 17 2-18 5-21 (151)
238 PHA02519 plasmid partition pro 87.7 0.4 8.6E-06 43.3 2.4 33 2-36 116-149 (387)
239 PRK06761 hypothetical protein; 87.6 0.92 2E-05 39.0 4.5 27 1-28 11-37 (282)
240 PLN02924 thymidylate kinase 87.6 1.2 2.7E-05 36.8 5.2 44 2-46 25-68 (220)
241 TIGR00390 hslU ATP-dependent p 87.6 0.92 2E-05 41.2 4.6 19 2-20 56-74 (441)
242 PRK06835 DNA replication prote 87.6 0.58 1.3E-05 41.2 3.4 28 2-31 192-219 (329)
243 PRK04182 cytidylate kinase; Pr 87.6 0.41 8.9E-06 37.8 2.3 18 1-18 8-25 (180)
244 PRK06620 hypothetical protein; 87.6 0.35 7.6E-06 39.8 1.9 16 2-17 53-68 (214)
245 PF13245 AAA_19: Part of AAA d 87.5 0.99 2.1E-05 30.5 3.8 16 2-17 19-35 (76)
246 COG0470 HolB ATPase involved i 87.4 2.5 5.4E-05 36.7 7.3 50 2-51 33-104 (325)
247 PRK08691 DNA polymerase III su 87.4 29 0.00064 33.9 14.7 16 2-17 47-62 (709)
248 PF09140 MipZ: ATPase MipZ; I 87.3 0.38 8.3E-06 40.3 2.0 20 2-21 10-29 (261)
249 PRK10078 ribose 1,5-bisphospho 87.3 0.39 8.4E-06 38.5 1.9 17 1-17 10-26 (186)
250 PRK13705 plasmid-partitioning 87.3 0.41 8.8E-06 43.3 2.3 33 2-36 116-149 (388)
251 PRK13236 nitrogenase reductase 87.2 0.68 1.5E-05 40.2 3.6 18 2-19 15-32 (296)
252 PRK00698 tmk thymidylate kinas 87.2 1.4 3E-05 35.6 5.3 18 2-19 12-29 (205)
253 PRK04328 hypothetical protein; 87.1 1.1 2.4E-05 37.8 4.7 44 2-50 32-75 (249)
254 COG0714 MoxR-like ATPases [Gen 87.0 0.92 2E-05 40.0 4.3 39 2-45 52-90 (329)
255 PRK14528 adenylate kinase; Pro 87.0 0.35 7.5E-06 38.9 1.5 17 2-18 10-26 (186)
256 PHA02530 pseT polynucleotide k 87.0 0.43 9.4E-06 41.3 2.2 17 1-17 10-26 (300)
257 PRK06067 flagellar accessory p 86.9 1.4 3E-05 36.7 5.2 43 2-49 34-76 (234)
258 TIGR03575 selen_PSTK_euk L-ser 86.9 0.77 1.7E-05 40.6 3.7 18 1-18 7-24 (340)
259 TIGR02016 BchX chlorophyllide 86.9 0.85 1.9E-05 39.6 4.0 18 2-19 9-26 (296)
260 PRK04296 thymidine kinase; Pro 86.8 0.64 1.4E-05 37.5 3.0 71 2-77 11-85 (190)
261 PRK09183 transposase/IS protei 86.8 0.74 1.6E-05 39.1 3.5 18 2-19 111-128 (259)
262 PF06745 KaiC: KaiC; InterPro 86.7 0.64 1.4E-05 38.5 3.0 32 2-35 28-60 (226)
263 TIGR01242 26Sp45 26S proteasom 86.7 0.44 9.6E-06 42.6 2.2 18 2-19 165-182 (364)
264 PRK13768 GTPase; Provisional 86.6 0.86 1.9E-05 38.6 3.8 29 1-31 10-38 (253)
265 COG0802 Predicted ATPase or ki 86.5 0.45 9.8E-06 36.6 1.8 18 3-20 35-52 (149)
266 PF13504 LRR_7: Leucine rich r 86.5 0.41 8.9E-06 22.2 1.0 16 266-281 2-17 (17)
267 PRK14963 DNA polymerase III su 86.4 0.39 8.4E-06 44.9 1.7 18 2-19 45-62 (504)
268 PRK06526 transposase; Provisio 86.4 0.5 1.1E-05 40.0 2.3 18 2-19 107-124 (254)
269 PF03205 MobB: Molybdopterin g 86.4 0.52 1.1E-05 36.0 2.1 31 2-33 9-39 (140)
270 PF00693 Herpes_TK: Thymidine 86.3 0.47 1E-05 40.5 2.0 16 3-18 4-19 (281)
271 PRK13765 ATP-dependent proteas 86.3 0.81 1.8E-05 44.0 3.8 47 2-50 59-105 (637)
272 PTZ00112 origin recognition co 86.3 4 8.6E-05 40.8 8.3 50 1-50 789-843 (1164)
273 PRK05201 hslU ATP-dependent pr 86.2 0.94 2E-05 41.2 3.9 18 2-19 59-76 (443)
274 PF10662 PduV-EutP: Ethanolami 86.2 0.46 1E-05 36.4 1.7 16 2-17 10-25 (143)
275 PRK14957 DNA polymerase III su 86.2 1.8 3.9E-05 40.9 5.9 17 2-18 47-63 (546)
276 PRK14088 dnaA chromosomal repl 86.1 0.82 1.8E-05 42.1 3.7 29 2-31 139-168 (440)
277 PRK14958 DNA polymerase III su 86.1 1.8 3.8E-05 40.7 5.9 46 2-48 47-111 (509)
278 cd00880 Era_like Era (E. coli 86.1 0.48 1E-05 35.8 1.8 16 1-16 4-19 (163)
279 PRK05800 cobU adenosylcobinami 86.0 4.1 9E-05 32.2 7.2 42 2-49 10-51 (170)
280 PRK14949 DNA polymerase III su 85.9 1.7 3.6E-05 43.3 5.7 18 2-19 47-64 (944)
281 PRK08181 transposase; Validate 85.9 0.67 1.5E-05 39.6 2.8 60 2-77 115-174 (269)
282 PRK14527 adenylate kinase; Pro 85.8 0.55 1.2E-05 37.8 2.1 18 2-19 15-32 (191)
283 TIGR03263 guanyl_kin guanylate 85.8 0.49 1.1E-05 37.5 1.8 16 2-17 10-25 (180)
284 COG4778 PhnL ABC-type phosphon 85.8 0.85 1.8E-05 36.1 3.0 27 2-31 46-72 (235)
285 TIGR00064 ftsY signal recognit 85.8 1.8 3.9E-05 37.1 5.4 74 1-77 80-161 (272)
286 TIGR03815 CpaE_hom_Actino heli 85.7 0.5 1.1E-05 41.5 2.0 17 2-18 103-119 (322)
287 PRK05439 pantothenate kinase; 85.6 3.3 7.2E-05 36.2 7.0 17 2-18 95-111 (311)
288 TIGR00176 mobB molybdopterin-g 85.6 0.69 1.5E-05 36.0 2.5 26 2-28 8-33 (155)
289 COG1100 GTPase SAR1 and relate 85.5 0.49 1.1E-05 38.7 1.7 19 1-19 13-31 (219)
290 cd01673 dNK Deoxyribonucleosid 85.5 0.61 1.3E-05 37.4 2.3 17 1-17 7-23 (193)
291 TIGR03878 thermo_KaiC_2 KaiC d 85.5 1.1 2.5E-05 38.0 4.0 31 2-34 45-75 (259)
292 PRK14526 adenylate kinase; Pro 85.4 0.74 1.6E-05 37.8 2.7 18 1-18 8-25 (211)
293 PTZ00035 Rad51 protein; Provis 85.4 2.7 5.7E-05 37.3 6.4 48 2-50 127-178 (337)
294 TIGR02173 cyt_kin_arch cytidyl 85.4 0.63 1.4E-05 36.4 2.3 18 1-18 8-25 (171)
295 TIGR00554 panK_bact pantothena 85.4 2.8 6.2E-05 36.2 6.4 17 2-18 71-87 (290)
296 PRK13234 nifH nitrogenase redu 85.4 0.61 1.3E-05 40.4 2.3 17 2-18 13-29 (295)
297 PLN02200 adenylate kinase fami 85.3 0.62 1.4E-05 38.9 2.3 18 1-18 51-68 (234)
298 PRK03992 proteasome-activating 85.3 0.57 1.2E-05 42.4 2.2 17 2-18 174-190 (389)
299 PRK08840 replicative DNA helic 85.2 1.6 3.5E-05 40.4 5.1 45 2-49 226-270 (464)
300 PRK13341 recombination factor 85.1 0.62 1.3E-05 45.5 2.5 18 1-18 60-77 (725)
301 PRK00279 adk adenylate kinase; 85.1 0.65 1.4E-05 38.2 2.3 18 1-18 8-25 (215)
302 PRK14531 adenylate kinase; Pro 85.1 0.67 1.5E-05 37.0 2.3 18 1-18 10-27 (183)
303 PRK12402 replication factor C 85.0 0.86 1.9E-05 40.0 3.2 17 2-18 45-61 (337)
304 smart00173 RAS Ras subfamily o 85.0 0.58 1.3E-05 36.2 1.9 15 2-16 9-23 (164)
305 PRK10536 hypothetical protein; 85.0 1 2.3E-05 38.1 3.4 27 2-28 83-109 (262)
306 PRK04195 replication factor C 84.9 1.8 3.8E-05 40.4 5.3 17 2-18 48-64 (482)
307 PRK02496 adk adenylate kinase; 84.8 0.69 1.5E-05 36.9 2.3 18 1-18 9-26 (184)
308 TIGR01425 SRP54_euk signal rec 84.8 2.7 5.8E-05 38.4 6.2 48 2-51 109-157 (429)
309 TIGR03880 KaiC_arch_3 KaiC dom 84.7 2.5 5.3E-05 34.9 5.6 31 2-34 25-55 (224)
310 TIGR03018 pepcterm_TyrKin exop 84.7 0.63 1.4E-05 38.0 2.0 30 2-32 45-74 (207)
311 COG1124 DppF ABC-type dipeptid 84.7 0.91 2E-05 37.9 2.9 17 2-18 42-58 (252)
312 PRK09087 hypothetical protein; 84.7 0.67 1.4E-05 38.5 2.2 16 2-17 53-68 (226)
313 TIGR01351 adk adenylate kinase 84.7 0.69 1.5E-05 37.8 2.3 18 1-18 7-24 (210)
314 smart00763 AAA_PrkA PrkA AAA d 84.7 0.64 1.4E-05 41.3 2.1 50 2-51 87-148 (361)
315 cd04139 RalA_RalB RalA/RalB su 84.6 0.6 1.3E-05 35.9 1.8 16 2-17 9-24 (164)
316 PRK09280 F0F1 ATP synthase sub 84.6 5.9 0.00013 36.6 8.3 45 2-47 153-198 (463)
317 cd03114 ArgK-like The function 84.6 1 2.2E-05 34.7 3.1 19 2-20 8-26 (148)
318 KOG3354 Gluconate kinase [Carb 84.5 3.5 7.5E-05 32.1 5.7 41 2-51 21-62 (191)
319 PRK08006 replicative DNA helic 84.5 1.9 4.2E-05 40.0 5.3 44 2-48 233-276 (471)
320 COG0194 Gmk Guanylate kinase [ 84.5 0.69 1.5E-05 37.0 2.0 16 2-17 13-28 (191)
321 cd02030 NDUO42 NADH:Ubiquinone 84.4 0.73 1.6E-05 38.0 2.3 17 2-18 8-24 (219)
322 PRK09270 nucleoside triphospha 84.4 0.7 1.5E-05 38.4 2.2 18 2-19 42-59 (229)
323 PRK12338 hypothetical protein; 84.4 0.68 1.5E-05 40.5 2.1 17 2-18 13-29 (319)
324 PF09848 DUF2075: Uncharacteri 84.3 4 8.6E-05 36.3 7.1 34 1-34 9-42 (352)
325 PRK06904 replicative DNA helic 84.3 2 4.3E-05 40.0 5.3 45 2-49 230-274 (472)
326 PF07724 AAA_2: AAA domain (Cd 84.3 0.72 1.6E-05 36.6 2.1 31 2-33 12-42 (171)
327 cd01135 V_A-ATPase_B V/A-type 84.2 2.4 5.1E-05 36.3 5.3 46 2-47 78-126 (276)
328 cd00071 GMPK Guanosine monopho 84.2 0.7 1.5E-05 35.1 1.9 16 2-17 8-23 (137)
329 cd04138 H_N_K_Ras_like H-Ras/N 84.2 0.66 1.4E-05 35.5 1.8 15 2-16 10-24 (162)
330 cd01125 repA Hexameric Replica 84.2 2.2 4.7E-05 35.6 5.1 18 1-18 9-26 (239)
331 PRK14974 cell division protein 84.1 2.2 4.8E-05 37.7 5.3 49 1-52 148-198 (336)
332 PRK07933 thymidylate kinase; V 84.0 0.84 1.8E-05 37.6 2.5 20 1-20 8-27 (213)
333 PRK00300 gmk guanylate kinase; 84.0 0.71 1.5E-05 37.4 2.0 16 2-17 14-29 (205)
334 COG2074 2-phosphoglycerate kin 83.9 0.76 1.6E-05 38.6 2.1 19 2-20 98-116 (299)
335 PRK14961 DNA polymerase III su 83.9 0.72 1.6E-05 41.3 2.1 17 2-18 47-63 (363)
336 cd04119 RJL RJL (RabJ-Like) su 83.8 0.68 1.5E-05 35.7 1.8 16 2-17 9-24 (168)
337 COG1157 FliI Flagellar biosynt 83.8 4.3 9.3E-05 36.7 6.8 71 2-76 172-258 (441)
338 cd02029 PRK_like Phosphoribulo 83.7 5 0.00011 34.3 7.0 17 2-18 8-24 (277)
339 PRK11670 antiporter inner memb 83.6 0.81 1.8E-05 41.1 2.4 17 2-18 117-133 (369)
340 TIGR01650 PD_CobS cobaltochela 83.6 1.4 2.9E-05 38.8 3.7 17 2-18 73-89 (327)
341 PRK09302 circadian clock prote 83.6 2.1 4.5E-05 40.2 5.2 31 2-34 40-71 (509)
342 PF00154 RecA: recA bacterial 83.5 2.1 4.6E-05 37.5 4.8 63 2-71 62-130 (322)
343 PRK05748 replicative DNA helic 83.5 2.2 4.7E-05 39.4 5.2 45 2-49 212-256 (448)
344 KOG0735 AAA+-type ATPase [Post 83.5 2.4 5.1E-05 41.0 5.4 44 2-46 440-485 (952)
345 PF13614 AAA_31: AAA domain; P 83.5 2.4 5.1E-05 32.6 4.7 32 2-35 10-41 (157)
346 TIGR03600 phage_DnaB phage rep 83.4 2.4 5.2E-05 38.7 5.5 44 2-48 203-246 (421)
347 TIGR02655 circ_KaiC circadian 83.4 1.2 2.6E-05 41.5 3.5 30 2-33 30-60 (484)
348 PRK05636 replicative DNA helic 83.3 2 4.3E-05 40.3 4.9 44 2-48 274-317 (505)
349 PRK13531 regulatory ATPase Rav 83.2 0.97 2.1E-05 41.8 2.7 23 2-24 48-70 (498)
350 PRK08760 replicative DNA helic 83.2 2.3 4.9E-05 39.6 5.2 44 2-48 238-281 (476)
351 cd00820 PEPCK_HprK Phosphoenol 83.1 0.75 1.6E-05 33.4 1.6 13 2-14 24-36 (107)
352 cd04124 RabL2 RabL2 subfamily. 83.1 0.77 1.7E-05 35.6 1.8 15 2-16 9-23 (161)
353 PRK14493 putative bifunctional 83.0 0.9 1.9E-05 39.0 2.3 27 2-31 10-36 (274)
354 PRK09825 idnK D-gluconate kina 83.0 0.89 1.9E-05 36.2 2.2 17 2-18 12-28 (176)
355 PF01926 MMR_HSR1: 50S ribosom 82.9 0.92 2E-05 33.0 2.1 16 1-16 7-22 (116)
356 COG0645 Predicted kinase [Gene 82.8 0.86 1.9E-05 35.8 1.9 17 2-18 10-26 (170)
357 PTZ00361 26 proteosome regulat 82.7 0.86 1.9E-05 41.8 2.2 17 2-18 226-242 (438)
358 cd02038 FleN-like FleN is a me 82.7 1 2.2E-05 34.2 2.3 18 2-19 9-26 (139)
359 cd04113 Rab4 Rab4 subfamily. 82.6 0.85 1.8E-05 35.1 1.9 15 2-16 9-23 (161)
360 PTZ00454 26S protease regulato 82.6 0.85 1.8E-05 41.3 2.1 17 2-18 188-204 (398)
361 PRK05595 replicative DNA helic 82.6 2.6 5.5E-05 38.9 5.3 44 2-48 210-253 (444)
362 TIGR01618 phage_P_loop phage n 82.5 0.66 1.4E-05 38.4 1.3 14 2-15 21-34 (220)
363 cd01862 Rab7 Rab7 subfamily. 82.5 0.78 1.7E-05 35.6 1.7 15 2-16 9-23 (172)
364 PF13086 AAA_11: AAA domain; P 82.4 1.5 3.3E-05 35.8 3.5 45 2-46 26-75 (236)
365 TIGR00455 apsK adenylylsulfate 82.4 1 2.2E-05 36.0 2.3 17 2-18 27-43 (184)
366 cd01918 HprK_C HprK/P, the bif 82.4 0.93 2E-05 35.0 2.0 15 2-16 23-37 (149)
367 cd04136 Rap_like Rap-like subf 82.4 0.85 1.8E-05 35.1 1.8 15 2-16 10-24 (163)
368 KOG0991 Replication factor C, 82.3 1 2.3E-05 37.5 2.3 44 1-44 56-99 (333)
369 TIGR02903 spore_lon_C ATP-depe 82.3 1.1 2.4E-05 43.1 2.9 18 2-19 184-201 (615)
370 PRK07994 DNA polymerase III su 82.3 2.6 5.7E-05 40.6 5.3 18 2-19 47-64 (647)
371 cd01131 PilT Pilus retraction 82.1 1.6 3.5E-05 35.4 3.4 17 2-18 10-26 (198)
372 PRK10751 molybdopterin-guanine 81.8 1 2.2E-05 35.8 2.0 18 2-19 15-32 (173)
373 TIGR00231 small_GTP small GTP- 81.8 0.89 1.9E-05 34.2 1.7 17 1-17 9-25 (161)
374 PRK14086 dnaA chromosomal repl 81.8 6.2 0.00013 37.8 7.5 30 2-31 323-352 (617)
375 COG0541 Ffh Signal recognition 81.8 8.3 0.00018 35.1 7.9 48 3-52 110-158 (451)
376 PRK04220 2-phosphoglycerate ki 81.7 1 2.2E-05 39.1 2.2 17 2-18 101-117 (301)
377 PRK13974 thymidylate kinase; P 81.7 3.8 8.3E-05 33.5 5.6 45 2-46 12-59 (212)
378 PRK08506 replicative DNA helic 81.7 3.4 7.4E-05 38.4 5.8 43 2-48 201-243 (472)
379 cd00882 Ras_like_GTPase Ras-li 81.7 0.95 2.1E-05 33.6 1.8 17 2-18 5-21 (157)
380 TIGR02528 EutP ethanolamine ut 81.6 0.81 1.7E-05 34.5 1.4 15 2-16 9-23 (142)
381 PHA02544 44 clamp loader, smal 81.3 1 2.3E-05 39.2 2.1 16 2-17 52-67 (316)
382 PRK14960 DNA polymerase III su 81.3 3 6.4E-05 40.3 5.2 17 2-18 46-62 (702)
383 PF00071 Ras: Ras family; Int 81.2 1.1 2.4E-05 34.4 2.1 16 2-17 8-23 (162)
384 PRK14962 DNA polymerase III su 81.1 1 2.2E-05 41.8 2.1 17 2-18 45-61 (472)
385 cd04137 RheB Rheb (Ras Homolog 81.0 1 2.3E-05 35.4 1.9 15 2-16 10-24 (180)
386 smart00175 RAB Rab subfamily o 81.0 0.96 2.1E-05 34.8 1.7 16 2-17 9-24 (164)
387 PHA02244 ATPase-like protein 80.9 1.1 2.5E-05 39.9 2.2 17 2-18 128-144 (383)
388 PF08433 KTI12: Chromatin asso 80.9 1.1 2.5E-05 38.3 2.2 19 1-19 9-27 (270)
389 cd02022 DPCK Dephospho-coenzym 80.9 1.2 2.5E-05 35.5 2.1 15 1-15 7-21 (179)
390 PRK00440 rfc replication facto 80.8 3.7 8.1E-05 35.6 5.5 18 2-19 47-64 (319)
391 TIGR00665 DnaB replicative DNA 80.8 3.3 7.1E-05 38.0 5.3 44 2-48 204-247 (434)
392 COG3598 RepA RecA-family ATPas 80.7 2.8 6E-05 36.6 4.4 51 2-52 98-157 (402)
393 PF00625 Guanylate_kin: Guanyl 80.6 1.9 4E-05 34.4 3.2 27 2-30 11-37 (183)
394 PRK14737 gmk guanylate kinase; 80.6 1.1 2.4E-05 36.0 1.9 16 2-17 13-28 (186)
395 PRK05342 clpX ATP-dependent pr 80.6 1.2 2.7E-05 40.5 2.4 17 2-18 117-133 (412)
396 PRK08356 hypothetical protein; 80.4 1.1 2.4E-05 36.2 1.9 14 1-14 13-26 (195)
397 PRK14738 gmk guanylate kinase; 80.4 1.1 2.4E-05 36.6 1.9 15 2-16 22-36 (206)
398 PRK06321 replicative DNA helic 80.4 3.1 6.7E-05 38.7 5.0 44 2-48 235-278 (472)
399 PRK13886 conjugal transfer pro 80.3 1.3 2.9E-05 37.1 2.3 19 1-19 11-29 (241)
400 PRK12597 F0F1 ATP synthase sub 80.2 2.8 6E-05 38.7 4.6 45 2-47 152-197 (461)
401 KOG0726 26S proteasome regulat 80.2 0.91 2E-05 39.0 1.3 19 2-20 228-246 (440)
402 cd01864 Rab19 Rab19 subfamily. 80.2 1.1 2.4E-05 34.7 1.8 15 2-16 12-26 (165)
403 PF01637 Arch_ATPase: Archaeal 80.2 1.3 2.8E-05 36.3 2.2 17 2-18 29-45 (234)
404 TIGR00416 sms DNA repair prote 80.2 2 4.4E-05 39.7 3.7 31 2-34 103-133 (454)
405 cd00046 DEXDc DEAD-like helica 80.1 2.2 4.7E-05 31.3 3.3 29 2-30 9-37 (144)
406 PRK08154 anaerobic benzoate ca 80.1 1.2 2.7E-05 38.9 2.2 18 1-18 141-158 (309)
407 cd00154 Rab Rab family. Rab G 80.1 1.2 2.6E-05 33.6 2.0 17 1-17 8-24 (159)
408 PRK11823 DNA repair protein Ra 80.1 2 4.4E-05 39.6 3.7 44 2-50 89-132 (446)
409 TIGR01007 eps_fam capsular exo 80.1 1.4 3E-05 35.8 2.4 29 2-32 27-55 (204)
410 PRK08099 bifunctional DNA-bind 80.1 1.2 2.6E-05 40.4 2.1 17 2-18 228-244 (399)
411 PRK15453 phosphoribulokinase; 79.9 1.2 2.7E-05 38.2 2.0 17 2-18 14-30 (290)
412 cd00157 Rho Rho (Ras homology) 79.9 1.2 2.6E-05 34.5 1.9 17 1-17 8-24 (171)
413 COG1419 FlhF Flagellar GTP-bin 79.9 8.5 0.00018 34.8 7.3 73 2-76 212-287 (407)
414 TIGR00678 holB DNA polymerase 79.8 4.8 0.0001 32.1 5.4 18 2-19 23-40 (188)
415 KOG0729 26S proteasome regulat 79.8 10 0.00023 32.3 7.3 18 2-19 220-237 (435)
416 PHA03138 thymidine kinase; Pro 79.7 1.9 4.2E-05 37.9 3.2 16 3-18 22-37 (340)
417 cd04163 Era Era subfamily. Er 79.5 1.1 2.4E-05 34.2 1.6 15 2-16 12-26 (168)
418 cd02026 PRK Phosphoribulokinas 79.5 1.3 2.8E-05 38.0 2.0 17 2-18 8-24 (273)
419 PF03193 DUF258: Protein of un 79.4 1.2 2.7E-05 34.8 1.8 16 2-17 44-59 (161)
420 PLN02348 phosphoribulokinase 79.4 1.3 2.7E-05 39.9 2.0 17 2-18 58-74 (395)
421 PTZ00369 Ras-like protein; Pro 79.4 1.2 2.5E-05 35.7 1.7 15 2-16 14-28 (189)
422 TIGR01241 FtsH_fam ATP-depende 79.3 1.3 2.9E-05 41.4 2.3 18 2-19 97-114 (495)
423 PRK06851 hypothetical protein; 79.3 2.4 5.1E-05 38.0 3.7 32 2-34 39-70 (367)
424 PRK06645 DNA polymerase III su 79.2 1.3 2.8E-05 41.4 2.2 18 2-19 52-69 (507)
425 cd01894 EngA1 EngA1 subfamily. 79.1 1.2 2.5E-05 33.9 1.6 15 2-16 6-20 (157)
426 cd01860 Rab5_related Rab5-rela 79.1 1.2 2.7E-05 34.2 1.7 16 2-17 10-25 (163)
427 cd04155 Arl3 Arl3 subfamily. 79.1 1.2 2.7E-05 34.7 1.7 15 2-16 23-37 (173)
428 TIGR00347 bioD dethiobiotin sy 79.1 2.3 4.9E-05 33.2 3.2 19 2-20 7-25 (166)
429 PRK14969 DNA polymerase III su 79.0 4.2 9E-05 38.4 5.5 17 2-18 47-63 (527)
430 PRK14956 DNA polymerase III su 79.0 1.3 2.9E-05 41.0 2.1 18 2-19 49-66 (484)
431 KOG4252 GTP-binding protein [S 79.0 8.6 0.00019 30.6 6.2 97 2-111 29-131 (246)
432 cd04120 Rab12 Rab12 subfamily. 79.0 1.3 2.7E-05 36.2 1.8 15 2-16 9-23 (202)
433 KOG0733 Nuclear AAA ATPase (VC 78.9 1.3 2.8E-05 42.0 1.9 19 2-20 554-572 (802)
434 PHA03133 thymidine kinase; Pro 78.9 2.1 4.5E-05 37.9 3.2 16 3-18 50-65 (368)
435 cd04141 Rit_Rin_Ric Rit/Rin/Ri 78.9 1.3 2.8E-05 34.8 1.8 15 2-16 11-25 (172)
436 cd04123 Rab21 Rab21 subfamily. 78.8 1.3 2.8E-05 33.8 1.8 16 2-17 9-24 (162)
437 PRK06731 flhF flagellar biosyn 78.8 10 0.00022 32.5 7.3 74 2-77 84-161 (270)
438 COG4608 AppF ABC-type oligopep 78.7 2 4.2E-05 36.5 2.9 47 2-51 48-99 (268)
439 COG3638 ABC-type phosphate/pho 78.7 3.9 8.5E-05 34.1 4.5 47 2-51 39-86 (258)
440 TIGR02655 circ_KaiC circadian 78.6 2.6 5.7E-05 39.3 4.0 44 2-50 272-315 (484)
441 PLN02796 D-glycerate 3-kinase 78.6 4.5 9.8E-05 35.8 5.2 18 2-19 109-126 (347)
442 PF01078 Mg_chelatase: Magnesi 78.6 1.4 2.9E-05 36.1 1.8 14 2-15 31-44 (206)
443 cd04177 RSR1 RSR1 subgroup. R 78.5 1.4 3.1E-05 34.2 1.9 17 1-17 9-25 (168)
444 cd03255 ABC_MJ0796_Lo1CDE_FtsE 78.5 1.3 2.9E-05 36.2 1.9 25 2-29 39-63 (218)
445 cd04135 Tc10 TC10 subfamily. 78.4 1.3 2.9E-05 34.5 1.8 15 2-16 9-23 (174)
446 TIGR03689 pup_AAA proteasome A 78.4 1.4 3E-05 41.3 2.0 18 2-19 225-242 (512)
447 cd04108 Rab36_Rab34 Rab34/Rab3 78.3 1.3 2.9E-05 34.7 1.7 15 2-16 9-23 (170)
448 PHA03134 thymidine kinase; Pro 78.2 1.4 2.9E-05 38.8 1.8 14 3-16 23-36 (340)
449 cd03225 ABC_cobalt_CbiO_domain 78.2 1.4 3E-05 35.9 1.9 25 2-29 36-60 (211)
450 PF00005 ABC_tran: ABC transpo 78.1 1.3 2.7E-05 33.2 1.5 25 2-29 20-44 (137)
451 cd04145 M_R_Ras_like M-Ras/R-R 78.1 1.4 3.1E-05 33.8 1.8 15 2-16 11-25 (164)
452 PF13479 AAA_24: AAA domain 78.1 1 2.2E-05 37.0 1.0 23 2-34 12-34 (213)
453 cd00878 Arf_Arl Arf (ADP-ribos 78.1 1.4 3E-05 33.8 1.7 17 1-17 7-23 (158)
454 cd04118 Rab24 Rab24 subfamily. 78.1 1.4 3.1E-05 35.1 1.8 15 2-16 9-23 (193)
455 cd04161 Arl2l1_Arl13_like Arl2 78.1 1.3 2.8E-05 34.6 1.6 15 2-16 8-22 (167)
456 PF07693 KAP_NTPase: KAP famil 78.1 2.2 4.7E-05 37.3 3.1 49 3-51 30-83 (325)
457 cd03116 MobB Molybdenum is an 78.1 2.3 5E-05 33.2 3.0 19 2-20 10-28 (159)
458 PF13555 AAA_29: P-loop contai 78.0 1.5 3.3E-05 28.3 1.6 14 2-15 32-45 (62)
459 PLN02674 adenylate kinase 78.0 1.7 3.6E-05 36.6 2.3 18 1-18 39-56 (244)
460 cd04156 ARLTS1 ARLTS1 subfamil 78.0 1.3 2.9E-05 33.9 1.6 15 2-16 8-22 (160)
461 TIGR00382 clpX endopeptidase C 78.0 1.5 3.3E-05 39.8 2.2 18 2-19 125-142 (413)
462 PRK14964 DNA polymerase III su 78.0 5 0.00011 37.5 5.5 15 2-16 44-58 (491)
463 COG2884 FtsE Predicted ATPase 78.0 2.6 5.6E-05 34.1 3.1 26 2-30 37-62 (223)
464 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 77.9 1.4 3E-05 34.1 1.7 15 2-16 11-25 (166)
465 cd03229 ABC_Class3 This class 77.9 1.5 3.2E-05 34.8 1.9 25 2-29 35-59 (178)
466 TIGR00750 lao LAO/AO transport 77.9 2.1 4.5E-05 37.3 2.9 19 2-20 43-61 (300)
467 cd04144 Ras2 Ras2 subfamily. 77.9 1.5 3.2E-05 35.1 1.8 15 2-16 8-22 (190)
468 PRK05537 bifunctional sulfate 77.8 1.5 3.3E-05 41.7 2.2 19 1-19 400-418 (568)
469 PRK14021 bifunctional shikimat 77.8 1.6 3.4E-05 41.4 2.3 20 1-20 14-33 (542)
470 cd00879 Sar1 Sar1 subfamily. 77.7 1.5 3.3E-05 34.8 1.9 15 2-16 28-42 (190)
471 KOG0727 26S proteasome regulat 77.7 1.4 3.1E-05 37.1 1.7 19 2-20 198-216 (408)
472 cd04140 ARHI_like ARHI subfami 77.7 1.5 3.2E-05 34.0 1.8 15 2-16 10-24 (165)
473 cd04101 RabL4 RabL4 (Rab-like4 77.7 1.5 3.2E-05 33.8 1.8 14 2-15 9-22 (164)
474 PRK10463 hydrogenase nickel in 77.7 2.7 5.8E-05 36.3 3.5 18 2-19 113-130 (290)
475 PRK01184 hypothetical protein; 77.6 1.7 3.6E-05 34.6 2.1 14 1-15 9-22 (184)
476 PLN02199 shikimate kinase 77.5 1.8 3.8E-05 37.5 2.3 18 1-18 110-127 (303)
477 PHA03135 thymidine kinase; Pro 77.5 1.5 3.2E-05 38.6 1.8 14 3-16 20-33 (343)
478 PHA02542 41 41 helicase; Provi 77.4 5.1 0.00011 37.3 5.4 42 2-47 199-240 (473)
479 COG0237 CoaE Dephospho-CoA kin 77.4 1.7 3.7E-05 35.4 2.1 15 1-15 10-24 (201)
480 cd04162 Arl9_Arfrp2_like Arl9/ 77.3 1.4 3.1E-05 34.3 1.6 15 2-16 8-22 (164)
481 cd04146 RERG_RasL11_like RERG/ 77.3 1.6 3.4E-05 33.8 1.8 14 2-15 8-21 (165)
482 cd04158 ARD1 ARD1 subfamily. 77.2 1.5 3.2E-05 34.3 1.7 15 2-16 8-22 (169)
483 TIGR00960 3a0501s02 Type II (G 77.2 1.5 3.3E-05 35.9 1.8 25 2-29 38-62 (216)
484 cd01874 Cdc42 Cdc42 subfamily. 77.1 1.5 3.2E-05 34.6 1.7 15 2-16 10-24 (175)
485 TIGR00101 ureG urease accessor 77.1 1.8 4E-05 35.1 2.2 17 2-18 10-26 (199)
486 cd00876 Ras Ras family. The R 77.0 1.8 3.8E-05 33.0 2.0 16 1-16 7-22 (160)
487 cd01876 YihA_EngB The YihA (En 76.9 1.6 3.5E-05 33.4 1.8 14 2-15 8-21 (170)
488 cd01898 Obg Obg subfamily. Th 76.9 1.6 3.4E-05 33.8 1.8 15 2-16 9-23 (170)
489 PRK13541 cytochrome c biogenes 76.9 1.6 3.5E-05 35.1 1.9 25 2-29 35-59 (195)
490 PRK06749 replicative DNA helic 76.8 4.3 9.2E-05 37.3 4.7 43 2-48 195-237 (428)
491 cd01130 VirB11-like_ATPase Typ 76.8 1.7 3.7E-05 34.8 2.0 17 2-18 34-50 (186)
492 cd04110 Rab35 Rab35 subfamily. 76.7 1.6 3.5E-05 35.2 1.8 15 2-16 15-29 (199)
493 cd03269 ABC_putative_ATPase Th 76.7 1.6 3.6E-05 35.5 1.9 26 2-30 35-60 (210)
494 cd01865 Rab3 Rab3 subfamily. 76.7 1.6 3.4E-05 33.9 1.7 16 2-17 10-25 (165)
495 cd04159 Arl10_like Arl10-like 76.7 1.5 3.3E-05 33.2 1.6 15 2-16 8-22 (159)
496 cd04176 Rap2 Rap2 subgroup. T 76.6 1.6 3.5E-05 33.6 1.7 15 2-16 10-24 (163)
497 PF02492 cobW: CobW/HypB/UreG, 76.6 1.6 3.4E-05 34.7 1.7 70 2-76 9-90 (178)
498 KOG3022 Predicted ATPase, nucl 76.6 1.6 3.4E-05 37.2 1.7 18 2-19 57-74 (300)
499 cd04150 Arf1_5_like Arf1-Arf5- 76.6 1.6 3.5E-05 33.8 1.7 14 2-15 9-22 (159)
500 cd04117 Rab15 Rab15 subfamily. 76.5 1.7 3.7E-05 33.7 1.8 15 2-16 9-23 (161)
No 1
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=100.00 E-value=7e-50 Score=383.86 Aligned_cols=277 Identities=25% Similarity=0.414 Sum_probs=235.7
Q ss_pred CCCCcHHHHHHHHHhhhc-cCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcC---CHhhhHHhHHHHccCCcEEEE
Q 041028 1 MGGIGKTTLAKEVARKAK-NGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEE---SESGRTRSPWSRLKKEKLQII 76 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~-~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~---~~~~~~~~l~~~L~~kr~LlV 76 (283)
|||+||||||+.++|+.. +..+||.++||.||+.++...++.+|++.++.....+ +..+.+..|.+.|++||||||
T Consensus 187 MGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllv 266 (889)
T KOG4658|consen 187 MGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLV 266 (889)
T ss_pred CCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEE
Confidence 999999999999999987 8899999999999999999999999999998854433 335678899999999999999
Q ss_pred ---------------------cC--------------------------------------eecCCC-CCCCcchHHHHH
Q 041028 77 ---------------------CG--------------------------------------KKMEGD-YAEGSELKWLAM 96 (283)
Q Consensus 77 ---------------------~G--------------------------------------~~~~~~-~~~~~~~~~~~~ 96 (283)
+| +.++.. ....+.++++|+
T Consensus 267 LDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak 346 (889)
T KOG4658|consen 267 LDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAK 346 (889)
T ss_pred EecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHH
Confidence 22 233332 223344899999
Q ss_pred HHHHhcCCchHHHHH---hhc-cCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHhhhhccCCCCcHHHHHHHHhhCc--
Q 041028 97 DVAKECAGLPVSIVT---GIK-EQELFEWKDALEQLRRPSSTNFKDVQPAAYKAMELGYNKLEGDELKSTFLLIGYTA-- 170 (283)
Q Consensus 97 ~i~~~c~glPLal~~---~l~-~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~s~fp-- 170 (283)
+|+++|+|+|||+.+ .|+ +.+..+|+++.+.+.+....+.+++...+..++++||+.||++ +|.||+|||+||
T Consensus 347 ~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~-lK~CFLycalFPED 425 (889)
T KOG4658|consen 347 EVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEE-LKSCFLYCALFPED 425 (889)
T ss_pred HHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHH-HHHHHHhhccCCcc
Confidence 999999999999999 777 8888899999999988866666677889999999999999987 999999999999
Q ss_pred -CCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHHHHHhccccccccC-CCcceEEechhHHHHHHHHHc-----cCCc
Q 041028 171 -IASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVHKLKASCMLLDHTS-KNEKLFSIHDVVRDVAISIAS-----GEQN 243 (283)
Q Consensus 171 -~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~~L~~~sLl~~~~~-~~~~~~~mH~lv~~~a~~~~~-----~~~~ 243 (283)
.|+++.|+.+|+||||+.+....+.+++.+++++.+|+++||++.... .+..+|+|||+||++|.++++ ++++
T Consensus 426 ~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~ 505 (889)
T KOG4658|consen 426 YEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQ 505 (889)
T ss_pred cccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccce
Confidence 899999999999999998866666689999999999999999976653 244799999999999999999 6663
Q ss_pred eeeeccccccCCCcCCcccccccccEEEEeCCCCCCCCC
Q 041028 244 VFSATNEQVDGCTEWSDESAVILYTSIVLRDIKTNVLPD 282 (283)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~~~~~~~r~lsl~~~~~~~lp~ 282 (283)
+ +..+.++ .+.|....|..+||+|+++|++..+|.
T Consensus 506 i-v~~~~~~---~~~~~~~~~~~~rr~s~~~~~~~~~~~ 540 (889)
T KOG4658|consen 506 I-VSDGVGL---SEIPQVKSWNSVRRMSLMNNKIEHIAG 540 (889)
T ss_pred E-EECCcCc---cccccccchhheeEEEEeccchhhccC
Confidence 3 3333233 456777888999999999999988774
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=99.97 E-value=2.9e-31 Score=229.30 Aligned_cols=187 Identities=26% Similarity=0.475 Sum_probs=149.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----cCCHhhhHHhHHHHccCCcEEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD----EESESGRTRSPWSRLKKEKLQII 76 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~----~~~~~~~~~~l~~~L~~kr~LlV 76 (283)
|||+||||||.+++++...+.+|++++||++++..+..+++..|+.+++.... ..+..+....+++.|.++++|||
T Consensus 27 ~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlV 106 (287)
T PF00931_consen 27 MGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRELLKDKRCLLV 106 (287)
T ss_dssp STTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHHHCCTSEEEE
T ss_pred CCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhccccceee
Confidence 79999999999999996677889999999999999999999999999988743 34667788999999999999999
Q ss_pred -c--------------------C--------------------------------------eecCCCC-CCCcchHHHHH
Q 041028 77 -C--------------------G--------------------------------------KKMEGDY-AEGSELKWLAM 96 (283)
Q Consensus 77 -~--------------------G--------------------------------------~~~~~~~-~~~~~~~~~~~ 96 (283)
+ | +.++... .......+.++
T Consensus 107 lDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~ 186 (287)
T PF00931_consen 107 LDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKESESPEDLEDLAK 186 (287)
T ss_dssp EEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS----TTSCTHHH
T ss_pred eeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 0 1 1122211 23345567899
Q ss_pred HHHHhcCCchHHHHH---hhc-cCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHhhhhccCCCCcHHHHHHHHhhCc--
Q 041028 97 DVAKECAGLPVSIVT---GIK-EQELFEWKDALEQLRRPSSTNFKDVQPAAYKAMELGYNKLEGDELKSTFLLIGYTA-- 170 (283)
Q Consensus 97 ~i~~~c~glPLal~~---~l~-~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~s~fp-- 170 (283)
+|++.|+|+||||++ .++ ..+..+|..+++++....... .+...++..++.+||+.||++ +|+||+|||+||
T Consensus 187 ~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~-~~~~~~~~~~l~~s~~~L~~~-~~~~f~~L~~f~~~ 264 (287)
T PF00931_consen 187 EIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRES-RDYDRSVFSALELSYDSLPDE-LRRCFLYLSIFPEG 264 (287)
T ss_dssp HHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCS-SGSCHHHHHHHHHHHHSSHTC-CHHHHHHGGGSGTT
T ss_pred ccccccccccccccccccccccccccccccccccccccccccc-ccccccccccceechhcCCcc-HHHHHhhCcCCCCC
Confidence 999999999999999 564 447899999998887664322 124688999999999999998 999999999999
Q ss_pred -CCCHHHHHHHHhhccccCC
Q 041028 171 -IASIDDLLMYGMGLGLFQG 189 (283)
Q Consensus 171 -~i~~~~l~~~w~aeg~~~~ 189 (283)
.|+.+.|+++|+++|+++.
T Consensus 265 ~~i~~~~li~lW~~e~~i~~ 284 (287)
T PF00931_consen 265 VPIPRERLIRLWVAEGFISS 284 (287)
T ss_dssp S-EEHHHHHHHHTT-HHTC-
T ss_pred ceECHHHHHHHHHHCCCCcc
Confidence 7899999999999999975
No 3
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=99.96 E-value=2e-28 Score=245.57 Aligned_cols=251 Identities=19% Similarity=0.227 Sum_probs=171.4
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEe---CCC-----------CC-HHHHHHHHHHHhCCCCCcCCHhhhHHhHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEV---SQN-----------PN-IKKIQGEIAFKLGLKFDEESESGRTRSPW 65 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v---~~~-----------~~-~~~l~~~i~~~l~~~~~~~~~~~~~~~l~ 65 (283)
||||||||||+++|++... .|++.+|+.. +.. ++ ...++++++..+...... .. .....++
T Consensus 215 ~gGiGKTTLA~~l~~~l~~--~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~-~~-~~~~~~~ 290 (1153)
T PLN03210 215 SSGIGKTTIARALFSRLSR--QFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDI-KI-YHLGAME 290 (1153)
T ss_pred CCCCchHHHHHHHHHHHhh--cCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCc-cc-CCHHHHH
Confidence 8999999999999998764 4999888742 111 11 234555555554322111 00 1124577
Q ss_pred HHccCCcEEEE---------------------cC-------------------------------------eecCCCCCC
Q 041028 66 SRLKKEKLQII---------------------CG-------------------------------------KKMEGDYAE 87 (283)
Q Consensus 66 ~~L~~kr~LlV---------------------~G-------------------------------------~~~~~~~~~ 87 (283)
+.|+++|+||| .| +.+|+...+
T Consensus 291 ~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~ 370 (1153)
T PLN03210 291 ERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSP 370 (1153)
T ss_pred HHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCC
Confidence 78889999998 12 345555555
Q ss_pred CcchHHHHHHHHHhcCCchHHHHH---hhccCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHhhhhccCCCCcHHHHHH
Q 041028 88 GSELKWLAMDVAKECAGLPVSIVT---GIKEQELFEWKDALEQLRRPSSTNFKDVQPAAYKAMELGYNKLEGDELKSTFL 164 (283)
Q Consensus 88 ~~~~~~~~~~i~~~c~glPLal~~---~l~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl 164 (283)
+.++.+++++|+++|+|+||||++ .|+.++..+|..+++++.... ...+..+|++||+.|+++..|.||+
T Consensus 371 ~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~-------~~~I~~~L~~SYd~L~~~~~k~~Fl 443 (1153)
T PLN03210 371 PDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGL-------DGKIEKTLRVSYDGLNNKKDKAIFR 443 (1153)
T ss_pred cHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCc-------cHHHHHHHHHhhhccCccchhhhhh
Confidence 667899999999999999999999 677888999999999987532 4578999999999998644899999
Q ss_pred HHhhCc-CCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHHHHHhccccccccCCCcceEEechhHHHHHHHHHccCCc
Q 041028 165 LIGYTA-IASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVHKLKASCMLLDHTSKNEKLFSIHDVVRDVAISIASGEQN 243 (283)
Q Consensus 165 ~~s~fp-~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~~~~ 243 (283)
++|+|| +.+.+. +..|.+.+.... ...++.|+++||++... .+++||||+|+||+.++.++..
T Consensus 444 ~ia~ff~~~~~~~-v~~~l~~~~~~~-----------~~~l~~L~~ksLi~~~~----~~~~MHdLl~~~~r~i~~~~~~ 507 (1153)
T PLN03210 444 HIACLFNGEKVND-IKLLLANSDLDV-----------NIGLKNLVDKSLIHVRE----DIVEMHSLLQEMGKEIVRAQSN 507 (1153)
T ss_pred eehhhcCCCCHHH-HHHHHHhcCCCc-----------hhChHHHHhcCCEEEcC----CeEEhhhHHHHHHHHHHHhhcC
Confidence 999998 776665 445555543321 23467788899996543 4799999999999999987642
Q ss_pred eeeeccccccCCCc----CCcccccccccEEEEeCCCCCC
Q 041028 244 VFSATNEQVDGCTE----WSDESAVILYTSIVLRDIKTNV 279 (283)
Q Consensus 244 ~~~~~~~~~~~~~~----~~~~~~~~~~r~lsl~~~~~~~ 279 (283)
...+...+++..+ ...+...++++.|++..+++.+
T Consensus 508 -~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~ 546 (1153)
T PLN03210 508 -EPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDE 546 (1153)
T ss_pred -CCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccce
Confidence 1111111110000 0122344677777777666554
No 4
>PRK04841 transcriptional regulator MalT; Provisional
Probab=98.96 E-value=2.7e-08 Score=99.12 Aligned_cols=127 Identities=7% Similarity=0.064 Sum_probs=77.6
Q ss_pred HHHHHHHHHhcCCchHHHHH-h--hccCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHhh-hhccCCCCcHHHHHHHHh
Q 041028 92 KWLAMDVAKECAGLPVSIVT-G--IKEQELFEWKDALEQLRRPSSTNFKDVQPAAYKAMEL-GYNKLEGDELKSTFLLIG 167 (283)
Q Consensus 92 ~~~~~~i~~~c~glPLal~~-~--l~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~-sy~~L~~~~~k~~fl~~s 167 (283)
.+.+.+|.+.|+|+|+++.. + +..... ........+... ....+...+.- .++.||++ .+..++.+|
T Consensus 205 ~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~-~~~~~~~~~~~~-------~~~~~~~~l~~~v~~~l~~~-~~~~l~~~a 275 (903)
T PRK04841 205 AAESSRLCDDVEGWATALQLIALSARQNNS-SLHDSARRLAGI-------NASHLSDYLVEEVLDNVDLE-TRHFLLRCS 275 (903)
T ss_pred HHHHHHHHHHhCChHHHHHHHHHHHhhCCC-chhhhhHhhcCC-------CchhHHHHHHHHHHhcCCHH-HHHHHHHhc
Confidence 34567899999999999988 3 322111 011111111100 01234444333 47899997 999999999
Q ss_pred hCcCCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHHHHHhccccccccCCCcceEEechhHHHHHHHHHccC
Q 041028 168 YTAIASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVHKLKASCMLLDHTSKNEKLFSIHDVVRDVAISIASGE 241 (283)
Q Consensus 168 ~fp~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~~ 241 (283)
+++.|+.+.+-... | . ......++.|.+.+++....++...+|+.|++++++++.....+
T Consensus 276 ~~~~~~~~l~~~l~---~---~--------~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~ 335 (903)
T PRK04841 276 VLRSMNDALIVRVT---G---E--------ENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQWE 335 (903)
T ss_pred ccccCCHHHHHHHc---C---C--------CcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHHhc
Confidence 99988865544322 1 0 12246777788899974332221258999999999999876433
No 5
>COG3903 Predicted ATPase [General function prediction only]
Probab=98.37 E-value=9.7e-07 Score=77.57 Aligned_cols=226 Identities=16% Similarity=0.218 Sum_probs=138.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEE----
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQII---- 76 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV---- 76 (283)
|||||||++-.+.+ .+.. | ++++++...+-.+...+.--....++..... -+.....+.....++|.++|
T Consensus 23 ggvgkttl~~~~a~-~~~~--~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~--g~~~~~~~~~~~~~rr~llvldnc 97 (414)
T COG3903 23 GGVGKTTLALQAAH-AASE--YADGVAFVDLAPITDPALVFPTLAGALGLHVQP--GDSAVDTLVRRIGDRRALLVLDNC 97 (414)
T ss_pred CccceehhhhhhHh-Hhhh--cccceeeeeccccCchhHhHHHHHhhccccccc--chHHHHHHHHHHhhhhHHHHhcCc
Confidence 89999999999999 5544 8 7788887776666666666666667665432 11223345555566666666
Q ss_pred -----------------c----------------C---e-----ecCC---------------CCCCCcchHHHHHHHHH
Q 041028 77 -----------------C----------------G---K-----KMEG---------------DYAEGSELKWLAMDVAK 100 (283)
Q Consensus 77 -----------------~----------------G---~-----~~~~---------------~~~~~~~~~~~~~~i~~ 100 (283)
+ | + ..++ .-............|++
T Consensus 98 ehl~~~~a~~i~all~~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~~~~a~v~~icr 177 (414)
T COG3903 98 EHLLDACAALIVALLGACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTDDNAAAVAEICR 177 (414)
T ss_pred HHHHHHHHHHHHHHHccchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccceeecCCchHHHHHHHH
Confidence 0 1 0 0000 01112233456778999
Q ss_pred hcCCchHHHHH------hhc-cCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHhhhhccCCCCcHHHHHHHHhhCc-CC
Q 041028 101 ECAGLPVSIVT------GIK-EQELFEWKDALEQLRRPSSTNFKDVQPAAYKAMELGYNKLEGDELKSTFLLIGYTA-IA 172 (283)
Q Consensus 101 ~c~glPLal~~------~l~-~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~fl~~s~fp-~i 172 (283)
+..|.||+|.. ++. ..-.....+-...+... .....--.......+.+||.-|..- .+-.|.-++.|. .|
T Consensus 178 ~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgw-e~~~~~rLa~~~g~f 255 (414)
T COG3903 178 RLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGW-ERALFGRLAVFVGGF 255 (414)
T ss_pred HhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhH-HHHHhcchhhhhhhh
Confidence 99999999998 222 22223333333444333 2222222567889999999999997 999999999998 78
Q ss_pred CHHHHHHHHhhccccCCCchHHHHHHHHHHHHHHHHhccccccccCCCcceEEechhHHHHHHHHHccC
Q 041028 173 SIDDLLMYGMGLGLFQGVNKMEAARARVHTLVHKLKASCMLLDHTSKNEKLFSIHDVVRDVAISIASGE 241 (283)
Q Consensus 173 ~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~~ 241 (283)
+.+ ...|.+.|-.-. . ..-.....+..|+++|++...+......|+.-+-++.|+..+..+.
T Consensus 256 ~~~--l~~~~a~g~~~~----~-~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~ 317 (414)
T COG3903 256 DLG--LALAVAAGADVD----V-PRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRS 317 (414)
T ss_pred ccc--HHHHHhcCCccc----c-chHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence 776 345555443210 0 1112233455788899985444333356777777888877665543
No 6
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=98.21 E-value=4.6e-05 Score=72.69 Aligned_cols=211 Identities=11% Similarity=0.078 Sum_probs=123.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCc--C------------CHhhhHHhHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDE--E------------SESGRTRSPWS 66 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~--~------------~~~~~~~~l~~ 66 (283)
+|.|||||+........ . =..+.|.+++. +-++......++..++.-.+. + +.......+..
T Consensus 46 AGfGKttl~aq~~~~~~-~--~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~ 122 (894)
T COG2909 46 AGFGKTTLLAQWRELAA-D--GAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLN 122 (894)
T ss_pred CCCcHHHHHHHHHHhcC-c--ccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHH
Confidence 69999999999987322 2 24689999975 567888888899888732221 1 12223333333
Q ss_pred HccC--CcEEEE-cC--------------------------------------------------------------eec
Q 041028 67 RLKK--EKLQII-CG--------------------------------------------------------------KKM 81 (283)
Q Consensus 67 ~L~~--kr~LlV-~G--------------------------------------------------------------~~~ 81 (283)
-+.. +.+.|| +. ...
T Consensus 123 Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~f 202 (894)
T COG2909 123 ELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAF 202 (894)
T ss_pred HHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHH
Confidence 3332 354444 10 011
Q ss_pred CCCCCCCcchHHHHHHHHHhcCCchHHHHH-hhc-c--CChHHHHHHHHHhcCCCCCCCCCchhHHHH-HHhhhhccCCC
Q 041028 82 EGDYAEGSELKWLAMDVAKECAGLPVSIVT-GIK-E--QELFEWKDALEQLRRPSSTNFKDVQPAAYK-AMELGYNKLEG 156 (283)
Q Consensus 82 ~~~~~~~~~~~~~~~~i~~~c~glPLal~~-~l~-~--~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~-~l~~sy~~L~~ 156 (283)
+.+....+-...-++.+.+..+|.+-|+.. +|. . .+...-...+. +...-+.. ...--++.||+
T Consensus 203 l~~~~~l~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~Ls-----------G~~~~l~dYL~eeVld~Lp~ 271 (894)
T COG2909 203 LNDRGSLPLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLS-----------GAASHLSDYLVEEVLDRLPP 271 (894)
T ss_pred HHHcCCCCCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhcc-----------chHHHHHHHHHHHHHhcCCH
Confidence 111111222333466777777888877777 443 2 22222211111 00111111 22344688999
Q ss_pred CcHHHHHHHHhhCcCCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHHHHHhccccccccCCCcceEEechhHHHHHHH
Q 041028 157 DELKSTFLLIGYTAIASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVHKLKASCMLLDHTSKNEKLFSIHDVVRDVAIS 236 (283)
Q Consensus 157 ~~~k~~fl~~s~fp~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~ 236 (283)
+ +|..++-||+++.|..+-.-++- .++.+..++++|.+++|+...=++....|+.|.|..+|.+.
T Consensus 272 ~-l~~FLl~~svl~~f~~eL~~~Lt--------------g~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~ 336 (894)
T COG2909 272 E-LRDFLLQTSVLSRFNDELCNALT--------------GEENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQ 336 (894)
T ss_pred H-HHHHHHHHHhHHHhhHHHHHHHh--------------cCCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHh
Confidence 8 99999999999866554433221 22345677888888999853323333899999999999988
Q ss_pred HHccC
Q 041028 237 IASGE 241 (283)
Q Consensus 237 ~~~~~ 241 (283)
....+
T Consensus 337 r~~~~ 341 (894)
T COG2909 337 RLQRE 341 (894)
T ss_pred hhccc
Confidence 77653
No 7
>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=98.07 E-value=1.4e-05 Score=67.39 Aligned_cols=44 Identities=16% Similarity=0.207 Sum_probs=38.4
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC--CCHHHHHHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN--PNIKKIQGEIA 45 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~--~~~~~l~~~i~ 45 (283)
.+|+|||||++.+|++.... +|+.++|+.+.+. +++.++++.+.
T Consensus 24 ~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~ 69 (249)
T cd01128 24 PPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVK 69 (249)
T ss_pred CCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhc
Confidence 37999999999999987665 8999999997766 89999999993
No 8
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=98.04 E-value=1.1e-05 Score=71.37 Aligned_cols=45 Identities=13% Similarity=0.138 Sum_probs=39.3
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCC--CHHHHHHHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNP--NIKKIQGEIAF 46 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~--~~~~l~~~i~~ 46 (283)
.+|+||||||+.+|+..... +|+.++||.+.+.+ .+.++++.|..
T Consensus 177 ppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg 223 (416)
T PRK09376 177 PPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKG 223 (416)
T ss_pred CCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcC
Confidence 37999999999999998765 89999999998887 78888888863
No 9
>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=97.86 E-value=0.00035 Score=59.59 Aligned_cols=73 Identities=16% Similarity=0.230 Sum_probs=45.2
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHc-----cCCcEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRL-----KKEKLQI 75 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L-----~~kr~Ll 75 (283)
.+|+|||||++.+++...... + ..+|+ +....+..+++..|+..+|.+....+.......+.+.+ .+++.+|
T Consensus 51 ~~G~GKTtl~~~l~~~l~~~~-~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~~~~vl 127 (269)
T TIGR03015 51 EVGAGKTTLIRNLLKRLDQER-V-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAGKRALL 127 (269)
T ss_pred CCCCCHHHHHHHHHHhcCCCC-e-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCCCCeEE
Confidence 379999999999998865321 1 22333 23345778899999999988655443333333443322 4555555
Q ss_pred E
Q 041028 76 I 76 (283)
Q Consensus 76 V 76 (283)
|
T Consensus 128 i 128 (269)
T TIGR03015 128 V 128 (269)
T ss_pred E
Confidence 5
No 10
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.67 E-value=0.00011 Score=55.35 Aligned_cols=76 Identities=24% Similarity=0.340 Sum_probs=56.0
Q ss_pred CCCcHHHHHHHHHhhhccC---CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCc--EEE
Q 041028 2 GGIGKTTLAKEVARKAKNG---KLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEK--LQI 75 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~---~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr--~Ll 75 (283)
+|+|||++++++.+..... ..-..++|+++....+...+...|+.+++.+... .+..+..+.+.+.+...+ +++
T Consensus 13 ~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~~~~~~lv 92 (131)
T PF13401_consen 13 PGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDRRRVVLLV 92 (131)
T ss_dssp TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHHCTEEEEE
T ss_pred CCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcCCeEEE
Confidence 6999999999999875321 0023567999988779999999999999987665 566777788888886654 444
Q ss_pred Ec
Q 041028 76 IC 77 (283)
Q Consensus 76 V~ 77 (283)
|+
T Consensus 93 iD 94 (131)
T PF13401_consen 93 ID 94 (131)
T ss_dssp EE
T ss_pred Ee
Confidence 44
No 11
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=97.47 E-value=0.00049 Score=61.40 Aligned_cols=46 Identities=13% Similarity=0.180 Sum_probs=39.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC--CCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN--PNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~--~~~~~l~~~i~~~l 48 (283)
+|+|||||++.+++..... +|+..+||.+.+. ..+.++++.++..+
T Consensus 177 ~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~V 224 (415)
T TIGR00767 177 PKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEV 224 (415)
T ss_pred CCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceE
Confidence 6999999999999987654 8999999999855 78999999995433
No 12
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=97.21 E-value=0.013 Score=51.72 Aligned_cols=105 Identities=10% Similarity=0.091 Sum_probs=55.6
Q ss_pred HHHHHHHHhcCCchHHHHHhhccCChHHHHHHHHHhcCCCCCCCC-CchhHHHHHHhhhhccCCCCcHHHHHH-HHhhCc
Q 041028 93 WLAMDVAKECAGLPVSIVTGIKEQELFEWKDALEQLRRPSSTNFK-DVQPAAYKAMELGYNKLEGDELKSTFL-LIGYTA 170 (283)
Q Consensus 93 ~~~~~i~~~c~glPLal~~~l~~~~~~~w~~~l~~l~~~~~~~~~-~~~~~~~~~l~~sy~~L~~~~~k~~fl-~~s~fp 170 (283)
+.+..|++.|+|.|-.+...+. ....|.... .. ..+. ..-......+...+..|++. .+..+. .+..|+
T Consensus 203 ~~~~~ia~~~~G~pR~a~~~l~--~~~~~a~~~----~~--~~I~~~~v~~~l~~~~~~~~~l~~~-~~~~l~~~~~~~~ 273 (328)
T PRK00080 203 EGALEIARRSRGTPRIANRLLR--RVRDFAQVK----GD--GVITKEIADKALDMLGVDELGLDEM-DRKYLRTIIEKFG 273 (328)
T ss_pred HHHHHHHHHcCCCchHHHHHHH--HHHHHHHHc----CC--CCCCHHHHHHHHHHhCCCcCCCCHH-HHHHHHHHHHHcC
Confidence 4567788888888843333221 111111110 00 1110 11233445567778889886 777775 777776
Q ss_pred --CCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHH-HHHhccccccccC
Q 041028 171 --IASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVH-KLKASCMLLDHTS 218 (283)
Q Consensus 171 --~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~-~L~~~sLl~~~~~ 218 (283)
++..+.+...+ |. +. ..+++.++ .|++.+|++....
T Consensus 274 ~~~~~~~~~a~~l---g~-----~~----~~~~~~~e~~Li~~~li~~~~~ 312 (328)
T PRK00080 274 GGPVGLDTLAAAL---GE-----ER----DTIEDVYEPYLIQQGFIQRTPR 312 (328)
T ss_pred CCceeHHHHHHHH---CC-----Cc----chHHHHhhHHHHHcCCcccCCc
Confidence 77777765544 21 11 12333444 6677999964443
No 13
>PRK08118 topology modulation protein; Reviewed
Probab=97.16 E-value=0.00018 Score=56.94 Aligned_cols=28 Identities=32% Similarity=0.565 Sum_probs=22.6
Q ss_pred CCCCcHHHHHHHHHhhhccC-CCCCeEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNG-KLFDQIVF 28 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~-~~Fd~~~w 28 (283)
.+|+||||||+.+++..... -+||..+|
T Consensus 9 ~~GsGKSTlak~L~~~l~~~~~~lD~l~~ 37 (167)
T PRK08118 9 SGGSGKSTLARQLGEKLNIPVHHLDALFW 37 (167)
T ss_pred CCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence 47999999999999986654 35677776
No 14
>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=97.14 E-value=0.0085 Score=51.49 Aligned_cols=75 Identities=17% Similarity=0.282 Sum_probs=55.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCC----eEEEEEeCCCCCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccC--CcEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFD----QIVFTEVSQNPNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKK--EKLQ 74 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd----~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~--kr~L 74 (283)
+|.|||++++++....-....=+ .++.|.+...++...+...|+.+++.+... .+...........|+. -|+|
T Consensus 70 snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmL 149 (302)
T PF05621_consen 70 SNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRML 149 (302)
T ss_pred CCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEE
Confidence 58999999999997754331011 467778888999999999999999998754 3444445555566654 4899
Q ss_pred EE
Q 041028 75 II 76 (283)
Q Consensus 75 lV 76 (283)
||
T Consensus 150 II 151 (302)
T PF05621_consen 150 II 151 (302)
T ss_pred Ee
Confidence 99
No 15
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=97.05 E-value=0.02 Score=49.85 Aligned_cols=62 Identities=11% Similarity=-0.005 Sum_probs=36.7
Q ss_pred HHHHhhhhccCCCCcHHHHHH-HHhhCc--CCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHH-HHHhccccccccC
Q 041028 144 YKAMELGYNKLEGDELKSTFL-LIGYTA--IASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVH-KLKASCMLLDHTS 218 (283)
Q Consensus 144 ~~~l~~sy~~L~~~~~k~~fl-~~s~fp--~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~-~L~~~sLl~~~~~ 218 (283)
...+..+|..|++. .+..+. .++.++ +++.+.+.... |.- .......++ .|++++|+.....
T Consensus 226 l~~l~~~~~~l~~~-~~~~L~al~~~~~~~~~~~~~ia~~l---g~~---------~~~~~~~~e~~Li~~~li~~~~~ 291 (305)
T TIGR00635 226 LEMLMIDELGLDEI-DRKLLSVLIEQFQGGPVGLKTLAAAL---GED---------ADTIEDVYEPYLLQIGFLQRTPR 291 (305)
T ss_pred HHHhCCCCCCCCHH-HHHHHHHHHHHhCCCcccHHHHHHHh---CCC---------cchHHHhhhHHHHHcCCcccCCc
Confidence 33366778888886 666565 556675 56666655443 221 123334555 4777999964443
No 16
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=97.04 E-value=0.0042 Score=56.09 Aligned_cols=70 Identities=21% Similarity=0.029 Sum_probs=47.4
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCC-C--CcCCHhhhHHhHHHHccC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLK-F--DEESESGRTRSPWSRLKK 70 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~-~--~~~~~~~~~~~l~~~L~~ 70 (283)
.+|+|||++++.++++.......-..++++.....+...++.+|+.++... . ...+..+..+.+.+.+..
T Consensus 63 ~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~ 135 (394)
T PRK00411 63 PPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDE 135 (394)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHh
Confidence 379999999999999876542123456666666677888999999988652 1 122444555666666653
No 17
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=96.69 E-value=0.011 Score=52.83 Aligned_cols=76 Identities=22% Similarity=0.243 Sum_probs=47.8
Q ss_pred CCCCcHHHHHHHHHhhhccC-CCC---CeEEEEEeCCCCCHHHHHHHHHHHh---CCCCC--cCCHhhhHHhHHHHcc--
Q 041028 1 MGGIGKTTLAKEVARKAKNG-KLF---DQIVFTEVSQNPNIKKIQGEIAFKL---GLKFD--EESESGRTRSPWSRLK-- 69 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~-~~F---d~~~wv~v~~~~~~~~l~~~i~~~l---~~~~~--~~~~~~~~~~l~~~L~-- 69 (283)
.+|+|||++++.++++.... ... -..+|++.....+...++.+|+.++ +...+ ..+..+....+.+.+.
T Consensus 48 ~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~ 127 (365)
T TIGR02928 48 KTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNER 127 (365)
T ss_pred CCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhc
Confidence 37999999999999875422 111 1356777777677888999999988 33322 2233444555555553
Q ss_pred CCcEEEE
Q 041028 70 KEKLQII 76 (283)
Q Consensus 70 ~kr~LlV 76 (283)
++.++||
T Consensus 128 ~~~~vlv 134 (365)
T TIGR02928 128 GDSLIIV 134 (365)
T ss_pred CCeEEEE
Confidence 3344444
No 18
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=96.64 E-value=0.0029 Score=57.46 Aligned_cols=42 Identities=19% Similarity=0.217 Sum_probs=36.0
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQG 42 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~ 42 (283)
++|+|||++|+.+++.......|+.+.||++++.++..+...
T Consensus 202 ppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~ 243 (459)
T PRK11331 202 PPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQ 243 (459)
T ss_pred CCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhc
Confidence 689999999999999876656688899999999988777654
No 19
>PF05729 NACHT: NACHT domain
Probab=96.58 E-value=0.0049 Score=48.06 Aligned_cols=33 Identities=24% Similarity=0.356 Sum_probs=24.6
Q ss_pred CCCcHHHHHHHHHhhhccCCC----CCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKL----FDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~----Fd~~~wv~v~~~ 34 (283)
+|+||||+++.++.+...... +...+|++.+..
T Consensus 9 ~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 45 (166)
T PF05729_consen 9 PGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDI 45 (166)
T ss_pred CCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhh
Confidence 799999999999988665543 345677776644
No 20
>PTZ00202 tuzin; Provisional
Probab=96.57 E-value=0.012 Score=53.17 Aligned_cols=67 Identities=19% Similarity=0.226 Sum_probs=42.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHc-----c-CCcEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRL-----K-KEKLQ 74 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L-----~-~kr~L 74 (283)
++|+|||||++.+..... + ..++++.. +..++++.|+.+||.+.. ....++...|.+.| . +++.+
T Consensus 294 ~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eElLr~LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPV 364 (550)
T PTZ00202 294 FRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDTLRSVVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPL 364 (550)
T ss_pred CCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHHHHHHHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEE
Confidence 479999999999986543 1 24444443 679999999999998433 22233444444433 2 55555
Q ss_pred EE
Q 041028 75 II 76 (283)
Q Consensus 75 lV 76 (283)
||
T Consensus 365 LI 366 (550)
T PTZ00202 365 LV 366 (550)
T ss_pred EE
Confidence 55
No 21
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=96.14 E-value=0.011 Score=48.65 Aligned_cols=69 Identities=25% Similarity=0.250 Sum_probs=34.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC----CcC--CHhhhHHhHHHHccCCcEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKF----DEE--SESGRTRSPWSRLKKEKLQI 75 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~----~~~--~~~~~~~~l~~~L~~kr~Ll 75 (283)
+|+||||||.-+++..... |. +++...--...+ +..++..+.... ++. =.....+.|-..+.+-++-|
T Consensus 59 PG~GKTTLA~IIA~e~~~~--~~---~~sg~~i~k~~d-l~~il~~l~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idi 132 (233)
T PF05496_consen 59 PGLGKTTLARIIANELGVN--FK---ITSGPAIEKAGD-LAAILTNLKEGDILFIDEIHRLNKAQQEILLPAMEDGKIDI 132 (233)
T ss_dssp TTSSHHHHHHHHHHHCT----EE---EEECCC--SCHH-HHHHHHT--TT-EEEECTCCC--HHHHHHHHHHHHCSEEEE
T ss_pred CccchhHHHHHHHhccCCC--eE---eccchhhhhHHH-HHHHHHhcCCCcEEEEechhhccHHHHHHHHHHhccCeEEE
Confidence 7999999999999987754 42 222211111222 234445554321 111 12234556777777777644
Q ss_pred E
Q 041028 76 I 76 (283)
Q Consensus 76 V 76 (283)
|
T Consensus 133 i 133 (233)
T PF05496_consen 133 I 133 (233)
T ss_dssp E
T ss_pred E
Confidence 4
No 22
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=96.08 E-value=0.034 Score=49.72 Aligned_cols=75 Identities=21% Similarity=0.249 Sum_probs=55.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC-CCCcCCHhhhHHhHHHHccCC-cEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL-KFDEESESGRTRSPWSRLKKE-KLQII 76 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~-~~~~~~~~~~~~~l~~~L~~k-r~LlV 76 (283)
.|+|||+.++.+....+....=..+++|+.-...+..+++.+|+++++. +..+....+..+.+.+.+..+ +.+||
T Consensus 51 ~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~Iv 127 (366)
T COG1474 51 TGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIV 127 (366)
T ss_pred CCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEE
Confidence 6999999999999987654111227889888999999999999999963 333456667777788887653 34444
No 23
>PRK07261 topology modulation protein; Provisional
Probab=95.95 E-value=0.014 Score=46.41 Aligned_cols=28 Identities=29% Similarity=0.475 Sum_probs=19.8
Q ss_pred CCCCcHHHHHHHHHhhhccC-CCCCeEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNG-KLFDQIVF 28 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~-~~Fd~~~w 28 (283)
++|+||||||+.+....... -+.|...|
T Consensus 8 ~~GsGKSTla~~l~~~~~~~~i~~D~~~~ 36 (171)
T PRK07261 8 YSGSGKSTLARKLSQHYNCPVLHLDTLHF 36 (171)
T ss_pred CCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence 57999999999998765432 12455555
No 24
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=95.42 E-value=0.011 Score=43.74 Aligned_cols=17 Identities=53% Similarity=0.665 Sum_probs=15.3
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+||||+|+.+.+..
T Consensus 7 ~~gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 7 PPGSGKSTLAKELAERL 23 (121)
T ss_dssp STTSSHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHH
Confidence 47999999999999975
No 25
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.39 E-value=0.071 Score=47.63 Aligned_cols=74 Identities=14% Similarity=0.141 Sum_probs=46.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCcC-CHhhhHHhHHHHccCCcEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDEE-SESGRTRSPWSRLKKEKLQII 76 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~-~~~~~~~~l~~~L~~kr~LlV 76 (283)
.|+||||++..++...........+..++... .....+-++...+.++.+.... +..+... ....+.++.++||
T Consensus 146 tGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~-~l~~l~~~DlVLI 221 (374)
T PRK14722 146 TGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQL-ALAELRNKHMVLI 221 (374)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHH-HHHHhcCCCEEEE
Confidence 59999999999998764331123456665432 2345666777778888765432 2223333 3345677889988
No 26
>PRK12608 transcription termination factor Rho; Provisional
Probab=95.18 E-value=0.15 Score=45.42 Aligned_cols=50 Identities=10% Similarity=0.135 Sum_probs=37.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCe-EEEEEeCC-CCCHHHHHHHHHHHhCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQ-IVFTEVSQ-NPNIKKIQGEIAFKLGLKF 52 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~-~~wv~v~~-~~~~~~l~~~i~~~l~~~~ 52 (283)
+|+|||||++.+++..... +-+. ++|+.+++ ...+.++++.+...+....
T Consensus 142 pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast 193 (380)
T PRK12608 142 PRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYAST 193 (380)
T ss_pred CCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeec
Confidence 5999999999999976543 2344 46777775 4578889999888777654
No 27
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.04 E-value=0.027 Score=43.77 Aligned_cols=24 Identities=33% Similarity=0.526 Sum_probs=19.9
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCe
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQ 25 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~ 25 (283)
|+|||||||++.+.+..+..+ |..
T Consensus 13 ~PGvGKtTl~~ki~e~L~~~g-~kv 36 (179)
T COG1618 13 RPGVGKTTLVLKIAEKLREKG-YKV 36 (179)
T ss_pred CCCccHHHHHHHHHHHHHhcC-cee
Confidence 789999999999999887654 643
No 28
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.00 E-value=0.12 Score=44.65 Aligned_cols=73 Identities=18% Similarity=0.151 Sum_probs=41.8
Q ss_pred CCCcHHHHHHHHHhhhccC-CCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNG-KLFDQIVFTEVSQN-PNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQII 76 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~-~~Fd~~~wv~v~~~-~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV 76 (283)
+|+||||++..++.....+ +.+ .+..|+.... ....+.+....+.++.+... .+..+....+. .+.+..++||
T Consensus 203 tGvGKTTt~~kLa~~~~~~~g~~-~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~-~~~~~d~vli 278 (282)
T TIGR03499 203 TGVGKTTTLAKLAARFVLEHGNK-KVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALD-RLRDKDLILI 278 (282)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCC-eEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHH-HccCCCEEEE
Confidence 6999999999998776533 112 4555665432 22344555566666765432 23334433343 3455677776
No 29
>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=94.86 E-value=0.02 Score=42.57 Aligned_cols=17 Identities=53% Similarity=0.757 Sum_probs=15.0
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
..|+||||+|+++....
T Consensus 6 ~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 6 IPGSGKTTIAKELAERL 22 (129)
T ss_dssp STTSSHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHH
Confidence 36999999999999875
No 30
>PRK08233 hypothetical protein; Provisional
Probab=94.66 E-value=0.096 Score=41.58 Aligned_cols=18 Identities=44% Similarity=0.617 Sum_probs=15.3
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||||..++....
T Consensus 11 ~~GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 11 VSGGGKTTLTERLTHKLK 28 (182)
T ss_pred CCCCCHHHHHHHHHhhCC
Confidence 369999999999998754
No 31
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.64 E-value=0.44 Score=45.65 Aligned_cols=18 Identities=39% Similarity=0.619 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+.+....
T Consensus 47 ~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 47 RGVGKTTLSRILAKSLNC 64 (700)
T ss_pred CCCCHHHHHHHHHHHhcC
Confidence 599999999999887643
No 32
>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=94.51 E-value=0.059 Score=40.48 Aligned_cols=32 Identities=28% Similarity=0.306 Sum_probs=22.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNP 35 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~ 35 (283)
+|+|||+||+.+++..... -..+++++.++..
T Consensus 28 ~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~ 59 (151)
T cd00009 28 PGTGKTTLARAIANELFRP--GAPFLYLNASDLL 59 (151)
T ss_pred CCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhh
Confidence 6999999999999987522 2345666665443
No 33
>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=94.47 E-value=0.14 Score=37.98 Aligned_cols=31 Identities=29% Similarity=0.374 Sum_probs=22.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+||||+|+.+++..... ...+++++.+..
T Consensus 11 ~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~ 41 (148)
T smart00382 11 PGSGKTTLARALARELGPP--GGGVIYIDGEDI 41 (148)
T ss_pred CCCcHHHHHHHHHhccCCC--CCCEEEECCEEc
Confidence 6999999999999876543 224566655543
No 34
>PHA02518 ParA-like protein; Provisional
Probab=94.44 E-value=0.19 Score=40.87 Aligned_cols=36 Identities=22% Similarity=0.403 Sum_probs=25.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKK 39 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~ 39 (283)
||+||||+|..++.....++ ..++-|+.....+...
T Consensus 10 GGvGKTT~a~~la~~la~~g--~~vlliD~D~q~~~~~ 45 (211)
T PHA02518 10 GGAGKTTVATNLASWLHADG--HKVLLVDLDPQGSSTD 45 (211)
T ss_pred CCCCHHHHHHHHHHHHHhCC--CeEEEEeCCCCCChHH
Confidence 89999999999888665332 2456677765555444
No 35
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=94.29 E-value=0.18 Score=44.21 Aligned_cols=70 Identities=21% Similarity=0.223 Sum_probs=44.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------cCCHhhhHHhHHHHccCC--cE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD------EESESGRTRSPWSRLKKE--KL 73 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~~L~~k--r~ 73 (283)
+|+||||||.+++-..... -..++||+....++.. .+++++.+.+ ..+.++....+...++.. +.
T Consensus 64 ~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s~~~~l 136 (325)
T cd00983 64 ESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADSLVRSGAVDL 136 (325)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHHHHhccCCCE
Confidence 6999999999987665433 3567899888777753 4555555321 224455555555555443 56
Q ss_pred EEEcC
Q 041028 74 QIICG 78 (283)
Q Consensus 74 LlV~G 78 (283)
++|+.
T Consensus 137 IVIDS 141 (325)
T cd00983 137 IVVDS 141 (325)
T ss_pred EEEcc
Confidence 66654
No 36
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.26 E-value=0.17 Score=47.20 Aligned_cols=75 Identities=20% Similarity=0.220 Sum_probs=40.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
+|+||||++..++...........+..++... .....+.++.....++..... .+..+....+ +.+.++.++||+
T Consensus 359 tGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL-~~l~~~DLVLID 435 (559)
T PRK12727 359 TGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLL-ERLRDYKLVLID 435 (559)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHH-HHhccCCEEEec
Confidence 69999999999887654332123455555432 122233344444555554332 2233333333 345677888883
No 37
>PRK03839 putative kinase; Provisional
Probab=94.26 E-value=0.03 Score=44.68 Aligned_cols=19 Identities=42% Similarity=0.522 Sum_probs=16.7
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
|+|+||||+|+.+++....
T Consensus 8 ~pGsGKsT~~~~La~~~~~ 26 (180)
T PRK03839 8 TPGVGKTTVSKLLAEKLGY 26 (180)
T ss_pred CCCCCHHHHHHHHHHHhCC
Confidence 6899999999999998653
No 38
>PRK05541 adenylylsulfate kinase; Provisional
Probab=94.25 E-value=0.052 Score=43.12 Aligned_cols=28 Identities=29% Similarity=0.606 Sum_probs=21.6
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
+.|+||||+|+.+++..... +...+++.
T Consensus 15 ~~GsGKst~a~~l~~~l~~~--~~~~~~~~ 42 (176)
T PRK05541 15 LAGSGKTTIAKALYERLKLK--YSNVIYLD 42 (176)
T ss_pred CCCCCHHHHHHHHHHHHHHc--CCcEEEEe
Confidence 47999999999999987643 65666553
No 39
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.17 E-value=0.04 Score=43.77 Aligned_cols=20 Identities=25% Similarity=0.398 Sum_probs=16.7
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
.+|+|||+|.++++......
T Consensus 32 ~~G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 32 ESGSGKTSLLRALLDRLAER 51 (185)
T ss_dssp -TTSSHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhc
Confidence 37999999999999887655
No 40
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=94.08 E-value=0.078 Score=46.41 Aligned_cols=41 Identities=22% Similarity=0.339 Sum_probs=28.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGE 43 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~ 43 (283)
.|||||||+|.+.+-..... ...++=|+.....++.+++..
T Consensus 10 KGGVGKTT~aaA~A~~lA~~--g~kvLlvStDPAhsL~d~f~~ 50 (322)
T COG0003 10 KGGVGKTTIAAATAVKLAES--GKKVLLVSTDPAHSLGDVFDL 50 (322)
T ss_pred CCcccHHHHHHHHHHHHHHc--CCcEEEEEeCCCCchHhhhcc
Confidence 48999999999976665544 344777777766666665554
No 41
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=94.06 E-value=0.069 Score=46.55 Aligned_cols=40 Identities=23% Similarity=0.430 Sum_probs=26.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGE 43 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~ 43 (283)
|||||||+|.+.+-....++ ..++-|+.....++.+++..
T Consensus 10 GGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~L~d~l~~ 49 (305)
T PF02374_consen 10 GGVGKTTVAAALALALARRG--KRTLLVSTDPAHSLSDVLGQ 49 (305)
T ss_dssp TTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTHHHHHHTS
T ss_pred CCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCccHHHHhCC
Confidence 89999999988776544332 23566676666666555543
No 42
>PRK06217 hypothetical protein; Validated
Probab=94.05 E-value=0.1 Score=41.82 Aligned_cols=28 Identities=25% Similarity=0.357 Sum_probs=20.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCC--CeEEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLF--DQIVFT 29 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~F--d~~~wv 29 (283)
++|+||||||+.+....... +| |..+|.
T Consensus 9 ~~GsGKSTla~~L~~~l~~~-~~~~D~~~~~ 38 (183)
T PRK06217 9 ASGSGTTTLGAALAERLDIP-HLDTDDYFWL 38 (183)
T ss_pred CCCCCHHHHHHHHHHHcCCc-EEEcCceeec
Confidence 47999999999999886543 34 556664
No 43
>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=94.01 E-value=0.11 Score=39.42 Aligned_cols=37 Identities=30% Similarity=0.419 Sum_probs=27.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGE 43 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~ 43 (283)
+|+|||+||+.+++.... ...-+.++...+..++...
T Consensus 8 ~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~g~ 44 (139)
T PF07728_consen 8 PGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLIGS 44 (139)
T ss_dssp SSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHHCE
T ss_pred CCCCHHHHHHHHHHHhhc-----ceEEEEeccccccccceee
Confidence 699999999999997621 2344677788888777654
No 44
>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=93.99 E-value=0.22 Score=43.61 Aligned_cols=70 Identities=19% Similarity=0.213 Sum_probs=43.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------cCCHhhhHHhHHHHccC--CcE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD------EESESGRTRSPWSRLKK--EKL 73 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~~L~~--kr~ 73 (283)
+|+||||||.++....... =..++|++..+.++.. .+++++.+.+ ..+.++....+...++. -+.
T Consensus 64 ~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~~~~~l 136 (321)
T TIGR02012 64 ESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDI 136 (321)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhccCCcE
Confidence 6999999999987765433 3467899887776653 4566665421 22444455555555543 256
Q ss_pred EEEcC
Q 041028 74 QIICG 78 (283)
Q Consensus 74 LlV~G 78 (283)
++|++
T Consensus 137 IVIDS 141 (321)
T TIGR02012 137 IVVDS 141 (321)
T ss_pred EEEcc
Confidence 66654
No 45
>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=93.95 E-value=0.11 Score=42.37 Aligned_cols=38 Identities=18% Similarity=0.270 Sum_probs=28.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQG 42 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~ 42 (283)
+|+|||+||.+++...... -..++|++... ++...+.+
T Consensus 21 ~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~ 58 (209)
T TIGR02237 21 PGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ 58 (209)
T ss_pred CCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH
Confidence 7999999999988765433 46789999876 66655443
No 46
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=93.92 E-value=2.6 Score=41.30 Aligned_cols=17 Identities=41% Similarity=0.647 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||+|+.+.+...
T Consensus 47 pGvGKTTlAriLAKaLn 63 (830)
T PRK07003 47 RGVGKTTLSRIFAKALN 63 (830)
T ss_pred CCCCHHHHHHHHHHHhc
Confidence 59999999999888654
No 47
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=93.83 E-value=0.041 Score=44.73 Aligned_cols=39 Identities=28% Similarity=0.377 Sum_probs=25.5
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEI 44 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i 44 (283)
|=|+||||||+.++++.... +++-.+.+++=+.....++
T Consensus 12 ~IG~GKSTLa~~La~~l~~~-----~~~E~vednp~L~~FY~d~ 50 (216)
T COG1428 12 MIGAGKSTLAQALAEHLGFK-----VFYELVEDNPFLDLFYEDP 50 (216)
T ss_pred ccccCHHHHHHHHHHHhCCc-----eeeecccCChHHHHHHHhH
Confidence 45999999999999988733 2334455554444444443
No 48
>PRK00625 shikimate kinase; Provisional
Probab=93.83 E-value=0.044 Score=43.58 Aligned_cols=18 Identities=28% Similarity=0.468 Sum_probs=16.2
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
|+|+||||+++.+.++..
T Consensus 8 ~pGsGKTT~~k~La~~l~ 25 (173)
T PRK00625 8 LPTVGKTSFGKALAKFLS 25 (173)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 789999999999998765
No 49
>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=93.82 E-value=0.4 Score=39.57 Aligned_cols=46 Identities=22% Similarity=0.298 Sum_probs=30.5
Q ss_pred CCCcHHHHHHHHHhhhccCC----CCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGK----LFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~----~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||+||..++......+ .=..++|++....++...+ .++.+..
T Consensus 28 ~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl-~~~~~~~ 77 (226)
T cd01393 28 FGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERL-VQLAVRF 77 (226)
T ss_pred CCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHH-HHHHHHh
Confidence 69999999999876643221 0056789988877776554 3444443
No 50
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=93.81 E-value=0.079 Score=44.90 Aligned_cols=32 Identities=25% Similarity=0.421 Sum_probs=23.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
|||||||+|.+++......+ -..++-|+....
T Consensus 12 GGvGKTT~a~nLa~~La~~~-~~kVLliDlDpQ 43 (259)
T COG1192 12 GGVGKTTTAVNLAAALAKRG-GKKVLLIDLDPQ 43 (259)
T ss_pred CCccHHHHHHHHHHHHHHhc-CCcEEEEeCCCc
Confidence 89999999999998876221 145777776544
No 51
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=93.81 E-value=0.19 Score=42.57 Aligned_cols=61 Identities=21% Similarity=0.249 Sum_probs=40.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
+|+|||.||.++.+... +.-+ .+.++ +..+++.++...... ......+...+..-.+||++
T Consensus 114 ~G~GKThLa~Ai~~~l~-~~g~-sv~f~------~~~el~~~Lk~~~~~-------~~~~~~l~~~l~~~dlLIiD 174 (254)
T COG1484 114 PGVGKTHLAIAIGNELL-KAGI-SVLFI------TAPDLLSKLKAAFDE-------GRLEEKLLRELKKVDLLIID 174 (254)
T ss_pred CCCcHHHHHHHHHHHHH-HcCC-eEEEE------EHHHHHHHHHHHHhc-------CchHHHHHHHhhcCCEEEEe
Confidence 59999999999999987 4223 34444 455666666655543 11334566667777888883
No 52
>PRK09354 recA recombinase A; Provisional
Probab=93.76 E-value=0.27 Score=43.49 Aligned_cols=70 Identities=20% Similarity=0.219 Sum_probs=45.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------cCCHhhhHHhHHHHccCC--cE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD------EESESGRTRSPWSRLKKE--KL 73 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~~L~~k--r~ 73 (283)
+|+||||||.++....... =..++||+....++. ..++++|.+.+ ..+.++....+...++.. +.
T Consensus 69 ~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~-----~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s~~~~l 141 (349)
T PRK09354 69 ESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDP-----VYAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDL 141 (349)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHH-----HHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhcCCCCE
Confidence 6999999999988765533 356789998887775 34566665421 224455555555555443 56
Q ss_pred EEEcC
Q 041028 74 QIICG 78 (283)
Q Consensus 74 LlV~G 78 (283)
++|+.
T Consensus 142 IVIDS 146 (349)
T PRK09354 142 IVVDS 146 (349)
T ss_pred EEEeC
Confidence 66654
No 53
>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=93.69 E-value=0.33 Score=39.45 Aligned_cols=73 Identities=22% Similarity=0.262 Sum_probs=45.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC----cCCHhhhHHhHHHHccC--CcEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFD----EESESGRTRSPWSRLKK--EKLQ 74 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~----~~~~~~~~~~l~~~L~~--kr~L 74 (283)
.|+||||.+..++.....+ =..+..++... .....+-++..++.++.+.. ..+..+......+.+.. ..++
T Consensus 10 tGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~v 87 (196)
T PF00448_consen 10 TGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLV 87 (196)
T ss_dssp TTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEE
T ss_pred CCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEE
Confidence 5999999888888776654 34567777753 34567788899999998732 12333433332333333 3578
Q ss_pred EE
Q 041028 75 II 76 (283)
Q Consensus 75 lV 76 (283)
+|
T Consensus 88 lI 89 (196)
T PF00448_consen 88 LI 89 (196)
T ss_dssp EE
T ss_pred EE
Confidence 87
No 54
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=93.68 E-value=0.053 Score=40.62 Aligned_cols=21 Identities=52% Similarity=0.700 Sum_probs=15.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFD 24 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd 24 (283)
+|+||||+|+.++...... |.
T Consensus 8 PG~GKT~la~~lA~~~~~~--f~ 28 (131)
T PF07726_consen 8 PGVGKTTLAKALARSLGLS--FK 28 (131)
T ss_dssp --HHHHHHHHHHHHHTT----EE
T ss_pred CccHHHHHHHHHHHHcCCc--ee
Confidence 6999999999999987644 63
No 55
>PF13173 AAA_14: AAA domain
Probab=93.59 E-value=0.068 Score=40.08 Aligned_cols=30 Identities=30% Similarity=0.494 Sum_probs=22.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
.|+|||||+++++.+.. ....+++++..+.
T Consensus 11 R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~ 40 (128)
T PF13173_consen 11 RGVGKTTLLKQLAKDLL---PPENILYINFDDP 40 (128)
T ss_pred CCCCHHHHHHHHHHHhc---ccccceeeccCCH
Confidence 48999999999998765 2356677776654
No 56
>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=93.58 E-value=0.091 Score=40.92 Aligned_cols=28 Identities=29% Similarity=0.396 Sum_probs=20.9
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
++|.||||||+++.+..... -..+++++
T Consensus 10 lsGsGKtTlA~~L~~~L~~~--g~~~~~LD 37 (156)
T PF01583_consen 10 LSGSGKTTLARALERRLFAR--GIKVYLLD 37 (156)
T ss_dssp STTSSHHHHHHHHHHHHHHT--TS-EEEEE
T ss_pred CCCCCHHHHHHHHHHHHHHc--CCcEEEec
Confidence 47999999999999998755 33455553
No 57
>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=93.50 E-value=0.12 Score=44.11 Aligned_cols=43 Identities=23% Similarity=0.326 Sum_probs=31.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCCC-CHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQNP-NIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~~-~~~~l~~~i~~ 46 (283)
+|+||||||+.+++....+ | +.++++-+++.. .+.++..++..
T Consensus 78 ~G~GKTtLa~~i~~~i~~~--~~~~~V~~~iGer~~Ev~e~~~~~~~ 122 (274)
T cd01133 78 AGVGKTVLIMELINNIAKA--HGGYSVFAGVGERTREGNDLYHEMKE 122 (274)
T ss_pred CCCChhHHHHHHHHHHHhc--CCCEEEEEEeccCcHHHHHHHHHHHh
Confidence 5999999999999987754 6 566777777654 45666666654
No 58
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=93.40 E-value=0.13 Score=41.18 Aligned_cols=38 Identities=24% Similarity=0.400 Sum_probs=25.4
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKI 40 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l 40 (283)
.||+||||+|..++...... =..++-++.....+....
T Consensus 7 kGG~GKTt~a~~la~~la~~--g~~VlliD~D~~~~~~~~ 44 (195)
T PF01656_consen 7 KGGVGKTTIAANLAQALARK--GKKVLLIDLDPQAPNLSI 44 (195)
T ss_dssp STTSSHHHHHHHHHHHHHHT--TS-EEEEEESTTSHHHHH
T ss_pred CCCccHHHHHHHHHhccccc--cccccccccCcccccHHH
Confidence 38999999999998876653 235566776554444333
No 59
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=93.38 E-value=0.059 Score=40.95 Aligned_cols=18 Identities=44% Similarity=0.591 Sum_probs=15.0
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.+.....
T Consensus 7 ~pgsGKSt~a~~l~~~~~ 24 (143)
T PF13671_consen 7 PPGSGKSTLAKRLAKRLG 24 (143)
T ss_dssp STTSSHHHHHHHHHHHST
T ss_pred CCCCCHHHHHHHHHHHCC
Confidence 479999999999986543
No 60
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=93.37 E-value=0.1 Score=40.68 Aligned_cols=38 Identities=32% Similarity=0.377 Sum_probs=30.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKF 52 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~ 52 (283)
+|+||||+|+.++++..-. | .+...+++++++..|.+.
T Consensus 9 pGsG~TTva~~lAe~~gl~--~-----------vsaG~iFR~~A~e~gmsl 46 (179)
T COG1102 9 PGSGKTTVARELAEHLGLK--L-----------VSAGTIFREMARERGMSL 46 (179)
T ss_pred CCCChhHHHHHHHHHhCCc--e-----------eeccHHHHHHHHHcCCCH
Confidence 7999999999999987644 1 244578899999998763
No 61
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=93.36 E-value=0.13 Score=42.61 Aligned_cols=35 Identities=23% Similarity=0.508 Sum_probs=23.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNI 37 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~ 37 (283)
||+||||+|..+......++-| .++=|+...++++
T Consensus 9 GG~GKTtiaalll~~l~~~~~~-~VLvVDaDpd~nL 43 (255)
T COG3640 9 GGVGKTTIAALLLKRLLSKGGY-NVLVVDADPDSNL 43 (255)
T ss_pred CCccHHHHHHHHHHHHHhcCCc-eEEEEeCCCCCCh
Confidence 8999999999977765544323 3444666666554
No 62
>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=93.32 E-value=0.16 Score=42.23 Aligned_cols=48 Identities=23% Similarity=0.259 Sum_probs=31.9
Q ss_pred CCCcHHHHHHHHHhhhccCCC----CCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKL----FDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~----Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||+||.+++-....... -..++|++....++...+ .++++..+.
T Consensus 28 ~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~~ 79 (235)
T cd01123 28 FGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFGL 79 (235)
T ss_pred CCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhcc
Confidence 699999999999755332211 257899998887775444 444554443
No 63
>COG3899 Predicted ATPase [General function prediction only]
Probab=93.30 E-value=1.5 Score=43.93 Aligned_cols=132 Identities=15% Similarity=0.154 Sum_probs=81.6
Q ss_pred chHHHHHHHHHhcCCchHHHHH---hhc-------cCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHhhhhccCCCCcH
Q 041028 90 ELKWLAMDVAKECAGLPVSIVT---GIK-------EQELFEWKDALEQLRRPSSTNFKDVQPAAYKAMELGYNKLEGDEL 159 (283)
Q Consensus 90 ~~~~~~~~i~~~c~glPLal~~---~l~-------~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~ 159 (283)
...+....|.++-.|.|+-+.- ++. +.+...|..-...+... .....+.+.+..-.+.||+. .
T Consensus 238 ~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~------~~~~~vv~~l~~rl~kL~~~-t 310 (849)
T COG3899 238 LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGIL------ATTDAVVEFLAARLQKLPGT-T 310 (849)
T ss_pred ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCc------hhhHHHHHHHHHHHhcCCHH-H
Confidence 3456688899999999998887 222 34555555444333221 11233566788889999997 9
Q ss_pred HHHHHHHhhCc-CCCHHHHHHHHhhccccCCCchHHHHHHHHHHHHHHHHhccccccccC----C-CcceE---EechhH
Q 041028 160 KSTFLLIGYTA-IASIDDLLMYGMGLGLFQGVNKMEAARARVHTLVHKLKASCMLLDHTS----K-NEKLF---SIHDVV 230 (283)
Q Consensus 160 k~~fl~~s~fp-~i~~~~l~~~w~aeg~~~~~~~~~~~~~~~~~~~~~L~~~sLl~~~~~----~-~~~~~---~mH~lv 230 (283)
|..+...|++- .|+.+.|...+... ....+..+.+.|....++ +.+. . ..... -.|+++
T Consensus 311 ~~Vl~~AA~iG~~F~l~~La~l~~~~-----------~~~~a~~l~~al~e~lI~-~~~~~yr~~~~~~~~~Y~F~H~~v 378 (849)
T COG3899 311 REVLKAAACIGNRFDLDTLAALAEDS-----------PALEAAALLDALQEGLIL-PLSETYRFGSNVDIATYKFLHDRV 378 (849)
T ss_pred HHHHHHHHHhCccCCHHHHHHHHhhc-----------hHHHHHHHHHHhHhhcee-ccccccccccccchhhHHhhHHHH
Confidence 99999999996 99998888776321 222333444444444443 4221 0 11112 568888
Q ss_pred HHHHHHHHcc
Q 041028 231 RDVAISIASG 240 (283)
Q Consensus 231 ~~~a~~~~~~ 240 (283)
++.|-....+
T Consensus 379 qqaaY~~i~~ 388 (849)
T COG3899 379 QQAAYNLIPE 388 (849)
T ss_pred HHHHhccCch
Confidence 8888654443
No 64
>PRK08116 hypothetical protein; Validated
Probab=93.28 E-value=0.42 Score=40.85 Aligned_cols=63 Identities=21% Similarity=0.173 Sum_probs=37.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+|||.||.++++....+ -..+++++ ..+++..+........ ..+ ...+.+.+.+-.+|+++
T Consensus 123 ~GtGKThLa~aia~~l~~~--~~~v~~~~------~~~ll~~i~~~~~~~~-~~~----~~~~~~~l~~~dlLviD 185 (268)
T PRK08116 123 VGTGKTYLAACIANELIEK--GVPVIFVN------FPQLLNRIKSTYKSSG-KED----ENEIIRSLVNADLLILD 185 (268)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCeEEEEE------HHHHHHHHHHHHhccc-ccc----HHHHHHHhcCCCEEEEe
Confidence 5999999999999987644 33456664 4445555555443211 111 22344556666788874
No 65
>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=93.15 E-value=0.14 Score=43.65 Aligned_cols=31 Identities=19% Similarity=0.374 Sum_probs=21.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
|||||||+|..++.-....++ .++=|+....
T Consensus 10 GGvGKTT~~~nLA~~La~~G~--kVlliD~Dpq 40 (270)
T cd02040 10 GGIGKSTTTQNLSAALAEMGK--KVMIVGCDPK 40 (270)
T ss_pred CcCCHHHHHHHHHHHHHhCCC--eEEEEEcCCC
Confidence 899999999998887653321 3444555433
No 66
>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=93.15 E-value=0.065 Score=39.87 Aligned_cols=17 Identities=47% Similarity=0.581 Sum_probs=15.5
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+++...
T Consensus 7 ~G~GKT~l~~~la~~l~ 23 (132)
T PF00004_consen 7 PGTGKTTLARALAQYLG 23 (132)
T ss_dssp TTSSHHHHHHHHHHHTT
T ss_pred CCCCeeHHHHHHHhhcc
Confidence 69999999999999874
No 67
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=93.14 E-value=0.16 Score=45.29 Aligned_cols=19 Identities=42% Similarity=0.557 Sum_probs=16.1
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|+||||||+.+.......
T Consensus 57 PG~GKTTlA~liA~~~~~~ 75 (436)
T COG2256 57 PGTGKTTLARLIAGTTNAA 75 (436)
T ss_pred CCCCHHHHHHHHHHhhCCc
Confidence 7999999999999966543
No 68
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.13 E-value=0.29 Score=44.75 Aligned_cols=74 Identities=14% Similarity=0.112 Sum_probs=43.1
Q ss_pred CCCcHHHHHHHHHhhhc-cCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAK-NGKLFDQIVFTEVSQNP-NIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~-~~~~Fd~~~wv~v~~~~-~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
+|+||||++..++.... ... -..+..|+..... ...+-++...+.++.+... .+..+....+.. +.+..++||+
T Consensus 230 tGvGKTTt~~kLA~~~~~~~~-g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~-~~~~DlVlID 306 (424)
T PRK05703 230 TGVGKTTTLAKLAARYALLYG-KKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQ-LRDCDVILID 306 (424)
T ss_pred CCCCHHHHHHHHHHHHHHhcC-CCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHH-hCCCCEEEEe
Confidence 69999999999877654 221 2356667654321 1234455556667765432 233444444443 4567888884
No 69
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=93.11 E-value=0.077 Score=43.83 Aligned_cols=29 Identities=17% Similarity=0.319 Sum_probs=20.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
+|+|||+||+.+++..... ....++++++
T Consensus 47 ~G~GKT~la~~~~~~~~~~--~~~~~~i~~~ 75 (226)
T TIGR03420 47 SGSGKSHLLQAACAAAEER--GKSAIYLPLA 75 (226)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCcEEEEeHH
Confidence 6999999999999876533 3345566543
No 70
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.11 E-value=0.43 Score=40.14 Aligned_cols=62 Identities=18% Similarity=0.199 Sum_probs=36.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
+|+|||+||.++++..... -..+++++ ..+++..+-..... ...+ ...+.+.+..-.+|+|+
T Consensus 108 ~GtGKThLa~aia~~l~~~--g~~v~~it------~~~l~~~l~~~~~~--~~~~----~~~~l~~l~~~dlLvID 169 (244)
T PRK07952 108 PGTGKNHLAAAICNELLLR--GKSVLIIT------VADIMSAMKDTFSN--SETS----EEQLLNDLSNVDLLVID 169 (244)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCeEEEEE------HHHHHHHHHHHHhh--cccc----HHHHHHHhccCCEEEEe
Confidence 6999999999999987543 23456654 44555554443321 1111 22344456667888884
No 71
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=93.08 E-value=0.18 Score=44.56 Aligned_cols=29 Identities=41% Similarity=0.541 Sum_probs=22.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+||||||+.+.+..+.. ...||..|..
T Consensus 171 pG~GKTtlArlia~tsk~~----SyrfvelSAt 199 (554)
T KOG2028|consen 171 PGTGKTTLARLIASTSKKH----SYRFVELSAT 199 (554)
T ss_pred CCCchHHHHHHHHhhcCCC----ceEEEEEecc
Confidence 6999999999999976643 2567877744
No 72
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=93.06 E-value=0.73 Score=39.21 Aligned_cols=43 Identities=16% Similarity=0.145 Sum_probs=29.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~ 47 (283)
+|+|||||+.+++...... +=..++|+++..+ ..++...+...
T Consensus 39 ~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~~--~~~~~~r~~~~ 81 (271)
T cd01122 39 TGVGKTTFLREYALDLITQ-HGVRVGTISLEEP--VVRTARRLLGQ 81 (271)
T ss_pred CCCCHHHHHHHHHHHHHHh-cCceEEEEEcccC--HHHHHHHHHHH
Confidence 6999999999988765432 1146788887663 45566666554
No 73
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=92.99 E-value=0.14 Score=39.28 Aligned_cols=17 Identities=47% Similarity=0.657 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||||..++....
T Consensus 16 PG~GKstl~~~lae~~~ 32 (176)
T KOG3347|consen 16 PGTGKSTLAERLAEKTG 32 (176)
T ss_pred CCCCchhHHHHHHHHhC
Confidence 79999999999996543
No 74
>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=92.95 E-value=0.46 Score=41.60 Aligned_cols=49 Identities=18% Similarity=0.220 Sum_probs=34.7
Q ss_pred CCCcHHHHHHHHHhhhccC---CC-CCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNG---KL-FDQIVFTEVSQNPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~---~~-Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~ 51 (283)
+|+|||+|+..++-..... .. =..++||+....|++..+. ++++.++..
T Consensus 105 ~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d 157 (313)
T TIGR02238 105 FRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVD 157 (313)
T ss_pred CCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCC
Confidence 6999999999876432211 11 1468999999999988875 467777654
No 75
>PRK13947 shikimate kinase; Provisional
Probab=92.94 E-value=0.072 Score=41.96 Aligned_cols=20 Identities=45% Similarity=0.549 Sum_probs=17.1
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
|+|+||||+|+.+++.....
T Consensus 9 ~~GsGKst~a~~La~~lg~~ 28 (171)
T PRK13947 9 FMGTGKTTVGKRVATTLSFG 28 (171)
T ss_pred CCCCCHHHHHHHHHHHhCCC
Confidence 68999999999999986543
No 76
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=92.91 E-value=0.2 Score=41.81 Aligned_cols=38 Identities=21% Similarity=0.323 Sum_probs=26.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQ 41 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~ 41 (283)
||+||||+|..++.....++ + .++-|+....-+.....
T Consensus 11 GGvGKTT~a~nLA~~la~~G-~-~VlliD~DpQ~s~~~w~ 48 (231)
T PRK13849 11 GGAGKTTALMGLCAALASDG-K-RVALFEADENRPLTRWK 48 (231)
T ss_pred CCccHHHHHHHHHHHHHhCC-C-cEEEEeCCCCCCHHHHH
Confidence 89999999999988765442 2 44556776555554443
No 77
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=92.91 E-value=0.2 Score=41.42 Aligned_cols=36 Identities=17% Similarity=0.346 Sum_probs=27.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKI 40 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l 40 (283)
+|+|||+||.+++...... -..++|++.. .++...+
T Consensus 32 ~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r~ 67 (225)
T PRK09361 32 PGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPERF 67 (225)
T ss_pred CCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHHH
Confidence 7999999999998876433 4678999887 5555443
No 78
>PRK12377 putative replication protein; Provisional
Probab=92.90 E-value=0.39 Score=40.50 Aligned_cols=61 Identities=16% Similarity=0.174 Sum_probs=37.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
+|+|||+||.++++....+ .-.++++++ .+++..|-..... ..+ ...+.+.+..-.+|+|+
T Consensus 110 ~GtGKThLa~AIa~~l~~~--g~~v~~i~~------~~l~~~l~~~~~~---~~~----~~~~l~~l~~~dLLiID 170 (248)
T PRK12377 110 PGTGKNHLAAAIGNRLLAK--GRSVIVVTV------PDVMSRLHESYDN---GQS----GEKFLQELCKVDLLVLD 170 (248)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCCeEEEEH------HHHHHHHHHHHhc---cch----HHHHHHHhcCCCEEEEc
Confidence 5999999999999987644 334566654 3455555443321 111 12344556677888884
No 79
>PRK06762 hypothetical protein; Provisional
Probab=92.87 E-value=0.074 Score=41.71 Aligned_cols=17 Identities=41% Similarity=0.616 Sum_probs=15.1
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
++|+||||+|+.+.+..
T Consensus 10 ~~GsGKST~A~~L~~~l 26 (166)
T PRK06762 10 NSGSGKTTIAKQLQERL 26 (166)
T ss_pred CCCCCHHHHHHHHHHHh
Confidence 47999999999999875
No 80
>PRK06893 DNA replication initiation factor; Validated
Probab=92.86 E-value=0.091 Score=43.78 Aligned_cols=29 Identities=21% Similarity=0.236 Sum_probs=22.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
+|+|||+||+.+++....+ ...+.|+++.
T Consensus 48 ~G~GKThL~~ai~~~~~~~--~~~~~y~~~~ 76 (229)
T PRK06893 48 KSSGKSHLLKAVSNHYLLN--QRTAIYIPLS 76 (229)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCCeEEeeHH
Confidence 6999999999999986544 3355777764
No 81
>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=92.84 E-value=0.22 Score=40.91 Aligned_cols=33 Identities=18% Similarity=0.302 Sum_probs=24.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPN 36 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~ 36 (283)
+|+||||||.+++.....+ =..++|++....+.
T Consensus 28 ~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~ 60 (218)
T cd01394 28 PGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS 60 (218)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH
Confidence 7999999999998775432 24677887665554
No 82
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.80 E-value=0.64 Score=42.33 Aligned_cols=75 Identities=16% Similarity=0.143 Sum_probs=43.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+||||+...++........-+.+..++... .....+-+....+.++.+... .+..+.. .....+.++..++|+
T Consensus 200 nG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~-~al~~l~~~d~VLID 276 (420)
T PRK14721 200 TGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQ-LMLHELRGKHMVLID 276 (420)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHH-HHHHHhcCCCEEEec
Confidence 49999999998887542221123444444332 233444466677777776543 2333433 334457888888883
No 83
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=92.69 E-value=0.71 Score=42.31 Aligned_cols=73 Identities=23% Similarity=0.326 Sum_probs=43.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCc----CCHhhhHHhHHHHccCCcEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDE----ESESGRTRSPWSRLKKEKLQII 76 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~----~~~~~~~~~l~~~L~~kr~LlV 76 (283)
+|+||||+|..++......+ + .+.-|+... .+...+.++.+..+++.+.-. .+.........+.+.+..++||
T Consensus 104 ~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~~~DvVII 181 (437)
T PRK00771 104 QGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKKADVIIV 181 (437)
T ss_pred CCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHhhcCCEEEE
Confidence 69999999999998776432 3 344454432 223456677788888775322 1222223333334445578887
No 84
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.64 E-value=0.56 Score=43.45 Aligned_cols=75 Identities=15% Similarity=0.156 Sum_probs=43.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+||||++..++.....+..-..+..|+... .....+-++.+.+.++.+... .+..+....+ ..+.++.+.+|+
T Consensus 265 nGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL-~~L~d~d~VLID 341 (484)
T PRK06995 265 TGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLAL-SELRNKHIVLID 341 (484)
T ss_pred CCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHH-HhccCCCeEEeC
Confidence 49999999999998764331112345555432 234455566677777765432 2222222222 456677888883
No 85
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=92.64 E-value=0.079 Score=37.98 Aligned_cols=17 Identities=47% Similarity=0.647 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
||+||||+|..++....
T Consensus 9 gG~Gkst~~~~la~~~~ 25 (104)
T cd02042 9 GGVGKTTTAVNLAAALA 25 (104)
T ss_pred CCcCHHHHHHHHHHHHH
Confidence 89999999999887654
No 86
>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=92.60 E-value=0.087 Score=38.21 Aligned_cols=17 Identities=59% Similarity=0.786 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||+||+.++.+..
T Consensus 7 ~G~GKS~l~~~l~~~l~ 23 (107)
T PF00910_consen 7 PGIGKSTLAKELAKDLL 23 (107)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 69999999999887754
No 87
>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=92.58 E-value=0.1 Score=34.55 Aligned_cols=16 Identities=44% Similarity=0.677 Sum_probs=14.4
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+||||+|+.+.+..
T Consensus 8 ~gsGKst~~~~l~~~l 23 (69)
T cd02019 8 SGSGKSTVAKKLAEQL 23 (69)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 6999999999999874
No 88
>PRK00131 aroK shikimate kinase; Reviewed
Probab=92.56 E-value=0.086 Score=41.43 Aligned_cols=18 Identities=28% Similarity=0.523 Sum_probs=16.1
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.++....
T Consensus 12 ~~GsGKstla~~La~~l~ 29 (175)
T PRK00131 12 FMGAGKSTIGRLLAKRLG 29 (175)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 589999999999999864
No 89
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=92.55 E-value=0.15 Score=43.32 Aligned_cols=30 Identities=27% Similarity=0.472 Sum_probs=21.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
|||||||+|..++......+ .++-++....
T Consensus 11 GGvGKTT~a~nLA~~La~~G---rVLliD~Dpq 40 (264)
T PRK13231 11 GGIGKSTTVSNMAAAYSNDH---RVLVIGCDPK 40 (264)
T ss_pred CCCcHHHHHHHHhcccCCCC---EEEEEeEccC
Confidence 89999999999998766432 3555655433
No 90
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=92.40 E-value=0.095 Score=41.39 Aligned_cols=31 Identities=23% Similarity=0.442 Sum_probs=21.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
.||+||||+|..++.....++ + .++-|+...
T Consensus 8 kgG~GKtt~a~~la~~l~~~g-~-~vllvD~D~ 38 (179)
T cd02036 8 KGGVGKTTTTANLGTALAQLG-Y-KVVLIDADL 38 (179)
T ss_pred CCCCCHHHHHHHHHHHHHhCC-C-eEEEEeCCC
Confidence 489999999999988765432 2 445555543
No 91
>PHA00729 NTP-binding motif containing protein
Probab=92.33 E-value=0.091 Score=43.50 Aligned_cols=16 Identities=56% Similarity=0.650 Sum_probs=14.7
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||||..+.+..
T Consensus 26 pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 26 QGSGKTTYALKVARDV 41 (226)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 7999999999999875
No 92
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=92.27 E-value=0.77 Score=36.32 Aligned_cols=70 Identities=14% Similarity=0.099 Sum_probs=38.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHc---cCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRL---KKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L---~~kr~LlV~ 77 (283)
+|+|||++|.++.... ...++++.-.+.++. ++.+.|.+....+.......+....+.+.+ .+...+||+
T Consensus 8 ~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~~VLID 80 (169)
T cd00544 8 ARSGKSRFAERLAAEL-----GGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGDVVLID 80 (169)
T ss_pred CCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCCEEEEE
Confidence 5899999999987651 235677766676655 355555553333333332223333344444 233466663
No 93
>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=92.27 E-value=0.91 Score=37.57 Aligned_cols=33 Identities=12% Similarity=0.002 Sum_probs=21.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQNP 35 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~~ 35 (283)
.|+||||||+.+....... .. ..+..|+...-+
T Consensus 8 sGSGKTTla~~L~~~l~~~-~~~~~v~vi~~D~f~ 41 (220)
T cd02025 8 VAVGKSTTARVLQALLSRW-PDHPNVELITTDGFL 41 (220)
T ss_pred CCCCHHHHHHHHHHHHhhc-CCCCcEEEEecCccc
Confidence 5999999999999876431 01 234555555443
No 94
>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=92.13 E-value=0.22 Score=41.80 Aligned_cols=32 Identities=19% Similarity=0.260 Sum_probs=21.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
++|+||||+++.+.+..... -..++-|++...
T Consensus 4 paGSGKTT~~~~~~~~~~~~--~~~~~~vNLDPa 35 (238)
T PF03029_consen 4 PAGSGKTTFCKGLSEWLESN--GRDVYIVNLDPA 35 (238)
T ss_dssp STTSSHHHHHHHHHHHHTTT---S-EEEEE--TT
T ss_pred CCCCCHHHHHHHHHHHHHhc--cCCceEEEcchH
Confidence 68999999999999987654 334556666543
No 95
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=92.05 E-value=0.11 Score=41.05 Aligned_cols=29 Identities=24% Similarity=0.452 Sum_probs=20.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
||+||||+|..++......+ + .++-|+..
T Consensus 9 gG~GKTt~a~~LA~~la~~g-~-~vllvD~D 37 (169)
T cd02037 9 GGVGKSTVAVNLALALAKLG-Y-KVGLLDAD 37 (169)
T ss_pred CcCChhHHHHHHHHHHHHcC-C-cEEEEeCC
Confidence 89999999999988765432 2 34445544
No 96
>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=91.94 E-value=0.21 Score=38.36 Aligned_cols=33 Identities=27% Similarity=0.409 Sum_probs=24.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPN 36 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~ 36 (283)
+|+||||++..+....... -..++|++......
T Consensus 8 ~G~GKT~l~~~i~~~~~~~--~~~v~~~~~e~~~~ 40 (165)
T cd01120 8 TGSGKTTLALQLALNIATK--GGKVVYVDIEEEIE 40 (165)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCEEEEEECCcchH
Confidence 6999999999998876532 35678888766543
No 97
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.92 E-value=0.56 Score=42.62 Aligned_cols=72 Identities=18% Similarity=0.074 Sum_probs=38.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHc--cCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRL--KKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L--~~kr~LlV~ 77 (283)
+|+||||++..++........+ .+..++... .....+.++..++.++.+..... + ...+.+.+ .+..++||+
T Consensus 232 tGvGKTTtaaKLA~~~~~~~G~-~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~--~-~~~l~~~l~~~~~D~VLID 306 (432)
T PRK12724 232 TGSGKTTSIAKLAAKYFLHMGK-SVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVK--D-IKKFKETLARDGSELILID 306 (432)
T ss_pred CCCCHHHHHHHHHHHHHHhcCC-eEEEecccchhhhHHHHHHHHHHhcCCCeeehH--H-HHHHHHHHHhCCCCEEEEe
Confidence 6999999999998754322112 233344332 22334555666677776543211 1 12233333 355888885
No 98
>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=91.87 E-value=0.13 Score=41.57 Aligned_cols=18 Identities=50% Similarity=0.630 Sum_probs=16.0
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||||+.+......
T Consensus 8 sgSGKTTla~~L~~~L~~ 25 (194)
T PF00485_consen 8 SGSGKTTLAKRLAQILNK 25 (194)
T ss_dssp TTSSHHHHHHHHHHHHTT
T ss_pred CCCCHHHHHHHHHHHhCc
Confidence 699999999999998764
No 99
>PRK10037 cell division protein; Provisional
Probab=91.84 E-value=0.12 Score=43.72 Aligned_cols=30 Identities=17% Similarity=0.338 Sum_probs=20.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
|||||||+|..++.....+++ .++-|+...
T Consensus 11 GGvGKTT~a~nLA~~La~~G~--rVLlID~D~ 40 (250)
T PRK10037 11 GGVGTTSITAALAWSLQMLGE--NVLVIDACP 40 (250)
T ss_pred CCccHHHHHHHHHHHHHhcCC--cEEEEeCCh
Confidence 899999999999887654322 345455543
No 100
>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=91.82 E-value=0.12 Score=39.77 Aligned_cols=17 Identities=35% Similarity=0.632 Sum_probs=14.7
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+||||+|+.+....
T Consensus 7 ~~GsGKST~a~~l~~~~ 23 (150)
T cd02021 7 VSGSGKSTVGKALAERL 23 (150)
T ss_pred CCCCCHHHHHHHHHhhc
Confidence 47999999999998863
No 101
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=91.81 E-value=0.12 Score=44.13 Aligned_cols=17 Identities=35% Similarity=0.581 Sum_probs=14.2
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
|||||||+|..++....
T Consensus 9 GGVGKTT~~~nLA~~La 25 (268)
T TIGR01281 9 GGIGKSTTSSNLSVAFA 25 (268)
T ss_pred CcCcHHHHHHHHHHHHH
Confidence 89999999988877654
No 102
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.77 E-value=0.69 Score=41.72 Aligned_cols=75 Identities=19% Similarity=0.079 Sum_probs=44.7
Q ss_pred CCCcHHHHHHHHHhhhccCC--CCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGK--LFDQIVFTEVSQN-PNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~--~Fd~~~wv~v~~~-~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+||||.+..++....... .=..+..|+.... ....+-++..++.++.+... .+..+....+.. +.+..++||+
T Consensus 183 tGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~-~~~~DlVLID 261 (388)
T PRK12723 183 TGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ-SKDFDLVLVD 261 (388)
T ss_pred CCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH-hCCCCEEEEc
Confidence 59999999999987654321 1134555665532 22344477777778876443 233444444444 4667888883
No 103
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=91.75 E-value=0.13 Score=43.90 Aligned_cols=19 Identities=42% Similarity=0.524 Sum_probs=17.2
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|.||||||.-+++...+.
T Consensus 61 PGlGKTTLA~IIA~Emgvn 79 (332)
T COG2255 61 PGLGKTTLAHIIANELGVN 79 (332)
T ss_pred CCCcHHHHHHHHHHHhcCC
Confidence 7999999999999988765
No 104
>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]
Probab=91.75 E-value=0.52 Score=36.22 Aligned_cols=40 Identities=20% Similarity=0.295 Sum_probs=26.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|.||||++..+++..... | |+ ..+.+.+-..++.+.+-+
T Consensus 4 sG~GKStvg~~lA~~lg~~--fidG-------DdlHp~aNi~KM~~GiPL 44 (161)
T COG3265 4 SGSGKSTVGSALAERLGAK--FIDG-------DDLHPPANIEKMSAGIPL 44 (161)
T ss_pred CccCHHHHHHHHHHHcCCc--eecc-------cccCCHHHHHHHhCCCCC
Confidence 4999999999999987754 4 32 344555555556554433
No 105
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=91.73 E-value=0.24 Score=42.21 Aligned_cols=18 Identities=33% Similarity=0.589 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||++..++.....
T Consensus 11 GGVGKTT~~~nLA~~la~ 28 (270)
T PRK13185 11 GGIGKSTTSSNLSAAFAK 28 (270)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 899999999998887643
No 106
>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=91.71 E-value=0.19 Score=42.99 Aligned_cols=29 Identities=24% Similarity=0.409 Sum_probs=19.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
|||||||+|..++.....++ + .++-|+..
T Consensus 9 GGVGKTT~a~nLA~~La~~G-~-~VlliD~D 37 (275)
T TIGR01287 9 GGIGKSTTTQNIAAALAEMG-K-KVMIVGCD 37 (275)
T ss_pred CcCcHHHHHHHHHHHHHHCC-C-eEEEEeCC
Confidence 89999999999888765443 2 34444444
No 107
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.67 E-value=0.8 Score=44.76 Aligned_cols=75 Identities=17% Similarity=0.147 Sum_probs=47.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+||||++..++........-..+..++... .....+-++...+.++.+... .+..+..+.+. .++++.++||+
T Consensus 194 nGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~-~~~~~D~VLID 270 (767)
T PRK14723 194 TGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALA-ALGDKHLVLID 270 (767)
T ss_pred CCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHH-HhcCCCEEEEe
Confidence 59999999999887653221113455555442 223566777788888876542 35555544444 56777899983
No 108
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=91.55 E-value=0.15 Score=40.30 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=17.5
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
|.|+||||+.++++......
T Consensus 10 ~mGaGKSTIGr~LAk~L~~~ 29 (172)
T COG0703 10 FMGAGKSTIGRALAKALNLP 29 (172)
T ss_pred CCCCCHhHHHHHHHHHcCCC
Confidence 67999999999999987754
No 109
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=91.54 E-value=0.2 Score=42.50 Aligned_cols=31 Identities=16% Similarity=0.306 Sum_probs=26.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+|||++|.++....... ...++||+.++.
T Consensus 32 pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~ 62 (260)
T COG0467 32 PGTGKTIFALQFLYEGARE--GEPVLYVSTEES 62 (260)
T ss_pred CCCcHHHHHHHHHHHHHhc--CCcEEEEEecCC
Confidence 6999999999998876644 788999998765
No 110
>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=91.48 E-value=0.33 Score=41.31 Aligned_cols=36 Identities=33% Similarity=0.445 Sum_probs=23.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQG 42 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~ 42 (283)
+|+|||+||+.+++... . ..+.++.....+..+++.
T Consensus 30 ~GtGKT~lA~~la~~lg----~-~~~~i~~~~~~~~~dllg 65 (262)
T TIGR02640 30 AGTGKTTLAMHVARKRD----R-PVMLINGDAELTTSDLVG 65 (262)
T ss_pred CCCCHHHHHHHHHHHhC----C-CEEEEeCCccCCHHHHhh
Confidence 69999999999987432 1 234555555555555543
No 111
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=91.45 E-value=0.13 Score=44.08 Aligned_cols=19 Identities=37% Similarity=0.564 Sum_probs=15.9
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
|||||||+|..++......
T Consensus 10 GGVGKTT~a~nLA~~La~~ 28 (279)
T PRK13230 10 GGIGKSTTVCNIAAALAES 28 (279)
T ss_pred CCCcHHHHHHHHHHHHHhC
Confidence 8999999999988876543
No 112
>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=91.40 E-value=0.14 Score=40.64 Aligned_cols=17 Identities=18% Similarity=0.309 Sum_probs=14.9
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
++|+||||+|+.+....
T Consensus 10 ~~gsGKst~a~~l~~~~ 26 (175)
T cd00227 10 GSSAGKSSIARALQSVL 26 (175)
T ss_pred CCCCCHHHHHHHHHHhh
Confidence 47999999999998764
No 113
>PRK13949 shikimate kinase; Provisional
Probab=91.32 E-value=0.15 Score=40.31 Aligned_cols=18 Identities=50% Similarity=0.601 Sum_probs=16.1
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
|+|+|||||++.+++...
T Consensus 9 ~~GsGKstl~~~La~~l~ 26 (169)
T PRK13949 9 YMGAGKTTLGKALARELG 26 (169)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 579999999999999765
No 114
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=91.31 E-value=1 Score=40.62 Aligned_cols=74 Identities=18% Similarity=0.156 Sum_probs=42.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCC-cCCHhhhHHhHHHHcc--CCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN-PNIKKIQGEIAFKLGLKFD-EESESGRTRSPWSRLK--KEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~-~~~~~l~~~i~~~l~~~~~-~~~~~~~~~~l~~~L~--~kr~LlV~ 77 (283)
+|+||||++..++.....++ + .+..++.... ....+-++.....++.+.. ..+..+..+.+...-. +..++||+
T Consensus 250 tGvGKTTTiaKLA~~L~~~G-k-kVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLID 327 (436)
T PRK11889 250 TGVGKTTTLAKMAWQFHGKK-K-TVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILID 327 (436)
T ss_pred CCCcHHHHHHHHHHHHHHcC-C-cEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEe
Confidence 69999999999988765332 2 3445554422 2234444555566666543 2345555555544432 45888883
No 115
>PRK13975 thymidylate kinase; Provisional
Probab=91.28 E-value=0.15 Score=41.15 Aligned_cols=19 Identities=47% Similarity=0.536 Sum_probs=16.4
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
+.|+||||+|+.+++....
T Consensus 10 ~~GsGKtT~~~~L~~~l~~ 28 (196)
T PRK13975 10 IDGSGKTTQAKLLAEKLNA 28 (196)
T ss_pred CCCCCHHHHHHHHHHHhCC
Confidence 4699999999999998753
No 116
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=91.22 E-value=0.49 Score=41.31 Aligned_cols=48 Identities=21% Similarity=0.245 Sum_probs=34.1
Q ss_pred CCCcHHHHHHHHHhhhccCCC----CCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKL----FDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~----Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||||+.+++-....... =..++||+....|+...+. ++++.++.
T Consensus 104 ~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl 155 (310)
T TIGR02236 104 FGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL 155 (310)
T ss_pred CCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence 699999999999876432110 1378999999888887654 55666554
No 117
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=91.21 E-value=0.15 Score=42.82 Aligned_cols=17 Identities=35% Similarity=0.581 Sum_probs=14.7
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
|||||||+|..++....
T Consensus 10 GGvGKTt~a~~LA~~la 26 (251)
T TIGR01969 10 GGTGKTTITANLGVALA 26 (251)
T ss_pred CCCcHHHHHHHHHHHHH
Confidence 89999999999887654
No 118
>PTZ00301 uridine kinase; Provisional
Probab=91.19 E-value=0.14 Score=42.04 Aligned_cols=17 Identities=24% Similarity=0.505 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||||+.+.....
T Consensus 12 SgSGKTTla~~l~~~l~ 28 (210)
T PTZ00301 12 SGSGKSSLSTNIVSELM 28 (210)
T ss_pred CcCCHHHHHHHHHHHHH
Confidence 69999999999987754
No 119
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=91.18 E-value=0.15 Score=43.44 Aligned_cols=18 Identities=33% Similarity=0.584 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||+|..++.....
T Consensus 9 GGvGKTT~a~nLA~~la~ 26 (267)
T cd02032 9 GGIGKSTTSSNLSVALAK 26 (267)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 899999999998887654
No 120
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=91.17 E-value=0.54 Score=41.69 Aligned_cols=49 Identities=18% Similarity=0.175 Sum_probs=34.8
Q ss_pred CCCcHHHHHHHHHhhhcc---CCC-CCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKN---GKL-FDQIVFTEVSQNPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~---~~~-Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~ 51 (283)
+|+|||+|+..++-.... .+- -..++||+-...|++..+.+ +++.++.+
T Consensus 135 ~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d 187 (344)
T PLN03187 135 FRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD 187 (344)
T ss_pred CCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence 699999999988643321 111 24689999999999888744 67777654
No 121
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.17 E-value=0.14 Score=40.84 Aligned_cols=18 Identities=50% Similarity=0.623 Sum_probs=15.8
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||+|+.+.+....
T Consensus 9 pGaGK~T~A~~La~~~~i 26 (178)
T COG0563 9 PGAGKSTLAKKLAKKLGL 26 (178)
T ss_pred CCCCHHHHHHHHHHHhCC
Confidence 699999999999998543
No 122
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=91.16 E-value=0.47 Score=41.60 Aligned_cols=48 Identities=23% Similarity=0.308 Sum_probs=34.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCC----CeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF----DQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F----d~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||+||.+++-.......+ ..++||+....|++..+. ++++.++.
T Consensus 111 ~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~-~~~~~~g~ 162 (317)
T PRK04301 111 FGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIE-QMAEALGL 162 (317)
T ss_pred CCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHH-HHHHHcCC
Confidence 6999999999998664322111 478999999988887764 45555553
No 123
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=91.15 E-value=0.13 Score=44.07 Aligned_cols=17 Identities=41% Similarity=0.647 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
|||||||+|..++.-..
T Consensus 11 GGVGKTT~a~nLA~~La 27 (275)
T PRK13233 11 GGIGKSTTTQNTAAAMA 27 (275)
T ss_pred CCCcHHHHHHHHHHHHH
Confidence 89999999998877654
No 124
>PRK13946 shikimate kinase; Provisional
Probab=91.09 E-value=0.16 Score=40.64 Aligned_cols=19 Identities=26% Similarity=0.380 Sum_probs=16.7
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
|+|+||||+|+.+++....
T Consensus 18 ~~GsGKsti~~~LA~~Lg~ 36 (184)
T PRK13946 18 LMGAGKSTVGRRLATMLGL 36 (184)
T ss_pred CCCCCHHHHHHHHHHHcCC
Confidence 6799999999999998753
No 125
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=91.07 E-value=0.17 Score=37.78 Aligned_cols=17 Identities=41% Similarity=0.550 Sum_probs=14.4
Q ss_pred CCcHHHHHHHHHhhhcc
Q 041028 3 GIGKTTLAKEVARKAKN 19 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~~ 19 (283)
|.|||||++.++.....
T Consensus 25 GaGKTtf~r~l~~~lg~ 41 (123)
T PF02367_consen 25 GAGKTTFVRGLARALGI 41 (123)
T ss_dssp TSSHHHHHHHHHHHTT-
T ss_pred CCCHHHHHHHHHHHcCC
Confidence 89999999999987644
No 126
>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=91.07 E-value=1.1 Score=35.23 Aligned_cols=74 Identities=16% Similarity=0.182 Sum_probs=37.9
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC----cCCHhhhH-HhHHHHcc-CCcE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFD----EESESGRT-RSPWSRLK-KEKL 73 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~----~~~~~~~~-~~l~~~L~-~kr~ 73 (283)
++|+||||++..++......+ + .++.++... .....+.+..++...+.+.. ..+..+.. +.+...+. +..+
T Consensus 8 ~~G~GKTt~~~~la~~~~~~g-~-~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ 85 (173)
T cd03115 8 LQGVGKTTTAAKLALYLKKKG-K-KVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAREENFDV 85 (173)
T ss_pred CCCCCHHHHHHHHHHHHHHCC-C-cEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHHHhCCCCE
Confidence 479999999999988765331 2 234444332 12333445555555554311 11222222 33444443 4467
Q ss_pred EEE
Q 041028 74 QII 76 (283)
Q Consensus 74 LlV 76 (283)
+||
T Consensus 86 vii 88 (173)
T cd03115 86 VIV 88 (173)
T ss_pred EEE
Confidence 777
No 127
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=91.06 E-value=0.76 Score=41.24 Aligned_cols=45 Identities=29% Similarity=0.442 Sum_probs=29.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~ 51 (283)
+|+|||||+.+++...... -..++|++..+.. .++ +.-++.++..
T Consensus 91 pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs~--~qi-~~Ra~rlg~~ 135 (372)
T cd01121 91 PGIGKSTLLLQVAARLAKR--GGKVLYVSGEESP--EQI-KLRADRLGIS 135 (372)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCeEEEEECCcCH--HHH-HHHHHHcCCC
Confidence 6999999999998776533 3467888765543 232 2234556653
No 128
>PTZ00088 adenylate kinase 1; Provisional
Probab=91.05 E-value=0.19 Score=41.95 Aligned_cols=18 Identities=33% Similarity=0.577 Sum_probs=15.8
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.+++...
T Consensus 14 ~PGsGK~T~a~~La~~~g 31 (229)
T PTZ00088 14 APGVGKGTFAEILSKKEN 31 (229)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 479999999999998764
No 129
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=90.96 E-value=0.38 Score=46.17 Aligned_cols=43 Identities=28% Similarity=0.420 Sum_probs=34.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|.||||||.-++++.. | .++=|+.|...+...+-..|...+.
T Consensus 335 pGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq 377 (877)
T KOG1969|consen 335 PGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQ 377 (877)
T ss_pred CCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHh
Confidence 79999999999999754 3 3566888888888877777776663
No 130
>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=90.93 E-value=0.51 Score=37.65 Aligned_cols=60 Identities=27% Similarity=0.357 Sum_probs=34.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+|||.||..+.+....++ + .+.|++ ..+++..+-. ...... ...+.+.+.+-.+||++
T Consensus 56 ~G~GKThLa~ai~~~~~~~g-~-~v~f~~------~~~L~~~l~~----~~~~~~----~~~~~~~l~~~dlLilD 115 (178)
T PF01695_consen 56 PGTGKTHLAVAIANEAIRKG-Y-SVLFIT------ASDLLDELKQ----SRSDGS----YEELLKRLKRVDLLILD 115 (178)
T ss_dssp TTSSHHHHHHHHHHHHHHTT----EEEEE------HHHHHHHHHC----CHCCTT----HCHHHHHHHTSSCEEEE
T ss_pred HhHHHHHHHHHHHHHhccCC-c-ceeEee------cCceeccccc----cccccc----hhhhcCccccccEeccc
Confidence 69999999999998765432 3 345554 3444444432 211111 12334556667889884
No 131
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=90.93 E-value=0.76 Score=41.75 Aligned_cols=29 Identities=21% Similarity=0.385 Sum_probs=20.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
.|+|||+|++++++.......=-.+++++
T Consensus 145 ~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 145 VGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 69999999999999875431112455664
No 132
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=90.88 E-value=0.17 Score=40.34 Aligned_cols=18 Identities=22% Similarity=0.217 Sum_probs=15.5
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.++....
T Consensus 7 ~pGsGKst~a~~la~~~~ 24 (183)
T TIGR01359 7 GPGSGKGTQCAKIVENFG 24 (183)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 479999999999988653
No 133
>PRK05480 uridine/cytidine kinase; Provisional
Probab=90.85 E-value=0.16 Score=41.54 Aligned_cols=16 Identities=38% Similarity=0.532 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||||+.++...
T Consensus 15 sGsGKTTl~~~l~~~l 30 (209)
T PRK05480 15 SGSGKTTVASTIYEEL 30 (209)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 6999999999999875
No 134
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=90.85 E-value=1.4 Score=39.60 Aligned_cols=74 Identities=15% Similarity=0.048 Sum_probs=46.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCC-cCCHhhhHHhHHHHc--cCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN-PNIKKIQGEIAFKLGLKFD-EESESGRTRSPWSRL--KKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~-~~~~~l~~~i~~~l~~~~~-~~~~~~~~~~l~~~L--~~kr~LlV~ 77 (283)
.|+||||++..++.....++ ..+.+|+.... ....+-++...+.++.+.. ..+..+..+.+...- .+..++||+
T Consensus 215 tGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~~D~VLID 292 (407)
T PRK12726 215 TGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVNCVDHILID 292 (407)
T ss_pred CCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCCCCEEEEE
Confidence 59999999999987664332 34666776532 2345566777777776643 234555544454332 356888883
No 135
>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=90.84 E-value=0.19 Score=34.83 Aligned_cols=18 Identities=50% Similarity=0.748 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||++..+......
T Consensus 8 ~G~Gktt~~~~l~~~l~~ 25 (99)
T cd01983 8 GGVGKTTLAANLAAALAK 25 (99)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 699999999999987653
No 136
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=90.82 E-value=0.15 Score=43.73 Aligned_cols=18 Identities=33% Similarity=0.564 Sum_probs=15.1
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||+|..++.-...
T Consensus 10 GGVGKTT~~~nLA~~La~ 27 (274)
T PRK13235 10 GGIGKSTTTQNTVAGLAE 27 (274)
T ss_pred CCccHHHHHHHHHHHHHH
Confidence 899999999998876543
No 137
>PRK06547 hypothetical protein; Provisional
Probab=90.79 E-value=0.18 Score=40.09 Aligned_cols=18 Identities=44% Similarity=0.545 Sum_probs=15.3
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||||+.+.+...
T Consensus 23 ~~GsGKTt~a~~l~~~~~ 40 (172)
T PRK06547 23 RSGSGKTTLAGALAARTG 40 (172)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 369999999999998754
No 138
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=90.79 E-value=0.15 Score=43.63 Aligned_cols=17 Identities=35% Similarity=0.647 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
|||||||+|..++.-..
T Consensus 10 GGVGKTT~a~nLA~~La 26 (273)
T PRK13232 10 GGIGKSTTTQNLTAALS 26 (273)
T ss_pred CCCcHHHHHHHHHHHHH
Confidence 89999999999887654
No 139
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=90.76 E-value=0.54 Score=38.55 Aligned_cols=43 Identities=23% Similarity=0.329 Sum_probs=27.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~ 46 (283)
-|+||||.++.++...+.++. .++|..-.....+.+..++++.
T Consensus 12 DGaGKTT~~~~L~~~l~~~g~--~v~~trEP~~~~ige~iR~~ll 54 (208)
T COG0125 12 DGAGKTTQAELLKERLEERGI--KVVLTREPGGTPIGEKIRELLL 54 (208)
T ss_pred CCCCHHHHHHHHHHHHHHcCC--eEEEEeCCCCChHHHHHHHHHc
Confidence 499999999999999876632 4454443333444555555443
No 140
>PRK04040 adenylate kinase; Provisional
Probab=90.73 E-value=0.18 Score=40.72 Aligned_cols=39 Identities=31% Similarity=0.454 Sum_probs=25.9
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
++|+||||+++.+....... |.. + +..+++..++...|.
T Consensus 10 ~pG~GKtt~~~~l~~~l~~~--~~~---~------~~g~~~~~~a~~~g~ 48 (188)
T PRK04040 10 VPGVGKTTVLNKALEKLKED--YKI---V------NFGDVMLEVAKEEGL 48 (188)
T ss_pred CCCCCHHHHHHHHHHHhccC--CeE---E------ecchHHHHHHHHcCC
Confidence 57999999999999876311 322 2 334566666666664
No 141
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=90.70 E-value=0.45 Score=39.43 Aligned_cols=35 Identities=26% Similarity=0.403 Sum_probs=24.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIK 38 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~ 38 (283)
||.||||++..++.....++ ..+.-++...+-.+.
T Consensus 11 GGaGKTT~~~~LAs~la~~G--~~V~lIDaDpn~pl~ 45 (231)
T PF07015_consen 11 GGAGKTTAAMALASELAARG--ARVALIDADPNQPLA 45 (231)
T ss_pred CCCcHHHHHHHHHHHHHHCC--CeEEEEeCCCCCcHH
Confidence 89999999999998875442 245556665554444
No 142
>PRK13342 recombination factor protein RarA; Reviewed
Probab=90.69 E-value=0.44 Score=43.45 Aligned_cols=17 Identities=47% Similarity=0.604 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||||+.+++...
T Consensus 45 pGtGKTtLA~~ia~~~~ 61 (413)
T PRK13342 45 PGTGKTTLARIIAGATD 61 (413)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 79999999999998754
No 143
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=90.68 E-value=0.2 Score=39.66 Aligned_cols=20 Identities=30% Similarity=0.456 Sum_probs=17.0
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
.+|.||||+|.+++......
T Consensus 31 LSGsGKSTiA~ale~~L~~~ 50 (197)
T COG0529 31 LSGSGKSTIANALEEKLFAK 50 (197)
T ss_pred CCCCCHHHHHHHHHHHHHHc
Confidence 47999999999999987544
No 144
>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=90.67 E-value=0.18 Score=39.89 Aligned_cols=17 Identities=53% Similarity=0.712 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||||.+.+.+..+
T Consensus 8 pG~GKTTll~k~i~~l~ 24 (168)
T PF03266_consen 8 PGVGKTTLLKKVIEELK 24 (168)
T ss_dssp TTSSHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHhh
Confidence 69999999999998874
No 145
>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....
Probab=90.54 E-value=0.16 Score=39.68 Aligned_cols=19 Identities=32% Similarity=0.419 Sum_probs=16.6
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
.|+||||+++.++......
T Consensus 1 ~GsGKStvg~~lA~~L~~~ 19 (158)
T PF01202_consen 1 MGSGKSTVGKLLAKRLGRP 19 (158)
T ss_dssp TTSSHHHHHHHHHHHHTSE
T ss_pred CCCcHHHHHHHHHHHhCCC
Confidence 5999999999999987754
No 146
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=90.51 E-value=0.17 Score=40.26 Aligned_cols=16 Identities=44% Similarity=0.619 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
||+||||+|..++...
T Consensus 9 gG~GKSt~a~nLA~~l 24 (179)
T cd03110 9 GGTGKTTVTAALAALL 24 (179)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 8999999999988766
No 147
>PRK05973 replicative DNA helicase; Provisional
Probab=90.48 E-value=0.7 Score=38.70 Aligned_cols=39 Identities=26% Similarity=0.271 Sum_probs=26.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEI 44 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i 44 (283)
+|+|||+||.++......+ =..+++++.... ..++...+
T Consensus 73 PG~GKT~lalqfa~~~a~~--Ge~vlyfSlEes--~~~i~~R~ 111 (237)
T PRK05973 73 PGHGKTLLGLELAVEAMKS--GRTGVFFTLEYT--EQDVRDRL 111 (237)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCeEEEEEEeCC--HHHHHHHH
Confidence 7999999999987665432 235677776655 44555553
No 148
>PRK06921 hypothetical protein; Provisional
Probab=90.46 E-value=1.1 Score=38.28 Aligned_cols=29 Identities=24% Similarity=0.243 Sum_probs=20.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|+|||+||.++++....+. -..++|++.
T Consensus 126 ~G~GKThLa~aia~~l~~~~-g~~v~y~~~ 154 (266)
T PRK06921 126 PGSGKTHLLTAAANELMRKK-GVPVLYFPF 154 (266)
T ss_pred CCCcHHHHHHHHHHHHhhhc-CceEEEEEH
Confidence 59999999999999865331 234566664
No 149
>PRK08727 hypothetical protein; Validated
Probab=90.45 E-value=0.21 Score=41.71 Aligned_cols=29 Identities=24% Similarity=0.314 Sum_probs=21.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
.|+|||+|++++++..... ...+.|+++.
T Consensus 50 ~G~GKThL~~a~~~~~~~~--~~~~~y~~~~ 78 (233)
T PRK08727 50 AGTGKTHLALALCAAAEQA--GRSSAYLPLQ 78 (233)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCcEEEEeHH
Confidence 5999999999999986544 3355667643
No 150
>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=90.44 E-value=0.35 Score=38.50 Aligned_cols=38 Identities=16% Similarity=0.195 Sum_probs=25.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGE 43 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~ 43 (283)
+|+|||+||.++....... =..++|++.... ..++.+.
T Consensus 8 ~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~~--~~~~~~~ 45 (187)
T cd01124 8 PGTGKTTFALQFLYAGLAR--GEPGLYVTLEES--PEELIEN 45 (187)
T ss_pred CCCCHHHHHHHHHHHHHHC--CCcEEEEECCCC--HHHHHHH
Confidence 6999999999987765422 145778877554 4444443
No 151
>PRK13948 shikimate kinase; Provisional
Probab=90.43 E-value=0.19 Score=40.26 Aligned_cols=18 Identities=28% Similarity=0.431 Sum_probs=16.0
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
|.|+||||+++.+.+...
T Consensus 18 ~~GsGKSTvg~~La~~lg 35 (182)
T PRK13948 18 FMGTGKSRIGWELSRALM 35 (182)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 679999999999998764
No 152
>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=90.42 E-value=0.19 Score=40.51 Aligned_cols=16 Identities=50% Similarity=0.461 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||||+.+....
T Consensus 8 sgsGKTtla~~l~~~~ 23 (187)
T cd02024 8 TNSGKTTLAKLLQRIL 23 (187)
T ss_pred CCCCHHHHHHHHHHHc
Confidence 6999999999999875
No 153
>PRK06696 uridine kinase; Validated
Probab=90.39 E-value=0.18 Score=41.72 Aligned_cols=18 Identities=44% Similarity=0.554 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||||+.+......
T Consensus 31 sgsGKSTlA~~L~~~l~~ 48 (223)
T PRK06696 31 TASGKTTFADELAEEIKK 48 (223)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 699999999999987653
No 154
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=90.36 E-value=0.21 Score=38.43 Aligned_cols=18 Identities=39% Similarity=0.516 Sum_probs=15.7
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.+.....
T Consensus 7 ~~GsGKstla~~la~~l~ 24 (154)
T cd00464 7 MMGAGKTTVGRLLAKALG 24 (154)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 579999999999988764
No 155
>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=90.35 E-value=0.93 Score=37.47 Aligned_cols=62 Identities=27% Similarity=0.338 Sum_probs=37.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+|||.|.+++++.......=..+++++ ..+....+...+.. .....+++.+++-.+|+|+
T Consensus 43 ~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~--------~~~~~~~~~~~~~DlL~iD 104 (219)
T PF00308_consen 43 SGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRD--------GEIEEFKDRLRSADLLIID 104 (219)
T ss_dssp TTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHT--------TSHHHHHHHHCTSSEEEEE
T ss_pred CCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHc--------ccchhhhhhhhcCCEEEEe
Confidence 59999999999999865431112355554 44555555554432 1234566666677777774
No 156
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=90.34 E-value=1.1 Score=39.13 Aligned_cols=47 Identities=32% Similarity=0.454 Sum_probs=31.0
Q ss_pred CCCcHHHHHHHHHhhhcc----CCCCCeEEEEEe-CCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKN----GKLFDQIVFTEV-SQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~----~~~Fd~~~wv~v-~~~~~~~~l~~~i~~~l~ 49 (283)
.|+||||+|+.++...-. ..|+|...|... +....+.++ +++...+.
T Consensus 35 ~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~~~~~~ 86 (313)
T PRK05564 35 DGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNIIEEVN 86 (313)
T ss_pred CCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHHHHHHh
Confidence 599999999999986422 346687777663 444555554 45555543
No 157
>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=90.33 E-value=0.72 Score=36.91 Aligned_cols=18 Identities=39% Similarity=0.543 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+++.+++....
T Consensus 9 ~GsGKtT~~~~L~~~l~~ 26 (200)
T cd01672 9 DGAGKTTLIELLAERLEA 26 (200)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 599999999999988753
No 158
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=90.26 E-value=0.93 Score=41.84 Aligned_cols=30 Identities=20% Similarity=0.204 Sum_probs=19.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|+|||+|++++++.......=-.+++++.
T Consensus 150 ~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 150 SGMGKTHLLKAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 599999999999996543211123455543
No 159
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.23 E-value=1 Score=39.25 Aligned_cols=60 Identities=13% Similarity=0.154 Sum_probs=37.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
.|+|||.||.++++..... .+. +.++++ .+++.++-...+.. + .....+.+..-.+|+++
T Consensus 165 ~G~GKThLa~Aia~~l~~~-g~~-v~~~~~------~~l~~~lk~~~~~~----~----~~~~l~~l~~~dlLiID 224 (306)
T PRK08939 165 FGVGKSYLLAAIANELAKK-GVS-STLLHF------PEFIRELKNSISDG----S----VKEKIDAVKEAPVLMLD 224 (306)
T ss_pred CCCCHHHHHHHHHHHHHHc-CCC-EEEEEH------HHHHHHHHHHHhcC----c----HHHHHHHhcCCCEEEEe
Confidence 5999999999999997643 233 455544 35556665554321 1 22334456777889883
No 160
>PLN03186 DNA repair protein RAD51 homolog; Provisional
Probab=90.14 E-value=0.6 Score=41.38 Aligned_cols=49 Identities=16% Similarity=0.171 Sum_probs=34.8
Q ss_pred CCCcHHHHHHHHHhhhccC---C-CCCeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNG---K-LFDQIVFTEVSQNPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~---~-~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~ 51 (283)
+|+|||+||..++-..... + .-..++|++....|++..+ .+|++.++..
T Consensus 132 ~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~ 184 (342)
T PLN03186 132 FRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLN 184 (342)
T ss_pred CCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCC
Confidence 6999999999887543211 1 1136899999999988776 5667777653
No 161
>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=90.11 E-value=0.21 Score=40.93 Aligned_cols=19 Identities=32% Similarity=0.543 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
|||||||++..++.-....
T Consensus 9 GGvGKTt~~~nLA~~la~~ 27 (212)
T cd02117 9 GGIGKSTTSQNLSAALAEM 27 (212)
T ss_pred CcCcHHHHHHHHHHHHHHC
Confidence 8999999999988876543
No 162
>PRK00889 adenylylsulfate kinase; Provisional
Probab=90.06 E-value=0.22 Score=39.42 Aligned_cols=19 Identities=42% Similarity=0.735 Sum_probs=16.2
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
++|+||||+|+.++.....
T Consensus 12 ~~GsGKST~a~~la~~l~~ 30 (175)
T PRK00889 12 LSGAGKTTIARALAEKLRE 30 (175)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 4799999999999987653
No 163
>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=90.05 E-value=0.22 Score=38.86 Aligned_cols=16 Identities=38% Similarity=0.640 Sum_probs=14.4
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||+|+.+.+..
T Consensus 7 ~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 7 AGSGKSTIASALAHRL 22 (163)
T ss_pred CCCCHHHHHHHHHHhc
Confidence 6999999999999865
No 164
>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=90.04 E-value=0.59 Score=39.68 Aligned_cols=47 Identities=23% Similarity=0.374 Sum_probs=32.7
Q ss_pred CCCcHHHHHHHHHhhhccC---CCC-CeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNG---KLF-DQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~---~~F-d~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+|||.|+..++-..... +.. ..++|++-...|+...+. +|++..+
T Consensus 47 ~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~ 97 (256)
T PF08423_consen 47 SGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFG 97 (256)
T ss_dssp TTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTT
T ss_pred cccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccc
Confidence 6999999999887553321 112 468999998889887774 5676654
No 165
>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=90.03 E-value=0.22 Score=39.54 Aligned_cols=18 Identities=28% Similarity=0.311 Sum_probs=15.2
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
+.|+|||||++.+.....
T Consensus 9 ~sGsGKttl~~~l~~~~~ 26 (179)
T TIGR02322 9 PSGAGKDTLLDYARARLA 26 (179)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 479999999999988753
No 166
>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=89.97 E-value=0.2 Score=42.53 Aligned_cols=16 Identities=38% Similarity=0.501 Sum_probs=14.4
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||+|+.+++..
T Consensus 51 pGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 51 PGTGKTTVARILGKLF 66 (261)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 7999999999998864
No 167
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=89.94 E-value=0.47 Score=37.92 Aligned_cols=42 Identities=24% Similarity=0.261 Sum_probs=27.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~ 46 (283)
-|+||||+++.+++.....+. . +.++... .....+.+++++.
T Consensus 5 DGsGKtT~~~~L~~~l~~~~~-~--~~~~~~~~~~~~g~~ir~~l~ 47 (186)
T PF02223_consen 5 DGSGKTTQIRLLAEALKEKGY-K--VIITFPPGSTPIGELIRELLR 47 (186)
T ss_dssp TTSSHHHHHHHHHHHHHHTTE-E--EEEEESSTSSHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHcCC-c--ccccCCCCCChHHHHHHHHHh
Confidence 599999999999999876522 2 2233322 2334566666666
No 168
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=89.85 E-value=0.24 Score=41.57 Aligned_cols=28 Identities=29% Similarity=0.424 Sum_probs=20.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
||+|||||+..++.-....+. .++=|+.
T Consensus 11 GGvG~TTltAnLA~aL~~~G~--~VlaID~ 38 (243)
T PF06564_consen 11 GGVGKTTLTANLAWALARLGE--SVLAIDL 38 (243)
T ss_pred CCCCHHHHHHHHHHHHHHCCC--cEEEEeC
Confidence 899999999999987665432 3554554
No 169
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=89.82 E-value=0.9 Score=36.36 Aligned_cols=42 Identities=26% Similarity=0.472 Sum_probs=25.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCC--------CeEEEEEeCCCCCHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF--------DQIVFTEVSQNPNIKKIQGEIA 45 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F--------d~~~wv~v~~~~~~~~l~~~i~ 45 (283)
+|+||||++..+.........| ..++|++...+ ..++.+.+.
T Consensus 41 ~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~--~~~~~~rl~ 90 (193)
T PF13481_consen 41 PGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS--ESQIARRLR 90 (193)
T ss_dssp STSSHHHHHHHHHHHHHT---TT---------EEEEESSS---HHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC--HHHHHHHHH
Confidence 7999999999998876543223 25788887766 333444443
No 170
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=89.80 E-value=0.86 Score=40.97 Aligned_cols=45 Identities=29% Similarity=0.385 Sum_probs=32.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKF 52 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~ 52 (283)
+|||||||..+++.+...+. .+++|+-.+...-..+ -++.|+.+.
T Consensus 102 PGIGKSTLLLQva~~lA~~~---~vLYVsGEES~~Qikl---RA~RL~~~~ 146 (456)
T COG1066 102 PGIGKSTLLLQVAARLAKRG---KVLYVSGEESLQQIKL---RADRLGLPT 146 (456)
T ss_pred CCCCHHHHHHHHHHHHHhcC---cEEEEeCCcCHHHHHH---HHHHhCCCc
Confidence 69999999999999876553 6788877666444333 345676544
No 171
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=89.79 E-value=0.24 Score=41.46 Aligned_cols=30 Identities=30% Similarity=0.401 Sum_probs=21.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
||+||||+|..++......+ + .++-|+...
T Consensus 11 GGvGKTt~a~nla~~la~~g-~-~VlliD~D~ 40 (246)
T TIGR03371 11 GGVGKTTLTANLASALKLLG-E-PVLAIDLDP 40 (246)
T ss_pred CCccHHHHHHHHHHHHHhCC-C-cEEEEeCCC
Confidence 89999999999988765332 1 355666543
No 172
>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=89.78 E-value=0.25 Score=37.40 Aligned_cols=18 Identities=33% Similarity=0.314 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
-|.|||||++.+++....
T Consensus 31 lGaGKTtl~~~l~~~lg~ 48 (133)
T TIGR00150 31 LGAGKTTLVQGLLQGLGI 48 (133)
T ss_pred CCCCHHHHHHHHHHHcCC
Confidence 499999999999997654
No 173
>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=89.77 E-value=1.5 Score=40.08 Aligned_cols=74 Identities=16% Similarity=0.109 Sum_probs=39.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC----cCCHhhhHHh-HHHHc-cCCcEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFD----EESESGRTRS-PWSRL-KKEKLQ 74 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~----~~~~~~~~~~-l~~~L-~~kr~L 74 (283)
+|+||||.|..++.....+..+ .+.-|+... .+...+-+......++.+.- ..+..+.... +.... .+..++
T Consensus 108 ~GsGKTTtaakLA~~l~~~~g~-kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~~~~~~DvV 186 (428)
T TIGR00959 108 QGSGKTTTCGKLAYYLKKKQGK-KVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAKENGFDVV 186 (428)
T ss_pred CCCcHHHHHHHHHHHHHHhCCC-eEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHHHHhcCCCEE
Confidence 6999999999988775422112 334444432 22334455666777776522 1233333332 33322 233577
Q ss_pred EE
Q 041028 75 II 76 (283)
Q Consensus 75 lV 76 (283)
||
T Consensus 187 II 188 (428)
T TIGR00959 187 IV 188 (428)
T ss_pred EE
Confidence 77
No 174
>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=89.76 E-value=0.21 Score=39.02 Aligned_cols=38 Identities=26% Similarity=0.301 Sum_probs=25.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe-----CCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV-----SQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v-----~~~~~~~~l~~~i~~~l 48 (283)
-|.||||+|.++.+- |.. |-.+ +.. ....+.+.+++.|
T Consensus 8 iGCGKTTva~aL~~L------Fg~--wgHvQnDnI~~k-~~~~f~~~~l~~L 50 (168)
T PF08303_consen 8 IGCGKTTVALALSNL------FGE--WGHVQNDNITGK-RKPKFIKAVLELL 50 (168)
T ss_pred CCcCHHHHHHHHHHH------cCC--CCccccCCCCCC-CHHHHHHHHHHHH
Confidence 499999999999874 432 4433 233 5666777777777
No 175
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.73 E-value=0.2 Score=40.73 Aligned_cols=20 Identities=45% Similarity=0.642 Sum_probs=16.8
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
.+|+||||+|++++...+.+
T Consensus 9 yPgsGKTtfakeLak~L~~~ 28 (261)
T COG4088 9 YPGSGKTTFAKELAKELRQE 28 (261)
T ss_pred CCCCCchHHHHHHHHHHHHh
Confidence 37999999999999876644
No 176
>CHL00181 cbbX CbbX; Provisional
Probab=89.73 E-value=0.31 Score=42.11 Aligned_cols=17 Identities=41% Similarity=0.409 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+++...
T Consensus 68 pGtGKT~lAr~la~~~~ 84 (287)
T CHL00181 68 PGTGKTTVALKMADILY 84 (287)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 69999999999988643
No 177
>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=89.72 E-value=0.23 Score=40.61 Aligned_cols=17 Identities=35% Similarity=0.562 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||||+.+.....
T Consensus 15 sGsGKSTl~~~l~~~l~ 31 (207)
T TIGR00235 15 SGSGKTTVARKIYEQLG 31 (207)
T ss_pred CCCCHHHHHHHHHHHhc
Confidence 69999999999998654
No 178
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=89.68 E-value=0.23 Score=41.19 Aligned_cols=17 Identities=24% Similarity=0.479 Sum_probs=15.1
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+|||+||+.+++...
T Consensus 51 ~G~GKT~La~ai~~~~~ 67 (227)
T PRK08903 51 AGSGRSHLLQALVADAS 67 (227)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 59999999999999763
No 179
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=89.65 E-value=0.48 Score=42.80 Aligned_cols=35 Identities=23% Similarity=0.357 Sum_probs=23.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIK 38 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~ 38 (283)
||+||||+|..++......++ .++-|+.....++.
T Consensus 114 GGvGKTT~a~nLA~~La~~G~--rVLlID~DpQ~~ls 148 (387)
T TIGR03453 114 GGSGKTTTAAHLAQYLALRGY--RVLAIDLDPQASLS 148 (387)
T ss_pred CCcCHHHHHHHHHHHHHhcCC--CEEEEecCCCCCHH
Confidence 899999999999887654321 35566665444433
No 180
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=89.64 E-value=1.4 Score=40.63 Aligned_cols=28 Identities=21% Similarity=0.367 Sum_probs=20.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|+|||+|++++++..... --.+++++.
T Consensus 150 ~G~GKTHLl~Ai~~~l~~~--~~~v~yi~~ 177 (445)
T PRK12422 150 EGSGKTHLMQAAVHALRES--GGKILYVRS 177 (445)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCCEEEeeH
Confidence 6999999999999987543 233456553
No 181
>PRK14532 adenylate kinase; Provisional
Probab=89.59 E-value=0.25 Score=39.64 Aligned_cols=17 Identities=29% Similarity=0.280 Sum_probs=14.8
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
++|+||||+|+.++...
T Consensus 8 ~pGsGKsT~a~~la~~~ 24 (188)
T PRK14532 8 PPAAGKGTQAKRLVEER 24 (188)
T ss_pred CCCCCHHHHHHHHHHHc
Confidence 47999999999998755
No 182
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=89.59 E-value=0.25 Score=40.17 Aligned_cols=17 Identities=35% Similarity=0.681 Sum_probs=15.1
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+||||+|+.++.+.
T Consensus 11 ~~G~GKst~a~~l~~~~ 27 (197)
T PRK12339 11 IPGVGKTSISGYIARHR 27 (197)
T ss_pred CCCCCHHHHHHHHHHhc
Confidence 47999999999999874
No 183
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=89.59 E-value=0.26 Score=38.83 Aligned_cols=18 Identities=33% Similarity=0.418 Sum_probs=15.9
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
|.|+||||+|+.+.+...
T Consensus 10 ~~GsGKst~~~~la~~lg 27 (171)
T PRK03731 10 ARGCGKTTVGMALAQALG 27 (171)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 579999999999998764
No 184
>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=89.54 E-value=0.24 Score=41.70 Aligned_cols=19 Identities=42% Similarity=0.781 Sum_probs=16.2
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
++|+||||+|+.+......
T Consensus 7 ~pGSGKST~a~~La~~l~~ 25 (249)
T TIGR03574 7 LPGVGKSTFSKELAKKLSE 25 (249)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 4799999999999987653
No 185
>PRK10646 ADP-binding protein; Provisional
Probab=89.47 E-value=0.23 Score=38.49 Aligned_cols=18 Identities=28% Similarity=0.436 Sum_probs=15.5
Q ss_pred CCcHHHHHHHHHhhhccC
Q 041028 3 GIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~~~ 20 (283)
|.|||||++.++....+.
T Consensus 38 GaGKTtf~rgl~~~Lg~~ 55 (153)
T PRK10646 38 GAGKTTFSRGFLQALGHQ 55 (153)
T ss_pred CCCHHHHHHHHHHHcCCC
Confidence 899999999999976543
No 186
>PRK08084 DNA replication initiation factor; Provisional
Probab=89.41 E-value=0.39 Score=40.14 Aligned_cols=30 Identities=10% Similarity=0.237 Sum_probs=22.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
.|+|||+|++.+++..... -..+.++++..
T Consensus 54 ~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~ 83 (235)
T PRK08084 54 EGAGRSHLLHAACAELSQR--GRAVGYVPLDK 83 (235)
T ss_pred CCCCHHHHHHHHHHHHHhC--CCeEEEEEHHH
Confidence 6999999999999876543 23566777654
No 187
>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=89.40 E-value=0.27 Score=37.34 Aligned_cols=18 Identities=44% Similarity=0.540 Sum_probs=15.5
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.+.....
T Consensus 7 ~~GsGKst~a~~la~~~~ 24 (147)
T cd02020 7 PAGSGKSTVAKLLAKKLG 24 (147)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 379999999999998754
No 188
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=89.40 E-value=0.26 Score=39.04 Aligned_cols=18 Identities=28% Similarity=0.523 Sum_probs=15.6
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
+.|+||||||+.+.+...
T Consensus 12 ~~GaGKStl~~~La~~l~ 29 (172)
T PRK05057 12 PMGAGKSTIGRQLAQQLN 29 (172)
T ss_pred CCCcCHHHHHHHHHHHcC
Confidence 579999999999998754
No 189
>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=89.38 E-value=0.26 Score=39.27 Aligned_cols=17 Identities=29% Similarity=0.331 Sum_probs=14.6
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+||||+|+.+....
T Consensus 11 ~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 11 GPGSGKGTQCEKIVEKY 27 (188)
T ss_pred CCCCCHHHHHHHHHHHh
Confidence 36999999999998764
No 190
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=89.37 E-value=0.24 Score=38.67 Aligned_cols=15 Identities=40% Similarity=0.527 Sum_probs=13.6
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
.|+|||||++.+...
T Consensus 8 ~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 8 PSTGKTTLIEALAAR 22 (163)
T ss_dssp TTSHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHc
Confidence 489999999999986
No 191
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=89.37 E-value=0.26 Score=42.64 Aligned_cols=18 Identities=33% Similarity=0.538 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||+|..++.....
T Consensus 9 GGVGKTTta~nLA~~La~ 26 (290)
T CHL00072 9 GGIGKSTTSCNISIALAR 26 (290)
T ss_pred CCCcHHHHHHHHHHHHHH
Confidence 899999999998887653
No 192
>PRK13695 putative NTPase; Provisional
Probab=89.34 E-value=0.44 Score=37.67 Aligned_cols=27 Identities=33% Similarity=0.359 Sum_probs=19.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
+|+|||||++.+++..... .|....|+
T Consensus 9 ~G~GKTTll~~i~~~l~~~-G~~~~g~~ 35 (174)
T PRK13695 9 PGVGKTTLVLKIAELLKEE-GYKVGGFY 35 (174)
T ss_pred CCCCHHHHHHHHHHHHHHC-CCeEEEEE
Confidence 7999999999998876542 24444444
No 193
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=89.34 E-value=0.27 Score=38.56 Aligned_cols=17 Identities=41% Similarity=0.634 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|.||||||+.++....
T Consensus 4 sGsGKSTla~~la~~l~ 20 (163)
T PRK11545 4 SGSGKSAVASEVAHQLH 20 (163)
T ss_pred CCCcHHHHHHHHHHHhC
Confidence 69999999999998763
No 194
>PRK14529 adenylate kinase; Provisional
Probab=89.33 E-value=0.84 Score=37.84 Aligned_cols=19 Identities=32% Similarity=0.246 Sum_probs=16.4
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
.+|+||||+|+.++.....
T Consensus 8 ~PGsGK~T~a~~La~~~~~ 26 (223)
T PRK14529 8 PNGSGKGTQGALVKKKYDL 26 (223)
T ss_pred CCCCCHHHHHHHHHHHHCC
Confidence 4799999999999988764
No 195
>PRK05642 DNA replication initiation factor; Validated
Probab=89.19 E-value=0.43 Score=39.90 Aligned_cols=29 Identities=14% Similarity=0.351 Sum_probs=21.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
.|+|||.|++.+++....+ -..++|++..
T Consensus 54 ~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~ 82 (234)
T PRK05642 54 DGVGRSHLLQAACLRFEQR--GEPAVYLPLA 82 (234)
T ss_pred CCCCHHHHHHHHHHHHHhC--CCcEEEeeHH
Confidence 5999999999999876533 2356777654
No 196
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=89.18 E-value=0.52 Score=42.86 Aligned_cols=35 Identities=20% Similarity=0.398 Sum_probs=23.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIK 38 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~ 38 (283)
|||||||+|.+++......+ + .++-|+.....++.
T Consensus 131 GGvGKTTta~nLA~~LA~~G-~-rVLlIDlDpQ~~lt 165 (405)
T PRK13869 131 GGSGKTTTSAHLAQYLALQG-Y-RVLAVDLDPQASLS 165 (405)
T ss_pred CCCCHHHHHHHHHHHHHhcC-C-ceEEEcCCCCCCHH
Confidence 89999999999988765432 2 34555655444433
No 197
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=89.16 E-value=0.27 Score=41.41 Aligned_cols=18 Identities=33% Similarity=0.580 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
||+||||+|..++.....
T Consensus 11 GGvGKTt~a~~lA~~la~ 28 (261)
T TIGR01968 11 GGVGKTTTTANLGTALAR 28 (261)
T ss_pred CCccHHHHHHHHHHHHHH
Confidence 899999999998876543
No 198
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=89.10 E-value=0.84 Score=38.07 Aligned_cols=43 Identities=14% Similarity=0.253 Sum_probs=29.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~ 47 (283)
+|+|||++|..++.+...... ..++|++... +..++..+++..
T Consensus 22 ~G~GKT~~~~~~~~~~~~~~g-~~vly~s~E~--~~~~~~~r~~~~ 64 (242)
T cd00984 22 PSMGKTAFALNIAENIAKKQG-KPVLFFSLEM--SKEQLLQRLLAS 64 (242)
T ss_pred CCCCHHHHHHHHHHHHHHhCC-CceEEEeCCC--CHHHHHHHHHHH
Confidence 699999999998776544311 3567777655 455667776543
No 199
>PLN03025 replication factor C subunit; Provisional
Probab=89.07 E-value=0.67 Score=40.64 Aligned_cols=17 Identities=35% Similarity=0.333 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|..+++...
T Consensus 43 ~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 43 PGTGKTTSILALAHELL 59 (319)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 69999999999998864
No 200
>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=89.02 E-value=0.26 Score=39.84 Aligned_cols=16 Identities=44% Similarity=0.667 Sum_probs=14.2
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||||+.+....
T Consensus 8 ~GsGKSTl~~~l~~~l 23 (198)
T cd02023 8 SGSGKTTVAEEIIEQL 23 (198)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 6999999999998865
No 201
>PRK07004 replicative DNA helicase; Provisional
Probab=89.01 E-value=2.5 Score=39.14 Aligned_cols=98 Identities=13% Similarity=0.126 Sum_probs=52.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC-CCC-----cCCHhh--hHHhHHHHccCCcE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL-KFD-----EESESG--RTRSPWSRLKKEKL 73 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~-~~~-----~~~~~~--~~~~l~~~L~~kr~ 73 (283)
+|+|||++|..++.+....... .++|+ |-..+..++..+++...+. +.. ..+.++ ........+.+..+
T Consensus 222 pg~GKT~~al~ia~~~a~~~~~-~v~~f--SlEM~~~ql~~R~la~~~~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l 298 (460)
T PRK07004 222 PSMGKTAFSMNIGEYVAVEYGL-PVAVF--SMEMPGTQLAMRMLGSVGRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQL 298 (460)
T ss_pred CCCCccHHHHHHHHHHHHHcCC-eEEEE--eCCCCHHHHHHHHHHhhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCE
Confidence 6999999999988765433222 34454 4456677888888765432 111 112222 22233344555555
Q ss_pred EEEcCeecCCCCCCCcchHHHHHHHHHhcCCchH
Q 041028 74 QIICGKKMEGDYAEGSELKWLAMDVAKECAGLPV 107 (283)
Q Consensus 74 LlV~G~~~~~~~~~~~~~~~~~~~i~~~c~glPL 107 (283)
.|.+. ......++...++++.++++++.+
T Consensus 299 ~I~d~-----~~~~~~~i~~~~r~l~~~~~~~~l 327 (460)
T PRK07004 299 FIDET-----GGLNPMELRSRARRLARQCGKLGL 327 (460)
T ss_pred EEECC-----CCCCHHHHHHHHHHHHHhCCCCCE
Confidence 54410 011223455666777777766654
No 202
>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=89.01 E-value=0.99 Score=36.23 Aligned_cols=19 Identities=32% Similarity=0.407 Sum_probs=16.2
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
.|+||||+|+.+++.....
T Consensus 12 ~GsGKsT~~~~L~~~l~~~ 30 (195)
T TIGR00041 12 DGAGKTTQANLLKKLLQEN 30 (195)
T ss_pred CCCCHHHHHHHHHHHHHHc
Confidence 5999999999999886643
No 203
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=88.95 E-value=1.5 Score=43.09 Aligned_cols=70 Identities=19% Similarity=0.196 Sum_probs=44.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------cCCHhhhHHhHHHHccCC--cE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD------EESESGRTRSPWSRLKKE--KL 73 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~~L~~k--r~ 73 (283)
+|+||||||.+++...... =..++|++....++. ..++++|.+.+ ..+.+.....+...++.. +.
T Consensus 69 ~GsGKTtLal~~~~~a~~~--G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~~~~~~L 141 (790)
T PRK09519 69 ESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDI 141 (790)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHHHhhcCCCeE
Confidence 6999999998866554322 246799988887774 36777777533 224445555666666543 56
Q ss_pred EEEcC
Q 041028 74 QIICG 78 (283)
Q Consensus 74 LlV~G 78 (283)
+||++
T Consensus 142 VVIDS 146 (790)
T PRK09519 142 VVIDS 146 (790)
T ss_pred EEEcc
Confidence 66643
No 204
>PRK14530 adenylate kinase; Provisional
Probab=88.95 E-value=0.3 Score=40.19 Aligned_cols=18 Identities=28% Similarity=0.327 Sum_probs=15.5
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.++....
T Consensus 11 ~pGsGKsT~~~~La~~~~ 28 (215)
T PRK14530 11 APGAGKGTQSSNLAEEFG 28 (215)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 479999999999988764
No 205
>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=88.87 E-value=1 Score=37.66 Aligned_cols=43 Identities=9% Similarity=0.258 Sum_probs=27.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+|||+||.++....-.+ -..++||+... ++.++.+.+ .+++
T Consensus 30 pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~~-~~~g 72 (237)
T TIGR03877 30 PGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRNM-AQFG 72 (237)
T ss_pred CCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHHH-HHhC
Confidence 6999999999876543222 35788888765 444555553 3444
No 206
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=88.82 E-value=0.37 Score=40.93 Aligned_cols=74 Identities=16% Similarity=0.116 Sum_probs=42.4
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeC---------CCCCHHH--HHHHHHHHhCCCCCcC--C--------Hhh
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVS---------QNPNIKK--IQGEIAFKLGLKFDEE--S--------ESG 59 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~---------~~~~~~~--l~~~i~~~l~~~~~~~--~--------~~~ 59 (283)
|+|.||||+.+.++.+...+ +..-+-|++. -+.++.+ -.++...+.+....+. + ..+
T Consensus 27 MAGSGKTTF~QrL~~hl~~~--~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~TsLNLF~tk~dq 104 (366)
T KOG1532|consen 27 MAGSGKTTFMQRLNSHLHAK--KTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTSLNLFATKFDQ 104 (366)
T ss_pred cCCCCchhHHHHHHHHHhhc--cCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhhHHHHHHHHHH
Confidence 89999999999999887655 4322333332 2234433 3566777776655432 1 122
Q ss_pred hHHhHHHHccCCcEEEE
Q 041028 60 RTRSPWSRLKKEKLQII 76 (283)
Q Consensus 60 ~~~~l~~~L~~kr~LlV 76 (283)
....+...-..-.|.||
T Consensus 105 v~~~iek~~~~~~~~li 121 (366)
T KOG1532|consen 105 VIELIEKRAEEFDYVLI 121 (366)
T ss_pred HHHHHHHhhcccCEEEE
Confidence 23333333333478888
No 207
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=88.79 E-value=0.35 Score=40.91 Aligned_cols=24 Identities=33% Similarity=0.555 Sum_probs=18.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIV 27 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~ 27 (283)
||+||||+|..++--.... |..++
T Consensus 11 GGtGKTTva~~la~~l~~~--~~~~l 34 (284)
T COG1149 11 GGTGKTTVAANLAVLLGDK--YKLVL 34 (284)
T ss_pred CCCChhhHHHHHHHHhccc--cceEE
Confidence 8999999999988776644 65543
No 208
>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=88.71 E-value=0.46 Score=40.99 Aligned_cols=17 Identities=41% Similarity=0.481 Sum_probs=14.2
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+++...
T Consensus 67 pGTGKT~lA~~ia~~l~ 83 (284)
T TIGR02880 67 PGTGKTTVALRMAQILH 83 (284)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 69999999988877653
No 209
>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=88.70 E-value=0.29 Score=39.09 Aligned_cols=17 Identities=41% Similarity=0.687 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||||+.+.....
T Consensus 8 sgsGKttla~~l~~~l~ 24 (179)
T cd02028 8 SGSGKTTFAKKLSNQLR 24 (179)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 69999999999998764
No 210
>PRK13973 thymidylate kinase; Provisional
Probab=88.66 E-value=1.2 Score=36.59 Aligned_cols=43 Identities=16% Similarity=0.247 Sum_probs=25.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~ 46 (283)
.|+||||+++.+++.....+ +.. +...-.......+.+++++.
T Consensus 12 dGsGKtTq~~~l~~~l~~~g-~~~-~~~~~p~~~~~g~~ir~~l~ 54 (213)
T PRK13973 12 EGAGKSTQIRLLAERLRAAG-YDV-LVTREPGGSPGAEAIRHVLL 54 (213)
T ss_pred CCCCHHHHHHHHHHHHHHCC-CeE-EEEECCCCCchHHHHHHHHc
Confidence 59999999999999876542 322 22222222334555555543
No 211
>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=88.64 E-value=1.3 Score=36.60 Aligned_cols=44 Identities=23% Similarity=0.373 Sum_probs=27.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|.||||||.++......+ -..++|++..... .++... +++++.
T Consensus 29 ~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~~~--~~i~~~-~~~~g~ 72 (229)
T TIGR03881 29 PGTGKTIFCLHFAYKGLRD--GDPVIYVTTEESR--ESIIRQ-AAQFGM 72 (229)
T ss_pred CCCChHHHHHHHHHHHHhc--CCeEEEEEccCCH--HHHHHH-HHHhCC
Confidence 6999999999876553322 3577888875443 444433 455553
No 212
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=88.63 E-value=1.2 Score=37.12 Aligned_cols=44 Identities=14% Similarity=0.249 Sum_probs=26.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+||||||.++......++ ..+++++... +..++++.+ .+++.
T Consensus 33 ~G~GKTtl~~~~~~~~~~~g--~~~~yi~~e~--~~~~~~~~~-~~~g~ 76 (230)
T PRK08533 33 ESTGKSILSQRLAYGFLQNG--YSVSYVSTQL--TTTEFIKQM-MSLGY 76 (230)
T ss_pred CCCCHHHHHHHHHHHHHhCC--CcEEEEeCCC--CHHHHHHHH-HHhCC
Confidence 69999999877655442221 3456666333 456666665 44554
No 213
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=88.60 E-value=0.91 Score=38.94 Aligned_cols=43 Identities=19% Similarity=0.269 Sum_probs=32.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~ 47 (283)
.|.||||||.+++-..+.. -..++|++....+++..+.. ++..
T Consensus 69 ~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~~-l~~~ 111 (279)
T COG0468 69 ESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAKQ-LGVD 111 (279)
T ss_pred CCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHHH-HHHh
Confidence 5899999999988765544 44889999999999877643 4433
No 214
>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=88.59 E-value=0.32 Score=35.42 Aligned_cols=17 Identities=29% Similarity=0.532 Sum_probs=14.1
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+|||||.+.+.+...
T Consensus 8 ~g~GKTsLi~~l~~~~~ 24 (119)
T PF08477_consen 8 SGVGKTSLIRRLCGGEF 24 (119)
T ss_dssp TTSSHHHHHHHHHHSS-
T ss_pred CCCCHHHHHHHHhcCCC
Confidence 59999999999987643
No 215
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=88.53 E-value=1.7 Score=40.13 Aligned_cols=30 Identities=20% Similarity=0.305 Sum_probs=20.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|+|||+|++++++.......--.+++++.
T Consensus 157 ~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 157 VGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred CCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 699999999999998764311123556654
No 216
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=88.53 E-value=0.37 Score=35.53 Aligned_cols=19 Identities=47% Similarity=0.663 Sum_probs=16.1
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
.||+||||++..+++....
T Consensus 7 kgG~GKTt~a~~la~~l~~ 25 (116)
T cd02034 7 KGGVGKTTIAALLARYLAE 25 (116)
T ss_pred CCCCCHHHHHHHHHHHHHH
Confidence 3899999999999887654
No 217
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=88.51 E-value=1.2 Score=37.60 Aligned_cols=44 Identities=18% Similarity=0.287 Sum_probs=31.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..++.+...... ..++|++.. .+..++..+++..+
T Consensus 28 pg~GKT~~~l~ia~~~a~~~~-~~vly~SlE--m~~~~l~~R~la~~ 71 (259)
T PF03796_consen 28 PGVGKTAFALQIALNAALNGG-YPVLYFSLE--MSEEELAARLLARL 71 (259)
T ss_dssp TTSSHHHHHHHHHHHHHHTTS-SEEEEEESS--S-HHHHHHHHHHHH
T ss_pred ccCCchHHHHHHHHHHHHhcC-CeEEEEcCC--CCHHHHHHHHHHHh
Confidence 699999999999998765422 567776654 45566777777655
No 218
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=88.47 E-value=0.34 Score=39.77 Aligned_cols=19 Identities=42% Similarity=0.536 Sum_probs=16.2
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|.||||+|+.++......
T Consensus 17 SgSGKTTva~~l~~~~~~~ 35 (218)
T COG0572 17 SGSGKTTVAKELSEQLGVE 35 (218)
T ss_pred CCCCHHHHHHHHHHHhCcC
Confidence 5899999999999987643
No 219
>PRK10818 cell division inhibitor MinD; Provisional
Probab=88.45 E-value=0.29 Score=41.70 Aligned_cols=30 Identities=27% Similarity=0.407 Sum_probs=21.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
|||||||+|..++......+ ..++-|+...
T Consensus 12 GGvGKTt~a~nlA~~la~~g--~~vllvD~D~ 41 (270)
T PRK10818 12 GGVGKTTSSAAIATGLAQKG--KKTVVIDFDI 41 (270)
T ss_pred CCCcHHHHHHHHHHHHHHCC--CeEEEEECCC
Confidence 89999999999988654332 2355565543
No 220
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=88.38 E-value=0.31 Score=35.19 Aligned_cols=18 Identities=44% Similarity=0.656 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
||+||||+|..+......
T Consensus 9 gg~gkt~~~~~la~~~~~ 26 (106)
T cd03111 9 GGVGATTLAANLAVALAK 26 (106)
T ss_pred CCCcHHHHHHHHHHHHHh
Confidence 899999999998876553
No 221
>PRK07667 uridine kinase; Provisional
Probab=88.33 E-value=0.33 Score=39.23 Aligned_cols=18 Identities=28% Similarity=0.425 Sum_probs=15.5
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.+.....
T Consensus 25 ~~gsGKStla~~L~~~l~ 42 (193)
T PRK07667 25 LSRSGKTTFVANLKENMK 42 (193)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 369999999999998764
No 222
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=88.28 E-value=0.28 Score=38.62 Aligned_cols=13 Identities=46% Similarity=0.687 Sum_probs=12.3
Q ss_pred CCCcHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVA 14 (283)
Q Consensus 2 gGiGKTtLA~~v~ 14 (283)
+|+||||++..+.
T Consensus 9 PGvGKTT~~~~L~ 21 (180)
T COG1936 9 PGVGKTTVCKLLR 21 (180)
T ss_pred CCCchHHHHHHHH
Confidence 7999999999988
No 223
>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=88.28 E-value=0.35 Score=37.35 Aligned_cols=17 Identities=35% Similarity=0.546 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||||+.+.....
T Consensus 8 ~GsGKSTla~~L~~~l~ 24 (149)
T cd02027 8 SGSGKSTIARALEEKLF 24 (149)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 69999999999988764
No 224
>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=88.28 E-value=0.97 Score=39.63 Aligned_cols=48 Identities=19% Similarity=0.126 Sum_probs=32.3
Q ss_pred CCCcHHHHHHHHHhhhccC---C-CCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNG---K-LFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~---~-~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||||+..++...... + .-..++|++-...++... +.++++.++.
T Consensus 105 ~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~~ 156 (316)
T TIGR02239 105 FRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYGL 156 (316)
T ss_pred CCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcCC
Confidence 6999999999987643211 1 113579999888888776 4556666654
No 225
>CHL00175 minD septum-site determining protein; Validated
Probab=88.24 E-value=0.3 Score=41.90 Aligned_cols=30 Identities=20% Similarity=0.334 Sum_probs=20.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
|||||||+|..++.-....+ ..++-|+...
T Consensus 25 GGvGKTt~a~nLA~~La~~g--~~vlliD~D~ 54 (281)
T CHL00175 25 GGVGKTTTTANLGMSIARLG--YRVALIDADI 54 (281)
T ss_pred CCCcHHHHHHHHHHHHHhCC--CeEEEEeCCC
Confidence 89999999999887655332 1355555543
No 226
>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=88.22 E-value=0.35 Score=38.76 Aligned_cols=17 Identities=41% Similarity=0.438 Sum_probs=15.0
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
++|+||||+|+.++...
T Consensus 7 ~pGsGKst~a~~La~~~ 23 (194)
T cd01428 7 PPGSGKGTQAERLAKKY 23 (194)
T ss_pred CCCCCHHHHHHHHHHHc
Confidence 47999999999998874
No 227
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=88.17 E-value=0.69 Score=39.19 Aligned_cols=38 Identities=18% Similarity=0.377 Sum_probs=26.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQ 41 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~ 41 (283)
||+||||+|..++......+ ..++-|+.....++.+++
T Consensus 9 gG~GKtt~a~~la~~~a~~g--~~vLlvd~D~~~sl~~~~ 46 (254)
T cd00550 9 GGVGKTTISAATAVRLAEQG--KKVLLVSTDPAHSLSDSF 46 (254)
T ss_pred CCchHHHHHHHHHHHHHHCC--CCceEEeCCCcccHHHHh
Confidence 89999999999988765442 346667765555555444
No 228
>PRK03846 adenylylsulfate kinase; Provisional
Probab=88.14 E-value=0.34 Score=39.25 Aligned_cols=18 Identities=28% Similarity=0.484 Sum_probs=15.3
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||||+.+.....
T Consensus 32 ~~GsGKSTla~~l~~~l~ 49 (198)
T PRK03846 32 LSGSGKSTVAGALEEALH 49 (198)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 359999999999998653
No 229
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=88.12 E-value=1.3 Score=39.55 Aligned_cols=43 Identities=23% Similarity=0.232 Sum_probs=38.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
.|.|||.+.+.+.+.... ..+|+++-+.++...++.+|+.+++
T Consensus 39 sgTGKT~~~r~~l~~~n~-----~~vw~n~~ecft~~~lle~IL~~~~ 81 (438)
T KOG2543|consen 39 SGTGKTYLVRQLLRKLNL-----ENVWLNCVECFTYAILLEKILNKSQ 81 (438)
T ss_pred CCCchhHHHHHHHhhcCC-----cceeeehHHhccHHHHHHHHHHHhc
Confidence 599999999999997733 3589999999999999999999996
No 230
>PRK13976 thymidylate kinase; Provisional
Probab=88.10 E-value=1 Score=36.94 Aligned_cols=18 Identities=33% Similarity=0.422 Sum_probs=16.1
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
-|+||||+++.+++..+.
T Consensus 9 DGsGKsTq~~~L~~~L~~ 26 (209)
T PRK13976 9 DGSGKTTQSRLLAEYLSD 26 (209)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 599999999999998764
No 231
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.07 E-value=0.69 Score=40.30 Aligned_cols=65 Identities=17% Similarity=0.120 Sum_probs=38.3
Q ss_pred CCCcHHHHHHHHHhhhccC--CCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEE
Q 041028 2 GGIGKTTLAKEVARKAKNG--KLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQI 75 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~--~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~Ll 75 (283)
+|.|||+|.++++++..++ +.|....-+.+ +...++.++...-|. .....-+++.+.+.++..|+
T Consensus 186 PGTGKTSLCKaLaQkLSIR~~~~y~~~~liEi----nshsLFSKWFsESgK-----lV~kmF~kI~ELv~d~~~lV 252 (423)
T KOG0744|consen 186 PGTGKTSLCKALAQKLSIRTNDRYYKGQLIEI----NSHSLFSKWFSESGK-----LVAKMFQKIQELVEDRGNLV 252 (423)
T ss_pred CCCChhHHHHHHHHhheeeecCccccceEEEE----ehhHHHHHHHhhhhh-----HHHHHHHHHHHHHhCCCcEE
Confidence 7999999999999986654 33433333433 333444444433221 23345567777777775443
No 232
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=87.94 E-value=0.28 Score=43.18 Aligned_cols=19 Identities=47% Similarity=0.567 Sum_probs=16.8
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|.|||-||++|+|+....
T Consensus 194 PGTGKTLLAkAVA~~T~At 212 (406)
T COG1222 194 PGTGKTLLAKAVANQTDAT 212 (406)
T ss_pred CCCcHHHHHHHHHhccCce
Confidence 7999999999999987654
No 233
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=87.94 E-value=0.52 Score=38.52 Aligned_cols=29 Identities=34% Similarity=0.437 Sum_probs=22.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
+|.|||.||.+.+-+.-..+.|+.++++.
T Consensus 28 AGTGKT~LA~a~Al~~v~~g~~~kiii~R 56 (205)
T PF02562_consen 28 AGTGKTFLALAAALELVKEGEYDKIIITR 56 (205)
T ss_dssp TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred CCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence 69999999999887654557788888873
No 234
>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=87.93 E-value=0.84 Score=43.78 Aligned_cols=48 Identities=21% Similarity=0.171 Sum_probs=30.6
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
++|+||||||+.+.+..... .|...+++.- ...+..++++.++..++.
T Consensus 45 ~pG~GKT~la~~la~~l~~~-~~~~~~~~~n-~~~~~~~~~~~v~~~~g~ 92 (608)
T TIGR00764 45 EPGVGKSMLAKAMAELLPDE-ELEDILVYPN-PEDPNMPRIVEVPAGEGR 92 (608)
T ss_pred CCCCCHHHHHHHHHHHcCch-hheeEEEEeC-CCCCchHHHHHHHHhhch
Confidence 47999999999999876433 3433333322 223455667777777764
No 235
>PRK10867 signal recognition particle protein; Provisional
Probab=87.86 E-value=2.5 Score=38.76 Aligned_cols=74 Identities=18% Similarity=0.241 Sum_probs=39.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCCCC----cCCHhhhHHhHHHHcc--CCcEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLKFD----EESESGRTRSPWSRLK--KEKLQ 74 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~~~----~~~~~~~~~~l~~~L~--~kr~L 74 (283)
+|+||||.|..++.....+.. ..++.|+... .+...+-++.+....+.+.- ..+..+......+..+ +..++
T Consensus 109 ~GsGKTTtaakLA~~l~~~~G-~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvV 187 (433)
T PRK10867 109 QGAGKTTTAGKLAKYLKKKKK-KKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVV 187 (433)
T ss_pred CCCcHHHHHHHHHHHHHHhcC-CcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEE
Confidence 699999999888876653311 2344454432 22234455666777776522 2244444433333332 34677
Q ss_pred EE
Q 041028 75 II 76 (283)
Q Consensus 75 lV 76 (283)
||
T Consensus 188 II 189 (433)
T PRK10867 188 IV 189 (433)
T ss_pred EE
Confidence 77
No 236
>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=87.85 E-value=0.67 Score=38.82 Aligned_cols=28 Identities=36% Similarity=0.494 Sum_probs=22.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|.|||||...+....... |+.+++++-
T Consensus 22 sGSGKT~li~~lL~~~~~~--f~~I~l~t~ 49 (241)
T PF04665_consen 22 SGSGKTTLIKSLLYYLRHK--FDHIFLITP 49 (241)
T ss_pred CCCCHHHHHHHHHHhhccc--CCEEEEEec
Confidence 6999999999999876644 988777754
No 237
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=87.75 E-value=0.4 Score=36.90 Aligned_cols=17 Identities=41% Similarity=0.493 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.++.+..
T Consensus 5 PgsGK~t~~~~la~~~~ 21 (151)
T PF00406_consen 5 PGSGKGTQAKRLAKRYG 21 (151)
T ss_dssp TTSSHHHHHHHHHHHHT
T ss_pred CCCChHHHHHHHHHhcC
Confidence 79999999999999764
No 238
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=87.67 E-value=0.4 Score=43.32 Aligned_cols=33 Identities=21% Similarity=0.205 Sum_probs=22.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe-CCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV-SQNPN 36 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v-~~~~~ 36 (283)
|||||||+|.+++......+ + .++-|+. ....+
T Consensus 116 GGVGKTTta~nLA~~LA~~G-~-rVLlIDl~DpQ~n 149 (387)
T PHA02519 116 GGVYKTSSAVHTAQWLALQG-H-RVLLIEGNDPQGT 149 (387)
T ss_pred CCCcHHHHHHHHHHHHHhCC-C-cEEEEeCCCCCCC
Confidence 89999999999988765433 2 4566664 44333
No 239
>PRK06761 hypothetical protein; Provisional
Probab=87.65 E-value=0.92 Score=39.02 Aligned_cols=27 Identities=22% Similarity=0.322 Sum_probs=19.6
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEE
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVF 28 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~w 28 (283)
.+|+||||+|+.+++..... .++...+
T Consensus 11 ~~GsGKTTla~~L~~~L~~~-g~~v~~~ 37 (282)
T PRK06761 11 LPGFGKSTTAKMLNDILSQN-GIEVELY 37 (282)
T ss_pred CCCCCHHHHHHHHHHhcCcC-ceEEEEE
Confidence 37999999999999987543 3344443
No 240
>PLN02924 thymidylate kinase
Probab=87.62 E-value=1.2 Score=36.76 Aligned_cols=44 Identities=9% Similarity=0.021 Sum_probs=27.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~ 46 (283)
.|+||||+|+.+++..... .+....+=..+......+..++++.
T Consensus 25 DGsGKsTq~~~L~~~l~~~-g~~v~~~~ep~~~~~~g~~ir~~l~ 68 (220)
T PLN02924 25 DRSGKSTQCAKLVSFLKGL-GVAAELWRFPDRTTSVGQMISAYLS 68 (220)
T ss_pred CCCCHHHHHHHHHHHHHhc-CCCceeeeCCCCCChHHHHHHHHHh
Confidence 5999999999999988754 3444333222223445566666554
No 241
>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=87.61 E-value=0.92 Score=41.21 Aligned_cols=19 Identities=37% Similarity=0.618 Sum_probs=16.3
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|+|||+||+.++......
T Consensus 56 pG~GKT~lAraLA~~l~~~ 74 (441)
T TIGR00390 56 TGVGKTEIARRLAKLANAP 74 (441)
T ss_pred CCCCHHHHHHHHHHHhCCe
Confidence 6999999999999986543
No 242
>PRK06835 DNA replication protein DnaC; Validated
Probab=87.59 E-value=0.58 Score=41.23 Aligned_cols=28 Identities=21% Similarity=0.428 Sum_probs=20.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|+|||.||.++++....++ -.++|+++
T Consensus 192 ~GtGKThLa~aIa~~l~~~g--~~V~y~t~ 219 (329)
T PRK06835 192 TGTGKTFLSNCIAKELLDRG--KSVIYRTA 219 (329)
T ss_pred CCCcHHHHHHHHHHHHHHCC--CeEEEEEH
Confidence 59999999999999875442 24566654
No 243
>PRK04182 cytidylate kinase; Provisional
Probab=87.57 E-value=0.41 Score=37.77 Aligned_cols=18 Identities=44% Similarity=0.468 Sum_probs=15.7
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
+.|+||||+|+.+++...
T Consensus 8 ~~GsGKstia~~la~~lg 25 (180)
T PRK04182 8 PPGSGKTTVARLLAEKLG 25 (180)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 479999999999998764
No 244
>PRK06620 hypothetical protein; Validated
Probab=87.57 E-value=0.35 Score=39.84 Aligned_cols=16 Identities=31% Similarity=0.231 Sum_probs=14.0
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||+|++.+++..
T Consensus 53 ~G~GKThLl~a~~~~~ 68 (214)
T PRK06620 53 SSSGKTYLTKIWQNLS 68 (214)
T ss_pred CCCCHHHHHHHHHhcc
Confidence 6999999999987764
No 245
>PF13245 AAA_19: Part of AAA domain
Probab=87.52 E-value=0.99 Score=30.48 Aligned_cols=16 Identities=50% Similarity=0.588 Sum_probs=10.6
Q ss_pred CCCcHHH-HHHHHHhhh
Q 041028 2 GGIGKTT-LAKEVARKA 17 (283)
Q Consensus 2 gGiGKTt-LA~~v~~~~ 17 (283)
+|.|||+ ++..+.+-.
T Consensus 19 pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 19 PGTGKTTTLAARIAELL 35 (76)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 7999995 444455544
No 246
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=87.39 E-value=2.5 Score=36.75 Aligned_cols=50 Identities=24% Similarity=0.143 Sum_probs=35.0
Q ss_pred CCCcHHHHHHHHHhhhccCC-------------------CCCeEEEEEeCCCCC---HHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGK-------------------LFDQIVFTEVSQNPN---IKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~-------------------~Fd~~~wv~v~~~~~---~~~l~~~i~~~l~~~ 51 (283)
+|+||||+|.++++...... ....+..++.+.... ..+..+++.+.....
T Consensus 33 ~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~~ 104 (325)
T COG0470 33 PGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSES 104 (325)
T ss_pred CCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhccC
Confidence 59999999999999865332 234566666666555 577778888776543
No 247
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=87.38 E-value=29 Score=33.90 Aligned_cols=16 Identities=44% Similarity=0.719 Sum_probs=14.1
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+||||+|+.+++..
T Consensus 47 ~GvGKTTlAriLAk~L 62 (709)
T PRK08691 47 RGVGKTTIARILAKSL 62 (709)
T ss_pred CCCcHHHHHHHHHHHh
Confidence 5999999999998864
No 248
>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments. Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.
Probab=87.33 E-value=0.38 Score=40.30 Aligned_cols=20 Identities=35% Similarity=0.491 Sum_probs=16.5
Q ss_pred CCCcHHHHHHHHHhhhccCC
Q 041028 2 GGIGKTTLAKEVARKAKNGK 21 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~ 21 (283)
||+||||.|.+++-.....+
T Consensus 10 GGvGKSTva~~lA~aLa~~G 29 (261)
T PF09140_consen 10 GGVGKSTVAVNLAVALARMG 29 (261)
T ss_dssp TTTTHHHHHHHHHHHHHCTT
T ss_pred CCCcHHHHHHHHHHHHHHCC
Confidence 89999999999988765443
No 249
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=87.27 E-value=0.39 Score=38.52 Aligned_cols=17 Identities=24% Similarity=0.430 Sum_probs=14.5
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
+.|+|||||++.++...
T Consensus 10 ~sGsGKsTl~~~l~~~~ 26 (186)
T PRK10078 10 PSGSGKDSLLAALRQRE 26 (186)
T ss_pred CCCCCHHHHHHHHhccC
Confidence 46999999999997754
No 250
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=87.27 E-value=0.41 Score=43.28 Aligned_cols=33 Identities=18% Similarity=0.316 Sum_probs=22.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe-CCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV-SQNPN 36 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v-~~~~~ 36 (283)
|||||||+|.+++......+ + .++-|+. ....+
T Consensus 116 GGVGKTT~a~nLA~~LA~~G-~-rVLlID~~DpQ~n 149 (388)
T PRK13705 116 GGVYKTSVSVHLAQDLALKG-L-RVLLVEGNDPQGT 149 (388)
T ss_pred CCchHHHHHHHHHHHHHhcC-C-CeEEEcCCCCCCc
Confidence 89999999999988765432 2 3455663 44333
No 251
>PRK13236 nitrogenase reductase; Reviewed
Probab=87.24 E-value=0.68 Score=40.17 Aligned_cols=18 Identities=33% Similarity=0.571 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||+|..++.-...
T Consensus 15 GGVGKTt~a~NLA~~La~ 32 (296)
T PRK13236 15 GGIGKSTTSQNTLAAMAE 32 (296)
T ss_pred CcCCHHHHHHHHHHHHHH
Confidence 899999988887776543
No 252
>PRK00698 tmk thymidylate kinase; Validated
Probab=87.17 E-value=1.4 Score=35.57 Aligned_cols=18 Identities=22% Similarity=0.300 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+++.+.+....
T Consensus 12 ~gsGKsT~~~~L~~~l~~ 29 (205)
T PRK00698 12 DGAGKSTQIELLKELLEQ 29 (205)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 599999999999987654
No 253
>PRK04328 hypothetical protein; Provisional
Probab=87.12 E-value=1.1 Score=37.77 Aligned_cols=44 Identities=14% Similarity=0.259 Sum_probs=28.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||+||.++......+ -..++|++..+.+ .++ .+.+++++.
T Consensus 32 pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee~~--~~i-~~~~~~~g~ 75 (249)
T PRK04328 32 PGTGKSIFSQQFLWNGLQM--GEPGVYVALEEHP--VQV-RRNMRQFGW 75 (249)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCcEEEEEeeCCH--HHH-HHHHHHcCC
Confidence 6999999999976653222 3567888887643 333 334555554
No 254
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=87.00 E-value=0.92 Score=39.98 Aligned_cols=39 Identities=28% Similarity=0.324 Sum_probs=27.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIA 45 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~ 45 (283)
+|+|||+||+.++...... ..+|.........++.....
T Consensus 52 PG~gKT~la~~lA~~l~~~-----~~~i~~t~~l~p~d~~G~~~ 90 (329)
T COG0714 52 PGVGKTLLARALARALGLP-----FVRIQCTPDLLPSDLLGTYA 90 (329)
T ss_pred CCccHHHHHHHHHHHhCCC-----eEEEecCCCCCHHHhcCchh
Confidence 7999999999999876532 34555666666666555443
No 255
>PRK14528 adenylate kinase; Provisional
Probab=86.99 E-value=0.35 Score=38.87 Aligned_cols=17 Identities=35% Similarity=0.413 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+.....
T Consensus 10 pGsGKtt~a~~la~~~~ 26 (186)
T PRK14528 10 PGAGKGTQAKILCERLS 26 (186)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 79999999999987654
No 256
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=86.98 E-value=0.43 Score=41.28 Aligned_cols=17 Identities=47% Similarity=0.616 Sum_probs=14.6
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+||||+|+.+..+.
T Consensus 10 ~pGSGKSTla~~L~~~~ 26 (300)
T PHA02530 10 VPGSGKSTWAREFAAKN 26 (300)
T ss_pred CCCCCHHHHHHHHHHHC
Confidence 37999999999998764
No 257
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=86.91 E-value=1.4 Score=36.66 Aligned_cols=43 Identities=14% Similarity=0.160 Sum_probs=28.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+|||+||.++......+ =..++|++..+. ..++.+++ .+++
T Consensus 34 ~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~--~~~~~~~~-~~~g 76 (234)
T PRK06067 34 HGTGKSVLSQQFVYGALKQ--GKKVYVITTENT--SKSYLKQM-ESVK 76 (234)
T ss_pred CCCChHHHHHHHHHHHHhC--CCEEEEEEcCCC--HHHHHHHH-HHCC
Confidence 6999999999986553222 246888888754 34555543 3444
No 258
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=86.90 E-value=0.77 Score=40.61 Aligned_cols=18 Identities=28% Similarity=0.517 Sum_probs=15.8
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|.||||+++.+.+...
T Consensus 7 l~GaGKST~~~~l~~~l~ 24 (340)
T TIGR03575 7 LPAAGKSTLARSLSATLR 24 (340)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 479999999999998765
No 259
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=86.89 E-value=0.85 Score=39.58 Aligned_cols=18 Identities=22% Similarity=0.422 Sum_probs=15.5
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||+|..++.-...
T Consensus 9 GGvGKTT~a~nLA~~La~ 26 (296)
T TIGR02016 9 GGSGKSFTTTNLSHMMAE 26 (296)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 899999999999886554
No 260
>PRK04296 thymidine kinase; Provisional
Probab=86.84 E-value=0.64 Score=37.46 Aligned_cols=71 Identities=13% Similarity=0.051 Sum_probs=36.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCc---CCHhhhHHhHHHHccCC-cEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDE---ESESGRTRSPWSRLKKE-KLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~l~~~L~~k-r~LlV~ 77 (283)
.|.||||+|..++.+.... -..++.+. ..++.......++++++..... ....+....+.+ ..++ .+++|+
T Consensus 11 ~GsGKTT~~l~~~~~~~~~--g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~~~dvviID 85 (190)
T PRK04296 11 MNSGKSTELLQRAYNYEER--GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGEKIDCVLID 85 (190)
T ss_pred CCCHHHHHHHHHHHHHHHc--CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCCCCCEEEEE
Confidence 3999999999998876543 22333331 1122222234456666644322 123334444444 2223 456664
No 261
>PRK09183 transposase/IS protein; Provisional
Probab=86.79 E-value=0.74 Score=39.15 Aligned_cols=18 Identities=39% Similarity=0.540 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||+||..+++....
T Consensus 111 ~GtGKThLa~al~~~a~~ 128 (259)
T PRK09183 111 SGVGKTHLAIALGYEAVR 128 (259)
T ss_pred CCCCHHHHHHHHHHHHHH
Confidence 699999999999887543
No 262
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=86.72 E-value=0.64 Score=38.45 Aligned_cols=32 Identities=28% Similarity=0.538 Sum_probs=20.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQNP 35 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~~ 35 (283)
+|+|||+||.++......+ + ..++||+..+++
T Consensus 28 ~GsGKT~l~~q~l~~~~~~--~ge~vlyvs~ee~~ 60 (226)
T PF06745_consen 28 PGSGKTTLALQFLYNGLKN--FGEKVLYVSFEEPP 60 (226)
T ss_dssp TTSSHHHHHHHHHHHHHHH--HT--EEEEESSS-H
T ss_pred CCCCcHHHHHHHHHHhhhh--cCCcEEEEEecCCH
Confidence 6999999999866443222 1 357888876654
No 263
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=86.66 E-value=0.44 Score=42.62 Aligned_cols=18 Identities=50% Similarity=0.625 Sum_probs=15.8
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||+||+++++....
T Consensus 165 pGtGKT~lakaia~~l~~ 182 (364)
T TIGR01242 165 PGTGKTLLAKAVAHETNA 182 (364)
T ss_pred CCCCHHHHHHHHHHhCCC
Confidence 699999999999997653
No 264
>PRK13768 GTPase; Provisional
Probab=86.58 E-value=0.86 Score=38.58 Aligned_cols=29 Identities=24% Similarity=0.349 Sum_probs=19.6
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.||+||||++..+.......+ ..++.|+.
T Consensus 10 ~~G~GKTt~~~~~~~~l~~~g--~~v~~i~~ 38 (253)
T PRK13768 10 TAGSGKTTLTKALSDWLEEQG--YDVAIVNL 38 (253)
T ss_pred CCCccHHHHHHHHHHHHHhcC--CceEEEEC
Confidence 389999999999887765432 23444444
No 265
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=86.53 E-value=0.45 Score=36.57 Aligned_cols=18 Identities=39% Similarity=0.543 Sum_probs=15.4
Q ss_pred CCcHHHHHHHHHhhhccC
Q 041028 3 GIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~~~ 20 (283)
|.|||||++.+..-....
T Consensus 35 GAGKTtf~rgi~~~Lg~~ 52 (149)
T COG0802 35 GAGKTTLVRGIAKGLGVD 52 (149)
T ss_pred cCChHHHHHHHHHHcCCC
Confidence 899999999999876643
No 266
>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D ....
Probab=86.49 E-value=0.41 Score=22.22 Aligned_cols=16 Identities=19% Similarity=0.291 Sum_probs=10.9
Q ss_pred cccEEEEeCCCCCCCC
Q 041028 266 LYTSIVLRDIKTNVLP 281 (283)
Q Consensus 266 ~~r~lsl~~~~~~~lp 281 (283)
+.+.|+|.+|++++||
T Consensus 2 ~L~~L~l~~n~L~~lP 17 (17)
T PF13504_consen 2 NLRTLDLSNNRLTSLP 17 (17)
T ss_dssp T-SEEEETSS--SSE-
T ss_pred ccCEEECCCCCCCCCc
Confidence 5788999999999998
No 267
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.44 E-value=0.39 Score=44.93 Aligned_cols=18 Identities=39% Similarity=0.501 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||+|+.+++....
T Consensus 45 pGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 45 RGVGKTTTARLIAMAVNC 62 (504)
T ss_pred CCCCHHHHHHHHHHHHhc
Confidence 699999999999988653
No 268
>PRK06526 transposase; Provisional
Probab=86.40 E-value=0.5 Score=40.04 Aligned_cols=18 Identities=39% Similarity=0.423 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||+||..+.+....
T Consensus 107 ~GtGKThLa~al~~~a~~ 124 (254)
T PRK06526 107 PGTGKTHLAIGLGIRACQ 124 (254)
T ss_pred CCCchHHHHHHHHHHHHH
Confidence 699999999999887653
No 269
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=86.36 E-value=0.52 Score=36.03 Aligned_cols=31 Identities=23% Similarity=0.302 Sum_probs=21.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
.|+|||||++.+.+....+ .+...+..+...
T Consensus 9 ~~sGKTTl~~~Li~~l~~~-g~~v~~ik~~~~ 39 (140)
T PF03205_consen 9 KNSGKTTLIRKLINELKRR-GYRVAVIKHTDH 39 (140)
T ss_dssp TTSSHHHHHHHHHHHHHHT-T--EEEEEE-ST
T ss_pred CCCCHHHHHHHHHHHHhHc-CCceEEEEEccC
Confidence 4899999999999987654 355555666655
No 270
>PF00693 Herpes_TK: Thymidine kinase from herpesvirus; InterPro: IPR001889 The thymidine kinase from Herpesviridae catalyses the reaction: ATP + THYMIDINE = ADP + THYMIDINE 5'-PHOSPHATE. The enzyme is not subject to feedback inhibition by its product and the crystal structure of the enzyme from Human herpesvirus 1 (HHV-1) has been reported [].; GO: 0004797 thymidine kinase activity, 0005524 ATP binding, 0006230 TMP biosynthetic process; PDB: 1P73_B 1P75_C 1P6X_A 1P72_A 1OSN_D 1E2J_B 1KI3_A 3RDP_B 1P7C_A 3F0T_A ....
Probab=86.33 E-value=0.47 Score=40.48 Aligned_cols=16 Identities=44% Similarity=0.576 Sum_probs=14.3
Q ss_pred CCcHHHHHHHHHhhhc
Q 041028 3 GIGKTTLAKEVARKAK 18 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~ 18 (283)
||||||+++++.+...
T Consensus 4 GvGKTT~~~~l~~~~~ 19 (281)
T PF00693_consen 4 GVGKTTTLKALAEALP 19 (281)
T ss_dssp TSSHHHHHHHHHHCCT
T ss_pred CcCHHHHHHHHHHccC
Confidence 9999999999998654
No 271
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=86.32 E-value=0.81 Score=44.01 Aligned_cols=47 Identities=19% Similarity=0.167 Sum_probs=34.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+||||+|+.+.+.... .+|+..+|..- ..-+...+++.++..+|.
T Consensus 59 ~G~GKttla~~l~~~l~~-~~~~~~~~~~n-p~~~~~~~~~~v~~~~G~ 105 (637)
T PRK13765 59 PGTGKSMLAKAMAELLPK-EELQDILVYPN-PEDPNNPKIRTVPAGKGK 105 (637)
T ss_pred CCCcHHHHHHHHHHHcCh-HhHHHheEeeC-CCcchHHHHHHHHHhcCH
Confidence 699999999999987532 34577788655 334677778888877765
No 272
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=86.25 E-value=4 Score=40.85 Aligned_cols=50 Identities=18% Similarity=0.068 Sum_probs=35.1
Q ss_pred CCCCcHHHHHHHHHhhhccC---CCCC--eEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 1 MGGIGKTTLAKEVARKAKNG---KLFD--QIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~---~~Fd--~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
.+|+|||+.++.|.+..... .... .+++|+...-.+...++..|.++|..
T Consensus 789 ~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g 843 (1164)
T PTZ00112 789 MPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQLFN 843 (1164)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHHcC
Confidence 47999999999998775321 1122 24666666666788888888888843
No 273
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=86.22 E-value=0.94 Score=41.18 Aligned_cols=18 Identities=39% Similarity=0.682 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||+||+.+......
T Consensus 59 ~G~GKT~LAr~LAk~l~~ 76 (443)
T PRK05201 59 TGVGKTEIARRLAKLANA 76 (443)
T ss_pred CCCCHHHHHHHHHHHhCC
Confidence 699999999999987654
No 274
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=86.16 E-value=0.46 Score=36.40 Aligned_cols=16 Identities=44% Similarity=0.617 Sum_probs=13.7
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+|||||++.+-...
T Consensus 10 ~g~GKTTL~q~L~~~~ 25 (143)
T PF10662_consen 10 SGSGKTTLAQALNGEE 25 (143)
T ss_pred CCCCHHHHHHHHcCCC
Confidence 4999999999998753
No 275
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.15 E-value=1.8 Score=40.90 Aligned_cols=17 Identities=41% Similarity=0.620 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||+|+.+++...
T Consensus 47 ~GvGKTTlAr~lAk~L~ 63 (546)
T PRK14957 47 RGVGKTTLGRLLAKCLN 63 (546)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 69999999999998653
No 276
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=86.13 E-value=0.82 Score=42.06 Aligned_cols=29 Identities=17% Similarity=0.265 Sum_probs=21.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v 31 (283)
+|+|||+||+++++..... +. ..++|++.
T Consensus 139 ~G~GKTHLl~ai~~~l~~~-~~~~~v~yi~~ 168 (440)
T PRK14088 139 VGLGKTHLLQSIGNYVVQN-EPDLRVMYITS 168 (440)
T ss_pred CCCcHHHHHHHHHHHHHHh-CCCCeEEEEEH
Confidence 5999999999999986543 22 24667654
No 277
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.09 E-value=1.8 Score=40.68 Aligned_cols=46 Identities=20% Similarity=0.353 Sum_probs=29.3
Q ss_pred CCCcHHHHHHHHHhhhccCC-------------------CCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGK-------------------LFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~-------------------~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
.|+||||+|+.+++..-... .|..++.++.+....+.++ ++++..+
T Consensus 47 ~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eidaas~~~v~~i-R~l~~~~ 111 (509)
T PRK14958 47 RGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDAASRTKVEDT-RELLDNI 111 (509)
T ss_pred CCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEcccccCCHHHH-HHHHHHH
Confidence 69999999999998754321 2323455555555556654 5566654
No 278
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=86.06 E-value=0.48 Score=35.77 Aligned_cols=16 Identities=19% Similarity=0.300 Sum_probs=14.0
Q ss_pred CCCCcHHHHHHHHHhh
Q 041028 1 MGGIGKTTLAKEVARK 16 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~ 16 (283)
.+|+|||||++.+++.
T Consensus 4 ~~gsGKstl~~~l~~~ 19 (163)
T cd00880 4 RTNAGKSSLLNALLGQ 19 (163)
T ss_pred CCCCCHHHHHHHHhCc
Confidence 3699999999999875
No 279
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=86.01 E-value=4.1 Score=32.17 Aligned_cols=42 Identities=19% Similarity=0.268 Sum_probs=24.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+||||+|..+...... ..+++.-... .-.+..++|.....
T Consensus 10 ~~sGKS~~a~~l~~~~~~-----~~~~iat~~~-~~~e~~~ri~~h~~ 51 (170)
T PRK05800 10 ARSGKSRFAERLAAQSGL-----QVLYIATAQP-FDDEMAARIAHHRQ 51 (170)
T ss_pred CCccHHHHHHHHHHHcCC-----CcEeCcCCCC-ChHHHHHHHHHHHh
Confidence 589999999999876421 1233333333 33455566655443
No 280
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.92 E-value=1.7 Score=43.32 Aligned_cols=18 Identities=39% Similarity=0.569 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+++....
T Consensus 47 pGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 47 RGVGKTSLARLFAKGLNC 64 (944)
T ss_pred CCCCHHHHHHHHHHhccC
Confidence 599999999999987644
No 281
>PRK08181 transposase; Validated
Probab=85.86 E-value=0.67 Score=39.61 Aligned_cols=60 Identities=22% Similarity=0.212 Sum_probs=34.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~kr~LlV~ 77 (283)
+|+|||.||..+.+..... .-.++|++ ..+++..+..... ..+ ...+.+.+..-.+|||+
T Consensus 115 ~GtGKTHLa~Aia~~a~~~--g~~v~f~~------~~~L~~~l~~a~~----~~~----~~~~l~~l~~~dLLIID 174 (269)
T PRK08181 115 PGGGKSHLAAAIGLALIEN--GWRVLFTR------TTDLVQKLQVARR----ELQ----LESAIAKLDKFDLLILD 174 (269)
T ss_pred CCCcHHHHHHHHHHHHHHc--CCceeeee------HHHHHHHHHHHHh----CCc----HHHHHHHHhcCCEEEEe
Confidence 6999999999999876533 23445554 3455555543321 111 22233445556777773
No 282
>PRK14527 adenylate kinase; Provisional
Probab=85.83 E-value=0.55 Score=37.78 Aligned_cols=18 Identities=33% Similarity=0.361 Sum_probs=15.5
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||+|+.+++....
T Consensus 15 pGsGKsT~a~~La~~~~~ 32 (191)
T PRK14527 15 PGAGKGTQAERLAQELGL 32 (191)
T ss_pred CCCCHHHHHHHHHHHhCC
Confidence 799999999999887653
No 283
>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=85.80 E-value=0.49 Score=37.51 Aligned_cols=16 Identities=38% Similarity=0.690 Sum_probs=14.1
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+||||||+.++...
T Consensus 10 ~GsGKsTl~~~L~~~~ 25 (180)
T TIGR03263 10 SGVGKSTLVKALLEED 25 (180)
T ss_pred CCCCHHHHHHHHHccC
Confidence 6999999999998853
No 284
>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=85.79 E-value=0.85 Score=36.12 Aligned_cols=27 Identities=19% Similarity=0.282 Sum_probs=22.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
+|+|||||.+.+|.++... .+.+||.-
T Consensus 46 SG~GKStllr~LYaNY~~d---~G~I~v~H 72 (235)
T COG4778 46 SGSGKSTLLRSLYANYLPD---EGQILVRH 72 (235)
T ss_pred CCCcHHHHHHHHHhccCCC---CceEEEEe
Confidence 6999999999999987653 57888853
No 285
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=85.78 E-value=1.8 Score=37.07 Aligned_cols=74 Identities=18% Similarity=0.157 Sum_probs=40.4
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCH--HHHHHHHHHHhCCCCC----cCCHhh-hHHhHHHHc-cCCc
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNI--KKIQGEIAFKLGLKFD----EESESG-RTRSPWSRL-KKEK 72 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~--~~l~~~i~~~l~~~~~----~~~~~~-~~~~l~~~L-~~kr 72 (283)
.+|+||||++..++...... -..+..++... +.. .+-++..++..+.+.- ..+... ....+.... ++..
T Consensus 80 ~~G~GKTTt~akLA~~l~~~--g~~V~li~~D~-~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~~~~D 156 (272)
T TIGR00064 80 VNGVGKTTTIAKLANKLKKQ--GKSVLLAAGDT-FRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNID 156 (272)
T ss_pred CCCCcHHHHHHHHHHHHHhc--CCEEEEEeCCC-CCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHHCCCC
Confidence 37999999999998776533 23456666543 322 3444556666664421 112222 223343333 4457
Q ss_pred EEEEc
Q 041028 73 LQIIC 77 (283)
Q Consensus 73 ~LlV~ 77 (283)
++||+
T Consensus 157 ~ViID 161 (272)
T TIGR00064 157 VVLID 161 (272)
T ss_pred EEEEe
Confidence 88883
No 286
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=85.68 E-value=0.5 Score=41.47 Aligned_cols=17 Identities=47% Similarity=0.632 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
||+||||+|..++....
T Consensus 103 GGvGkTT~a~nLA~~la 119 (322)
T TIGR03815 103 GGAGASTLAAALALAAA 119 (322)
T ss_pred CCCcHHHHHHHHHHHHH
Confidence 89999999999887654
No 287
>PRK05439 pantothenate kinase; Provisional
Probab=85.65 E-value=3.3 Score=36.15 Aligned_cols=17 Identities=24% Similarity=0.255 Sum_probs=14.4
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+.....
T Consensus 95 ~gsGKSTla~~L~~~l~ 111 (311)
T PRK05439 95 VAVGKSTTARLLQALLS 111 (311)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 59999999999887553
No 288
>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=85.57 E-value=0.69 Score=35.99 Aligned_cols=26 Identities=23% Similarity=0.272 Sum_probs=19.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVF 28 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~w 28 (283)
.|+|||||+.++....+.+ .+...+.
T Consensus 8 ~gsGKTtl~~~l~~~l~~~-G~~V~vi 33 (155)
T TIGR00176 8 KNSGKTTLIERLVKALKAR-GYRVATI 33 (155)
T ss_pred CCCCHHHHHHHHHHHHHhc-CCeEEEE
Confidence 5999999999999987643 3444443
No 289
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=85.55 E-value=0.49 Score=38.67 Aligned_cols=19 Identities=37% Similarity=0.515 Sum_probs=15.8
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
.+|+|||||...+.++.-.
T Consensus 13 ~~g~GKTtl~~~l~~~~~~ 31 (219)
T COG1100 13 DGGVGKTTLLNRLVGDEFP 31 (219)
T ss_pred CCCccHHHHHHHHhcCcCc
Confidence 4899999999999887543
No 290
>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=85.48 E-value=0.61 Score=37.45 Aligned_cols=17 Identities=53% Similarity=0.591 Sum_probs=14.5
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
+.|+||||+++.+.+..
T Consensus 7 ~~GsGKSTl~~~L~~~~ 23 (193)
T cd01673 7 NIGAGKSTLAKELAEHL 23 (193)
T ss_pred CCCCCHHHHHHHHHHHh
Confidence 35999999999998863
No 291
>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=85.47 E-value=1.1 Score=37.96 Aligned_cols=31 Identities=16% Similarity=0.293 Sum_probs=22.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+|||+||.+++.....+ =..++|++...+
T Consensus 45 pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee~ 75 (259)
T TIGR03878 45 SDTGKSLMVEQFAVTQASR--GNPVLFVTVESP 75 (259)
T ss_pred CCCCHHHHHHHHHHHHHhC--CCcEEEEEecCC
Confidence 6999999999976654322 246788888753
No 292
>PRK14526 adenylate kinase; Provisional
Probab=85.45 E-value=0.74 Score=37.84 Aligned_cols=18 Identities=33% Similarity=0.403 Sum_probs=15.0
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.++....
T Consensus 8 ~pGsGKsT~a~~La~~~~ 25 (211)
T PRK14526 8 PPGSGKGTIAKILSNELN 25 (211)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 479999999999987653
No 293
>PTZ00035 Rad51 protein; Provisional
Probab=85.44 E-value=2.7 Score=37.27 Aligned_cols=48 Identities=17% Similarity=0.176 Sum_probs=32.2
Q ss_pred CCCcHHHHHHHHHhhhcc---CC-CCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKN---GK-LFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~---~~-~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||||+..++-.... .. .=..++|++-...|+... +.++++.++.
T Consensus 127 ~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g~ 178 (337)
T PTZ00035 127 FRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFGL 178 (337)
T ss_pred CCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhCC
Confidence 699999999988754331 11 113567999888788776 3555666654
No 294
>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=85.39 E-value=0.63 Score=36.36 Aligned_cols=18 Identities=50% Similarity=0.501 Sum_probs=15.2
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
..|+||||+|+.+.+...
T Consensus 8 ~~GSGKstia~~la~~lg 25 (171)
T TIGR02173 8 PPGSGKTTVAKILAEKLS 25 (171)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 469999999999988653
No 295
>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=85.38 E-value=2.8 Score=36.22 Aligned_cols=17 Identities=24% Similarity=0.257 Sum_probs=13.4
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||||+.+..-..
T Consensus 71 ~GSGKSTlar~L~~ll~ 87 (290)
T TIGR00554 71 VAVGKSTTARILQALLS 87 (290)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 59999999988765543
No 296
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=85.35 E-value=0.61 Score=40.43 Aligned_cols=17 Identities=35% Similarity=0.552 Sum_probs=14.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
|||||||++..+.....
T Consensus 13 GGvGKTt~~~nLa~~la 29 (295)
T PRK13234 13 GGIGKSTTSQNTLAALV 29 (295)
T ss_pred CCccHHHHHHHHHHHHH
Confidence 89999999888776544
No 297
>PLN02200 adenylate kinase family protein
Probab=85.33 E-value=0.62 Score=38.95 Aligned_cols=18 Identities=22% Similarity=0.233 Sum_probs=15.2
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
++|+||||+|+.++....
T Consensus 51 ~PGSGKsT~a~~La~~~g 68 (234)
T PLN02200 51 GPGSGKGTQCEKIVETFG 68 (234)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 479999999999987653
No 298
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=85.26 E-value=0.57 Score=42.37 Aligned_cols=17 Identities=53% Similarity=0.667 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||+||+++++...
T Consensus 174 pGtGKT~lAkaia~~~~ 190 (389)
T PRK03992 174 PGTGKTLLAKAVAHETN 190 (389)
T ss_pred CCCChHHHHHHHHHHhC
Confidence 69999999999999765
No 299
>PRK08840 replicative DNA helicase; Provisional
Probab=85.16 E-value=1.6 Score=40.43 Aligned_cols=45 Identities=16% Similarity=0.208 Sum_probs=31.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+|||++|..++.....+.. ..++|.++. .+..++..+++....
T Consensus 226 Pg~GKTafalnia~~~a~~~~-~~v~~fSlE--Ms~~ql~~Rlla~~s 270 (464)
T PRK08840 226 PSMGKTTFAMNLCENAAMDQD-KPVLIFSLE--MPAEQLMMRMLASLS 270 (464)
T ss_pred CCCchHHHHHHHHHHHHHhCC-CeEEEEecc--CCHHHHHHHHHHhhC
Confidence 799999999988877543222 245555544 678888888887654
No 300
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=85.14 E-value=0.62 Score=45.54 Aligned_cols=18 Identities=44% Similarity=0.678 Sum_probs=15.7
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||||+.+++...
T Consensus 60 PpGtGKTTLA~aIA~~~~ 77 (725)
T PRK13341 60 PPGVGKTTLARIIANHTR 77 (725)
T ss_pred CCCCCHHHHHHHHHHHhc
Confidence 379999999999998765
No 301
>PRK00279 adk adenylate kinase; Reviewed
Probab=85.12 E-value=0.65 Score=38.15 Aligned_cols=18 Identities=44% Similarity=0.351 Sum_probs=15.3
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.++....
T Consensus 8 ~pGsGKsT~a~~la~~~~ 25 (215)
T PRK00279 8 PPGAGKGTQAKFIAEKYG 25 (215)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 479999999999987654
No 302
>PRK14531 adenylate kinase; Provisional
Probab=85.06 E-value=0.67 Score=37.02 Aligned_cols=18 Identities=28% Similarity=0.246 Sum_probs=15.5
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+++.++....
T Consensus 10 ~pGsGKsT~~~~la~~~g 27 (183)
T PRK14531 10 PPGAGKGTQAARLCAAHG 27 (183)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 379999999999988764
No 303
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=85.01 E-value=0.86 Score=40.01 Aligned_cols=17 Identities=35% Similarity=0.481 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+++...
T Consensus 45 ~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 45 PGSGKTAAVRALARELY 61 (337)
T ss_pred CCCCHHHHHHHHHHHhc
Confidence 69999999999998764
No 304
>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=85.01 E-value=0.58 Score=36.16 Aligned_cols=15 Identities=33% Similarity=0.733 Sum_probs=13.2
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 9 ~~~GKTsli~~~~~~ 23 (164)
T smart00173 9 GGVGKSALTIQFVQG 23 (164)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998764
No 305
>PRK10536 hypothetical protein; Provisional
Probab=85.00 E-value=1 Score=38.08 Aligned_cols=27 Identities=33% Similarity=0.352 Sum_probs=18.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVF 28 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~w 28 (283)
+|.|||+||.+++.+.-..+.|+.++-
T Consensus 83 aGTGKT~La~a~a~~~l~~~~~~kIiI 109 (262)
T PRK10536 83 AGCGKTWISAAKAAEALIHKDVDRIIV 109 (262)
T ss_pred CCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence 699999999998886332233554443
No 306
>PRK04195 replication factor C large subunit; Provisional
Probab=84.90 E-value=1.8 Score=40.42 Aligned_cols=17 Identities=41% Similarity=0.601 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.++++..
T Consensus 48 pG~GKTtla~ala~el~ 64 (482)
T PRK04195 48 PGVGKTSLAHALANDYG 64 (482)
T ss_pred CCCCHHHHHHHHHHHcC
Confidence 69999999999999764
No 307
>PRK02496 adk adenylate kinase; Provisional
Probab=84.85 E-value=0.69 Score=36.87 Aligned_cols=18 Identities=33% Similarity=0.276 Sum_probs=15.3
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.+.....
T Consensus 9 ~pGsGKst~a~~la~~~~ 26 (184)
T PRK02496 9 PPGAGKGTQAVVLAEHLH 26 (184)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 379999999999988654
No 308
>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=84.78 E-value=2.7 Score=38.43 Aligned_cols=48 Identities=19% Similarity=0.123 Sum_probs=29.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-NPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-~~~~~~l~~~i~~~l~~~ 51 (283)
.|+||||+|..++...+..+ + .++.|+... .+...+-++......+.+
T Consensus 109 ~GvGKTTtaaKLA~~l~~~G-~-kV~lV~~D~~R~aA~eQLk~~a~~~~vp 157 (429)
T TIGR01425 109 QGSGKTTTCTKLAYYYQRKG-F-KPCLVCADTFRAGAFDQLKQNATKARIP 157 (429)
T ss_pred CCCCHHHHHHHHHHHHHHCC-C-CEEEEcCcccchhHHHHHHHHhhccCCe
Confidence 69999999999988765432 2 445555432 223344445566666665
No 309
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=84.74 E-value=2.5 Score=34.88 Aligned_cols=31 Identities=16% Similarity=0.283 Sum_probs=22.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+|||++|.+++.....+ =..++|++...+
T Consensus 25 ~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~~ 55 (224)
T TIGR03880 25 YGTGKTTFSLQFLYQGLKN--GEKAMYISLEER 55 (224)
T ss_pred CCCCHHHHHHHHHHHHHhC--CCeEEEEECCCC
Confidence 6999999999987654322 146788888764
No 310
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=84.74 E-value=0.63 Score=38.02 Aligned_cols=30 Identities=17% Similarity=0.174 Sum_probs=20.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
||+||||+|..++........ ..++.|+..
T Consensus 45 gG~GkSt~a~nLA~~la~~~g-~~VLlvD~D 74 (207)
T TIGR03018 45 PGEGKSFTAINLAISLAQEYD-KTVLLIDAD 74 (207)
T ss_pred CCCCHHHHHHHHHHHHHHhcC-CeEEEEECC
Confidence 899999999998876542100 245666554
No 311
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=84.72 E-value=0.91 Score=37.88 Aligned_cols=17 Identities=47% Similarity=0.581 Sum_probs=14.4
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|.|||||++.+.--.+
T Consensus 42 SGsGKSTL~r~l~Gl~~ 58 (252)
T COG1124 42 SGSGKSTLARLLAGLEK 58 (252)
T ss_pred CCCCHHHHHHHHhcccC
Confidence 59999999999987544
No 312
>PRK09087 hypothetical protein; Validated
Probab=84.72 E-value=0.67 Score=38.55 Aligned_cols=16 Identities=44% Similarity=0.393 Sum_probs=14.0
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+|||+|++.+++..
T Consensus 53 ~GsGKThLl~~~~~~~ 68 (226)
T PRK09087 53 VGSGKTHLASIWREKS 68 (226)
T ss_pred CCCCHHHHHHHHHHhc
Confidence 5999999999988764
No 313
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=84.69 E-value=0.69 Score=37.84 Aligned_cols=18 Identities=44% Similarity=0.412 Sum_probs=15.2
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.+.....
T Consensus 7 ~pGsGKsT~a~~La~~~g 24 (210)
T TIGR01351 7 PPGSGKGTQAKRIAEKYG 24 (210)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 479999999999987654
No 314
>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=84.66 E-value=0.64 Score=41.31 Aligned_cols=50 Identities=14% Similarity=0.242 Sum_probs=30.0
Q ss_pred CCCcHHHHHHHHHhhhcc-----CCCCCeEEEE----EeCCCC---CHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKN-----GKLFDQIVFT----EVSQNP---NIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~-----~~~Fd~~~wv----~v~~~~---~~~~l~~~i~~~l~~~ 51 (283)
+|+||||||..+++.... ++.|-..-|. .+-+.+ -..+.-..+.+.++.+
T Consensus 87 PGsGKStla~~La~~l~~ys~t~eG~~Y~~~~~~~~sp~~e~Pl~l~p~~~r~~~~~~~~~~ 148 (361)
T smart00763 87 VGGGKSSLVECLKRGLEEYSKTPEGRRYTFKWNGEESPMHEDPLHLFPDELREDLEDEYGIP 148 (361)
T ss_pred CCCCHHHHHHHHHHHHhhhcccccCceEEEEecCCCCCCccCCcccCCHHHHHHHHHHhCCC
Confidence 699999999999988654 1234344452 222221 2455566666777653
No 315
>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=84.63 E-value=0.6 Score=35.87 Aligned_cols=16 Identities=31% Similarity=0.636 Sum_probs=13.8
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||+..+.+..
T Consensus 9 ~~~GKTsl~~~l~~~~ 24 (164)
T cd04139 9 GGVGKSALTLQFMYDE 24 (164)
T ss_pred CCCCHHHHHHHHHhCC
Confidence 7999999999998653
No 316
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=84.61 E-value=5.9 Score=36.58 Aligned_cols=45 Identities=22% Similarity=0.284 Sum_probs=31.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC-CCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN-PNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~-~~~~~l~~~i~~~ 47 (283)
+|+|||||+..+........ =+.++++-+++. ..+.+++.++...
T Consensus 153 ~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~ 198 (463)
T PRK09280 153 AGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKES 198 (463)
T ss_pred CCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhc
Confidence 59999999999877655331 156778878755 4567777777654
No 317
>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=84.59 E-value=1 Score=34.70 Aligned_cols=19 Identities=26% Similarity=0.392 Sum_probs=15.8
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|+||||++..+.......
T Consensus 8 ~GsGKTt~~~~l~~~~~~~ 26 (148)
T cd03114 8 PGAGKSTLIDALITALRAR 26 (148)
T ss_pred CCCcHHHHHHHHHHHHHHC
Confidence 7999999999998876443
No 318
>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]
Probab=84.54 E-value=3.5 Score=32.12 Aligned_cols=41 Identities=20% Similarity=0.280 Sum_probs=27.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQNPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~~~~~~l~~~i~~~l~~~ 51 (283)
+|.||||+++++.+..... | |+ ..+...+-..++-+.+..+
T Consensus 21 sGsGKSTigk~L~~~l~~~--F~dg-------Dd~Hp~~NveKM~~GipLn 62 (191)
T KOG3354|consen 21 SGSGKSTIGKALSEELGLK--FIDG-------DDLHPPANVEKMTQGIPLN 62 (191)
T ss_pred CCCChhhHHHHHHHHhCCc--cccc-------ccCCCHHHHHHHhcCCCCC
Confidence 5999999999999988754 5 43 4455555555555544443
No 319
>PRK08006 replicative DNA helicase; Provisional
Probab=84.50 E-value=1.9 Score=40.00 Aligned_cols=44 Identities=18% Similarity=0.163 Sum_probs=30.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..++.+...... ..++++++ ..+..++..+++...
T Consensus 233 PgmGKTafalnia~~~a~~~g-~~V~~fSl--EM~~~ql~~Rlla~~ 276 (471)
T PRK08006 233 PSMGKTTFAMNLCENAAMLQD-KPVLIFSL--EMPGEQIMMRMLASL 276 (471)
T ss_pred CCCCHHHHHHHHHHHHHHhcC-CeEEEEec--cCCHHHHHHHHHHHh
Confidence 799999999998877543211 23445444 467788888888765
No 320
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=84.45 E-value=0.69 Score=36.97 Aligned_cols=16 Identities=38% Similarity=0.675 Sum_probs=14.7
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||+++++.+.
T Consensus 13 SG~GKsTl~k~L~~~~ 28 (191)
T COG0194 13 SGVGKSTLVKALLEDD 28 (191)
T ss_pred CCCCHHHHHHHHHhhc
Confidence 6999999999999876
No 321
>cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK). Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space.
Probab=84.40 E-value=0.73 Score=38.03 Aligned_cols=17 Identities=47% Similarity=0.427 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
-|+||||+|+.+.....
T Consensus 8 ~GsGKSTl~~~L~~~l~ 24 (219)
T cd02030 8 IASGKGKLAKELAEKLG 24 (219)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 59999999999998764
No 322
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=84.37 E-value=0.7 Score=38.41 Aligned_cols=18 Identities=33% Similarity=0.405 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|.|||||++.+......
T Consensus 42 ~GsGKTTl~~~L~~~l~~ 59 (229)
T PRK09270 42 PGAGKSTLAEFLEALLQQ 59 (229)
T ss_pred CCCCHHHHHHHHHHHhhh
Confidence 699999999999987654
No 323
>PRK12338 hypothetical protein; Provisional
Probab=84.35 E-value=0.68 Score=40.49 Aligned_cols=17 Identities=53% Similarity=0.829 Sum_probs=15.1
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.++....
T Consensus 13 sGsGKST~a~~la~~l~ 29 (319)
T PRK12338 13 SGIGKSTIASELARTLN 29 (319)
T ss_pred CCCCHHHHHHHHHHHCC
Confidence 69999999999998754
No 324
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=84.33 E-value=4 Score=36.33 Aligned_cols=34 Identities=24% Similarity=0.314 Sum_probs=23.9
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
.+|.|||.||..++.+...........+++....
T Consensus 9 ~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~ 42 (352)
T PF09848_consen 9 GAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHP 42 (352)
T ss_pred cCCcCHHHHHHHHHHHhhccccCCceEEEEecch
Confidence 3799999999999998721223556666665544
No 325
>PRK06904 replicative DNA helicase; Validated
Probab=84.33 E-value=2 Score=39.98 Aligned_cols=45 Identities=18% Similarity=0.209 Sum_probs=31.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+|||++|..++....... =..++|+++ ..+..++..+++....
T Consensus 230 Pg~GKTafalnia~~~a~~~-g~~Vl~fSl--EMs~~ql~~Rlla~~s 274 (472)
T PRK06904 230 PSMGKTTFAMNLCENAAMAS-EKPVLVFSL--EMPAEQIMMRMLASLS 274 (472)
T ss_pred CCCChHHHHHHHHHHHHHhc-CCeEEEEec--cCCHHHHHHHHHHhhC
Confidence 79999999998887654321 124555544 4778888888887763
No 326
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=84.32 E-value=0.72 Score=36.55 Aligned_cols=31 Identities=29% Similarity=0.328 Sum_probs=21.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~ 33 (283)
.|+|||.||+.++..... +.....+-++.+.
T Consensus 12 sGvGKT~la~~la~~l~~-~~~~~~~~~d~s~ 42 (171)
T PF07724_consen 12 SGVGKTELAKALAELLFV-GSERPLIRIDMSE 42 (171)
T ss_dssp TTSSHHHHHHHHHHHHT--SSCCEEEEEEGGG
T ss_pred CCCCHHHHHHHHHHHhcc-CCccchHHHhhhc
Confidence 599999999999998763 1144555555553
No 327
>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=84.24 E-value=2.4 Score=36.33 Aligned_cols=46 Identities=17% Similarity=0.255 Sum_probs=32.7
Q ss_pred CCCcHHHHHHHHHhhhcc--CCCCCeEEEEEeCCC-CCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKN--GKLFDQIVFTEVSQN-PNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~--~~~Fd~~~wv~v~~~-~~~~~l~~~i~~~ 47 (283)
.|+|||+|+..+.++... ++.-+.++++-+++. ..+.++..++...
T Consensus 78 ~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~ 126 (276)
T cd01135 78 SGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEET 126 (276)
T ss_pred CCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhc
Confidence 589999999999887541 122478889988865 4566676666553
No 328
>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=84.18 E-value=0.7 Score=35.09 Aligned_cols=16 Identities=38% Similarity=0.630 Sum_probs=14.2
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+|||||++.+....
T Consensus 8 sGsGKstl~~~L~~~~ 23 (137)
T cd00071 8 SGVGKSTLLKRLLEEF 23 (137)
T ss_pred CCCCHHHHHHHHHhcC
Confidence 5999999999998764
No 329
>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=84.17 E-value=0.66 Score=35.52 Aligned_cols=15 Identities=33% Similarity=0.793 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 10 ~~vGKTsl~~~~~~~ 24 (162)
T cd04138 10 GGVGKSALTIQLIQN 24 (162)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998864
No 330
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=84.16 E-value=2.2 Score=35.65 Aligned_cols=18 Identities=33% Similarity=0.414 Sum_probs=15.0
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.||+|||+||..++-...
T Consensus 9 ~~G~GKS~lal~la~~va 26 (239)
T cd01125 9 PGGTGKSSLLLVLALAMA 26 (239)
T ss_pred CCCCCHHHHHHHHHHHHh
Confidence 489999999999987643
No 331
>PRK14974 cell division protein FtsY; Provisional
Probab=84.13 E-value=2.2 Score=37.73 Aligned_cols=49 Identities=29% Similarity=0.293 Sum_probs=29.9
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCC--CHHHHHHHHHHHhCCCC
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNP--NIKKIQGEIAFKLGLKF 52 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~--~~~~l~~~i~~~l~~~~ 52 (283)
++|+||||++..+++..... .+ .++.+.. ..+ ...+-++..+..++.+.
T Consensus 148 ~~GvGKTTtiakLA~~l~~~-g~-~V~li~~-Dt~R~~a~eqL~~~a~~lgv~v 198 (336)
T PRK14974 148 VNGTGKTTTIAKLAYYLKKN-GF-SVVIAAG-DTFRAGAIEQLEEHAERLGVKV 198 (336)
T ss_pred CCCCCHHHHHHHHHHHHHHc-CC-eEEEecC-CcCcHHHHHHHHHHHHHcCCce
Confidence 47999999888888766533 23 2333432 223 23345666777887653
No 332
>PRK07933 thymidylate kinase; Validated
Probab=84.02 E-value=0.84 Score=37.56 Aligned_cols=20 Identities=25% Similarity=0.406 Sum_probs=17.1
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
+-|+||||+++.+.+....+
T Consensus 8 ~dGsGKST~~~~L~~~L~~~ 27 (213)
T PRK07933 8 VDGAGKRTLTEALRAALEAR 27 (213)
T ss_pred CCCCCHHHHHHHHHHHHHHC
Confidence 35999999999999987654
No 333
>PRK00300 gmk guanylate kinase; Provisional
Probab=83.99 E-value=0.71 Score=37.44 Aligned_cols=16 Identities=38% Similarity=0.640 Sum_probs=14.3
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|+||||||+.++...
T Consensus 14 sGsGKstl~~~l~~~~ 29 (205)
T PRK00300 14 SGAGKSTLVKALLERD 29 (205)
T ss_pred CCCCHHHHHHHHHhhC
Confidence 6999999999999864
No 334
>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=83.87 E-value=0.76 Score=38.60 Aligned_cols=19 Identities=42% Similarity=0.651 Sum_probs=17.2
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+||||||+|..++++..+.
T Consensus 98 sGVGkStIA~ElA~rLgI~ 116 (299)
T COG2074 98 SGVGKSTIAGELARRLGIR 116 (299)
T ss_pred CCCChhHHHHHHHHHcCCc
Confidence 6999999999999998765
No 335
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.86 E-value=0.72 Score=41.30 Aligned_cols=17 Identities=41% Similarity=0.690 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||+|+.+++...
T Consensus 47 ~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 47 RGVGKTTIARLLAKSLN 63 (363)
T ss_pred CCCCHHHHHHHHHHHhc
Confidence 69999999999998764
No 336
>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=83.82 E-value=0.68 Score=35.68 Aligned_cols=16 Identities=25% Similarity=0.513 Sum_probs=13.9
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||...+.+..
T Consensus 9 ~~vGKTsli~~l~~~~ 24 (168)
T cd04119 9 SGVGKSCIIKRYCEGR 24 (168)
T ss_pred CCCCHHHHHHHHHhCC
Confidence 6999999999998754
No 337
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.77 E-value=4.3 Score=36.68 Aligned_cols=71 Identities=21% Similarity=0.272 Sum_probs=47.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC-CCCCHHHHHHHHHHHhCCCC-------CcCCHh------hhHHhHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS-QNPNIKKIQGEIAFKLGLKF-------DEESES------GRTRSPWSR 67 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~-~~~~~~~l~~~i~~~l~~~~-------~~~~~~------~~~~~l~~~ 67 (283)
+|||||||.-.+++..+ +|.++-.-++ +..-+.+...+.+..-+... ++++.. ..+-.+.++
T Consensus 172 sGVGKStLLgMiar~t~----aDv~ViaLIGERGREVrEFIE~~Lg~egl~rsViVvATSD~s~l~R~~aa~~At~IAEy 247 (441)
T COG1157 172 SGVGKSTLLGMIARNTE----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTATTIAEY 247 (441)
T ss_pred CCCcHHHHHHHHhcccc----CCEEEEEEeeccchhHHHHHHHhcchhhccceEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence 59999999999998554 7777665555 45667888887776665542 122211 123356777
Q ss_pred cc--CCcEEEE
Q 041028 68 LK--KEKLQII 76 (283)
Q Consensus 68 L~--~kr~LlV 76 (283)
++ +|++|++
T Consensus 248 FRDqG~~VLL~ 258 (441)
T COG1157 248 FRDQGKRVLLI 258 (441)
T ss_pred HHhCCCeEEEE
Confidence 75 5688888
No 338
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=83.71 E-value=5 Score=34.28 Aligned_cols=17 Identities=24% Similarity=0.352 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+.+...
T Consensus 8 SGSGKTTv~~~l~~~l~ 24 (277)
T cd02029 8 SGAGTTTVKRAFEHIFA 24 (277)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 59999999999887654
No 339
>PRK11670 antiporter inner membrane protein; Provisional
Probab=83.64 E-value=0.81 Score=41.06 Aligned_cols=17 Identities=35% Similarity=0.577 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
||+||||+|..++....
T Consensus 117 GGVGKTT~avNLA~aLA 133 (369)
T PRK11670 117 GGVGKSSTAVNLALALA 133 (369)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 89999999999887654
No 340
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=83.63 E-value=1.4 Score=38.76 Aligned_cols=17 Identities=29% Similarity=0.507 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.++....
T Consensus 73 pGtGKTtla~~lA~~l~ 89 (327)
T TIGR01650 73 HGTGKSTHIEQIAARLN 89 (327)
T ss_pred CCChHHHHHHHHHHHHC
Confidence 69999999999998765
No 341
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=83.55 E-value=2.1 Score=40.23 Aligned_cols=31 Identities=26% Similarity=0.384 Sum_probs=22.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~~ 34 (283)
+|+|||+||.++......+ + ..++|++....
T Consensus 40 pGsGKT~l~~qf~~~~~~~--~ge~~lyis~ee~ 71 (509)
T PRK09302 40 AGTGKTLFALQFLVNGIKR--FDEPGVFVTFEES 71 (509)
T ss_pred CCCCHHHHHHHHHHHHHHh--cCCCEEEEEccCC
Confidence 6999999999987654332 3 46788887764
No 342
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=83.50 E-value=2.1 Score=37.54 Aligned_cols=63 Identities=19% Similarity=0.186 Sum_probs=37.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC------cCCHhhhHHhHHHHccCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD------EESESGRTRSPWSRLKKE 71 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~~L~~k 71 (283)
.|+||||||.++....... -..++||+....++.. .+..+|.+.+ ..+.++....+.+.++..
T Consensus 62 ~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~e~lirsg 130 (322)
T PF00154_consen 62 ESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIAEQLIRSG 130 (322)
T ss_dssp TTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHHHHHHHTT
T ss_pred CCCchhhhHHHHHHhhhcc--cceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHHHHHhhcc
Confidence 4789999999988776543 4578999988877653 4455666532 224455556666666554
No 343
>PRK05748 replicative DNA helicase; Provisional
Probab=83.50 E-value=2.2 Score=39.38 Aligned_cols=45 Identities=13% Similarity=0.207 Sum_probs=30.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLG 49 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~ 49 (283)
+|+|||+||..+..+...+.. ..++++++ .-+..++..+++...+
T Consensus 212 pg~GKT~~al~ia~~~a~~~g-~~v~~fSl--Ems~~~l~~R~l~~~~ 256 (448)
T PRK05748 212 PSVGKTAFALNIAQNVATKTD-KNVAIFSL--EMGAESLVMRMLCAEG 256 (448)
T ss_pred CCCCchHHHHHHHHHHHHhCC-CeEEEEeC--CCCHHHHHHHHHHHhc
Confidence 799999999999877543311 24556544 4466778888876554
No 344
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=83.50 E-value=2.4 Score=40.98 Aligned_cols=44 Identities=25% Similarity=0.302 Sum_probs=28.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC--CCCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS--QNPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~--~~~~~~~l~~~i~~ 46 (283)
.|+|||+||+++++... +++.-.+.+|+.+ +.-....+++.+-.
T Consensus 440 ~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~ 485 (952)
T KOG0735|consen 440 KGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNN 485 (952)
T ss_pred CCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHH
Confidence 49999999999999876 3344445556554 23345555555443
No 345
>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D.
Probab=83.46 E-value=2.4 Score=32.55 Aligned_cols=32 Identities=28% Similarity=0.442 Sum_probs=22.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNP 35 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~ 35 (283)
||+||||+|..++......+ ..++.|+.....
T Consensus 10 ~g~G~t~~a~~lA~~la~~~--~~Vllid~~~~~ 41 (157)
T PF13614_consen 10 GGVGKTTLALNLAAALARKG--KKVLLIDFDFFS 41 (157)
T ss_dssp TTSSHHHHHHHHHHHHHHTT--T-EEEEE--SSS
T ss_pred CCCCHHHHHHHHHHHHHhcC--CCeEEEECCCCC
Confidence 79999999999999876552 228888876543
No 346
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=83.44 E-value=2.4 Score=38.72 Aligned_cols=44 Identities=18% Similarity=0.243 Sum_probs=30.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..++.+...+.. ..++|++.. .+..++..+++...
T Consensus 203 pg~GKT~~al~ia~~~a~~~g-~~v~~fSlE--m~~~~l~~Rl~~~~ 246 (421)
T TIGR03600 203 PSMGKTTLALNIAENVALREG-KPVLFFSLE--MSAEQLGERLLASK 246 (421)
T ss_pred CCCCHHHHHHHHHHHHHHhCC-CcEEEEECC--CCHHHHHHHHHHHH
Confidence 799999999999866543222 346666654 47777888877654
No 347
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=83.36 E-value=1.2 Score=41.49 Aligned_cols=30 Identities=23% Similarity=0.329 Sum_probs=20.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCC-CeEEEEEeCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLF-DQIVFTEVSQ 33 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~F-d~~~wv~v~~ 33 (283)
+|+||||||.++..+-..+ + ...+||+..+
T Consensus 30 pGsGKT~la~qfl~~g~~~--~ge~~lyvs~eE 60 (484)
T TIGR02655 30 SGTGKTLFSIQFLYNGIIH--FDEPGVFVTFEE 60 (484)
T ss_pred CCCCHHHHHHHHHHHHHHh--CCCCEEEEEEec
Confidence 7999999999975543222 3 3566776653
No 348
>PRK05636 replicative DNA helicase; Provisional
Probab=83.27 E-value=2 Score=40.27 Aligned_cols=44 Identities=25% Similarity=0.157 Sum_probs=29.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||+||..++.....+... .++++ |-..+..++..+++...
T Consensus 274 pg~GKT~~al~~a~~~a~~~g~-~v~~f--SlEMs~~ql~~R~ls~~ 317 (505)
T PRK05636 274 PGVGKSTLALDFMRSASIKHNK-ASVIF--SLEMSKSEIVMRLLSAE 317 (505)
T ss_pred CCCCHHHHHHHHHHHHHHhCCC-eEEEE--EeeCCHHHHHHHHHHHh
Confidence 6999999999988765433222 33333 44556777777777654
No 349
>PRK13531 regulatory ATPase RavA; Provisional
Probab=83.17 E-value=0.97 Score=41.83 Aligned_cols=23 Identities=26% Similarity=0.489 Sum_probs=17.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFD 24 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd 24 (283)
+|+|||+||+.+.........|.
T Consensus 48 PGTGKT~LAraLa~~~~~~~~F~ 70 (498)
T PRK13531 48 PGIAKSLIARRLKFAFQNARAFE 70 (498)
T ss_pred CChhHHHHHHHHHHHhcccCcce
Confidence 79999999999998654333453
No 350
>PRK08760 replicative DNA helicase; Provisional
Probab=83.16 E-value=2.3 Score=39.64 Aligned_cols=44 Identities=16% Similarity=0.088 Sum_probs=28.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..++.....+... .+++++ -.-+..++..+++...
T Consensus 238 Pg~GKTafal~iA~~~a~~~g~-~V~~fS--lEMs~~ql~~Rl~a~~ 281 (476)
T PRK08760 238 PAMGKTTFALNIAEYAAIKSKK-GVAVFS--MEMSASQLAMRLISSN 281 (476)
T ss_pred CCCChhHHHHHHHHHHHHhcCC-ceEEEe--ccCCHHHHHHHHHHhh
Confidence 7999999999998775433222 344444 3445567777776654
No 351
>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=83.13 E-value=0.75 Score=33.37 Aligned_cols=13 Identities=62% Similarity=0.823 Sum_probs=11.8
Q ss_pred CCCcHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVA 14 (283)
Q Consensus 2 gGiGKTtLA~~v~ 14 (283)
.|.|||||++.+.
T Consensus 24 SGsGKSTLl~~l~ 36 (107)
T cd00820 24 SGIGKTELALELI 36 (107)
T ss_pred CCCCHHHHHHHhh
Confidence 5999999999976
No 352
>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=83.09 E-value=0.77 Score=35.57 Aligned_cols=15 Identities=20% Similarity=0.419 Sum_probs=12.8
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 9 ~~vGKTsli~~~~~~ 23 (161)
T cd04124 9 SAVGKSKLVERFLMD 23 (161)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999987754
No 353
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=83.05 E-value=0.9 Score=38.97 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=20.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
+|+|||||+..+......++ .+.-|..
T Consensus 10 ~gSGKTTLi~~Li~~L~~~G---~V~~IKh 36 (274)
T PRK14493 10 KATGKTTLVERLVDRLSGRG---RVGTVKH 36 (274)
T ss_pred CCCCHHHHHHHHHHHHHhCC---CEEEEEE
Confidence 69999999999999887653 2555544
No 354
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=82.99 E-value=0.89 Score=36.18 Aligned_cols=17 Identities=24% Similarity=0.401 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|.|||||++.++....
T Consensus 12 sGsGKSTl~~~la~~l~ 28 (176)
T PRK09825 12 SGSGKSLIGSKIAALFS 28 (176)
T ss_pred CCCCHHHHHHHHHHhcC
Confidence 69999999999998754
No 355
>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=82.85 E-value=0.92 Score=33.01 Aligned_cols=16 Identities=31% Similarity=0.472 Sum_probs=14.2
Q ss_pred CCCCcHHHHHHHHHhh
Q 041028 1 MGGIGKTTLAKEVARK 16 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~ 16 (283)
+.|+|||||...+.+.
T Consensus 7 ~~~~GKSTlin~l~~~ 22 (116)
T PF01926_consen 7 RPNVGKSTLINALTGK 22 (116)
T ss_dssp STTSSHHHHHHHHHTS
T ss_pred CCCCCHHHHHHHHhcc
Confidence 4699999999999974
No 356
>COG0645 Predicted kinase [General function prediction only]
Probab=82.76 E-value=0.86 Score=35.80 Aligned_cols=17 Identities=41% Similarity=0.501 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||||+.+.....
T Consensus 10 ~GsGKstlA~~l~~~lg 26 (170)
T COG0645 10 PGSGKSTLARGLAELLG 26 (170)
T ss_pred CCccHhHHHHHHHhhcC
Confidence 69999999999988754
No 357
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=82.69 E-value=0.86 Score=41.81 Aligned_cols=17 Identities=53% Similarity=0.647 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||+||+.+++...
T Consensus 226 PGTGKT~LAraIA~el~ 242 (438)
T PTZ00361 226 PGTGKTLLAKAVANETS 242 (438)
T ss_pred CCCCHHHHHHHHHHhhC
Confidence 69999999999999765
No 358
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=82.68 E-value=1 Score=34.20 Aligned_cols=18 Identities=33% Similarity=0.636 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
||+||||+|..+......
T Consensus 9 gg~gkt~~~~~~a~~~~~ 26 (139)
T cd02038 9 GGVGKTNISANLALALAK 26 (139)
T ss_pred CCCcHHHHHHHHHHHHHH
Confidence 899999999998887553
No 359
>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=82.64 E-value=0.85 Score=35.10 Aligned_cols=15 Identities=27% Similarity=0.499 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 9 ~~vGKTsli~~l~~~ 23 (161)
T cd04113 9 SGTGKSCLLHRFVEN 23 (161)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998765
No 360
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=82.59 E-value=0.85 Score=41.34 Aligned_cols=17 Identities=53% Similarity=0.655 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||+||+++++...
T Consensus 188 pGTGKT~LAkalA~~l~ 204 (398)
T PTZ00454 188 PGTGKTMLAKAVAHHTT 204 (398)
T ss_pred CCCCHHHHHHHHHHhcC
Confidence 69999999999999764
No 361
>PRK05595 replicative DNA helicase; Provisional
Probab=82.56 E-value=2.6 Score=38.90 Aligned_cols=44 Identities=16% Similarity=0.157 Sum_probs=29.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..+..+...+.. ..++|++. ..+..++..+++...
T Consensus 210 pg~GKT~~al~ia~~~a~~~g-~~vl~fSl--Ems~~~l~~R~~a~~ 253 (444)
T PRK05595 210 PSMGKTTFALNIAEYAALREG-KSVAIFSL--EMSKEQLAYKLLCSE 253 (444)
T ss_pred CCCChHHHHHHHHHHHHHHcC-CcEEEEec--CCCHHHHHHHHHHHh
Confidence 699999999999876432222 23556554 446777888877655
No 362
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=82.53 E-value=0.66 Score=38.38 Aligned_cols=14 Identities=36% Similarity=0.423 Sum_probs=12.3
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
+|+||||+|+.+.+
T Consensus 21 ~G~GKtt~a~~~~~ 34 (220)
T TIGR01618 21 PGTGKTSTIKYLPG 34 (220)
T ss_pred CCCCHHHHHHhcCC
Confidence 79999999998853
No 363
>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=82.48 E-value=0.78 Score=35.65 Aligned_cols=15 Identities=40% Similarity=0.716 Sum_probs=13.4
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 9 ~~~GKSsl~~~l~~~ 23 (172)
T cd01862 9 SGVGKTSLMNQYVNK 23 (172)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998775
No 364
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=82.44 E-value=1.5 Score=35.82 Aligned_cols=45 Identities=16% Similarity=0.161 Sum_probs=25.3
Q ss_pred CCCcHHHHHHHHHhhhcc-----CCCCCeEEEEEeCCCCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKN-----GKLFDQIVFTEVSQNPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~-----~~~Fd~~~wv~v~~~~~~~~l~~~i~~ 46 (283)
+|.||||++..+...... ...-+..+-+....+..+..++..+..
T Consensus 26 PGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 26 PGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp TTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 699999877776665511 112344444544455555666666555
No 365
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=82.41 E-value=1 Score=35.95 Aligned_cols=17 Identities=35% Similarity=0.642 Sum_probs=15.0
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+.....
T Consensus 27 ~GsGKstla~~l~~~l~ 43 (184)
T TIGR00455 27 SGSGKSTIANALEKKLE 43 (184)
T ss_pred CCCCHHHHHHHHHHHHH
Confidence 59999999999998764
No 366
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=82.41 E-value=0.93 Score=35.02 Aligned_cols=15 Identities=47% Similarity=0.811 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+||||||..+..+
T Consensus 23 sG~GKStlal~L~~~ 37 (149)
T cd01918 23 SGIGKSELALELIKR 37 (149)
T ss_pred CCCCHHHHHHHHHHc
Confidence 699999999988775
No 367
>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=82.39 E-value=0.85 Score=35.07 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=12.8
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 10 ~~vGKTsl~~~~~~~ 24 (163)
T cd04136 10 GGVGKSALTVQFVQG 24 (163)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999988754
No 368
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=82.34 E-value=1 Score=37.45 Aligned_cols=44 Identities=23% Similarity=0.249 Sum_probs=31.7
Q ss_pred CCCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHH
Q 041028 1 MGGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEI 44 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i 44 (283)
|+|+||||=+..+++..-...+=++++=++.|....+.-+-.+|
T Consensus 56 pPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~I 99 (333)
T KOG0991|consen 56 PPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKI 99 (333)
T ss_pred CCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHH
Confidence 68999999888888876543333788888888776665554444
No 369
>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=82.27 E-value=1.1 Score=43.06 Aligned_cols=18 Identities=44% Similarity=0.573 Sum_probs=15.5
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+||||||+.+++....
T Consensus 184 ~GtGKTTLAr~i~~~~~~ 201 (615)
T TIGR02903 184 PGVGKTTAARLALEEAKK 201 (615)
T ss_pred CCCCHHHHHHHHHHhhhh
Confidence 699999999999887643
No 370
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=82.26 E-value=2.6 Score=40.61 Aligned_cols=18 Identities=39% Similarity=0.597 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+++..-.
T Consensus 47 ~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 47 RGVGKTTIARLLAKGLNC 64 (647)
T ss_pred CCCCHHHHHHHHHHhhhh
Confidence 599999999999887544
No 371
>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=82.06 E-value=1.6 Score=35.38 Aligned_cols=17 Identities=24% Similarity=0.257 Sum_probs=14.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|.||||++..+.....
T Consensus 10 tGSGKTTll~~ll~~~~ 26 (198)
T cd01131 10 TGSGKSTTLAAMIDYIN 26 (198)
T ss_pred CCCCHHHHHHHHHHHhh
Confidence 59999999998887654
No 372
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=81.81 E-value=1 Score=35.77 Aligned_cols=18 Identities=39% Similarity=0.442 Sum_probs=15.5
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+|||||++.+......
T Consensus 15 sgsGKTTLi~~li~~l~~ 32 (173)
T PRK10751 15 SGTGKTTLLKKLIPALCA 32 (173)
T ss_pred CCChHHHHHHHHHHHHhh
Confidence 599999999999987654
No 373
>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=81.79 E-value=0.89 Score=34.19 Aligned_cols=17 Identities=24% Similarity=0.329 Sum_probs=14.5
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+|||||...+....
T Consensus 9 ~~~~GKstl~~~l~~~~ 25 (161)
T TIGR00231 9 DPNVGKSTLLNRLLGNK 25 (161)
T ss_pred CCCCCHHHHHHHHhCCC
Confidence 36999999999998765
No 374
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=81.79 E-value=6.2 Score=37.80 Aligned_cols=30 Identities=20% Similarity=0.286 Sum_probs=20.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEe
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEV 31 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v 31 (283)
.|+|||.|++++++.......--.++|++.
T Consensus 323 sGsGKTHLL~AIa~~a~~~~~g~~V~Yita 352 (617)
T PRK14086 323 SGLGKTHLLHAIGHYARRLYPGTRVRYVSS 352 (617)
T ss_pred CCCCHHHHHHHHHHHHHHhCCCCeEEEeeH
Confidence 499999999999998653211124566654
No 375
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=81.77 E-value=8.3 Score=35.10 Aligned_cols=48 Identities=25% Similarity=0.344 Sum_probs=33.1
Q ss_pred CCcHHHHHHHHHhhhccCCCCCeEEEEEeC-CCCCHHHHHHHHHHHhCCCC
Q 041028 3 GIGKTTLAKEVARKAKNGKLFDQIVFTEVS-QNPNIKKIQGEIAFKLGLKF 52 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~-~~~~~~~l~~~i~~~l~~~~ 52 (283)
|.||||-|-.+++..+.+ .+ .+.-|... ..+-..+-++.+..+++.+.
T Consensus 110 GsGKTTt~~KLA~~lkk~-~~-kvllVaaD~~RpAA~eQL~~La~q~~v~~ 158 (451)
T COG0541 110 GSGKTTTAGKLAKYLKKK-GK-KVLLVAADTYRPAAIEQLKQLAEQVGVPF 158 (451)
T ss_pred CCChHhHHHHHHHHHHHc-CC-ceEEEecccCChHHHHHHHHHHHHcCCce
Confidence 899999999998887653 22 23334333 34556677888999998874
No 376
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=81.74 E-value=1 Score=39.06 Aligned_cols=17 Identities=35% Similarity=0.602 Sum_probs=15.1
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|..++++..
T Consensus 101 sgsGKStlA~~La~~l~ 117 (301)
T PRK04220 101 SGVGTSTIAFELASRLG 117 (301)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 69999999999998763
No 377
>PRK13974 thymidylate kinase; Provisional
Probab=81.72 E-value=3.8 Score=33.54 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=26.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCC---eEEEEEeCCCCCHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFD---QIVFTEVSQNPNIKKIQGEIAF 46 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd---~~~wv~v~~~~~~~~l~~~i~~ 46 (283)
.|+||||+++.++......+... .++...........+..++++.
T Consensus 12 dGsGKsT~~~~l~~~l~~~g~~~~~~~~~~~~~p~~~~~g~~ir~~l~ 59 (212)
T PRK13974 12 DGCGKTTQIDHLSKWLPSSGLMPKGAKLIITREPGGTLLGKSLRELLL 59 (212)
T ss_pred CCCCHHHHHHHHHHHHHhcCccccCCeeeeeeCCCCCchHHHHHHHHc
Confidence 59999999999998876443321 2222223233345566666654
No 378
>PRK08506 replicative DNA helicase; Provisional
Probab=81.67 E-value=3.4 Score=38.41 Aligned_cols=43 Identities=23% Similarity=0.176 Sum_probs=30.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||+||..++.+.... .. .++++++ ..+..++..+++...
T Consensus 201 pg~GKT~fal~ia~~~~~~-g~-~V~~fSl--EMs~~ql~~Rlla~~ 243 (472)
T PRK08506 201 PSMGKTTLCLNMALKALNQ-DK-GVAFFSL--EMPAEQLMLRMLSAK 243 (472)
T ss_pred CCCChHHHHHHHHHHHHhc-CC-cEEEEeC--cCCHHHHHHHHHHHh
Confidence 6999999999998876422 22 4555544 467788888887655
No 379
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=81.67 E-value=0.95 Score=33.56 Aligned_cols=17 Identities=29% Similarity=0.454 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+|||||...+.....
T Consensus 5 ~~~GKStl~~~l~~~~~ 21 (157)
T cd00882 5 SGVGKTSLLNRLLGGEF 21 (157)
T ss_pred CCCcHHHHHHHHHhCCc
Confidence 69999999999987644
No 380
>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=81.59 E-value=0.81 Score=34.47 Aligned_cols=15 Identities=40% Similarity=0.554 Sum_probs=13.2
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 9 ~~vGKSsL~~~l~~~ 23 (142)
T TIGR02528 9 VGCGKTTLTQALQGE 23 (142)
T ss_pred CCCCHHHHHHHHcCC
Confidence 699999999998765
No 381
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=81.25 E-value=1 Score=39.22 Aligned_cols=16 Identities=44% Similarity=0.636 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+||||+|+.+++..
T Consensus 52 ~G~GKT~la~~l~~~~ 67 (316)
T PHA02544 52 PGTGKTTVAKALCNEV 67 (316)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 6999999999999875
No 382
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.25 E-value=3 Score=40.27 Aligned_cols=17 Identities=41% Similarity=0.636 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||+|+.+++...
T Consensus 46 pGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 46 RGVGKTTIARILAKCLN 62 (702)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 59999999999988754
No 383
>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=81.18 E-value=1.1 Score=34.41 Aligned_cols=16 Identities=31% Similarity=0.594 Sum_probs=13.9
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||...+.+..
T Consensus 8 ~~vGKtsl~~~~~~~~ 23 (162)
T PF00071_consen 8 SGVGKTSLINRLINGE 23 (162)
T ss_dssp TTSSHHHHHHHHHHSS
T ss_pred CCCCHHHHHHHHHhhc
Confidence 6999999999988753
No 384
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.14 E-value=1 Score=41.77 Aligned_cols=17 Identities=41% Similarity=0.601 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+++...
T Consensus 45 pGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 45 RGTGKTTVARILAKSLN 61 (472)
T ss_pred CCCCHHHHHHHHHHHhc
Confidence 69999999999988754
No 385
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=81.02 E-value=1 Score=35.42 Aligned_cols=15 Identities=20% Similarity=0.432 Sum_probs=13.0
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 10 ~g~GKTtl~~~~~~~ 24 (180)
T cd04137 10 RSVGKSSLTVQFVEG 24 (180)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998754
No 386
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=81.01 E-value=0.96 Score=34.76 Aligned_cols=16 Identities=25% Similarity=0.524 Sum_probs=13.8
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||.+.+.+..
T Consensus 9 ~~~GKTtli~~l~~~~ 24 (164)
T smart00175 9 SGVGKSSLLSRFTDGK 24 (164)
T ss_pred CCCCHHHHHHHHhcCC
Confidence 6999999999998653
No 387
>PHA02244 ATPase-like protein
Probab=80.94 E-value=1.1 Score=39.94 Aligned_cols=17 Identities=29% Similarity=0.554 Sum_probs=15.1
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||+||+++++...
T Consensus 128 pGtGKTtLA~aLA~~lg 144 (383)
T PHA02244 128 AGSGKNHIAEQIAEALD 144 (383)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 69999999999998754
No 388
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=80.92 E-value=1.1 Score=38.26 Aligned_cols=19 Identities=37% Similarity=0.389 Sum_probs=15.8
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
.+|+||||+|+.+......
T Consensus 9 ~P~SGKTt~a~~L~~~~~~ 27 (270)
T PF08433_consen 9 LPCSGKTTRAKELKKYLEE 27 (270)
T ss_dssp -TTSSHHHHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHHHHHh
Confidence 3799999999999987654
No 389
>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=80.89 E-value=1.2 Score=35.50 Aligned_cols=15 Identities=40% Similarity=0.379 Sum_probs=13.4
Q ss_pred CCCCcHHHHHHHHHh
Q 041028 1 MGGIGKTTLAKEVAR 15 (283)
Q Consensus 1 mgGiGKTtLA~~v~~ 15 (283)
+.|+||||+|+.+.+
T Consensus 7 ~~gsGKst~~~~l~~ 21 (179)
T cd02022 7 GIGSGKSTVAKLLKE 21 (179)
T ss_pred CCCCCHHHHHHHHHH
Confidence 469999999999987
No 390
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=80.77 E-value=3.7 Score=35.60 Aligned_cols=18 Identities=44% Similarity=0.473 Sum_probs=15.5
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+++....
T Consensus 47 ~G~GKt~~~~~l~~~l~~ 64 (319)
T PRK00440 47 PGTGKTTAALALARELYG 64 (319)
T ss_pred CCCCHHHHHHHHHHHHcC
Confidence 599999999999988643
No 391
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=80.75 E-value=3.3 Score=38.00 Aligned_cols=44 Identities=16% Similarity=0.203 Sum_probs=29.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..+..+...... ..++|+++.. +..++..+++...
T Consensus 204 pg~GKT~~~l~~a~~~a~~~g-~~vl~~SlEm--~~~~i~~R~~~~~ 247 (434)
T TIGR00665 204 PSMGKTAFALNIAENAAIKEG-KPVAFFSLEM--SAEQLAMRMLSSE 247 (434)
T ss_pred CCCChHHHHHHHHHHHHHhCC-CeEEEEeCcC--CHHHHHHHHHHHh
Confidence 699999999998877543211 2566766544 5667777776554
No 392
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=80.74 E-value=2.8 Score=36.65 Aligned_cols=51 Identities=22% Similarity=0.371 Sum_probs=34.6
Q ss_pred CCCcHHHHHHHHHhhh-ccCCCCC-------eEEEEEeCC-CCCHHHHHHHHHHHhCCCC
Q 041028 2 GGIGKTTLAKEVARKA-KNGKLFD-------QIVFTEVSQ-NPNIKKIQGEIAFKLGLKF 52 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~-~~~~~Fd-------~~~wv~v~~-~~~~~~l~~~i~~~l~~~~ 52 (283)
||+|||||+..++=.. .-++.|. .+++|+... ..++.+-++.+..+++.+.
T Consensus 98 sg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsP 157 (402)
T COG3598 98 SGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSP 157 (402)
T ss_pred CcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCCh
Confidence 7999999998865432 2223343 567787764 3466777788888888763
No 393
>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=80.59 E-value=1.9 Score=34.40 Aligned_cols=27 Identities=33% Similarity=0.529 Sum_probs=19.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
.|+|||||++.+....... |...+.-+
T Consensus 11 sg~GK~~l~~~L~~~~~~~--~~~~v~~T 37 (183)
T PF00625_consen 11 SGSGKSTLAKRLIQEFPDK--FGRVVSHT 37 (183)
T ss_dssp TTSSHHHHHHHHHHHSTTT--EEEEEEEE
T ss_pred CCCCHHHHHHHHHHhcccc--cccceeec
Confidence 5999999999999976633 75444443
No 394
>PRK14737 gmk guanylate kinase; Provisional
Probab=80.58 E-value=1.1 Score=36.01 Aligned_cols=16 Identities=25% Similarity=0.445 Sum_probs=14.1
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||++.+....
T Consensus 13 sG~GK~tl~~~l~~~~ 28 (186)
T PRK14737 13 AGGGKSTIIQALLEEH 28 (186)
T ss_pred CCCCHHHHHHHHHhcC
Confidence 6999999999998753
No 395
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=80.55 E-value=1.2 Score=40.46 Aligned_cols=17 Identities=47% Similarity=0.561 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+|||+||+.++....
T Consensus 117 ~GtGKT~lAr~lA~~l~ 133 (412)
T PRK05342 117 TGSGKTLLAQTLARILD 133 (412)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 59999999999997654
No 396
>PRK08356 hypothetical protein; Provisional
Probab=80.45 E-value=1.1 Score=36.19 Aligned_cols=14 Identities=43% Similarity=0.292 Sum_probs=12.3
Q ss_pred CCCCcHHHHHHHHH
Q 041028 1 MGGIGKTTLAKEVA 14 (283)
Q Consensus 1 mgGiGKTtLA~~v~ 14 (283)
++|+||||+|+.+.
T Consensus 13 ~~gsGK~t~a~~l~ 26 (195)
T PRK08356 13 KIAAGKTTVAKFFE 26 (195)
T ss_pred CCCCCHHHHHHHHH
Confidence 47999999999993
No 397
>PRK14738 gmk guanylate kinase; Provisional
Probab=80.44 E-value=1.1 Score=36.63 Aligned_cols=15 Identities=20% Similarity=0.561 Sum_probs=13.2
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||++.+...
T Consensus 22 sG~GK~tl~~~L~~~ 36 (206)
T PRK14738 22 SGVGKDAVLARMRER 36 (206)
T ss_pred CCCCHHHHHHHHHhc
Confidence 699999999999754
No 398
>PRK06321 replicative DNA helicase; Provisional
Probab=80.42 E-value=3.1 Score=38.68 Aligned_cols=44 Identities=16% Similarity=0.126 Sum_probs=29.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..++.....+.. ..++|+++ ..+..++..+++...
T Consensus 235 PgmGKTafal~ia~~~a~~~g-~~v~~fSL--EMs~~ql~~Rlla~~ 278 (472)
T PRK06321 235 PAMGKTALALNIAENFCFQNR-LPVGIFSL--EMTVDQLIHRIICSR 278 (472)
T ss_pred CCCChHHHHHHHHHHHHHhcC-CeEEEEec--cCCHHHHHHHHHHhh
Confidence 699999999999887643211 24556554 345667777776543
No 399
>PRK13886 conjugal transfer protein TraL; Provisional
Probab=80.29 E-value=1.3 Score=37.07 Aligned_cols=19 Identities=32% Similarity=0.592 Sum_probs=15.4
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
-||+||||.|..++.....
T Consensus 11 KGGvGKSt~a~~la~~l~~ 29 (241)
T PRK13886 11 KGGVGKSFIAATIAQYKAS 29 (241)
T ss_pred CCCCcHHHHHHHHHHHHHh
Confidence 3899999999998876543
No 400
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=80.24 E-value=2.8 Score=38.74 Aligned_cols=45 Identities=22% Similarity=0.256 Sum_probs=33.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC-CCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN-PNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~-~~~~~l~~~i~~~ 47 (283)
+|+|||||+..+.+..... +-+.++++-+++. ..+.++..++...
T Consensus 152 ~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~ 197 (461)
T PRK12597 152 AGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKES 197 (461)
T ss_pred CCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhc
Confidence 5999999999988876543 4588888888755 4566677766653
No 401
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=80.20 E-value=0.91 Score=39.03 Aligned_cols=19 Identities=47% Similarity=0.560 Sum_probs=16.7
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|.|||-||++|+|+....
T Consensus 228 PGTGKTLLAKAVANqTSAT 246 (440)
T KOG0726|consen 228 PGTGKTLLAKAVANQTSAT 246 (440)
T ss_pred CCCchhHHHHHHhcccchh
Confidence 6999999999999987654
No 402
>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=80.18 E-value=1.1 Score=34.69 Aligned_cols=15 Identities=20% Similarity=0.399 Sum_probs=12.8
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 12 ~~~GKTsli~~l~~~ 26 (165)
T cd01864 12 SNVGKTCVVQRFKSG 26 (165)
T ss_pred CCCCHHHHHHHHhhC
Confidence 699999999998653
No 403
>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=80.17 E-value=1.3 Score=36.25 Aligned_cols=17 Identities=47% Similarity=0.589 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+|||+|++++.+..+
T Consensus 29 rg~GKTsLl~~~~~~~~ 45 (234)
T PF01637_consen 29 RGSGKTSLLKEFINELK 45 (234)
T ss_dssp TTSSHHHHHHHHHHHCT
T ss_pred CcCCHHHHHHHHHHHhh
Confidence 59999999999999774
No 404
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=80.16 E-value=2 Score=39.67 Aligned_cols=31 Identities=26% Similarity=0.427 Sum_probs=22.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+|||||+..+.......+ ..++|++..+.
T Consensus 103 pGsGKTTL~lq~a~~~a~~g--~kvlYvs~EEs 133 (454)
T TIGR00416 103 PGIGKSTLLLQVACQLAKNQ--MKVLYVSGEES 133 (454)
T ss_pred CCCCHHHHHHHHHHHHHhcC--CcEEEEECcCC
Confidence 69999999999977654321 35788876654
No 405
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=80.14 E-value=2.2 Score=31.29 Aligned_cols=29 Identities=21% Similarity=0.046 Sum_probs=20.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
.|.|||+.+..+............++|+.
T Consensus 9 ~G~GKT~~~~~~~~~~~~~~~~~~~lv~~ 37 (144)
T cd00046 9 TGSGKTLAALLPILELLDSLKGGQVLVLA 37 (144)
T ss_pred CCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence 59999999998877655432345666664
No 406
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=80.13 E-value=1.2 Score=38.85 Aligned_cols=18 Identities=33% Similarity=0.567 Sum_probs=15.8
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
|.|+||||+++.++....
T Consensus 141 ~~GsGKStvg~~La~~Lg 158 (309)
T PRK08154 141 LRGAGKSTLGRMLAARLG 158 (309)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 679999999999998764
No 407
>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=80.11 E-value=1.2 Score=33.64 Aligned_cols=17 Identities=29% Similarity=0.401 Sum_probs=14.4
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+|||||...+.+..
T Consensus 8 ~~~~GKStl~~~l~~~~ 24 (159)
T cd00154 8 DSGVGKTSLLLRFVDGK 24 (159)
T ss_pred CCCCCHHHHHHHHHhCc
Confidence 36999999999998764
No 408
>PRK11823 DNA repair protein RadA; Provisional
Probab=80.11 E-value=2 Score=39.61 Aligned_cols=44 Identities=30% Similarity=0.412 Sum_probs=28.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||||+.+++...... =..++|++..+.+ .++.. -++.++.
T Consensus 89 pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees~--~qi~~-ra~rlg~ 132 (446)
T PRK11823 89 PGIGKSTLLLQVAARLAAA--GGKVLYVSGEESA--SQIKL-RAERLGL 132 (446)
T ss_pred CCCCHHHHHHHHHHHHHhc--CCeEEEEEccccH--HHHHH-HHHHcCC
Confidence 6999999999998876422 2357888776543 23322 2455654
No 409
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=80.05 E-value=1.4 Score=35.76 Aligned_cols=29 Identities=17% Similarity=0.242 Sum_probs=21.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVS 32 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~ 32 (283)
||+||||+|..++......+. .++-|+..
T Consensus 27 gG~GKTt~a~~LA~~la~~G~--rVllID~D 55 (204)
T TIGR01007 27 PGEGKSTTSANIAVAFAQAGY--KTLLIDGD 55 (204)
T ss_pred CCCCHHHHHHHHHHHHHhCCC--eEEEEeCC
Confidence 899999999999887654321 35666665
No 410
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=80.05 E-value=1.2 Score=40.42 Aligned_cols=17 Identities=29% Similarity=0.366 Sum_probs=14.6
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|.||||||+.+++...
T Consensus 228 ~gsGKTTL~~~La~~~g 244 (399)
T PRK08099 228 ESSGKSTLVNKLANIFN 244 (399)
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 59999999999998643
No 411
>PRK15453 phosphoribulokinase; Provisional
Probab=79.92 E-value=1.2 Score=38.19 Aligned_cols=17 Identities=24% Similarity=0.454 Sum_probs=14.2
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|+||||+|+.+.+...
T Consensus 14 SGsGKTTva~~l~~if~ 30 (290)
T PRK15453 14 SGAGTTTVKRAFEKIFR 30 (290)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 59999999999986543
No 412
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho 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 most Rho protein
Probab=79.89 E-value=1.2 Score=34.49 Aligned_cols=17 Identities=29% Similarity=0.348 Sum_probs=14.4
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+|||||...+.+..
T Consensus 8 ~~~~GKSsli~~l~~~~ 24 (171)
T cd00157 8 DGAVGKTCLLISYTTGK 24 (171)
T ss_pred CCCCCHHHHHHHHHhCC
Confidence 36999999999998764
No 413
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=79.86 E-value=8.5 Score=34.77 Aligned_cols=73 Identities=21% Similarity=0.186 Sum_probs=43.9
Q ss_pred CCCcHHH-HHHHHHhhhccCCCCCeEEEEEeCCC-CCHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHccCCcEEEE
Q 041028 2 GGIGKTT-LAKEVARKAKNGKLFDQIVFTEVSQN-PNIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRLKKEKLQII 76 (283)
Q Consensus 2 gGiGKTt-LA~~v~~~~~~~~~Fd~~~wv~v~~~-~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L~~kr~LlV 76 (283)
.|||||| ||+..+.-....+ =..+..++...- ....+-++.-++-++.+... .+..+....+ ..+++.++.||
T Consensus 212 TGVGKTTTlAKLAar~~~~~~-~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai-~~l~~~d~ILV 287 (407)
T COG1419 212 TGVGKTTTLAKLAARYVMLKK-KKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAI-EALRDCDVILV 287 (407)
T ss_pred CCCcHHHHHHHHHHHHHhhcc-CcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHH-HHhhcCCEEEE
Confidence 4999997 6665554431211 245666766532 34556667778888888654 3444444433 34566788888
No 414
>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=79.79 E-value=4.8 Score=32.09 Aligned_cols=18 Identities=33% Similarity=0.427 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+.+....
T Consensus 23 ~G~gkt~~a~~~~~~l~~ 40 (188)
T TIGR00678 23 EGVGKELLALALAKALLC 40 (188)
T ss_pred CCCCHHHHHHHHHHHHcC
Confidence 599999999999887643
No 415
>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]
Probab=79.76 E-value=10 Score=32.31 Aligned_cols=18 Identities=39% Similarity=0.530 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|.|||-+|++|+|+...
T Consensus 220 pgtgktl~aravanrtda 237 (435)
T KOG0729|consen 220 PGTGKTLCARAVANRTDA 237 (435)
T ss_pred CCCchhHHHHHHhcccCc
Confidence 699999999999997553
No 416
>PHA03138 thymidine kinase; Provisional
Probab=79.65 E-value=1.9 Score=37.87 Aligned_cols=16 Identities=44% Similarity=0.491 Sum_probs=12.8
Q ss_pred CCcHHHHHHHHHhhhc
Q 041028 3 GIGKTTLAKEVARKAK 18 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~ 18 (283)
||||||+++.+.+...
T Consensus 22 GvGKTT~~~~~l~~~~ 37 (340)
T PHA03138 22 GIGKTTAAEAFLHGFA 37 (340)
T ss_pred CcCHHhHHHHHHHhhh
Confidence 9999999987766543
No 417
>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=79.54 E-value=1.1 Score=34.19 Aligned_cols=15 Identities=27% Similarity=0.483 Sum_probs=13.1
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
.|+|||||...+...
T Consensus 12 ~g~GKttl~~~l~~~ 26 (168)
T cd04163 12 PNVGKSTLLNALVGQ 26 (168)
T ss_pred CCCCHHHHHHHHhCC
Confidence 599999999998764
No 418
>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=79.48 E-value=1.3 Score=38.03 Aligned_cols=17 Identities=24% Similarity=0.399 Sum_probs=14.5
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+|||||++.+.....
T Consensus 8 sGsGKSTl~~~L~~ll~ 24 (273)
T cd02026 8 SGCGKSTFLRRLTSLFG 24 (273)
T ss_pred CCCCHHHHHHHHHHhhC
Confidence 59999999999987653
No 419
>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=79.42 E-value=1.2 Score=34.82 Aligned_cols=16 Identities=31% Similarity=0.630 Sum_probs=14.2
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
.|||||||...+....
T Consensus 44 SGvGKSSLiN~L~~~~ 59 (161)
T PF03193_consen 44 SGVGKSSLINALLPEA 59 (161)
T ss_dssp TTSSHHHHHHHHHTSS
T ss_pred CCCCHHHHHHHHHhhc
Confidence 5999999999998864
No 420
>PLN02348 phosphoribulokinase
Probab=79.37 E-value=1.3 Score=39.91 Aligned_cols=17 Identities=24% Similarity=0.417 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
+|.||||||+.+.+...
T Consensus 58 SGSGKSTfA~~L~~~Lg 74 (395)
T PLN02348 58 SGCGKSTFMRRLTSVFG 74 (395)
T ss_pred CCCCHHHHHHHHHHHHh
Confidence 59999999999998764
No 421
>PTZ00369 Ras-like protein; Provisional
Probab=79.36 E-value=1.2 Score=35.68 Aligned_cols=15 Identities=33% Similarity=0.756 Sum_probs=13.1
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 14 ~~~GKTsLi~~~~~~ 28 (189)
T PTZ00369 14 GGVGKSALTIQFIQN 28 (189)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999988765
No 422
>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=79.34 E-value=1.3 Score=41.37 Aligned_cols=18 Identities=56% Similarity=0.558 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||+||+.+++....
T Consensus 97 pGtGKT~la~alA~~~~~ 114 (495)
T TIGR01241 97 PGTGKTLLAKAVAGEAGV 114 (495)
T ss_pred CCCCHHHHHHHHHHHcCC
Confidence 799999999999987643
No 423
>PRK06851 hypothetical protein; Provisional
Probab=79.30 E-value=2.4 Score=37.95 Aligned_cols=32 Identities=28% Similarity=0.339 Sum_probs=23.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+|||||.+.+.+..... -|+.-++.+-+.+
T Consensus 39 pGtGKStl~~~i~~~~~~~-g~~Ve~~~~~~d~ 70 (367)
T PRK06851 39 PGTGKSTLMKKIGEEFLEK-GYDVEFLHCSSDN 70 (367)
T ss_pred CCCCHHHHHHHHHHHHHHc-CCeEEEEEcCCCC
Confidence 6999999999999987543 3666666655444
No 424
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=79.19 E-value=1.3 Score=41.44 Aligned_cols=18 Identities=39% Similarity=0.569 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+++..-.
T Consensus 52 ~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 52 RGVGKTTSARIIAKAVNC 69 (507)
T ss_pred CCCCHHHHHHHHHHHhcC
Confidence 699999999999987643
No 425
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=79.13 E-value=1.2 Score=33.89 Aligned_cols=15 Identities=27% Similarity=0.505 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+...
T Consensus 6 ~~~GKssl~~~l~~~ 20 (157)
T cd01894 6 PNVGKSTLFNRLTGR 20 (157)
T ss_pred CCCCHHHHHHHHhCC
Confidence 699999999999865
No 426
>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=79.10 E-value=1.2 Score=34.18 Aligned_cols=16 Identities=19% Similarity=0.476 Sum_probs=13.9
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||++.+.+..
T Consensus 10 ~~~GKSsli~~l~~~~ 25 (163)
T cd01860 10 SSVGKSSLVLRFVKNE 25 (163)
T ss_pred CCCCHHHHHHHHHcCC
Confidence 6999999999988753
No 427
>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=79.10 E-value=1.2 Score=34.67 Aligned_cols=15 Identities=40% Similarity=0.583 Sum_probs=13.5
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+...
T Consensus 23 ~g~GKStLl~~l~~~ 37 (173)
T cd04155 23 DNAGKTTILKQLASE 37 (173)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999999875
No 428
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=79.08 E-value=2.3 Score=33.20 Aligned_cols=19 Identities=37% Similarity=0.545 Sum_probs=16.8
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|+||||+|..++...+.+
T Consensus 7 ~~~GKT~va~~L~~~l~~~ 25 (166)
T TIGR00347 7 TGVGKTVASSALAAKLKKA 25 (166)
T ss_pred CCccHHHHHHHHHHHHHHC
Confidence 7999999999999987654
No 429
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.05 E-value=4.2 Score=38.42 Aligned_cols=17 Identities=47% Similarity=0.716 Sum_probs=14.8
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|+||||+|+.+++..-
T Consensus 47 ~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 47 RGVGKTTLARILAKSLN 63 (527)
T ss_pred CCCCHHHHHHHHHHHhc
Confidence 59999999999988753
No 430
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.04 E-value=1.3 Score=40.96 Aligned_cols=18 Identities=39% Similarity=0.669 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+||||+|+.+++....
T Consensus 49 ~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 49 RGVGKTTIARILAKRLNC 66 (484)
T ss_pred CCCCHHHHHHHHHHhcCc
Confidence 599999999999987543
No 431
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=79.01 E-value=8.6 Score=30.62 Aligned_cols=97 Identities=12% Similarity=0.101 Sum_probs=51.5
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC---CCHHHHHHHHHHHhCCCCCcCCHhhhHHhHHHHccCC-cEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN---PNIKKIQGEIAFKLGLKFDEESESGRTRSPWSRLKKE-KLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~---~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~L~~k-r~LlV~ 77 (283)
|||||+++.+.+|.-.-. +.+...+||+.-.. .+.+++.-.+....|. ++--..-+.+.++. -..||
T Consensus 29 g~VGKssmiqryCkgifT-kdykktIgvdflerqi~v~~Edvr~mlWdtagq-------eEfDaItkAyyrgaqa~vLV- 99 (246)
T KOG4252|consen 29 GSVGKSSMIQRYCKGIFT-KDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQ-------EEFDAITKAYYRGAQASVLV- 99 (246)
T ss_pred CccchHHHHHHHhccccc-cccccccchhhhhHHHHhhHHHHHHHHHHhccc-------hhHHHHHHHHhccccceEEE-
Confidence 799999999999875432 23556788865432 2223322222222111 11111222333343 33333
Q ss_pred CeecCC--CCCCCcchHHHHHHHHHhcCCchHHHHH
Q 041028 78 GKKMEG--DYAEGSELKWLAMDVAKECAGLPVSIVT 111 (283)
Q Consensus 78 G~~~~~--~~~~~~~~~~~~~~i~~~c~glPLal~~ 111 (283)
|. +...-....++-++|.+.|+.+|+.+..
T Consensus 100 ----FSTTDr~SFea~~~w~~kv~~e~~~IPtV~vq 131 (246)
T KOG4252|consen 100 ----FSTTDRYSFEATLEWYNKVQKETERIPTVFVQ 131 (246)
T ss_pred ----EecccHHHHHHHHHHHHHHHHHhccCCeEEee
Confidence 11 1222334566778999999999987765
No 432
>cd04120 Rab12 Rab12 subfamily. Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. 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. 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
Probab=78.97 E-value=1.3 Score=36.16 Aligned_cols=15 Identities=33% Similarity=0.663 Sum_probs=13.0
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|||||+|...+.+.
T Consensus 9 ~gVGKTSli~r~~~~ 23 (202)
T cd04120 9 RGVGKTSLMRRFTDD 23 (202)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998764
No 433
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=78.94 E-value=1.3 Score=41.96 Aligned_cols=19 Identities=53% Similarity=0.583 Sum_probs=17.1
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|.|||-||++|+|.....
T Consensus 554 PGCGKTLlAKAVANEag~N 572 (802)
T KOG0733|consen 554 PGCGKTLLAKAVANEAGAN 572 (802)
T ss_pred CCccHHHHHHHHhhhccCc
Confidence 6999999999999988755
No 434
>PHA03133 thymidine kinase; Provisional
Probab=78.94 E-value=2.1 Score=37.93 Aligned_cols=16 Identities=44% Similarity=0.538 Sum_probs=13.2
Q ss_pred CCcHHHHHHHHHhhhc
Q 041028 3 GIGKTTLAKEVARKAK 18 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~ 18 (283)
||||||+++.+.....
T Consensus 50 GvGKTTt~~~l~~a~~ 65 (368)
T PHA03133 50 GLGKTTTAAALAAALG 65 (368)
T ss_pred cCCHHHHHHHHHHhhC
Confidence 9999999988777544
No 435
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=78.86 E-value=1.3 Score=34.83 Aligned_cols=15 Identities=27% Similarity=0.680 Sum_probs=12.5
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+...
T Consensus 11 ~~vGKTsL~~~~~~~ 25 (172)
T cd04141 11 GGVGKSAVTMQFISH 25 (172)
T ss_pred CCCcHHHHHHHHHhC
Confidence 699999999887653
No 436
>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=78.81 E-value=1.3 Score=33.81 Aligned_cols=16 Identities=31% Similarity=0.515 Sum_probs=13.6
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||...+.+..
T Consensus 9 ~~~GKStli~~l~~~~ 24 (162)
T cd04123 9 GRVGKTSLVLRYVENK 24 (162)
T ss_pred CCCCHHHHHHHHHhCC
Confidence 6999999999988753
No 437
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=78.80 E-value=10 Score=32.46 Aligned_cols=74 Identities=18% Similarity=0.182 Sum_probs=39.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCCCCc-CCHhhhHHhHHHHc--cCCcEEEEc
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNP-NIKKIQGEIAFKLGLKFDE-ESESGRTRSPWSRL--KKEKLQIIC 77 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~-~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~L--~~kr~LlV~ 77 (283)
+|+||||++..+......+. ..+.+++..... ...+-++.....++.+... .+..+..+.+...- .+..++||+
T Consensus 84 ~g~GKTtl~~~l~~~l~~~~--~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViID 161 (270)
T PRK06731 84 TGVGKTTTLAKMAWQFHGKK--KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILID 161 (270)
T ss_pred CCCcHHHHHHHHHHHHHHcC--CeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEE
Confidence 69999999999877654321 245566654321 2333334444555544322 34444444343321 245788883
No 438
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=78.74 E-value=2 Score=36.52 Aligned_cols=47 Identities=21% Similarity=0.241 Sum_probs=27.7
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCC-----CCCHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQ-----NPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~-----~~~~~~l~~~i~~~l~~~ 51 (283)
.|.|||||++.+..-.... .+.++..-.+ .....+...+++..+|.+
T Consensus 48 SG~GKSTlgr~i~~L~~pt---~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~ 99 (268)
T COG4608 48 SGCGKSTLGRLILGLEEPT---SGEILFEGKDITKLSKEERRERVLELLEKVGLP 99 (268)
T ss_pred CCCCHHHHHHHHHcCcCCC---CceEEEcCcchhhcchhHHHHHHHHHHHHhCCC
Confidence 6999999999998765432 3334332111 122334456666776654
No 439
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=78.69 E-value=3.9 Score=34.12 Aligned_cols=47 Identities=17% Similarity=0.155 Sum_probs=27.0
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCC-CHHHHHHHHHHHhCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNP-NIKKIQGEIAFKLGLK 51 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~-~~~~l~~~i~~~l~~~ 51 (283)
.|.|||||-+.+..-.... .+.+.+.-.+.. -...-++++-+++|.-
T Consensus 39 SGaGKSTLLR~lngl~d~t---~G~i~~~g~~i~~~~~k~lr~~r~~iGmI 86 (258)
T COG3638 39 SGAGKSTLLRSLNGLVDPT---SGEILFNGVQITKLKGKELRKLRRDIGMI 86 (258)
T ss_pred CCCcHHHHHHHHhcccCCC---cceEEecccchhccchHHHHHHHHhceeE
Confidence 6999999999998743322 344444332222 2234455555665543
No 440
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=78.65 E-value=2.6 Score=39.30 Aligned_cols=44 Identities=18% Similarity=0.319 Sum_probs=28.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGL 50 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~ 50 (283)
+|+|||||+.++......+ =..+++++..+. ..++.+. ++.+|.
T Consensus 272 ~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eEs--~~~i~~~-~~~lg~ 315 (484)
T TIGR02655 272 TGTGKTLLVSKFLENACAN--KERAILFAYEES--RAQLLRN-AYSWGI 315 (484)
T ss_pred CCCCHHHHHHHHHHHHHHC--CCeEEEEEeeCC--HHHHHHH-HHHcCC
Confidence 6999999999988876433 245677776554 3344444 245553
No 441
>PLN02796 D-glycerate 3-kinase
Probab=78.62 E-value=4.5 Score=35.84 Aligned_cols=18 Identities=33% Similarity=0.303 Sum_probs=15.4
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
.|+|||||++.+......
T Consensus 109 sGSGKSTLa~~L~~lL~~ 126 (347)
T PLN02796 109 QGCGKTTLVFALVYLFNA 126 (347)
T ss_pred CCCcHHHHHHHHHHHhcc
Confidence 599999999999987653
No 442
>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=78.58 E-value=1.4 Score=36.06 Aligned_cols=14 Identities=43% Similarity=0.655 Sum_probs=12.7
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
+|+|||+||+.+..
T Consensus 31 pGtGKTmlA~~l~~ 44 (206)
T PF01078_consen 31 PGTGKTMLARRLPS 44 (206)
T ss_dssp CCCTHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHH
Confidence 69999999999875
No 443
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. 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 featu
Probab=78.54 E-value=1.4 Score=34.24 Aligned_cols=17 Identities=29% Similarity=0.681 Sum_probs=14.0
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+|||||.+.+.+..
T Consensus 9 ~~~~GKTsli~~~~~~~ 25 (168)
T cd04177 9 AGGVGKSALTVQFVQNV 25 (168)
T ss_pred CCCCCHHHHHHHHHhCC
Confidence 37999999999987653
No 444
>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=78.49 E-value=1.3 Score=36.21 Aligned_cols=25 Identities=24% Similarity=0.207 Sum_probs=18.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
.|.|||||++.++.-... ..+.+++
T Consensus 39 nGsGKSTLl~~i~Gl~~~---~~G~i~~ 63 (218)
T cd03255 39 SGSGKSTLLNILGGLDRP---TSGEVRV 63 (218)
T ss_pred CCCCHHHHHHHHhCCcCC---CceeEEE
Confidence 599999999999876432 3455554
No 445
>cd04135 Tc10 TC10 subfamily. TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=78.37 E-value=1.3 Score=34.46 Aligned_cols=15 Identities=40% Similarity=0.572 Sum_probs=12.9
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 9 ~~~GKTsl~~~~~~~ 23 (174)
T cd04135 9 GAVGKTCLLMSYAND 23 (174)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999888764
No 446
>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=78.35 E-value=1.4 Score=41.29 Aligned_cols=18 Identities=44% Similarity=0.530 Sum_probs=15.8
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||++|+++++....
T Consensus 225 PGTGKT~LAKAlA~eL~~ 242 (512)
T TIGR03689 225 PGCGKTLIAKAVANSLAQ 242 (512)
T ss_pred CCCcHHHHHHHHHHhhcc
Confidence 699999999999998653
No 447
>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. 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 re
Probab=78.25 E-value=1.3 Score=34.71 Aligned_cols=15 Identities=27% Similarity=0.426 Sum_probs=13.4
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||+|.+.+.+.
T Consensus 9 ~~vGKTsli~~~~~~ 23 (170)
T cd04108 9 LSVGKTCLINRFCKD 23 (170)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998875
No 448
>PHA03134 thymidine kinase; Provisional
Probab=78.24 E-value=1.4 Score=38.76 Aligned_cols=14 Identities=43% Similarity=0.662 Sum_probs=12.2
Q ss_pred CCcHHHHHHHHHhh
Q 041028 3 GIGKTTLAKEVARK 16 (283)
Q Consensus 3 GiGKTtLA~~v~~~ 16 (283)
||||||+++.+...
T Consensus 23 GvGKTT~~~~l~~~ 36 (340)
T PHA03134 23 GIGKSTTGRVMASA 36 (340)
T ss_pred cCCHHHHHHHHHHh
Confidence 99999999888764
No 449
>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=78.19 E-value=1.4 Score=35.91 Aligned_cols=25 Identities=24% Similarity=0.227 Sum_probs=17.9
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
.|.|||||++.++..... ..+.+++
T Consensus 36 nGsGKSTLl~~l~G~~~~---~~G~i~~ 60 (211)
T cd03225 36 NGSGKSTLLRLLNGLLGP---TSGEVLV 60 (211)
T ss_pred CCCCHHHHHHHHhcCCCC---CCceEEE
Confidence 599999999999875432 3455544
No 450
>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=78.12 E-value=1.3 Score=33.25 Aligned_cols=25 Identities=28% Similarity=0.283 Sum_probs=18.3
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
.|+|||||.+.++..... ..+.+++
T Consensus 20 nGsGKStLl~~l~g~~~~---~~G~i~~ 44 (137)
T PF00005_consen 20 NGSGKSTLLKALAGLLPP---DSGSILI 44 (137)
T ss_dssp TTSSHHHHHHHHTTSSHE---SEEEEEE
T ss_pred CCCccccceeeecccccc---ccccccc
Confidence 599999999999876543 3455554
No 451
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=78.10 E-value=1.4 Score=33.78 Aligned_cols=15 Identities=33% Similarity=0.740 Sum_probs=12.7
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 11 ~~~GKtsl~~~~~~~ 25 (164)
T cd04145 11 GGVGKSALTIQFIQS 25 (164)
T ss_pred CCCcHHHHHHHHHhC
Confidence 699999999987654
No 452
>PF13479 AAA_24: AAA domain
Probab=78.09 E-value=1 Score=36.97 Aligned_cols=23 Identities=35% Similarity=0.528 Sum_probs=17.2
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCC
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQN 34 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~ 34 (283)
+|+||||+|..+ +..++++....
T Consensus 12 ~G~GKTt~a~~~----------~k~l~id~E~g 34 (213)
T PF13479_consen 12 PGSGKTTLAASL----------PKPLFIDTENG 34 (213)
T ss_pred CCCCHHHHHHhC----------CCeEEEEeCCC
Confidence 699999999875 45566666555
No 453
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=78.08 E-value=1.4 Score=33.80 Aligned_cols=17 Identities=29% Similarity=0.438 Sum_probs=14.4
Q ss_pred CCCCcHHHHHHHHHhhh
Q 041028 1 MGGIGKTTLAKEVARKA 17 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~ 17 (283)
.+|+|||||...+.+..
T Consensus 7 ~~~~GKssli~~~~~~~ 23 (158)
T cd00878 7 LDGAGKTTILYKLKLGE 23 (158)
T ss_pred CCCCCHHHHHHHHhcCC
Confidence 36999999999998764
No 454
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. 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 facilita
Probab=78.07 E-value=1.4 Score=35.15 Aligned_cols=15 Identities=27% Similarity=0.499 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.++
T Consensus 9 ~~vGKSsLi~~~~~~ 23 (193)
T cd04118 9 ESVGKTSLVERYVHH 23 (193)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998865
No 455
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=78.07 E-value=1.3 Score=34.61 Aligned_cols=15 Identities=33% Similarity=0.457 Sum_probs=13.1
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 8 ~~~GKTsl~~~l~~~ 22 (167)
T cd04161 8 DNAGKTTLVSALQGE 22 (167)
T ss_pred CCCCHHHHHHHHhCC
Confidence 699999999998765
No 456
>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=78.06 E-value=2.2 Score=37.27 Aligned_cols=49 Identities=12% Similarity=0.119 Sum_probs=30.1
Q ss_pred CCcHHHHHHHHHhhhccC--CCC---CeEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 041028 3 GIGKTTLAKEVARKAKNG--KLF---DQIVFTEVSQNPNIKKIQGEIAFKLGLK 51 (283)
Q Consensus 3 GiGKTtLA~~v~~~~~~~--~~F---d~~~wv~v~~~~~~~~l~~~i~~~l~~~ 51 (283)
|+||||+.+.+.+..+.. ..+ ..-.|-.-+..--...++..|..++...
T Consensus 30 GsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~~~ 83 (325)
T PF07693_consen 30 GSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLEKH 83 (325)
T ss_pred CCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHHHh
Confidence 999999999999887654 111 1223333333333566677777777543
No 457
>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=78.06 E-value=2.3 Score=33.23 Aligned_cols=19 Identities=32% Similarity=0.396 Sum_probs=15.9
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
.|+|||||+..+.......
T Consensus 10 ~gsGKTTli~~L~~~l~~~ 28 (159)
T cd03116 10 SGSGKTTLLEKLIPALSAR 28 (159)
T ss_pred CCCCHHHHHHHHHHHHHHc
Confidence 5999999999999876543
No 458
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=78.04 E-value=1.5 Score=28.29 Aligned_cols=14 Identities=36% Similarity=0.596 Sum_probs=11.3
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
.|+|||||.-++..
T Consensus 32 nGsGKSTllDAi~~ 45 (62)
T PF13555_consen 32 NGSGKSTLLDAIQT 45 (62)
T ss_pred CCCCHHHHHHHHHH
Confidence 48999999987654
No 459
>PLN02674 adenylate kinase
Probab=78.03 E-value=1.7 Score=36.63 Aligned_cols=18 Identities=22% Similarity=0.128 Sum_probs=15.6
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
.+|+||||+|+.++.+..
T Consensus 39 ~PGsGKgT~a~~La~~~~ 56 (244)
T PLN02674 39 PPGSGKGTQSPIIKDEYC 56 (244)
T ss_pred CCCCCHHHHHHHHHHHcC
Confidence 479999999999998764
No 460
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=78.03 E-value=1.3 Score=33.92 Aligned_cols=15 Identities=27% Similarity=0.379 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 8 ~~~GKTsl~~~~~~~ 22 (160)
T cd04156 8 DSAGKSTLLYKLKHA 22 (160)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999999765
No 461
>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=78.02 E-value=1.5 Score=39.84 Aligned_cols=18 Identities=44% Similarity=0.495 Sum_probs=15.3
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|+|||+||+.++.....
T Consensus 125 ~GsGKT~lAraLA~~l~~ 142 (413)
T TIGR00382 125 TGSGKTLLAQTLARILNV 142 (413)
T ss_pred CCcCHHHHHHHHHHhcCC
Confidence 599999999999976543
No 462
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.00 E-value=5 Score=37.46 Aligned_cols=15 Identities=40% Similarity=0.556 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
.|+||||+|+.++..
T Consensus 44 ~G~GKTT~ArilAk~ 58 (491)
T PRK14964 44 SGVGKTTCARIISLC 58 (491)
T ss_pred CCccHHHHHHHHHHH
Confidence 699999999999874
No 463
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=77.98 E-value=2.6 Score=34.07 Aligned_cols=26 Identities=23% Similarity=0.355 Sum_probs=20.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
+|.|||||.+.+|...+.. .+.+|+.
T Consensus 37 SGAGKSTllkLi~~~e~pt---~G~i~~~ 62 (223)
T COG2884 37 SGAGKSTLLKLIYGEERPT---RGKILVN 62 (223)
T ss_pred CCCCHHHHHHHHHhhhcCC---CceEEEC
Confidence 6999999999999976643 5677773
No 464
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. 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 t
Probab=77.88 E-value=1.4 Score=34.13 Aligned_cols=15 Identities=33% Similarity=0.550 Sum_probs=13.2
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 11 ~~vGKSsli~~~~~~ 25 (166)
T cd01869 11 SGVGKSCLLLRFADD 25 (166)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998764
No 465
>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=77.87 E-value=1.5 Score=34.80 Aligned_cols=25 Identities=24% Similarity=0.275 Sum_probs=17.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
.|.|||||++.++.... ...+.+.+
T Consensus 35 nGsGKSTLl~~l~G~~~---~~~G~i~~ 59 (178)
T cd03229 35 SGSGKSTLLRCIAGLEE---PDSGSILI 59 (178)
T ss_pred CCCCHHHHHHHHhCCCC---CCceEEEE
Confidence 59999999999987543 23455544
No 466
>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=77.87 E-value=2.1 Score=37.27 Aligned_cols=19 Identities=26% Similarity=0.433 Sum_probs=15.7
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|+|||||+..+.......
T Consensus 43 ~G~GKttl~~~l~~~~~~~ 61 (300)
T TIGR00750 43 PGAGKSTLLEALGMELRRR 61 (300)
T ss_pred CCCCHHHHHHHHHHHHHHC
Confidence 7999999999988875543
No 467
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. 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 most Ras proteins.
Probab=77.85 E-value=1.5 Score=35.14 Aligned_cols=15 Identities=40% Similarity=0.762 Sum_probs=12.8
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 8 ~~vGKTsli~~l~~~ 22 (190)
T cd04144 8 GGVGKTALTIQLCLN 22 (190)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999998753
No 468
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=77.81 E-value=1.5 Score=41.67 Aligned_cols=19 Identities=37% Similarity=0.559 Sum_probs=16.5
Q ss_pred CCCCcHHHHHHHHHhhhcc
Q 041028 1 MGGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~ 19 (283)
++|+||||+|+.++.....
T Consensus 400 l~GSGKSTia~~La~~L~~ 418 (568)
T PRK05537 400 LSGAGKSTIAKALMVKLME 418 (568)
T ss_pred CCCChHHHHHHHHHHHhhh
Confidence 5799999999999987653
No 469
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=77.79 E-value=1.6 Score=41.36 Aligned_cols=20 Identities=45% Similarity=0.519 Sum_probs=17.5
Q ss_pred CCCCcHHHHHHHHHhhhccC
Q 041028 1 MGGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~~~ 20 (283)
|.|+||||+++.+++.....
T Consensus 14 ~~GaGKttvg~~LA~~L~~~ 33 (542)
T PRK14021 14 MMGAGKTRVGKEVAQMMRLP 33 (542)
T ss_pred CCCCCHHHHHHHHHHHhCCC
Confidence 78999999999999987644
No 470
>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=77.74 E-value=1.5 Score=34.82 Aligned_cols=15 Identities=33% Similarity=0.390 Sum_probs=13.2
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 28 ~~~GKStLi~~l~~~ 42 (190)
T cd00879 28 DNAGKTTLLHMLKDD 42 (190)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998764
No 471
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=77.73 E-value=1.4 Score=37.07 Aligned_cols=19 Identities=47% Similarity=0.585 Sum_probs=16.6
Q ss_pred CCCcHHHHHHHHHhhhccC
Q 041028 2 GGIGKTTLAKEVARKAKNG 20 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~ 20 (283)
+|.|||-||++|+|+....
T Consensus 198 pg~gktml~kava~~t~a~ 216 (408)
T KOG0727|consen 198 PGTGKTMLAKAVANHTTAA 216 (408)
T ss_pred CCCcHHHHHHHHhhccchh
Confidence 6999999999999987644
No 472
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. 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 most Ras proteins. Due to
Probab=77.72 E-value=1.5 Score=34.04 Aligned_cols=15 Identities=33% Similarity=0.740 Sum_probs=12.9
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||.+.+.+.
T Consensus 10 ~~vGKTsli~~~~~~ 24 (165)
T cd04140 10 GGVGKSSLVLRFVKG 24 (165)
T ss_pred CCCCHHHHHHHHHhC
Confidence 699999999988754
No 473
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=77.68 E-value=1.5 Score=33.82 Aligned_cols=14 Identities=21% Similarity=0.373 Sum_probs=12.4
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
+|+|||+|+..+.+
T Consensus 9 ~~~GKtsl~~~l~~ 22 (164)
T cd04101 9 PAVGKTAFVQMFHS 22 (164)
T ss_pred CCCCHHHHHHHHhc
Confidence 69999999998865
No 474
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=77.65 E-value=2.7 Score=36.29 Aligned_cols=18 Identities=44% Similarity=0.529 Sum_probs=15.6
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
+|.|||||...+.+....
T Consensus 113 pGsGKTTLl~~l~~~l~~ 130 (290)
T PRK10463 113 PGSGKTTLLTETLMRLKD 130 (290)
T ss_pred CCCCHHHHHHHHHHHhcc
Confidence 699999999999987653
No 475
>PRK01184 hypothetical protein; Provisional
Probab=77.57 E-value=1.7 Score=34.60 Aligned_cols=14 Identities=50% Similarity=0.776 Sum_probs=11.0
Q ss_pred CCCCcHHHHHHHHHh
Q 041028 1 MGGIGKTTLAKEVAR 15 (283)
Q Consensus 1 mgGiGKTtLA~~v~~ 15 (283)
.+|+||||+|+ ++.
T Consensus 9 ~~GsGKsT~a~-~~~ 22 (184)
T PRK01184 9 MPGSGKGEFSK-IAR 22 (184)
T ss_pred CCCCCHHHHHH-HHH
Confidence 47999999987 444
No 476
>PLN02199 shikimate kinase
Probab=77.53 E-value=1.8 Score=37.49 Aligned_cols=18 Identities=39% Similarity=0.455 Sum_probs=15.9
Q ss_pred CCCCcHHHHHHHHHhhhc
Q 041028 1 MGGIGKTTLAKEVARKAK 18 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~~~ 18 (283)
|.|.||||+++.+++...
T Consensus 110 ~~GSGKSTVgr~LA~~Lg 127 (303)
T PLN02199 110 MMGSGKTTVGKLMSKVLG 127 (303)
T ss_pred CCCCCHHHHHHHHHHHhC
Confidence 679999999999998764
No 477
>PHA03135 thymidine kinase; Provisional
Probab=77.51 E-value=1.5 Score=38.60 Aligned_cols=14 Identities=43% Similarity=0.776 Sum_probs=12.5
Q ss_pred CCcHHHHHHHHHhh
Q 041028 3 GIGKTTLAKEVARK 16 (283)
Q Consensus 3 GiGKTtLA~~v~~~ 16 (283)
||||||+++.+...
T Consensus 20 GvGKTT~~~~l~~~ 33 (343)
T PHA03135 20 GIGKTSMLNEMPDH 33 (343)
T ss_pred CCCHHHHHHHHHHh
Confidence 99999999988764
No 478
>PHA02542 41 41 helicase; Provisional
Probab=77.44 E-value=5.1 Score=37.27 Aligned_cols=42 Identities=12% Similarity=0.042 Sum_probs=27.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHH
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFK 47 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~ 47 (283)
+|+||||+|..++.+.... =..++++++. .+..++..+++..
T Consensus 199 PgmGKTtfalniA~~~a~~--g~~Vl~fSLE--M~~~ql~~Rl~a~ 240 (473)
T PHA02542 199 VNVGKSLGLCSLAADYLQQ--GYNVLYISME--MAEEVIAKRIDAN 240 (473)
T ss_pred CCccHHHHHHHHHHHHHhc--CCcEEEEecc--CCHHHHHHHHHHH
Confidence 6999999999999776422 2356666544 3345555555543
No 479
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=77.36 E-value=1.7 Score=35.42 Aligned_cols=15 Identities=47% Similarity=0.443 Sum_probs=13.2
Q ss_pred CCCCcHHHHHHHHHh
Q 041028 1 MGGIGKTTLAKEVAR 15 (283)
Q Consensus 1 mgGiGKTtLA~~v~~ 15 (283)
|.|+||||.|+.+.+
T Consensus 10 ~igsGKStva~~~~~ 24 (201)
T COG0237 10 GIGSGKSTVAKILAE 24 (201)
T ss_pred CCCCCHHHHHHHHHH
Confidence 579999999998876
No 480
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=77.27 E-value=1.4 Score=34.29 Aligned_cols=15 Identities=33% Similarity=0.605 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 8 ~~vGKTsli~~~~~~ 22 (164)
T cd04162 8 DGAGKTSLLHSLSSE 22 (164)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998865
No 481
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=77.25 E-value=1.6 Score=33.84 Aligned_cols=14 Identities=29% Similarity=0.560 Sum_probs=11.9
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
+|+|||||...+.+
T Consensus 8 ~~~GKtsli~~~~~ 21 (165)
T cd04146 8 SGVGKSALVVRFLT 21 (165)
T ss_pred CCCcHHHHHHHHHh
Confidence 69999999988764
No 482
>cd04158 ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=77.25 E-value=1.5 Score=34.28 Aligned_cols=15 Identities=33% Similarity=0.525 Sum_probs=13.2
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 8 ~~~GKTsl~~~l~~~ 22 (169)
T cd04158 8 DGAGKTTILFKLKQD 22 (169)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998775
No 483
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=77.24 E-value=1.5 Score=35.88 Aligned_cols=25 Identities=24% Similarity=0.194 Sum_probs=18.6
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
.|.|||||++.++.-... ..+.+++
T Consensus 38 nGsGKSTLl~~l~Gl~~~---~~G~i~~ 62 (216)
T TIGR00960 38 SGAGKSTFLKLILGIEKP---TRGKIRF 62 (216)
T ss_pred CCCCHHHHHHHHhCCCCC---CceEEEE
Confidence 599999999999985432 4566655
No 484
>cd01874 Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi
Probab=77.10 E-value=1.5 Score=34.64 Aligned_cols=15 Identities=33% Similarity=0.512 Sum_probs=13.0
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||+|...+.+.
T Consensus 10 ~~vGKTsl~~~~~~~ 24 (175)
T cd01874 10 GAVGKTCLLISYTTN 24 (175)
T ss_pred CCCCHHHHHHHHHcC
Confidence 699999999998764
No 485
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=77.07 E-value=1.8 Score=35.12 Aligned_cols=17 Identities=35% Similarity=0.530 Sum_probs=14.9
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|.|||||.+.+.+...
T Consensus 10 ~GsGKTTll~~l~~~l~ 26 (199)
T TIGR00101 10 VGSGKTALIEALTRALR 26 (199)
T ss_pred CCCCHHHHHHHHHHhhC
Confidence 69999999999998754
No 486
>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=76.96 E-value=1.8 Score=33.01 Aligned_cols=16 Identities=25% Similarity=0.673 Sum_probs=13.4
Q ss_pred CCCCcHHHHHHHHHhh
Q 041028 1 MGGIGKTTLAKEVARK 16 (283)
Q Consensus 1 mgGiGKTtLA~~v~~~ 16 (283)
.+|+|||||...+.+.
T Consensus 7 ~~~~GKTsli~~l~~~ 22 (160)
T cd00876 7 AGGVGKSAITIQFVKG 22 (160)
T ss_pred CCCCCHHHHHHHHHhC
Confidence 3699999999998754
No 487
>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=76.90 E-value=1.6 Score=33.37 Aligned_cols=14 Identities=21% Similarity=0.558 Sum_probs=12.7
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
.|+|||||...+.+
T Consensus 8 ~g~GKTtL~~~l~~ 21 (170)
T cd01876 8 SNVGKSSLINALTN 21 (170)
T ss_pred CCCCHHHHHHHHhc
Confidence 69999999999993
No 488
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=76.89 E-value=1.6 Score=33.84 Aligned_cols=15 Identities=27% Similarity=0.419 Sum_probs=13.1
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||.+.+.+.
T Consensus 9 ~~~GKStl~~~l~~~ 23 (170)
T cd01898 9 PNAGKSTLLSAISNA 23 (170)
T ss_pred CCCCHHHHHHHHhcC
Confidence 599999999999754
No 489
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=76.88 E-value=1.6 Score=35.12 Aligned_cols=25 Identities=20% Similarity=0.331 Sum_probs=18.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFT 29 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv 29 (283)
.|.|||||++.++..... -.+.+++
T Consensus 35 nGsGKSTLl~~l~G~~~~---~~G~i~~ 59 (195)
T PRK13541 35 NGCGKSSLLRMIAGIMQP---SSGNIYY 59 (195)
T ss_pred CCCCHHHHHHHHhcCCCC---CCcEEEE
Confidence 599999999999886542 2455555
No 490
>PRK06749 replicative DNA helicase; Provisional
Probab=76.84 E-value=4.3 Score=37.27 Aligned_cols=43 Identities=19% Similarity=0.178 Sum_probs=29.8
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKL 48 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l 48 (283)
+|+|||++|..++.+...+ =..++|.++ ..+..++..+++...
T Consensus 195 PgmGKTafal~ia~~~a~~--g~~v~~fSl--EMs~~ql~~R~ls~~ 237 (428)
T PRK06749 195 PSMGKTAFALNVGLHAAKS--GAAVGLFSL--EMSSKQLLKRMASCV 237 (428)
T ss_pred CCCCchHHHHHHHHHHHhc--CCCEEEEEe--eCCHHHHHHHHHHhc
Confidence 7999999999998876533 124555544 446677777777764
No 491
>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=76.79 E-value=1.7 Score=34.77 Aligned_cols=17 Identities=35% Similarity=0.343 Sum_probs=14.3
Q ss_pred CCCcHHHHHHHHHhhhc
Q 041028 2 GGIGKTTLAKEVARKAK 18 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~ 18 (283)
.|.|||||++.+.....
T Consensus 34 tGSGKTTll~aL~~~i~ 50 (186)
T cd01130 34 TGSGKTTLLNALLAFIP 50 (186)
T ss_pred CCCCHHHHHHHHHhhcC
Confidence 49999999999887653
No 492
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. 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
Probab=76.72 E-value=1.6 Score=35.21 Aligned_cols=15 Identities=33% Similarity=0.601 Sum_probs=13.0
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||+..+.+.
T Consensus 15 ~~vGKTsli~~l~~~ 29 (199)
T cd04110 15 SGVGKSSLLLRFADN 29 (199)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999998764
No 493
>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=76.71 E-value=1.6 Score=35.48 Aligned_cols=26 Identities=23% Similarity=0.148 Sum_probs=19.4
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEE
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTE 30 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~ 30 (283)
.|.|||||++.+..... ...+.+++.
T Consensus 35 nGsGKSTLl~~l~G~~~---~~~G~i~~~ 60 (210)
T cd03269 35 NGAGKTTTIRMILGIIL---PDSGEVLFD 60 (210)
T ss_pred CCCCHHHHHHHHhCCCC---CCceEEEEC
Confidence 59999999999997543 245666653
No 494
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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 promot
Probab=76.68 E-value=1.6 Score=33.91 Aligned_cols=16 Identities=25% Similarity=0.380 Sum_probs=13.7
Q ss_pred CCCcHHHHHHHHHhhh
Q 041028 2 GGIGKTTLAKEVARKA 17 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~ 17 (283)
+|+|||||...+.+..
T Consensus 10 ~~~GKSsli~~l~~~~ 25 (165)
T cd01865 10 SSVGKTSFLFRYADDS 25 (165)
T ss_pred CCCCHHHHHHHHhcCC
Confidence 6999999999987653
No 495
>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=76.66 E-value=1.5 Score=33.15 Aligned_cols=15 Identities=40% Similarity=0.419 Sum_probs=13.4
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
.|+|||||.+.+...
T Consensus 8 ~~~GKssl~~~l~~~ 22 (159)
T cd04159 8 QNSGKTTLVNVIAGG 22 (159)
T ss_pred CCCCHHHHHHHHccC
Confidence 599999999999875
No 496
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=76.59 E-value=1.6 Score=33.59 Aligned_cols=15 Identities=33% Similarity=0.705 Sum_probs=12.6
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 10 ~~vGKTsl~~~~~~~ 24 (163)
T cd04176 10 GGVGKSALTVQFVSG 24 (163)
T ss_pred CCCCHHHHHHHHHcC
Confidence 699999999877764
No 497
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=76.59 E-value=1.6 Score=34.72 Aligned_cols=70 Identities=19% Similarity=0.112 Sum_probs=35.1
Q ss_pred CCCcHHHHHHHHHhhhccCCCCCeEEEEEeCCCCCHHHHHHHHHHHhCCCCC----c---CC-HhhhHHhHHHHccCC--
Q 041028 2 GGIGKTTLAKEVARKAKNGKLFDQIVFTEVSQNPNIKKIQGEIAFKLGLKFD----E---ES-ESGRTRSPWSRLKKE-- 71 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~~~~Fd~~~wv~v~~~~~~~~l~~~i~~~l~~~~~----~---~~-~~~~~~~l~~~L~~k-- 71 (283)
-|.|||||.+++.. ...+ .....+ +-..+.-..+=.++++.-+.... + .+ ..+....+.+.+...
T Consensus 9 LGsGKTTli~~ll~-~~~~-~~~~~v---I~ne~g~~~iD~~~l~~~~~~v~~l~~gcicc~~~~~~~~~l~~l~~~~~~ 83 (178)
T PF02492_consen 9 LGSGKTTLINHLLK-RNRQ-GERVAV---IVNEFGEVNIDAELLQEDGVPVVELNNGCICCTLRDDLVEALRRLLREYEE 83 (178)
T ss_dssp TTSSHHHHHHHHHH-HHTT-TS-EEE---EECSTTSTHHHHHHHHTTT-EEEEECTTTESS-TTS-HHHHHHHHCCCCHG
T ss_pred CCCCHHHHHHHHHH-HhcC-CceeEE---EEccccccccchhhhcccceEEEEecCCCcccccHHHHHHHHHHHHHhcCC
Confidence 49999999999996 2211 122222 22233334455555555443210 0 01 234556666666554
Q ss_pred --cEEEE
Q 041028 72 --KLQII 76 (283)
Q Consensus 72 --r~LlV 76 (283)
.+++|
T Consensus 84 ~~d~IiI 90 (178)
T PF02492_consen 84 RPDRIII 90 (178)
T ss_dssp C-SEEEE
T ss_pred CcCEEEE
Confidence 66777
No 498
>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]
Probab=76.59 E-value=1.6 Score=37.19 Aligned_cols=18 Identities=33% Similarity=0.604 Sum_probs=15.2
Q ss_pred CCCcHHHHHHHHHhhhcc
Q 041028 2 GGIGKTTLAKEVARKAKN 19 (283)
Q Consensus 2 gGiGKTtLA~~v~~~~~~ 19 (283)
|||||||.+..++.....
T Consensus 57 GGVGKSTvt~nla~~La~ 74 (300)
T KOG3022|consen 57 GGVGKSTVTVNLALALAS 74 (300)
T ss_pred CCCchhHHHHHHHHHHhc
Confidence 899999999998877553
No 499
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=76.58 E-value=1.6 Score=33.76 Aligned_cols=14 Identities=29% Similarity=0.347 Sum_probs=12.2
Q ss_pred CCCcHHHHHHHHHh
Q 041028 2 GGIGKTTLAKEVAR 15 (283)
Q Consensus 2 gGiGKTtLA~~v~~ 15 (283)
+|+|||||...+..
T Consensus 9 ~~~GKTsli~~l~~ 22 (159)
T cd04150 9 DAAGKTTILYKLKL 22 (159)
T ss_pred CCCCHHHHHHHHhc
Confidence 69999999999854
No 500
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. 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
Probab=76.53 E-value=1.7 Score=33.65 Aligned_cols=15 Identities=33% Similarity=0.523 Sum_probs=12.7
Q ss_pred CCCcHHHHHHHHHhh
Q 041028 2 GGIGKTTLAKEVARK 16 (283)
Q Consensus 2 gGiGKTtLA~~v~~~ 16 (283)
+|+|||||...+.+.
T Consensus 9 ~~~GKTsli~~~~~~ 23 (161)
T cd04117 9 SGVGKTCLLCRFTDN 23 (161)
T ss_pred CCCCHHHHHHHHhcC
Confidence 699999999887654
Done!