Query psy2008
Match_columns 311
No_of_seqs 137 out of 1324
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 21:51:14 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2008.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2008hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02374 ArsA_ATPase: Anion-tr 100.0 1.1E-65 2.3E-70 481.4 25.5 286 2-297 20-305 (305)
2 KOG2825|consensus 100.0 2.8E-60 6.1E-65 420.2 25.0 285 2-296 38-322 (323)
3 TIGR00345 arsA arsenite-activa 100.0 1.3E-56 2.8E-61 416.6 31.0 278 3-295 5-284 (284)
4 COG0003 ArsA Predicted ATPase 100.0 6.5E-57 1.4E-61 422.1 27.8 287 4-303 23-310 (322)
5 cd00550 ArsA_ATPase Oxyanion-t 100.0 6.6E-45 1.4E-49 333.1 25.0 234 3-292 20-253 (254)
6 cd02035 ArsA ArsA ATPase funct 99.9 1.8E-24 3.9E-29 193.6 16.7 196 3-274 19-216 (217)
7 cd02037 MRP-like MRP (Multiple 99.2 9.6E-11 2.1E-15 100.5 11.0 74 197-277 93-167 (169)
8 PRK11670 antiporter inner memb 98.7 2.1E-07 4.5E-12 89.9 13.1 42 197-238 241-282 (369)
9 CHL00175 minD septum-site dete 98.6 1.1E-06 2.3E-11 81.5 14.8 42 197-238 150-191 (281)
10 COG0489 Mrp ATPases involved i 98.5 1.2E-06 2.5E-11 81.0 12.5 154 2-239 77-233 (265)
11 PRK13869 plasmid-partitioning 98.5 3.5E-06 7.6E-11 82.4 16.3 30 3-32 142-171 (405)
12 cd02117 NifH_like This family 98.4 2.7E-06 5.9E-11 75.6 12.1 64 197-276 143-210 (212)
13 cd02036 MinD Bacterial cell di 98.4 7.7E-06 1.7E-10 69.8 13.5 41 198-238 87-127 (179)
14 TIGR03029 EpsG chain length de 98.4 1.5E-06 3.3E-11 80.1 9.7 37 198-234 238-274 (274)
15 TIGR03371 cellulose_yhjQ cellu 98.4 6.7E-06 1.5E-10 74.1 13.6 30 3-32 22-51 (246)
16 TIGR01007 eps_fam capsular exo 98.4 1.8E-06 4E-11 76.1 9.1 41 198-238 153-193 (204)
17 TIGR01969 minD_arch cell divis 98.3 2.4E-05 5.1E-10 70.6 15.4 41 197-237 132-172 (251)
18 PF10609 ParA: ParA/MinD ATPas 98.3 6.9E-07 1.5E-11 67.4 3.5 42 197-238 26-67 (81)
19 TIGR01005 eps_transp_fam exopo 98.3 4.3E-06 9.4E-11 87.8 10.7 41 198-238 681-721 (754)
20 PRK13232 nifH nitrogenase redu 98.2 1.3E-05 2.8E-10 74.0 12.0 39 197-235 143-184 (273)
21 PRK09841 cryptic autophosphory 98.2 4.3E-06 9.2E-11 87.6 9.8 40 198-237 666-705 (726)
22 TIGR01968 minD_bact septum sit 98.2 8.3E-06 1.8E-10 73.9 10.5 41 198-238 136-176 (261)
23 COG0455 flhG Antiactivator of 98.2 3.3E-05 7.1E-10 71.2 14.1 41 197-237 136-178 (262)
24 PRK13235 nifH nitrogenase redu 98.2 3.2E-06 6.9E-11 78.1 7.4 28 3-30 21-48 (274)
25 PRK11519 tyrosine kinase; Prov 98.2 8.9E-06 1.9E-10 85.1 11.5 40 198-237 661-700 (719)
26 TIGR03453 partition_RepA plasm 98.2 2.4E-05 5.3E-10 75.9 13.4 30 3-32 125-154 (387)
27 PHA02519 plasmid partition pro 98.2 1.5E-05 3.2E-10 77.5 11.6 30 3-32 127-157 (387)
28 PRK13705 plasmid-partitioning 98.2 1.6E-05 3.5E-10 77.4 11.7 30 3-32 127-157 (388)
29 PRK13233 nifH nitrogenase redu 98.2 1.5E-05 3.3E-10 73.5 10.7 39 197-235 145-187 (275)
30 PF01656 CbiA: CobQ/CobB/MinD/ 98.1 3.6E-05 7.7E-10 66.5 11.9 42 197-238 118-161 (195)
31 CHL00072 chlL photochlorophyll 98.1 1.5E-05 3.3E-10 74.5 10.0 40 197-236 140-183 (290)
32 cd02040 NifH NifH gene encodes 98.1 4E-05 8.7E-10 70.1 12.3 39 197-235 143-185 (270)
33 KOG3022|consensus 98.1 4.1E-05 8.9E-10 70.2 11.5 147 4-239 69-225 (300)
34 PRK10818 cell division inhibit 98.1 0.00013 2.9E-09 66.9 15.0 30 3-32 23-53 (270)
35 TIGR01281 DPOR_bchL light-inde 98.1 5E-06 1.1E-10 76.4 5.5 28 3-30 20-47 (268)
36 PRK13230 nitrogenase reductase 98.1 2.7E-05 5.9E-10 72.1 10.4 28 3-30 21-48 (279)
37 PHA02518 ParA-like protein; Pr 98.1 0.00017 3.6E-09 63.3 14.9 29 3-31 21-49 (211)
38 cd02032 Bchl_like This family 98.1 9.7E-06 2.1E-10 74.5 7.3 29 3-31 20-48 (267)
39 TIGR03018 pepcterm_TyrKin exop 98.1 1.2E-05 2.6E-10 71.3 7.4 34 198-233 174-207 (207)
40 cd02033 BchX Chlorophyllide re 98.1 1.8E-05 3.9E-10 75.3 8.9 40 198-237 175-219 (329)
41 PRK13185 chlL protochlorophyll 98.0 1.4E-05 3E-10 73.5 6.9 30 2-31 21-50 (270)
42 TIGR01287 nifH nitrogenase iro 98.0 9.6E-05 2.1E-09 68.2 12.2 39 197-235 142-184 (275)
43 COG1192 Soj ATPases involved i 98.0 0.00038 8.2E-09 63.5 15.7 31 3-33 23-54 (259)
44 PRK13234 nifH nitrogenase redu 97.9 1.8E-05 3.9E-10 74.1 6.8 40 197-236 146-189 (295)
45 PRK13849 putative crown gall t 97.9 9.8E-05 2.1E-09 66.9 11.3 30 2-31 21-50 (231)
46 PRK13236 nitrogenase reductase 97.9 4.1E-05 8.8E-10 71.8 8.7 39 197-235 148-190 (296)
47 COG3640 CooC CO dehydrogenase 97.8 0.00031 6.8E-09 63.2 11.2 41 198-238 158-198 (255)
48 TIGR02016 BchX chlorophyllide 97.7 0.00024 5.3E-09 66.6 10.3 40 198-237 150-194 (296)
49 TIGR03815 CpaE_hom_Actino heli 97.7 0.0003 6.4E-09 66.6 10.1 39 197-236 228-266 (322)
50 cd03111 CpaE_like This protein 97.6 0.00051 1.1E-08 54.4 9.4 37 198-234 67-106 (106)
51 PRK10037 cell division protein 97.6 4.6E-05 9.9E-10 69.5 3.0 31 2-32 21-51 (250)
52 cd03110 Fer4_NifH_child This p 97.4 0.0035 7.7E-08 53.7 12.4 40 198-238 117-156 (179)
53 PRK00090 bioD dithiobiotin syn 97.3 0.003 6.6E-08 56.2 11.2 70 197-280 134-204 (222)
54 PRK13231 nitrogenase reductase 97.3 0.00033 7.2E-09 64.2 4.8 39 197-235 140-178 (264)
55 cd02038 FleN-like FleN is a me 97.2 0.012 2.5E-07 48.8 13.2 41 198-238 69-110 (139)
56 cd02042 ParA ParA and ParB of 97.0 0.0058 1.3E-07 47.5 9.1 37 197-233 63-104 (104)
57 PF06564 YhjQ: YhjQ protein; 96.7 0.003 6.5E-08 57.6 5.7 104 3-125 22-128 (243)
58 TIGR00347 bioD dethiobiotin sy 96.5 0.013 2.7E-07 49.7 7.9 37 197-233 130-166 (166)
59 TIGR00064 ftsY signal recognit 96.4 0.055 1.2E-06 50.2 12.2 63 197-279 192-254 (272)
60 COG2894 MinD Septum formation 96.3 0.0052 1.1E-07 55.1 4.2 41 198-238 138-185 (272)
61 PRK10867 signal recognition pa 95.9 0.071 1.5E-06 52.7 10.9 22 106-127 175-196 (433)
62 PRK10416 signal recognition pa 95.5 0.18 3.9E-06 47.9 11.4 17 111-127 193-209 (318)
63 COG1149 MinD superfamily P-loo 95.4 0.093 2E-06 48.5 8.5 38 198-236 188-225 (284)
64 PF07015 VirC1: VirC1 protein; 94.3 0.085 1.8E-06 47.7 5.5 26 3-28 22-47 (231)
65 PF13614 AAA_31: AAA domain; P 93.2 0.084 1.8E-06 43.8 3.1 30 3-32 21-51 (157)
66 PRK13886 conjugal transfer pro 93.1 0.26 5.7E-06 44.9 6.4 97 2-120 22-119 (241)
67 TIGR01425 SRP54_euk signal rec 92.9 0.55 1.2E-05 46.4 8.9 21 3-23 120-140 (429)
68 cd03109 DTBS Dethiobiotin synt 92.8 0.64 1.4E-05 38.1 7.9 42 197-238 69-110 (134)
69 PF13500 AAA_26: AAA domain; P 92.2 0.4 8.7E-06 41.8 6.3 63 197-279 130-193 (199)
70 cd03115 SRP The signal recogni 92.2 1.8 3.8E-05 36.7 10.1 39 197-238 114-152 (173)
71 cd03114 ArgK-like The function 92.0 0.57 1.2E-05 39.3 6.8 21 4-24 20-40 (148)
72 PRK05632 phosphate acetyltrans 90.6 1.1 2.3E-05 47.1 8.5 41 197-237 107-154 (684)
73 cd02034 CooC The accessory pro 90.4 0.55 1.2E-05 37.7 4.9 26 102-127 74-99 (116)
74 PF09140 MipZ: ATPase MipZ; I 90.2 0.21 4.6E-06 45.7 2.5 29 3-31 21-50 (261)
75 PRK12726 flagellar biosynthesi 89.6 5.2 0.00011 39.1 11.7 37 198-237 318-354 (407)
76 TIGR00959 ffh signal recogniti 88.1 3.8 8.3E-05 40.5 9.9 23 105-127 173-195 (428)
77 COG4963 CpaE Flp pilus assembl 87.5 3 6.4E-05 40.3 8.3 43 197-239 241-285 (366)
78 cd03113 CTGs CTP synthetase (C 86.4 1.6 3.5E-05 39.9 5.6 61 166-234 145-211 (255)
79 TIGR00750 lao LAO/AO transport 85.3 3.6 7.7E-05 38.5 7.7 26 104-129 116-141 (300)
80 TIGR00313 cobQ cobyric acid sy 84.0 9.1 0.0002 38.4 10.3 41 197-237 155-197 (475)
81 PRK12374 putative dithiobiotin 83.4 6.7 0.00015 35.1 8.3 43 196-238 135-177 (231)
82 PF00142 Fer4_NifH: 4Fe-4S iro 82.8 3.4 7.4E-05 38.3 6.1 85 197-299 143-249 (273)
83 PRK13768 GTPase; Provisional 79.3 16 0.00035 33.2 9.5 20 4-23 23-42 (253)
84 PLN02974 adenosylmethionine-8- 79.3 5.7 0.00012 42.6 7.2 69 197-284 215-283 (817)
85 PRK00771 signal recognition pa 77.6 18 0.00038 36.0 9.7 14 114-127 175-188 (437)
86 PRK14974 cell division protein 74.0 22 0.00049 34.0 9.1 23 105-127 213-235 (336)
87 PRK00784 cobyric acid synthase 74.0 27 0.00059 35.1 10.1 41 197-237 158-200 (488)
88 PRK06731 flhF flagellar biosyn 73.7 19 0.00041 33.4 8.3 69 198-286 187-255 (270)
89 COG0541 Ffh Signal recognition 66.9 27 0.00058 34.7 7.9 41 192-237 211-251 (451)
90 PRK11889 flhF flagellar biosyn 66.4 39 0.00085 33.4 9.0 79 198-296 353-433 (436)
91 PRK06278 cobyrinic acid a,c-di 65.2 27 0.00059 35.1 7.9 41 197-237 351-395 (476)
92 COG0132 BioD Dethiobiotin synt 65.0 13 0.00029 33.5 5.1 42 198-239 138-179 (223)
93 COG2229 Predicted GTPase [Gene 64.9 69 0.0015 28.1 9.3 52 182-235 79-131 (187)
94 PRK12724 flagellar biosynthesi 63.9 1.6E+02 0.0035 29.3 14.6 83 197-299 334-418 (432)
95 PF00448 SRP54: SRP54-type pro 62.5 41 0.00089 29.4 7.8 21 3-23 21-41 (196)
96 PRK05703 flhF flagellar biosyn 61.1 1.6E+02 0.0034 29.2 12.3 84 198-301 333-418 (424)
97 PF00009 GTP_EFTU: Elongation 61.1 96 0.0021 26.3 9.8 37 198-235 96-132 (188)
98 PRK12727 flagellar biosynthesi 61.0 50 0.0011 33.9 8.8 27 209-237 470-496 (559)
99 cd01894 EngA1 EngA1 subfamily. 59.9 54 0.0012 26.1 7.6 38 198-236 79-116 (157)
100 COG1703 ArgK Putative periplas 58.4 22 0.00049 33.6 5.5 21 6-26 74-94 (323)
101 COG1348 NifH Nitrogenase subun 57.6 41 0.00089 30.8 6.8 40 197-236 144-187 (278)
102 PF02421 FeoB_N: Ferrous iron 56.8 43 0.00094 28.4 6.6 75 197-290 80-154 (156)
103 COG1797 CobB Cobyrinic acid a, 56.0 71 0.0015 31.8 8.7 47 186-237 105-153 (451)
104 cd04165 GTPBP1_like GTPBP1-lik 54.5 1.6E+02 0.0034 26.2 11.7 38 198-236 112-149 (224)
105 cd04170 EF-G_bact Elongation f 53.9 58 0.0013 29.6 7.5 56 198-267 90-145 (268)
106 KOG1534|consensus 49.9 1.6E+02 0.0035 26.8 9.2 164 44-225 32-225 (273)
107 TIGR02836 spore_IV_A stage IV 47.8 1.2E+02 0.0026 30.4 8.8 49 188-238 138-193 (492)
108 PRK12740 elongation factor G; 45.2 2.1E+02 0.0045 29.8 10.9 39 198-237 86-124 (668)
109 PF09477 Type_III_YscG: Bacter 44.9 24 0.00052 28.3 2.9 34 85-118 26-59 (116)
110 PTZ00327 eukaryotic translatio 43.3 3E+02 0.0064 27.6 11.1 85 199-293 144-229 (460)
111 cd01025 TOPRIM_recR TOPRIM_rec 42.2 78 0.0017 25.4 5.6 46 186-231 47-92 (112)
112 PRK10512 selenocysteinyl-tRNA- 41.2 3.3E+02 0.0072 28.3 11.5 88 198-299 77-168 (614)
113 PF06418 CTP_synth_N: CTP synt 41.2 64 0.0014 30.0 5.5 59 166-232 146-210 (276)
114 cd04168 TetM_like Tet(M)-like 40.6 1.5E+02 0.0032 26.6 7.9 55 199-267 91-145 (237)
115 PRK00089 era GTPase Era; Revie 39.1 3E+02 0.0066 25.1 15.0 84 198-296 87-170 (292)
116 PRK05986 cob(I)alamin adenolsy 37.1 33 0.00071 30.2 2.9 36 102-137 103-138 (191)
117 PF05763 DUF835: Protein of un 35.6 2.1E+02 0.0046 23.5 7.4 72 102-219 63-134 (136)
118 PRK05380 pyrG CTP synthetase; 35.5 42 0.00091 34.2 3.7 59 166-232 145-209 (533)
119 PF15161 Neuropep_like: Neurop 35.4 22 0.00047 24.9 1.2 34 184-217 22-55 (65)
120 COG0504 PyrG CTP synthase (UTP 35.2 64 0.0014 32.6 4.8 59 167-233 146-210 (533)
121 PRK14723 flhF flagellar biosyn 34.8 2.4E+02 0.0052 30.3 9.3 15 113-127 262-276 (767)
122 cd01886 EF-G Elongation factor 34.7 2.2E+02 0.0048 26.1 8.2 39 198-237 90-128 (270)
123 PF02572 CobA_CobO_BtuR: ATP:c 34.1 34 0.00074 29.5 2.5 32 102-133 84-115 (172)
124 PRK07414 cob(I)yrinic acid a,c 33.8 40 0.00087 29.3 2.9 37 102-138 103-139 (178)
125 PRK09435 membrane ATPase/prote 32.0 42 0.0009 32.1 3.0 27 103-129 137-163 (332)
126 COG1252 Ndh NADH dehydrogenase 32.0 2.8E+02 0.006 27.4 8.7 109 113-227 98-226 (405)
127 PF13167 GTP-bdg_N: GTP-bindin 31.9 74 0.0016 24.7 3.8 28 105-132 48-75 (95)
128 TIGR00337 PyrG CTP synthase. C 31.1 86 0.0019 32.0 5.1 59 166-232 146-210 (525)
129 cd01850 CDC_Septin CDC/Septin. 31.0 4.2E+02 0.0092 24.3 10.2 16 115-130 63-78 (276)
130 PF10672 Methyltrans_SAM: S-ad 30.9 39 0.00086 31.6 2.5 16 111-126 192-207 (286)
131 cd00561 CobA_CobO_BtuR ATP:cor 30.8 49 0.0011 28.2 2.9 36 101-136 82-117 (159)
132 cd01983 Fer4_NifH The Fer4_Nif 30.7 86 0.0019 22.4 4.0 37 197-233 60-99 (99)
133 COG1110 Reverse gyrase [DNA re 30.3 5.6E+02 0.012 28.7 11.0 98 108-223 197-302 (1187)
134 PRK00454 engB GTP-binding prot 30.1 3.2E+02 0.007 22.7 9.0 69 214-297 125-194 (196)
135 cd04169 RF3 RF3 subfamily. Pe 30.0 2.5E+02 0.0055 25.7 7.7 38 198-236 97-134 (267)
136 TIGR00615 recR recombination p 29.7 1.4E+02 0.0029 26.5 5.5 42 189-230 128-169 (195)
137 COG3140 Uncharacterized protei 29.2 88 0.0019 21.8 3.3 46 252-309 10-55 (60)
138 PRK00536 speE spermidine synth 28.8 47 0.001 30.7 2.6 34 10-54 72-105 (262)
139 cd01122 GP4d_helicase GP4d_hel 28.2 97 0.0021 27.9 4.7 20 104-123 130-149 (271)
140 TIGR00708 cobA cob(I)alamin ad 28.2 64 0.0014 27.9 3.2 37 102-138 85-121 (173)
141 PF06858 NOG1: Nucleolar GTP-b 27.8 98 0.0021 21.8 3.5 24 251-275 30-53 (58)
142 COG0552 FtsY Signal recognitio 27.7 2.8E+02 0.006 26.7 7.6 127 95-292 202-330 (340)
143 cd01887 IF2_eIF5B IF2/eIF5B (i 26.6 3.3E+02 0.0072 21.7 9.3 38 198-236 76-113 (168)
144 PRK13896 cobyrinic acid a,c-di 26.2 2.7E+02 0.0059 27.6 7.6 41 197-237 106-151 (433)
145 PRK01077 cobyrinic acid a,c-di 25.7 1E+02 0.0023 30.5 4.7 41 197-237 115-156 (451)
146 COG2452 Predicted site-specifi 25.3 2.4E+02 0.0052 24.8 6.2 60 175-237 94-153 (193)
147 KOG1662|consensus 25.0 4E+02 0.0087 23.7 7.5 57 178-237 119-176 (210)
148 KOG3350|consensus 25.0 86 0.0019 27.5 3.3 35 114-148 135-186 (217)
149 cd01895 EngA2 EngA2 subfamily. 24.8 3.6E+02 0.0077 21.4 9.0 38 198-236 87-124 (174)
150 TIGR02508 type_III_yscG type I 24.7 1E+02 0.0022 24.6 3.4 32 85-116 25-56 (115)
151 PF00919 UPF0004: Uncharacteri 24.3 3.3E+02 0.0072 20.9 7.0 39 199-237 2-47 (98)
152 PF08795 DUF1796: Putative pap 24.1 4.4E+02 0.0095 22.3 7.7 58 176-233 100-160 (167)
153 TIGR00379 cobB cobyrinic acid 24.1 3.4E+02 0.0074 26.9 8.0 39 197-237 111-152 (449)
154 PRK06067 flagellar accessory p 24.0 1.7E+02 0.0037 25.8 5.3 24 102-125 108-131 (234)
155 TIGR03598 GTPase_YsxC ribosome 23.5 4.3E+02 0.0093 21.9 8.4 38 198-236 103-140 (179)
156 PF09198 T4-Gluco-transf: Bact 22.5 72 0.0016 19.9 1.7 22 207-228 17-38 (38)
157 PRK10116 universal stress prot 22.1 1.4E+02 0.0031 23.5 4.1 29 104-132 92-120 (142)
158 PRK13663 hypothetical protein; 21.6 3E+02 0.0065 27.5 6.6 44 191-236 62-117 (493)
159 COG1092 Predicted SAM-dependen 21.4 1.7E+02 0.0036 28.8 5.0 41 184-226 319-360 (393)
160 TIGR03499 FlhF flagellar biosy 20.7 85 0.0018 29.0 2.8 12 113-124 271-282 (282)
161 PF01861 DUF43: Protein of unk 20.5 5E+02 0.011 23.8 7.5 136 10-233 44-179 (243)
162 TIGR00446 nop2p NOL1/NOP2/sun 20.0 1.6E+02 0.0035 26.8 4.4 15 113-127 139-153 (264)
No 1
>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=100.00 E-value=1.1e-65 Score=481.40 Aligned_cols=286 Identities=32% Similarity=0.528 Sum_probs=244.9
Q ss_pred ChhhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccCC
Q psy2008 2 SENQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGG 81 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~ 81 (311)
+.|.++|++|+||||+|+||||||+|+||++++++|++|.+.+||+++|||+..++++||. ++.+.....+...
T Consensus 20 A~A~~~A~~G~rtLlvS~Dpa~~L~d~l~~~~~~~~~~v~~~~~L~a~eid~~~~~~~~~~------~~~~~~~~~~~~~ 93 (305)
T PF02374_consen 20 ALALALARRGKRTLLVSTDPAHSLSDVLGQKLGGEPTKVEGVPNLSAMEIDPEAELEEYWE------EVQKDLSSLLPLI 93 (305)
T ss_dssp HHHHHHHHTTS-EEEEESSTTTHHHHHHTS--BSS-EEETTCSSEEEEE--HHHHHHHHHH------HHHHGCSTCHHCH
T ss_pred HHHHHHhhCCCCeeEeecCCCccHHHHhCCcCCCCCeEecCCCCceeeecCHHHHHHHHHH------HHHhhhccchhhh
Confidence 3678889999999999999999999999999999999999999999999999999999993 3333222233212
Q ss_pred CchhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhh
Q psy2008 82 MINDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGT 161 (311)
Q Consensus 82 ~~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~ 161 (311)
..++++..++..+||++|+++|.+|.+++++++||+|||||||||||||||++|+.+.||+++++++++++.++.+.+.+
T Consensus 94 ~~~~~~~~~~~~~PG~~E~~~l~~l~~~~~~~~~D~IVvDt~ptg~tLrlL~lP~~l~~~l~~l~~~~~~~~~~~~~~~~ 173 (305)
T PF02374_consen 94 GLERILDEELSSLPGLDELAALLRLADLLESGEYDLIVVDTPPTGHTLRLLSLPERLRWWLDRLLKLRRKIRSLARPLSG 173 (305)
T ss_dssp HHHHHHHHHTTSSTTHHHHHHHHHHHHHHHHCSTSEEEEESSSSHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCH
T ss_pred hhHHHHHHHHhcCCcHHHHHHHHHHHHHHHhCCCCEEEECCCCcHHHHHHHhHHHHHHHHHHHHHHHHHhhcchhhhhhc
Confidence 33567888899899999999999999999999999999999999999999999999999999999999998887776655
Q ss_pred hcCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCcc
Q psy2008 162 LFGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSAS 241 (311)
Q Consensus 162 ~~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~ 241 (311)
.+.+....+++++.++++++++++++++|+||++|+|++|++||++++.||+|++++|+++||+++++||||++|+..
T Consensus 174 -~~~~~~~~~~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lV~~pE~l~i~Et~r~~~~L~~~gi~v~~vVvNrvlp~~~- 251 (305)
T PF02374_consen 174 -LGLGAVPLDEILEELEEMRERLERLRELLRDPERTSFRLVTNPEPLAIAETERLLTELKLYGIPVDAVVVNRVLPEEE- 251 (305)
T ss_dssp -SHCCHHHHHHHHHHHHHHHHHHHHHHHHHTSTTTEEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEEEE-TTCS-
T ss_pred -ccccccchHHHHHHHHHHHHHHHHHHHHhcCCCCcEEEEEecCCcchHHHHHHHHHHHHhcCCccCeEEEEccccccc-
Confidence 222234446799999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred ccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHHHHhcC
Q psy2008 242 VDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFSRMLVT 297 (311)
Q Consensus 242 ~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~~~l~~ 297 (311)
.+|+||++|.+.|+++++++++.|+ ++||+.+|+++.||.|+++|++|++.|+.
T Consensus 252 -~~c~~~~~r~~~Q~~~l~~i~~~f~-~~~v~~vp~~~~ev~G~~~L~~~~~~L~~ 305 (305)
T PF02374_consen 252 -DDCPFCAARRKEQQKYLAEIEESFP-DLPVVKVPLLPEEVRGLDALEALADHLYK 305 (305)
T ss_dssp -TTSHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE--SS-S-SHHHHHHHHHHHH-
T ss_pred -cchHHHHHHHHHHHHHHHHHHHHhc-CCCEEEecCCCCCCCCHHHHHHHHHHhcC
Confidence 3589999999999999999999999 99999999999999999999999999874
No 2
>KOG2825|consensus
Probab=100.00 E-value=2.8e-60 Score=420.19 Aligned_cols=285 Identities=57% Similarity=0.920 Sum_probs=261.3
Q ss_pred ChhhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccCC
Q psy2008 2 SENQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGG 81 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~ 81 (311)
|+|.-.|.-+.+||+|||||||||||.|+++++..|+.|.|.+||+|+||||..++.+.- +.+........ .
T Consensus 38 sLAvqla~~r~~vLiISTDPAHNlSDAF~qkftk~pt~V~Gf~nLfAMEIDp~~e~~~~~------~m~~~~~~n~~--~ 109 (323)
T KOG2825|consen 38 SLAVQLAKVRESVLIISTDPAHNLSDAFSQKFTKTPTKVEGFENLFAMEIDPNVEMGDMP------EMFGNAANNEG--S 109 (323)
T ss_pred HHHHHHhccCCceEEeecCcccchHHHHHHHhcCCCccccChhhheeeecCCchhhhhhH------HHhhccccccc--c
Confidence 566666668899999999999999999999999999999999999999999998877764 23333221222 2
Q ss_pred CchhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhh
Q psy2008 82 MINDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGT 161 (311)
Q Consensus 82 ~~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~ 161 (311)
.+.+.+++...++||+||.+++.+++.++.+.+||+|||||||||||||||++|..+...|+++.+++.|+++..+++..
T Consensus 110 ~g~g~l~e~~~~~Pgideamsfae~~klvk~~~F~~vVFDTAPTGHTLRlL~fP~~lek~lgKl~~l~~k~~pm~sq~~s 189 (323)
T KOG2825|consen 110 DGKGMLQELANAFPGIDEAMSFAEVMKLVKGMNFDVVVFDTAPTGHTLRLLQFPTTLEKGLGKLLSLKNKIGPMLSQMGS 189 (323)
T ss_pred cchhHHHHHHhcCCChhHHHhHHHHHHHhhccccceEEeccCCCcceehhhccchHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33578899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCcc
Q psy2008 162 LFGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSAS 241 (311)
Q Consensus 162 ~~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~ 241 (311)
++|.++...+++.+.++.+++.++++++.++||+-|+|+.|++||-+|+.||+|++++|.++||++..+|||++++++.+
T Consensus 190 m~g~~~~~~~~l~~kle~~~~~i~~vn~qFkdpd~TtFVcVcI~eflslyEteRliqeL~k~~idthnIIVNQLL~~~~~ 269 (323)
T KOG2825|consen 190 MFGMEDAGADDLAGKLEELLEVIEKVNEQFKDPDCTTFVCVCIAEFLSLYETERLIQELAKQGIDTHNIIVNQLLFPDNE 269 (323)
T ss_pred hhccccCCHHHHHHHHHHHHHHHHHHHHHcCCCCCceEEEEEHHHHHhHHHHHHHHHHHHhcCCcccceeeeeccCCCCc
Confidence 99977778899999999999999999999999999999999999999999999999999999999999999999987654
Q ss_pred ccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHHHHhc
Q psy2008 242 VDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFSRMLV 296 (311)
Q Consensus 242 ~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~~~l~ 296 (311)
..|..|++|.+.|++||++|++.+. ++.|+++|+.+.|++|.++|..|++.++
T Consensus 270 -~~ck~C~ar~k~Q~kyLdqi~elye-dfhv~klPl~~~EvrG~~al~~fse~l~ 322 (323)
T KOG2825|consen 270 -VSCKKCAARRKMQSKYLDQIEELYE-DFHVVKLPLLPMEVRGVEALNFFSEILL 322 (323)
T ss_pred -cchHHHHHHHHHHHHHhhhHHHHHh-hcceeecccchhhhcCHHHHHHHHHHhc
Confidence 5899999999999999999999999 9999999999999999999999998875
No 3
>TIGR00345 arsA arsenite-activated ATPase (arsA). The N-terminal 50 amino acids hits Pfam families NB-ARC and fer4_NifH. residues 4-11 of the seed alignment contain a potential ATP binding site. The function of the gene product is to catalyze the extrusion of the oxyanions arsenite, antimonite and arsenate for detoxification. Some members of this family contain a duplication so the model finds hits twice.
Probab=100.00 E-value=1.3e-56 Score=416.63 Aligned_cols=278 Identities=36% Similarity=0.553 Sum_probs=245.6
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccCCC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGGM 82 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~ 82 (311)
.|..+|++|+||||+|+||+|||+++||.++|++|++|.+.+||+++++|+...+++||+ .+.+.+. ..+....
T Consensus 5 ~a~~~a~~g~~vllv~~Dp~~~l~~~~~~~~~~~~~~v~~~~~L~~~~id~~~~~~~~~~--~~~~~~~----~~~~~~~ 78 (284)
T TIGR00345 5 TAIRLAEQGKKVLLVSTDPAHSLSDVFEQEIGHTPTKVTGVENLSAVEIDPQAALEEYRA--KLVEQIK----GNLPDGD 78 (284)
T ss_pred HHHHHHHCCCeEEEEECCCCCCHHHHhCCccCCCCeeccCCCCceEEEcCHHHHHHHHHH--HHHHHHh----hhccccc
Confidence 467788899999999999999999999999999999998889999999999999999994 3332221 1121111
Q ss_pred chhHHHHHhhcCCCHHHHHHHHHHHHHHhc--CCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhh
Q psy2008 83 INDVLNDLINGFPGIDEAMSYAEVLKLVKG--MNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIG 160 (311)
Q Consensus 83 ~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~--~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~ 160 (311)
..+.+.+++..+||++|+++|.+|.+++++ ++||+|||||||||||||||++|+.+.||++++++++++++++.+++
T Consensus 79 ~~~~~~~~~~~~PG~~E~~~l~~l~~~~~~~~~~yD~iVvDtaPtghtLrlL~lP~~l~~~l~~~~~~~~~~~~~~~~~- 157 (284)
T TIGR00345 79 MLGDQLEGAALSPGIDEIAAFDEFLKHMTDAENEFDVVIFDTAPTGHTLRLLQLPEVLSSFLEKFIKIRSKLGPMLKLF- 157 (284)
T ss_pred cHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhhccCCEEEECCCChHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence 123344667789999999999999999987 89999999999999999999999999999999999999987765543
Q ss_pred hhcCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCc
Q psy2008 161 TLFGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSA 240 (311)
Q Consensus 161 ~~~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~ 240 (311)
.|. ...+++++.++++++++++++++|+||++|+|++|++||++|+.|+.++++.|+.+|+++.++|+|++.+..
T Consensus 158 --~~~--~~~~~~~~~l~~~~~~~~~~~~~L~dp~~t~~vlV~~pe~~si~e~~rl~~~L~~~g~~~~~lvvN~v~~~~- 232 (284)
T TIGR00345 158 --MGA--GESDEALEKLEELKEQIEAAREILSDPERTSFVLVVIPEKMSLYESERAHKELAKYGIKVDAVIVNQVLPEN- 232 (284)
T ss_pred --cCC--CcchHHHHHHHHHHHHHHHHHHHhcCCCceEEEEEECCCCCcHHHHHHHHHHHHhCCCCCCEEEEeCCcCCC-
Confidence 342 245889999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred cccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHHHHh
Q psy2008 241 SVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFSRML 295 (311)
Q Consensus 241 ~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~~~l 295 (311)
.+|++|..|.+.|+++++++++.|+ +.|++++|+++.||.|+++|++|++.|
T Consensus 233 --~~~~~~~~r~~~q~~~L~~i~~~~~-~~~~~~vp~~~~e~~G~~~L~~l~~~~ 284 (284)
T TIGR00345 233 --AQDEFCQARWELQQKYLKEIPEKFA-DLPVAEVPLQKEEMVGLEALKRLSKTL 284 (284)
T ss_pred --CCCHHHHHHHHHHHHHHHHHHHHhc-CCCeEEecCCCCCCCCHHHHHHHHhhC
Confidence 3699999999999999999999998 999999999999999999999999764
No 4
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=100.00 E-value=6.5e-57 Score=422.15 Aligned_cols=287 Identities=30% Similarity=0.444 Sum_probs=250.8
Q ss_pred hhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccCCCc
Q psy2008 4 NQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGGMI 83 (311)
Q Consensus 4 ~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~ 83 (311)
|...|+.|+|||||||||||||+|+|++++|++|++|. +||+|+|||+..++++||. .+. ..+...+.....
T Consensus 23 A~~lA~~g~kvLlvStDPAhsL~d~f~~elg~~~~~I~--~nL~a~eiD~~~~l~ey~~--~v~----~~~~~~~~~~~l 94 (322)
T COG0003 23 AVKLAESGKKVLLVSTDPAHSLGDVFDLELGHDPRKVG--PNLDALELDPEKALEEYWD--EVK----DYLARLLRTRGL 94 (322)
T ss_pred HHHHHHcCCcEEEEEeCCCCchHhhhccccCCchhhcC--CCCceeeecHHHHHHHHHH--HHH----HHHHhhcccccc
Confidence 45667799999999999999999999999999999998 9999999999999999993 333 211123322222
Q ss_pred hhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHH-HHhhhchhhhhhhhh
Q psy2008 84 NDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILA-LRNQIGPFLTQIGTL 162 (311)
Q Consensus 84 ~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~-l~~k~~~~~~~l~~~ 162 (311)
...+.+++..+||++|+++|.+|.+++.+++||+|||||||||||||||++|+.+.||++++++ .++++......+.++
T Consensus 95 ~~~~~~e~~~~PGidE~~~l~~i~e~~~~~~yD~IV~DtaPTG~TLRlL~lP~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 (322)
T COG0003 95 GGIYADELATLPGIDEALALLKILEYYVSGEYDVIVVDTAPTGHTLRLLSLPEVLGWYLEKLFKPRRKRMVKALKSLSTA 174 (322)
T ss_pred chhHHHHHhhCCCHHHHHHHHHHHHHHhccCCCEEEEcCCChHHHHHHhccHHHHHHHHHhhhhhHHHHHHHhhhhcccc
Confidence 5678899999999999999999999999999999999999999999999999999999999886 444443333333344
Q ss_pred cCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccc
Q psy2008 163 FGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASV 242 (311)
Q Consensus 163 ~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~ 242 (311)
.|. +.+.+.+++.|+.+++++..+++.|.||..|.|++|++||++++.|+.|++..|.+++++++++++||++|++.
T Consensus 175 ~~~-~~~~~~~~e~L~~~~~~~~~~~~~l~~~~~T~~~lV~~pe~l~l~e~~ra~~~l~~~~i~v~~vi~n~~~p~~~-- 251 (322)
T COG0003 175 AGS-PLPDDAVLEALEELKERIADVREVLTNPDGTSFRLVSIPEKLSLYETKRAVERLSLYGIPVDAVIVNKILPDEA-- 251 (322)
T ss_pred cCC-cCcHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEEecccccchHHHHHHHHHHHHcCCchheeeeeccccccc--
Confidence 442 34468899999999999999999999999999999999999999999999999999999999999999999863
Q ss_pred cchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHHHHhcCCCCCCC
Q psy2008 243 DACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFSRMLVTPFEPTN 303 (311)
Q Consensus 243 ~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~~~l~~~~~~~~ 303 (311)
.++||..|...|++++.++.+.|. +++++.+|++.+|+.|.+.|.++++.+.+...|..
T Consensus 252 -~~~~~~~~~~~q~~~l~~~~~~f~-~~~v~~vp~~~ee~~g~~~l~~l~~~l~~~~~~~~ 310 (322)
T COG0003 252 -DQPFLEARRKIQQKYLKELEETFS-DLAVVKVPLLAEEPVGLEALEKLGDLLYGDESPAP 310 (322)
T ss_pred -ccHHHHHHHHHHHHHHHHHHHhhc-ccceEEecccccccccHHHHHHHHHhccCCCCccc
Confidence 567999999999999999999999 99999999999999999999999999998765544
No 5
>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=100.00 E-value=6.6e-45 Score=333.13 Aligned_cols=234 Identities=41% Similarity=0.639 Sum_probs=202.4
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccCCC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGGM 82 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~ 82 (311)
.|..+|+.|+||||||+||+|||+++||+++|.+|+.+.+.+||++.++|++..+++||. ...+.+. ..+....
T Consensus 20 la~~~a~~g~~vLlvd~D~~~sl~~~~~~~~~~~~~~~~g~~~L~~~~id~~~~~~~~~~--~~~~~~~----~~~~~~~ 93 (254)
T cd00550 20 TAVRLAEQGKKVLLVSTDPAHSLSDSFNQEFGKGPTPVKGVENLSAMEIDPQEALEEYRQ--EVLEPIE----ANLLLEM 93 (254)
T ss_pred HHHHHHHCCCCceEEeCCCcccHHHHhCCccCCCCcccccCCCceEEecCHHHHHHHHHH--HHHHHHH----hhccchh
Confidence 567788899999999999999999999999887777777779999999999999999984 1121111 1111111
Q ss_pred chhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhhh
Q psy2008 83 INDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGTL 162 (311)
Q Consensus 83 ~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~~ 162 (311)
...+....+.. ||++|++++.++.+++++++||+|||||||||||+|+|++|+.+.|
T Consensus 94 ~~~~~~~~~~~-Pg~~e~l~~~~~~~~l~~~~yD~VVvDtpPtg~tlrlL~lp~~l~~---------------------- 150 (254)
T cd00550 94 LKGILEEELES-PGIEEIAAFDEFSRYIDEAEYDVVVFDTAPTGHTLRLLSLPTVLSW---------------------- 150 (254)
T ss_pred HHHHHHHHhcC-CCHHHHHHHHHHHHHHhcCCCCEEEECCCCcHHHHHHHHhHHHHHH----------------------
Confidence 13444555555 9999999999999999988999999999999999999999998854
Q ss_pred cCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccc
Q psy2008 163 FGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASV 242 (311)
Q Consensus 163 ~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~ 242 (311)
+.+.|.||..|.+++|++|+.+++.|++++++.|+.+|+++.++|+|++.++..
T Consensus 151 ------------------------~~~~l~d~~~~~~vlV~~p~~~~~~e~~r~~~~L~~~g~~v~gvV~N~v~~~~~-- 204 (254)
T cd00550 151 ------------------------AREILSDPERTSFRLVCIPEKMSLYETERAIQELAKYGIDVDAVIVNQLLPEDV-- 204 (254)
T ss_pred ------------------------HHHHhcCCcceEEEEEeCCChhHHHHHHHHHHHHHHCCCCCCEEEEecCccccc--
Confidence 335688999999999999999999999999999999999999999999998753
Q ss_pred cchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHH
Q psy2008 243 DACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFS 292 (311)
Q Consensus 243 ~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~ 292 (311)
..|+||+.|.+.|+++|+++++.|+ +.|++++|+++.||.|+++|++|+
T Consensus 205 ~~~~~~~~~~~~q~~~l~~~~~~~~-~~~i~~vp~~~~e~~g~~~L~~~~ 253 (254)
T cd00550 205 TNCPFLEARREIQQKYLEEIEELFS-DLPVAKLPLLPEEVVGLEKLEQFA 253 (254)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhc-CCCEEEeecCCCCCCCHHHHHHHh
Confidence 3699999999999999999999999 999999999999999999999986
No 6
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=99.92 E-value=1.8e-24 Score=193.56 Aligned_cols=196 Identities=33% Similarity=0.452 Sum_probs=148.6
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEe--cchHHHHhhcccchhhhhhhCCccccccC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEI--DPNIRQTELSQDDILSDEANGGSGNMFGG 80 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~ei--d~~~~~~~~~~~~~l~~~~~~~~~~~l~~ 80 (311)
++.++|+.|+||++++.||++++++ ... +||+.+.. +.+...+++.. ++..........
T Consensus 19 la~~~a~~g~~~~l~~~d~~~~~~~-----------~~~--~~L~~~l~~~~~~~~~~~~~~------~~~~~~~~~~~~ 79 (217)
T cd02035 19 TAVRLAEEGKKVLLVSTDPAHNLSD-----------KGL--PNLSDAFIVEDPEIAPNLYRE------EVDATRRVERAW 79 (217)
T ss_pred HHHHHHHCCCcEEEEECCCCccccc-----------ccC--CCchhhhccCChHHHHHHHHH------HHHHHHHhhhcc
Confidence 4677888999999999999998765 111 66666544 22222233321 110000000000
Q ss_pred CCchhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhh
Q psy2008 81 GMINDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIG 160 (311)
Q Consensus 81 ~~~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~ 160 (311)
...+..+.......||.+|++++.++.+.+++.+||+||+||||++++++++
T Consensus 80 ~~~~~~~~~~~~~~p~~~ell~~~~l~~~l~~~~yD~IIiD~pp~~~~~~~l---------------------------- 131 (217)
T cd02035 80 GGEGGLMLELAAALPGIEELASLLAVFREFSEGLYDVIVFDTAPTGHTLRLL---------------------------- 131 (217)
T ss_pred cchhhhHHhHhccCCCHHHHHHHHHHHHHHhcCCCCEEEECCCCchHHHHHH----------------------------
Confidence 0123344566778999999999999999998878999999999999999887
Q ss_pred hhcCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCc
Q psy2008 161 TLFGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSA 240 (311)
Q Consensus 161 ~~~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~ 240 (311)
+...+.|+..+.+++|++|+..++.++.++++.|+.+|+++.++|+|++.+...
T Consensus 132 --------------------------~~~~l~~~~~~~vllV~~p~~~s~~~~~~~l~~l~~~~~~~~glVlN~~~~~~~ 185 (217)
T cd02035 132 --------------------------VRELLTDPERTSFRLVTLPEKLPLYETERAITELALYGIPVDAVVVNRVLPAEV 185 (217)
T ss_pred --------------------------HHHHccCCCceEEEEEeCCCccHHHHHHHHHHHHHHCCCCCCEEEEeCCcCccc
Confidence 112366777789999999999999999999999999999999999999988653
Q ss_pred cccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEE
Q psy2008 241 SVDACALCSTRYRTQAKYLDQILDLYEEDFHVTK 274 (311)
Q Consensus 241 ~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~ 274 (311)
.+|++|+.|.+.|++++.++++.|+ +.|++.
T Consensus 186 --~~~~~~~~~~~~q~~~l~~~~~~~~-~~~~~~ 216 (217)
T cd02035 186 --DDDPFLAARRQIQQKYLAEIEELFD-DLPIVP 216 (217)
T ss_pred --CCCHHHHHHHHHHHHHHHHHHHHcC-CCceec
Confidence 2689999999999999999999998 888765
No 7
>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=99.22 E-value=9.6e-11 Score=100.47 Aligned_cols=74 Identities=16% Similarity=0.234 Sum_probs=61.8
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHH-HHHHHHHHHhhhcCCCcEEEe
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRT-QAKYLDQILDLYEEDFHVTKL 275 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~-q~~~l~~i~~~f~~~~pv~~v 275 (311)
..+++|++|+..++.++.++++.+++.|+++.++|+||+.+. |+.|+.+... +.+.++++.+.+. ...+..+
T Consensus 93 d~viiV~~p~~~s~~~~~~~~~~l~~~~~~~~gvv~N~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i 165 (169)
T cd02037 93 DGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFV------CPHCGKKIYIFGKGGGEKLAEELG-VPLLGKI 165 (169)
T ss_pred CeEEEEECCchhhHHHHHHHHHHHHhcCCCeEEEEEcCCccc------CCCCCCcccccCCccHHHHHHHcC-CCEEEec
Confidence 679999999999999999999999999999999999999763 4456665555 6678889998887 5566667
Q ss_pred cC
Q psy2008 276 PL 277 (311)
Q Consensus 276 p~ 277 (311)
|+
T Consensus 166 p~ 167 (169)
T cd02037 166 PL 167 (169)
T ss_pred cC
Confidence 75
No 8
>PRK11670 antiporter inner membrane protein; Provisional
Probab=98.70 E-value=2.1e-07 Score=89.88 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=38.8
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
+.+++|++|+..++.++.+.++.+++.++++-++|+|++...
T Consensus 241 d~viiV~tp~~~s~~da~~~i~~~~~~~~~ilGiV~Nm~~~~ 282 (369)
T PRK11670 241 TGAVVVTTPQDIALIDAKKGIVMFEKVEVPVLGIVENMSMHI 282 (369)
T ss_pred CeEEEEecCchhHHHHHHHHHHHHhccCCCeEEEEEcCCccc
Confidence 578999999999999999999999999999999999998654
No 9
>CHL00175 minD septum-site determining protein; Validated
Probab=98.62 E-value=1.1e-06 Score=81.47 Aligned_cols=42 Identities=19% Similarity=0.290 Sum_probs=37.8
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
..+++|++|+..++..+.++.+.+++.+...-++|+|++.+.
T Consensus 150 D~viiV~~p~~~si~~~~~~~~~l~~~~~~~~~lvvN~~~~~ 191 (281)
T CHL00175 150 QEAIVVTTPEITAIRDADRVAGLLEANGIYNVKLLVNRVRPD 191 (281)
T ss_pred CeeEEEcCCChHHHHHHHHHHHHHHHcCCCceEEEEeccChh
Confidence 357999999999999999999999999988778999999764
No 10
>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=98.53 E-value=1.2e-06 Score=81.00 Aligned_cols=154 Identities=16% Similarity=0.166 Sum_probs=95.3
Q ss_pred ChhhhHHhCCCcEEEEecCCC-CChhhhhccCCCC-CCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCcccccc
Q psy2008 2 SENQYSKALDKEASGYSRPKT-HNISDAFNQKFTS-TPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFG 79 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa-~sL~d~l~~~l~~-~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~ 79 (311)
.+|..+|+.|+||+++..|-. +++...||.+-.. .+.-+. ... +++-.. .. .+ +.+.
T Consensus 77 nLA~alA~~G~rVlliDaD~~gps~~~~l~~~~~~g~~~~~~--g~~----~~~~~~--~~--------~~-----~~ls 135 (265)
T COG0489 77 NLAAALAQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLA--GEA----LEPVIQ--HD--------GI-----KVLS 135 (265)
T ss_pred HHHHHHHhcCCcEEEEeCcCCCCchHHHhCCCCCCCcccccC--CCc----ccccee--cC--------cc-----ceEE
Confidence 367778889999999999977 4888889874211 111111 110 111100 00 00 1111
Q ss_pred CCCchhHHHHHhhcCC-CHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhh
Q psy2008 80 GGMINDVLNDLINGFP-GIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQ 158 (311)
Q Consensus 80 ~~~~~~~~~~~~~~~P-G~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~ 158 (311)
+. .... ....| |.-...++..+...+..++||+||+||||--....+.
T Consensus 136 -i~---~~~~-~p~~~r~~l~s~~~~qll~~~~~~~~D~vIID~PP~~g~~d~~-------------------------- 184 (265)
T COG0489 136 -IL---PLGP-VPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDADAT-------------------------- 184 (265)
T ss_pred -EE---ecCC-CCCCChHhhhhHHHHHHHHHHhccCCCEEEEeCCCCchHHHHH--------------------------
Confidence 00 0000 11112 4444555666666666778999999999953222211
Q ss_pred hhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 159 IGTLFGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 159 l~~~~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
+-+.+.| .+++||+|.+.+..++++..+.+++.++++-|+|.|+....
T Consensus 185 ----------------------------i~~~~~~----g~viVt~p~~~~~~~v~ka~~~~~~~~~~vlGvv~Nm~~~~ 232 (265)
T COG0489 185 ----------------------------VLQRIPD----GVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFI 232 (265)
T ss_pred ----------------------------HHhccCC----eEEEEeCCccchHHHHHHHHHHHHhcCCceEEEEecCccCc
Confidence 0011333 89999999999999999999999999999999999988765
Q ss_pred C
Q psy2008 239 S 239 (311)
Q Consensus 239 ~ 239 (311)
+
T Consensus 233 ~ 233 (265)
T COG0489 233 C 233 (265)
T ss_pred c
Confidence 4
No 11
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=98.53 E-value=3.5e-06 Score=82.37 Aligned_cols=30 Identities=10% Similarity=-0.027 Sum_probs=27.0
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~ 32 (311)
+|++.|..|+|||||.+||..|++..||..
T Consensus 142 LA~~LA~~G~rVLlIDlDpQ~~lt~~~g~~ 171 (405)
T PRK13869 142 LAQYLALQGYRVLAVDLDPQASLSALLGVL 171 (405)
T ss_pred HHHHHHhcCCceEEEcCCCCCCHHHHcCCC
Confidence 577778899999999999999999999865
No 12
>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=98.44 E-value=2.7e-06 Score=75.60 Aligned_cols=64 Identities=17% Similarity=0.310 Sum_probs=47.0
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhc----CCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcE
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKT----GIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHV 272 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~----gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv 272 (311)
..+++|++|+..++..+.++.+.+++. ++++.++|+||+-+. .+...++++.+.|+ ...+
T Consensus 143 d~vliv~~p~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~---------------~~~~~~~~~~~~~~-~~vl 206 (212)
T cd02117 143 DEIYIVTSGEFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD---------------RETELIDAFAERLG-TQVI 206 (212)
T ss_pred cEEEEEecccHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc---------------cHHHHHHHHHHHcC-CCEE
Confidence 468999999999999998888888865 677889999998642 22335677888875 3333
Q ss_pred EEec
Q psy2008 273 TKLP 276 (311)
Q Consensus 273 ~~vp 276 (311)
..||
T Consensus 207 ~~IP 210 (212)
T cd02117 207 HFVP 210 (212)
T ss_pred EecC
Confidence 3455
No 13
>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=98.40 E-value=7.7e-06 Score=69.82 Aligned_cols=41 Identities=27% Similarity=0.288 Sum_probs=37.5
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
.+++|+.|+..++..+.++++.++..+.+..++|+|++-+.
T Consensus 87 ~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~iv~N~~~~~ 127 (179)
T cd02036 87 EALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNRVRPD 127 (179)
T ss_pred cEEEEeCCCcchHHHHHHHHHHHHHcCCceEEEEEeCCccc
Confidence 47899999999999999999999998888889999998764
No 14
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=98.40 E-value=1.5e-06 Score=80.10 Aligned_cols=37 Identities=22% Similarity=0.224 Sum_probs=35.5
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQ 234 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNr 234 (311)
.+++|+.++..+..++.++.+.|+..|.++-|+|+|+
T Consensus 238 ~vilV~~~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~ 274 (274)
T TIGR03029 238 GTLIVSRVNETRLHELTSLKEHLSGVGVRVVGAVLNQ 274 (274)
T ss_pred eEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEeCC
Confidence 6789999999999999999999999999999999996
No 15
>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=98.39 E-value=6.7e-06 Score=74.14 Aligned_cols=30 Identities=10% Similarity=-0.027 Sum_probs=26.2
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~ 32 (311)
+|..+|++|+||||+..||..+++..||.+
T Consensus 22 la~~la~~g~~VlliD~D~q~~l~~~~~~~ 51 (246)
T TIGR03371 22 LASALKLLGEPVLAIDLDPQNLLRLHFGMD 51 (246)
T ss_pred HHHHHHhCCCcEEEEeCCCcchHHHHhCCC
Confidence 466677899999999999999999988865
No 16
>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=98.37 E-value=1.8e-06 Score=76.07 Aligned_cols=41 Identities=15% Similarity=0.206 Sum_probs=38.4
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
.+++|+.|+..+..++.+..+.++..|+++-++|+|++-..
T Consensus 153 ~vilV~~~~~~~~~~~~~~~~~l~~~~~~~~gvVlN~~~~~ 193 (204)
T TIGR01007 153 ASILVTDAGEIKKRDVQKAKEQLEQTGSNFLGVVLNKVDIS 193 (204)
T ss_pred eEEEEEECCCCCHHHHHHHHHHHHhCCCCEEEEEEeCcccc
Confidence 68999999999999999999999999999999999998654
No 17
>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=98.32 E-value=2.4e-05 Score=70.62 Aligned_cols=41 Identities=15% Similarity=0.177 Sum_probs=36.6
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
..+++|++|+..++.++.++.+.++..++++-++|+|++-+
T Consensus 132 d~vliv~~~~~~s~~~~~~~~~~~~~~~~~~~~vv~N~~~~ 172 (251)
T TIGR01969 132 DELLLVVNPEISSITDALKTKIVAEKLGTAILGVVLNRVTR 172 (251)
T ss_pred CeEEEEECCCCchHHHHHHHHHHHHhcCCceEEEEEECCCc
Confidence 35899999999999999999888888999988999999865
No 18
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=98.28 E-value=6.9e-07 Score=67.41 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=35.1
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
+.+++||||.++|...++|....+++.++++-++|-|+..-.
T Consensus 26 ~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVENMs~~~ 67 (81)
T PF10609_consen 26 DGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVENMSYFV 67 (81)
T ss_dssp SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEECT-EEE
T ss_pred CeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEECCCccC
Confidence 789999999999999999999999999999999999998754
No 19
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=98.27 E-value=4.3e-06 Score=87.82 Aligned_cols=41 Identities=10% Similarity=0.027 Sum_probs=37.4
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
.+++|+.++..+.....+.++.++..|.++.++|+|++-+.
T Consensus 681 ~vl~v~~~~~~~~~~~~~~~~~l~~~~~~~~GvvlN~~~~~ 721 (754)
T TIGR01005 681 IMLLVTAYDRVVVECGRADAQGISRLNGEVTGVFLNMLDPN 721 (754)
T ss_pred eEEEEEEeCceeHHHHHHHHHHHHhcCCceEEEEecCCChh
Confidence 46799999999999999999999999999999999998653
No 20
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=98.24 E-value=1.3e-05 Score=73.98 Aligned_cols=39 Identities=26% Similarity=0.417 Sum_probs=33.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHh---cCCCcceEEEcCC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAK---TGIDTRNIIVNQL 235 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~---~gi~v~~vvvNrv 235 (311)
..+++|++|+..|+.-+.++.+.++. .++++.++|+|+.
T Consensus 143 d~vlip~~p~~~sl~~~~~~~k~l~~~~~~~l~~~GiV~n~~ 184 (273)
T PRK13232 143 KEIYIVASGELMAIYAANNICKGLAKFAKGGARLGGIICNSR 184 (273)
T ss_pred ceEEEecCchHHHHHHHHHHHHHHHHHhCCCCceeEEEEeCC
Confidence 46899999999999998888888875 3788889999976
No 21
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=98.24 E-value=4.3e-06 Score=87.56 Aligned_cols=40 Identities=20% Similarity=0.249 Sum_probs=37.3
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
.+++|+.+...+..+..+.++.|+..|+++.|+|+|++-+
T Consensus 666 ~~llVvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~~~~ 705 (726)
T PRK09841 666 TSLLVARFGLNTAKEVSLSMQRLEQAGVNIKGAILNGVIK 705 (726)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHhCCCceEEEEEeCccc
Confidence 5689999999999999999999999999999999999854
No 22
>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=98.24 E-value=8.3e-06 Score=73.95 Aligned_cols=41 Identities=24% Similarity=0.365 Sum_probs=36.5
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
.+++|++|+..++..+.++++.++..++..-++|+|++.+.
T Consensus 136 ~viiv~~~~~~s~~~~~~~~~~l~~~~~~~~~iviN~~~~~ 176 (261)
T TIGR01968 136 EAIVVTTPEVSAVRDADRVIGLLEAKGIEKIHLIVNRLRPE 176 (261)
T ss_pred eEEEEcCCCcHHHHHHHHHHHHHHHcCCCceEEEEeCcCch
Confidence 47899999999999999999999998876678999998763
No 23
>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]
Probab=98.22 E-value=3.3e-05 Score=71.23 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=38.5
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcce--EEEcCCcC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRN--IIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~--vvvNrv~~ 237 (311)
..+++||+||..++..|..+...+..+|++..+ +|+||+-+
T Consensus 136 d~~viVt~pe~~si~~A~~~i~~~~~~~~~~~~~~vV~N~v~~ 178 (262)
T COG0455 136 DELVIVTTPEPTSITDAYKTIKILSKLGLDLLGRRVVLNRVRS 178 (262)
T ss_pred CcEEEEeCCCcchHHHHHHHHHHHHHcCCccccceEEEEeccc
Confidence 578999999999999999999999999999988 99999964
No 24
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=98.22 E-value=3.2e-06 Score=78.09 Aligned_cols=28 Identities=4% Similarity=-0.137 Sum_probs=24.4
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhc
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFN 30 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~ 30 (311)
+|...|+.|+|||||..||..+.++.|+
T Consensus 21 LA~~La~~G~rVLlID~Dpq~~~t~~l~ 48 (274)
T PRK13235 21 TVAGLAEMGKKVMVVGCDPKADSTRLLL 48 (274)
T ss_pred HHHHHHHCCCcEEEEecCCccccccccc
Confidence 4666678999999999999999999873
No 25
>PRK11519 tyrosine kinase; Provisional
Probab=98.22 E-value=8.9e-06 Score=85.09 Aligned_cols=40 Identities=23% Similarity=0.317 Sum_probs=37.3
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
.+++|+.+...+..+.....+.|+..|+++-|+|+|++..
T Consensus 661 ~~l~Vvr~~~t~~~~~~~~~~~l~~~~~~~~G~VlN~v~~ 700 (719)
T PRK11519 661 TTLMVARYAVNTLKEVETSLSRFEQNGIPVKGVILNSIFR 700 (719)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHhCCCCeEEEEEeCCcc
Confidence 5689999999999999999999999999999999999943
No 26
>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=98.20 E-value=2.4e-05 Score=75.95 Aligned_cols=30 Identities=13% Similarity=0.063 Sum_probs=26.3
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~ 32 (311)
+|...|+.|+|||||.+||..|++..||..
T Consensus 125 LA~~La~~G~rVLlID~DpQ~~ls~~~g~~ 154 (387)
T TIGR03453 125 LAQYLALRGYRVLAIDLDPQASLSALFGYQ 154 (387)
T ss_pred HHHHHHhcCCCEEEEecCCCCCHHHHcCCC
Confidence 566677799999999999999999999864
No 27
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=98.18 E-value=1.5e-05 Score=77.51 Aligned_cols=30 Identities=7% Similarity=-0.161 Sum_probs=26.3
Q ss_pred hhhhHHhCCCcEEEEec-CCCCChhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSR-PKTHNISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~-DPa~sL~d~l~~~ 32 (311)
+|++.|.+|+|||||.. ||..|++..||..
T Consensus 127 LA~~LA~~G~rVLlIDl~DpQ~nlt~~~g~~ 157 (387)
T PHA02519 127 TAQWLALQGHRVLLIEGNDPQGTASMYHGYV 157 (387)
T ss_pred HHHHHHhCCCcEEEEeCCCCCCCcccccCcC
Confidence 57777889999999995 9999999988864
No 28
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=98.18 E-value=1.6e-05 Score=77.36 Aligned_cols=30 Identities=7% Similarity=-0.319 Sum_probs=26.0
Q ss_pred hhhhHHhCCCcEEEEec-CCCCChhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSR-PKTHNISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~-DPa~sL~d~l~~~ 32 (311)
+|+..|..|+|||||.. ||+.|++..||..
T Consensus 127 LA~~LA~~G~rVLlID~~DpQ~nlt~~~g~~ 157 (388)
T PRK13705 127 LAQDLALKGLRVLLVEGNDPQGTASMYHGWV 157 (388)
T ss_pred HHHHHHhcCCCeEEEcCCCCCCchhhhcCcC
Confidence 56677889999999995 9999999988864
No 29
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=98.16 E-value=1.5e-05 Score=73.47 Aligned_cols=39 Identities=21% Similarity=0.428 Sum_probs=31.6
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHH----hcCCCcceEEEcCC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELA----KTGIDTRNIIVNQL 235 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~----~~gi~v~~vvvNrv 235 (311)
..+++|+.|+..++.-+.++++.+. ..++++.++|+|+.
T Consensus 145 d~viIp~~p~~~sl~g~~~l~~~i~~~~~~~~l~~~Giv~n~~ 187 (275)
T PRK13233 145 QEVYIVASGEMMAIYAANNICKGLVKYAEQSGVRLGGIICNSR 187 (275)
T ss_pred ceEEEeccccHHHHHHHHHHHHHHHHHHhcCCCceeEEEeeCC
Confidence 4688899999999988888876663 46888889999975
No 30
>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=98.14 E-value=3.6e-05 Score=66.49 Aligned_cols=42 Identities=17% Similarity=0.222 Sum_probs=37.6
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcC--CCcceEEEcCCcCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTG--IDTRNIIVNQLVFY 238 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~g--i~v~~vvvNrv~~~ 238 (311)
..+++|+.|+..++..+.++.+.++..+ ++..++|+||+-+.
T Consensus 118 d~viv~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v~~~ 161 (195)
T PF01656_consen 118 DYVIVPIEPDPSSIEGAERLIELLKRLGKKLKIIGVVINRVDPG 161 (195)
T ss_dssp SEEEEEEESSHHHHHHHHHHHHHHHHHTHTEEEEEEEEEEETSC
T ss_pred ceeeeecCCcHHHHHHHHHHHHHHHHhccccceEEEEEeeeCCC
Confidence 4689999999999999999999999988 55789999999764
No 31
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=98.13 E-value=1.5e-05 Score=74.47 Aligned_cols=40 Identities=10% Similarity=0.229 Sum_probs=33.2
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhc----CCCcceEEEcCCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKT----GIDTRNIIVNQLV 236 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~----gi~v~~vvvNrv~ 236 (311)
..+++|+.|+..++.-+.++.+.++.. ++++.++|+||+-
T Consensus 140 D~viIp~~p~~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n~~~ 183 (290)
T CHL00072 140 DYCIIITDNGFDALFAANRIAASVREKARTHPLRLAGLVGNRTS 183 (290)
T ss_pred CEEEEEecCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEeCCC
Confidence 467889999999999999998877764 6778889999874
No 32
>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=98.11 E-value=4e-05 Score=70.12 Aligned_cols=39 Identities=21% Similarity=0.392 Sum_probs=29.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhc----CCCcceEEEcCC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKT----GIDTRNIIVNQL 235 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~----gi~v~~vvvNrv 235 (311)
..+++|++|+..++.-+.++.+.+... ++++.++|+|+.
T Consensus 143 D~vlip~~p~~~sl~~~~~l~~~i~~~~~~~~~~l~gVv~n~~ 185 (270)
T cd02040 143 QEIYIVTSGEMMALYAANNICKGILKYAKSGGVRLGGLICNSR 185 (270)
T ss_pred cEEEEEecCchHHHHHHHHHHHHHHHhCccCCCceEEEEEecC
Confidence 367888999998888887777666543 677777888864
No 33
>KOG3022|consensus
Probab=98.09 E-value=4.1e-05 Score=70.21 Aligned_cols=147 Identities=20% Similarity=0.165 Sum_probs=94.5
Q ss_pred hhhHHhCCCcEEEEecCCC-CChhhhhccC--------CCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCc
Q psy2008 4 NQYSKALDKEASGYSRPKT-HNISDAFNQK--------FTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGS 74 (311)
Q Consensus 4 ~~~aa~~G~rtLlvS~DPa-~sL~d~l~~~--------l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~ 74 (311)
|...|+.|+||.++..|=. +|+.-.||.+ -|..|+.+. .||..+.+- |+ .+. ..
T Consensus 69 a~~La~~g~~vglLD~Dl~GPSiP~m~g~e~~~~~~~~~g~~Pv~~~--~~l~~mS~g-------fL-----l~~--~~- 131 (300)
T KOG3022|consen 69 ALALASEGKKVGLLDADLCGPSIPRMMGLEGEVVHQSDNGWIPVVVN--KNLKLMSMG-------FL-----LKP--RD- 131 (300)
T ss_pred HHHHhcCCCcEEEEeecccCCCchhhcCCCCceeeecCCCceeeeec--CCeEEEEee-------ee-----cCC--CC-
Confidence 4444569999999999986 5888888876 123454444 666666642 11 000 00
Q ss_pred cccccCCCchhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCC-chHHHHhhhhHHHHHHHHHHHHHHHhhhc
Q psy2008 75 GNMFGGGMINDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAP-TGHTLRLLSFPQNIERGLSKILALRNQIG 153 (311)
Q Consensus 75 ~~~l~~~~~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~P-tg~tLrlL~lP~~l~~~l~~l~~l~~k~~ 153 (311)
+. ...-|---..++.++..-++.|+.|++|+|||| |+. .++.
T Consensus 132 -~~--------------vIwRGpkk~~~I~qflk~vdwg~lDyLviDtPPGtsD------------ehls---------- 174 (300)
T KOG3022|consen 132 -DS--------------VIWRGPKKNSMIKQFLKDVDWGELDYLVIDTPPGTSD------------EHLS---------- 174 (300)
T ss_pred -cc--------------ceeechHHHHHHHHHHhcCCCCCcCEEEEeCCCCCCh------------hhhh----------
Confidence 00 001122222333444444566889999999999 322 1110
Q ss_pred hhhhhhhhhcCCCCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEc
Q psy2008 154 PFLTQIGTLFGLADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVN 233 (311)
Q Consensus 154 ~~~~~l~~~~g~~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvN 233 (311)
+ .+.+.. .+..++||||.+.++..+++-+..+++.||++=++|-|
T Consensus 175 --------~-------------------------~~~~~~--~~gAviVTTPQ~vAl~Dv~K~i~fc~K~~I~ilGvVEN 219 (300)
T KOG3022|consen 175 --------L-------------------------VQFLRE--SDGAVIVTTPQEVALQDVRKEIDFCRKAGIPILGVVEN 219 (300)
T ss_pred --------e-------------------------eecccc--cCceEEEeCchhhhhHHHHhhhhhhhhcCCceEEEEec
Confidence 0 001211 27789999999999999999999999999999999999
Q ss_pred CCcCcC
Q psy2008 234 QLVFYS 239 (311)
Q Consensus 234 rv~~~~ 239 (311)
++...+
T Consensus 220 Ms~f~C 225 (300)
T KOG3022|consen 220 MSGFVC 225 (300)
T ss_pred cccccC
Confidence 987543
No 34
>PRK10818 cell division inhibitor MinD; Provisional
Probab=98.08 E-value=0.00013 Score=66.92 Aligned_cols=30 Identities=7% Similarity=-0.159 Sum_probs=25.5
Q ss_pred hhhhHHhCCCcEEEEecCCC-CChhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSRPKT-HNISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa-~sL~d~l~~~ 32 (311)
+|..+|++|+||+|+..||. +++...||.+
T Consensus 23 lA~~la~~g~~vllvD~D~~~~~~~~~lg~~ 53 (270)
T PRK10818 23 IATGLAQKGKKTVVIDFDIGLRNLDLIMGCE 53 (270)
T ss_pred HHHHHHHCCCeEEEEECCCCCCChhhhhCCC
Confidence 56666789999999999995 7898888876
No 35
>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=98.07 E-value=5e-06 Score=76.37 Aligned_cols=28 Identities=11% Similarity=-0.018 Sum_probs=24.6
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhc
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFN 30 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~ 30 (311)
+|.+.|++|+|||||..||..+++..|+
T Consensus 20 LA~~La~~g~rVLliD~D~q~~~~~~l~ 47 (268)
T TIGR01281 20 LSVAFAKLGKRVLQIGCDPKHDSTFTLT 47 (268)
T ss_pred HHHHHHhCCCeEEEEecCccccccceec
Confidence 5666778999999999999999998886
No 36
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=98.07 E-value=2.7e-05 Score=72.05 Aligned_cols=28 Identities=4% Similarity=-0.162 Sum_probs=25.3
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhc
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFN 30 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~ 30 (311)
+|...|++|+|||||..||+.|++..|+
T Consensus 21 LA~~La~~G~rVLliD~Dpq~n~t~~l~ 48 (279)
T PRK13230 21 IAAALAESGKKVLVVGCDPKADCTRNLV 48 (279)
T ss_pred HHHHHHhCCCEEEEEeeCCccccccccc
Confidence 5677788999999999999999999886
No 37
>PHA02518 ParA-like protein; Provisional
Probab=98.07 E-value=0.00017 Score=63.34 Aligned_cols=29 Identities=7% Similarity=-0.133 Sum_probs=24.6
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhcc
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQ 31 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~ 31 (311)
+|.+++++|+|||++..||..++++.++.
T Consensus 21 la~~la~~g~~vlliD~D~q~~~~~~~~~ 49 (211)
T PHA02518 21 LASWLHADGHKVLLVDLDPQGSSTDWAEA 49 (211)
T ss_pred HHHHHHhCCCeEEEEeCCCCCChHHHHHh
Confidence 45667779999999999999999887754
No 38
>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=98.07 E-value=9.7e-06 Score=74.49 Aligned_cols=29 Identities=7% Similarity=-0.082 Sum_probs=25.1
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhcc
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQ 31 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~ 31 (311)
+|...|++|+||||+..||..+++..|+.
T Consensus 20 LA~~la~~G~rvlliD~Dpq~~~~~~l~~ 48 (267)
T cd02032 20 LSVALAKRGKKVLQIGCDPKHDSTFTLTG 48 (267)
T ss_pred HHHHHHHCCCcEEEEecCCCCCcceeccC
Confidence 56777889999999999999999888863
No 39
>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=98.06 E-value=1.2e-05 Score=71.29 Aligned_cols=34 Identities=12% Similarity=0.117 Sum_probs=31.8
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVN 233 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvN 233 (311)
.+++|+.|+..+.....+.++.|+ +.++-|+|+|
T Consensus 174 ~viiV~~~~~~~~~~~~~~~~~l~--~~~~~G~v~N 207 (207)
T TIGR03018 174 QIVLVVEEGRTTQEAVKEALSALE--SCKVLGVVLN 207 (207)
T ss_pred EEEEEEECCCCCHHHHHHHHHHhc--CCCeEEEEeC
Confidence 678999999999999999999999 7888999998
No 40
>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.
Probab=98.05 E-value=1.8e-05 Score=75.29 Aligned_cols=40 Identities=20% Similarity=0.261 Sum_probs=31.6
Q ss_pred eEEEEecCCcccHHH---HHHHHHHHHhcC--CCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYE---TERLVQELAKTG--IDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~E---t~rl~~~L~~~g--i~v~~vvvNrv~~ 237 (311)
.+++||+|+..++.. +.+.++.+++.| +++-++|+||...
T Consensus 175 ~VIVVt~pe~~si~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~ 219 (329)
T cd02033 175 KVIVVGSNDLQSLYVANNVCNAVEYFRKLGGNVGVAGMVINKDDG 219 (329)
T ss_pred eEEEeCCchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCC
Confidence 579999999999965 556667777774 6778999999864
No 41
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=98.00 E-value=1.4e-05 Score=73.54 Aligned_cols=30 Identities=10% Similarity=0.006 Sum_probs=26.0
Q ss_pred ChhhhHHhCCCcEEEEecCCCCChhhhhcc
Q psy2008 2 SENQYSKALDKEASGYSRPKTHNISDAFNQ 31 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa~sL~d~l~~ 31 (311)
.+|...|+.|+|||||..||..+++..|+.
T Consensus 21 nLA~~la~~G~kVLliD~Dpq~~~t~~l~~ 50 (270)
T PRK13185 21 NLSAAFAKLGKKVLQIGCDPKHDSTFTLTG 50 (270)
T ss_pred HHHHHHHHCCCeEEEEeccCCcchhhhhcC
Confidence 357777889999999999999999988863
No 42
>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=97.98 E-value=9.6e-05 Score=68.17 Aligned_cols=39 Identities=21% Similarity=0.399 Sum_probs=29.2
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHh----cCCCcceEEEcCC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAK----TGIDTRNIIVNQL 235 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~----~gi~v~~vvvNrv 235 (311)
..+++|++|+..++..+.++++.+++ .++++.++|+|+.
T Consensus 142 D~viip~~p~~~sl~~~~~l~~~i~~~~~~~~~~~~giv~n~~ 184 (275)
T TIGR01287 142 QEIYIVTSGEMMALYAANNICKGILKYAKSGGVRLGGLICNSR 184 (275)
T ss_pred cEEEEEecchHHHHHHHHHHHHHHHHHHhcCCCeeeEEEEcCC
Confidence 46888899999999888887665443 4777777888863
No 43
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=97.96 E-value=0.00038 Score=63.52 Aligned_cols=31 Identities=3% Similarity=-0.193 Sum_probs=25.8
Q ss_pred hhhhHH-hCCCcEEEEecCCCCChhhhhccCC
Q psy2008 3 ENQYSK-ALDKEASGYSRPKTHNISDAFNQKF 33 (311)
Q Consensus 3 ~~~~aa-~~G~rtLlvS~DPa~sL~d~l~~~l 33 (311)
+|.+.| +.|+||||+.+||..|++..||.+.
T Consensus 23 La~~La~~~~~kVLliDlDpQ~s~t~~~~~~~ 54 (259)
T COG1192 23 LAAALAKRGGKKVLLIDLDPQGSLTSWLGLRP 54 (259)
T ss_pred HHHHHHHhcCCcEEEEeCCCcchhhHhcCCCc
Confidence 455555 6779999999999999999999863
No 44
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=97.95 E-value=1.8e-05 Score=74.14 Aligned_cols=40 Identities=20% Similarity=0.380 Sum_probs=29.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhc----CCCcceEEEcCCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKT----GIDTRNIIVNQLV 236 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~----gi~v~~vvvNrv~ 236 (311)
..+++|++|+..|+.-+.++++.+++. ++++.++|+|+.-
T Consensus 146 D~vIIPv~pe~~Sl~gl~~l~~~i~~~~~~~~l~~~gIV~N~~r 189 (295)
T PRK13234 146 QEIYIVMSGEMMALYAANNIAKGILKYANSGGVRLGGLICNERQ 189 (295)
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHhcCCCCeEEEEEecCCC
Confidence 467888888888888888887777653 5667778888643
No 45
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=97.95 E-value=9.8e-05 Score=66.85 Aligned_cols=30 Identities=3% Similarity=-0.079 Sum_probs=25.7
Q ss_pred ChhhhHHhCCCcEEEEecCCCCChhhhhcc
Q psy2008 2 SENQYSKALDKEASGYSRPKTHNISDAFNQ 31 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa~sL~d~l~~ 31 (311)
.+|.+++++|+||+|+..||..|+...++.
T Consensus 21 nLA~~la~~G~~VlliD~DpQ~s~~~w~~~ 50 (231)
T PRK13849 21 GLCAALASDGKRVALFEADENRPLTRWKEN 50 (231)
T ss_pred HHHHHHHhCCCcEEEEeCCCCCCHHHHHHh
Confidence 357778889999999999999999887753
No 46
>PRK13236 nitrogenase reductase; Reviewed
Probab=97.92 E-value=4.1e-05 Score=71.78 Aligned_cols=39 Identities=15% Similarity=0.366 Sum_probs=30.7
Q ss_pred ceEEEEecCCcccHHHHHHHHHHH----HhcCCCcceEEEcCC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQEL----AKTGIDTRNIIVNQL 235 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L----~~~gi~v~~vvvNrv 235 (311)
..+++|++||..|+.-+.++...+ +..++++.++|+||.
T Consensus 148 D~vIIvttpe~~sl~g~~~~~~~l~k~~~~~~l~i~gIv~Nr~ 190 (296)
T PRK13236 148 QEIYIVTSGEMMAMYAANNIARGILKYAHTGGVRLGGLICNSR 190 (296)
T ss_pred CEEEEecCcchHHHHHHHHHHHHHHHHhhCCCceeEEEEecCC
Confidence 478999999999998887554433 345788999999984
No 47
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=97.77 E-value=0.00031 Score=63.25 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=37.3
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
.+++|+-|..-|+.-++|+.+--++.|+.-=++|+||+-..
T Consensus 158 ~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e~ 198 (255)
T COG3640 158 LVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDEE 198 (255)
T ss_pred EEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccch
Confidence 57889999999999999999999999988889999999754
No 48
>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=97.72 E-value=0.00024 Score=66.62 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=31.5
Q ss_pred eEEEEecCCcccHHHHHHHHH---HHHhcC--CCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQ---ELAKTG--IDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~---~L~~~g--i~v~~vvvNrv~~ 237 (311)
.+++|+.|+..++.-+.++.. .+++.| +++-++|+||+..
T Consensus 150 ~viVvt~~e~~sl~~a~~l~k~v~~~~~~~~~v~i~GVV~N~~~~ 194 (296)
T TIGR02016 150 EVIVIGSNDRQSLYVANNICNAVEYFRKLGGRVGLLGLVVNRDDG 194 (296)
T ss_pred eEEEEecchHHHHHHHHHHHHHHHHHHHcCCCCcceEEEEeCCCC
Confidence 679999999999977766666 444654 7788999999865
No 49
>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=97.66 E-value=0.0003 Score=66.56 Aligned_cols=39 Identities=18% Similarity=0.267 Sum_probs=32.1
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
..+++|+.|+..++..+.++++.++..+.++ .+|+|+.-
T Consensus 228 D~vliV~~~~~~sl~~a~r~l~~l~~~~~~~-~lVv~~~~ 266 (322)
T TIGR03815 228 DLVLVVVPADVRAVAAAARVCPELGRRNPDL-RLVVRGPA 266 (322)
T ss_pred CEEEEEcCCcHHHHHHHHHHHHHHhhhCCCe-EEEEeCCC
Confidence 3688999999999999999999999877555 56778653
No 50
>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=97.63 E-value=0.00051 Score=54.41 Aligned_cols=37 Identities=16% Similarity=0.262 Sum_probs=32.5
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCC---cceEEEcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGID---TRNIIVNQ 234 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~---v~~vvvNr 234 (311)
.+++|+.|+..++..+.++.+.+++.+.+ --.+|+||
T Consensus 67 ~vlvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr 106 (106)
T cd03111 67 RVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR 106 (106)
T ss_pred eEEEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence 58899999999999999999999998875 44588887
No 51
>PRK10037 cell division protein; Provisional
Probab=97.57 E-value=4.6e-05 Score=69.46 Aligned_cols=31 Identities=10% Similarity=-0.038 Sum_probs=27.0
Q ss_pred ChhhhHHhCCCcEEEEecCCCCChhhhhccC
Q psy2008 2 SENQYSKALDKEASGYSRPKTHNISDAFNQK 32 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~ 32 (311)
.+|...|++|+|||||..||+.+++..||.+
T Consensus 21 nLA~~La~~G~rVLlID~D~q~~~s~~~g~~ 51 (250)
T PRK10037 21 ALAWSLQMLGENVLVIDACPDNLLRLSFNVD 51 (250)
T ss_pred HHHHHHHhcCCcEEEEeCChhhhHHHHhCCC
Confidence 3567778899999999999999999999875
No 52
>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=97.39 E-value=0.0035 Score=53.75 Aligned_cols=40 Identities=20% Similarity=0.238 Sum_probs=36.3
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
.+++|+.|+..++..+.++++.++..|+++ ++|+||+-+.
T Consensus 117 ~vliv~~~~~~~~~~~~~~~~~l~~~~~~~-~vV~N~~~~~ 156 (179)
T cd03110 117 AALLVTEPTPSGLHDLERAVELVRHFGIPV-GVVINKYDLN 156 (179)
T ss_pred EEEEEecCCcccHHHHHHHHHHHHHcCCCE-EEEEeCCCCC
Confidence 679999999999999999999999999987 7999998653
No 53
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=97.29 E-value=0.003 Score=56.22 Aligned_cols=70 Identities=14% Similarity=0.104 Sum_probs=54.0
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEE-e
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTK-L 275 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~-v 275 (311)
+.+++|+.++..++..+...++.++..|+++.++|+||+-+.. ...++...+.+++.+ ++|++- +
T Consensus 134 ~pvilV~~~~~~~i~~~~~~i~~l~~~~~~i~gvIlN~~~~~~------------~~~~~~~~~~l~~~~--gi~vlg~i 199 (222)
T PRK00090 134 LPVILVVGVKLGCINHTLLTLEAIRARGLPLAGWVANGIPPEP------------GLRHAENLATLERLL--PAPLLGEL 199 (222)
T ss_pred CCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEEccCCCcc------------hhHHHHHHHHHHHHc--CCCeEEec
Confidence 4579999999999999999999999999999999999986531 112334566777777 478875 7
Q ss_pred cCCCC
Q psy2008 276 PLQSE 280 (311)
Q Consensus 276 p~~~~ 280 (311)
|.+..
T Consensus 200 p~~~~ 204 (222)
T PRK00090 200 PYLAE 204 (222)
T ss_pred CCCCC
Confidence 88743
No 54
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=97.27 E-value=0.00033 Score=64.17 Aligned_cols=39 Identities=23% Similarity=0.303 Sum_probs=31.7
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQL 235 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv 235 (311)
..+++|++|+..++..+.++.+.++..+.+..++|+|+.
T Consensus 140 D~vlip~~p~~~si~~~~~~~~~i~~~~~~~~~vv~~~~ 178 (264)
T PRK13231 140 DEVYIVTSGEYMSLYAANNIARGIKKLKGKLGGIICNCR 178 (264)
T ss_pred ceeEEEecCchhHHHHHHHHHHHHHHcCCcceEEEEcCC
Confidence 467888999999999999998888877766667777764
No 55
>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=97.23 E-value=0.012 Score=48.82 Aligned_cols=41 Identities=22% Similarity=0.232 Sum_probs=33.8
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhc-CCCcceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKT-GIDTRNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~-gi~v~~vvvNrv~~~ 238 (311)
.+++|+.|+..++..+.++++.+.+. +...-.+|+||+.++
T Consensus 69 ~vviv~~~~~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~~~ 110 (139)
T cd02038 69 EVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRVVVNRAESP 110 (139)
T ss_pred eEEEEcCCChhHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCH
Confidence 58999999999999999999998754 344557999999754
No 56
>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=97.03 E-value=0.0058 Score=47.52 Aligned_cols=37 Identities=16% Similarity=0.152 Sum_probs=26.6
Q ss_pred ceEEEEecCCcccHHHHHHHHH---HHHhc--CCCcceEEEc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQ---ELAKT--GIDTRNIIVN 233 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~---~L~~~--gi~v~~vvvN 233 (311)
..+++|+.|+..++..+.++.+ ..+.+ .....++|.|
T Consensus 63 d~viv~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~vv~n 104 (104)
T cd02042 63 DLVLIPVQPSPLDLDGLEKLLETLILEDRLNPDLDILGILPT 104 (104)
T ss_pred CEEEEeccCCHHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Confidence 4678889999999999999987 33333 4445566665
No 57
>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=96.71 E-value=0.003 Score=57.58 Aligned_cols=104 Identities=12% Similarity=0.067 Sum_probs=58.3
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCcccccc-CC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFG-GG 81 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~-~~ 81 (311)
+|..-++.|++||+|..||.-.|.--||.++... +|+-...+|-..+.+..+ ++...+ ..+. +.
T Consensus 22 LA~aL~~~G~~VlaID~dpqN~Lrlhfg~~~~~~-------~G~a~a~l~~~~W~~~~~-------~~~~g~-~~LPfG~ 86 (243)
T PF06564_consen 22 LAWALARLGESVLAIDLDPQNLLRLHFGLPLDDR-------DGWARALLDGADWQQAAY-------RYSDGV-DFLPFGQ 86 (243)
T ss_pred HHHHHHHCCCcEEEEeCCcHHHHHHhcCCCCccc-------ccHHHHHhCCCCHHHHhh-------ccCCCC-EEEcCCC
Confidence 3555577999999999999999999999875432 455444555544444333 111221 2222 11
Q ss_pred CchhHHHHH--hhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCc
Q psy2008 82 MINDVLNDL--INGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPT 125 (311)
Q Consensus 82 ~~~~~~~~~--~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Pt 125 (311)
+...-...+ +..-|+ .....+..+-..+.||+|++||||-
T Consensus 87 l~~~~~~~~~~l~~~~~----~l~~~l~~l~~~~~~~~iliD~P~g 128 (243)
T PF06564_consen 87 LTEAEREAFEQLAQDPQ----WLARALAALKALGPYDWILIDTPPG 128 (243)
T ss_pred CCHHHHHHHHHhhcCHH----HHHHHHHHHhccCCCCEEEEeCCCC
Confidence 211111111 221121 2233455554468899999999993
No 58
>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=96.49 E-value=0.013 Score=49.71 Aligned_cols=37 Identities=19% Similarity=0.248 Sum_probs=34.7
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVN 233 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvN 233 (311)
+.+++|+.+....+.++....+.|++.|+++.++|+|
T Consensus 130 ~~vilV~~~~~~~~~~~~~~~~~l~~~~~~i~gvv~N 166 (166)
T TIGR00347 130 LPVILVVRVKLGTINHTLLTVEHARQTGLTLAGVILN 166 (166)
T ss_pred CCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 3479999999999999999999999999999999998
No 59
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=96.41 E-value=0.055 Score=50.19 Aligned_cols=63 Identities=13% Similarity=-0.014 Sum_probs=34.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEec
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLP 276 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp 276 (311)
-..++|+.+. ..-.....+....+.. ++.++|+|++-.... ... .+ .+...+ ++|+..+.
T Consensus 192 ~~~~LVl~a~-~~~~~~~~~~~f~~~~--~~~g~IlTKlDe~~~---~G~-----------~l-~~~~~~--~~Pi~~~~ 251 (272)
T TIGR00064 192 DEVLLVLDAT-TGQNALEQAKVFNEAV--GLTGIILTKLDGTAK---GGI-----------IL-SIAYEL--KLPIKFIG 251 (272)
T ss_pred ceEEEEEECC-CCHHHHHHHHHHHhhC--CCCEEEEEccCCCCC---ccH-----------HH-HHHHHH--CcCEEEEe
Confidence 4567787775 3433333333333333 578999999854321 111 12 222343 58999988
Q ss_pred CCC
Q psy2008 277 LQS 279 (311)
Q Consensus 277 ~~~ 279 (311)
...
T Consensus 252 ~Gq 254 (272)
T TIGR00064 252 VGE 254 (272)
T ss_pred CCC
Confidence 654
No 60
>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]
Probab=96.27 E-value=0.0052 Score=55.07 Aligned_cols=41 Identities=17% Similarity=0.270 Sum_probs=34.9
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcC----CCc---ceEEEcCCcCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTG----IDT---RNIIVNQLVFY 238 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~g----i~v---~~vvvNrv~~~ 238 (311)
..++|||||--|++.+-|++.-|...+ +.- ..+++||.-|.
T Consensus 138 ~AiVVtnPEvSsVRDsDRiiGlLesk~~rae~~~~~~~~llvnR~~p~ 185 (272)
T COG2894 138 EAIVVTNPEVSSVRDSDRIIGLLESKSRRAEIGEEPKEHLLLNRYRPE 185 (272)
T ss_pred eEEEEcCCCccccccchhheeehhcccchhhcCCcccceEEEEccCHH
Confidence 469999999999999999999999776 333 57999998774
No 61
>PRK10867 signal recognition particle protein; Provisional
Probab=95.93 E-value=0.071 Score=52.71 Aligned_cols=22 Identities=36% Similarity=0.428 Sum_probs=16.6
Q ss_pred HHHHHhcCCCcEEEEcCCCchH
Q psy2008 106 VLKLVKGMNFSVVVFDTAPTGH 127 (311)
Q Consensus 106 l~~~~~~~~yD~IV~Dt~Ptg~ 127 (311)
..+.....+||+||+|||+-.|
T Consensus 175 a~~~a~~~~~DvVIIDTaGrl~ 196 (433)
T PRK10867 175 ALEEAKENGYDVVIVDTAGRLH 196 (433)
T ss_pred HHHHHHhcCCCEEEEeCCCCcc
Confidence 3444556789999999999754
No 62
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=95.48 E-value=0.18 Score=47.88 Aligned_cols=17 Identities=35% Similarity=0.444 Sum_probs=14.2
Q ss_pred hcCCCcEEEEcCCCchH
Q psy2008 111 KGMNFSVVVFDTAPTGH 127 (311)
Q Consensus 111 ~~~~yD~IV~Dt~Ptg~ 127 (311)
...+||+||+||||-.|
T Consensus 193 ~~~~~D~ViIDTaGr~~ 209 (318)
T PRK10416 193 KARGIDVLIIDTAGRLH 209 (318)
T ss_pred HhCCCCEEEEeCCCCCc
Confidence 34679999999999765
No 63
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=95.35 E-value=0.093 Score=48.45 Aligned_cols=38 Identities=21% Similarity=0.281 Sum_probs=35.7
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
..++||-|++.++...+|+++.++.+||+. ++|+||.-
T Consensus 188 ~ai~VTEPTp~glhD~kr~~el~~~f~ip~-~iViNr~~ 225 (284)
T COG1149 188 LAILVTEPTPFGLHDLKRALELVEHFGIPT-GIVINRYN 225 (284)
T ss_pred EEEEEecCCccchhHHHHHHHHHHHhCCce-EEEEecCC
Confidence 679999999999999999999999999998 78999993
No 64
>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=94.34 E-value=0.085 Score=47.70 Aligned_cols=26 Identities=4% Similarity=-0.144 Sum_probs=21.5
Q ss_pred hhhhHHhCCCcEEEEecCCCCChhhh
Q psy2008 3 ENQYSKALDKEASGYSRPKTHNISDA 28 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~sL~d~ 28 (311)
++...+++|.+|.|+..||.++|...
T Consensus 22 LAs~la~~G~~V~lIDaDpn~pl~~W 47 (231)
T PF07015_consen 22 LASELAARGARVALIDADPNQPLAKW 47 (231)
T ss_pred HHHHHHHCCCeEEEEeCCCCCcHHHH
Confidence 45556679999999999999988755
No 65
>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=93.16 E-value=0.084 Score=43.83 Aligned_cols=30 Identities=7% Similarity=-0.198 Sum_probs=19.9
Q ss_pred hhhhHHhCCCcEEEEecCCCCC-hhhhhccC
Q psy2008 3 ENQYSKALDKEASGYSRPKTHN-ISDAFNQK 32 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~s-L~d~l~~~ 32 (311)
+|...|+.|++||++..|+..+ +...++.+
T Consensus 21 lA~~la~~~~~Vllid~~~~~~~~~~~~~~~ 51 (157)
T PF13614_consen 21 LAAALARKGKKVLLIDFDFFSPSLSRLLGIE 51 (157)
T ss_dssp HHHHHHHTTT-EEEEE--SSS-HHHHHTTSS
T ss_pred HHHHHHhcCCCeEEEECCCCCCCcccccccc
Confidence 4666777999999999999765 66666665
No 66
>PRK13886 conjugal transfer protein TraL; Provisional
Probab=93.05 E-value=0.26 Score=44.90 Aligned_cols=97 Identities=15% Similarity=0.165 Sum_probs=56.3
Q ss_pred ChhhhHHhCCCcEEEEecCCCCChhhhhccC-CCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccC
Q psy2008 2 SENQYSKALDKEASGYSRPKTHNISDAFNQK-FTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGG 80 (311)
Q Consensus 2 ~~~~~aa~~G~rtLlvS~DPa~sL~d~l~~~-l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~ 80 (311)
.++++++.+|++|+++.+||+++. ..+.. ++.++..+. . .-++++ ..+.+.. +.+...-...
T Consensus 22 ~la~~l~~~g~~vl~iD~D~~n~~--~~~~~~l~~~~~~i~--~---~~~i~~-r~fD~Lv------e~i~~~~~dv--- 84 (241)
T PRK13886 22 TIAQYKASKGQKPLCIDTDPVNAT--FEGYKALNVRRLNIM--D---GDEINT-RNFDALV------EMIASTEGDV--- 84 (241)
T ss_pred HHHHHHHhCCCCEEEEECCCCCch--hhhHHhcCCcceecc--c---CCccch-hhHHHHH------HHHhccCCCE---
Confidence 357888889999999999999852 22322 333333332 1 011221 1222222 1221110011
Q ss_pred CCchhHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEEEE
Q psy2008 81 GMINDVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVVVF 120 (311)
Q Consensus 81 ~~~~~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~ 120 (311)
++++. .+...|+.++++-..+.+++++.++++||+
T Consensus 85 IIDng-----As~~~~l~~yl~~n~l~~ll~e~g~~lvvh 119 (241)
T PRK13886 85 IIDNG-----ASSFVPLSHYLISNQVPALLQDMGHELVVH 119 (241)
T ss_pred EEECC-----CcchHHHHHHHHhCcHHHHHHHCCceEEEE
Confidence 12222 355678999999999999999999999987
No 67
>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=92.92 E-value=0.55 Score=46.40 Aligned_cols=21 Identities=5% Similarity=-0.154 Sum_probs=16.8
Q ss_pred hhhhHHhCCCcEEEEecCCCC
Q psy2008 3 ENQYSKALDKEASGYSRPKTH 23 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~ 23 (311)
+|.+++++|+||+|+++|+..
T Consensus 120 LA~~l~~~G~kV~lV~~D~~R 140 (429)
T TIGR01425 120 LAYYYQRKGFKPCLVCADTFR 140 (429)
T ss_pred HHHHHHHCCCCEEEEcCcccc
Confidence 456666789999999999876
No 68
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=92.77 E-value=0.64 Score=38.15 Aligned_cols=42 Identities=17% Similarity=0.059 Sum_probs=38.5
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
..+++|++|+..++..+....+.++..|+++.++|.|+..+.
T Consensus 69 ~~vllV~~~~~g~i~~a~~~~~~l~~~g~~i~gvi~N~~~~~ 110 (134)
T cd03109 69 LPAILVTSAGLGSINHAFLTIEAARIKGIILNGVLGNVIVEK 110 (134)
T ss_pred CCEEEEEcCCCCcHhHHHHHHHHHHhcCCceeEEEEccCCCc
Confidence 357999999999999999999999999999999999998764
No 69
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=92.24 E-value=0.4 Score=41.77 Aligned_cols=63 Identities=16% Similarity=0.226 Sum_probs=47.9
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEE-Ee
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVT-KL 275 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~-~v 275 (311)
+.+++|+....-++.++.-.++.++..|+++.++|+|++-+++ .++.+++.. ++|++ .|
T Consensus 130 a~vIlV~~~~~g~i~~~l~~~~~~~~~g~~v~GvI~N~~~~~~------------------~~~~l~~~~--~i~vlg~i 189 (199)
T PF13500_consen 130 APVILVASGRLGTINHTLLTIEALKQRGIRVLGVILNRVPEPE------------------NLEALREKS--GIPVLGVI 189 (199)
T ss_dssp -EEEEEEESSTTHHHHHHHHHHHHHCTTS-EEEEEEEECTCCH------------------HHHHHHHHH--CCEECE--
T ss_pred CCEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEEECCCCHH------------------HHHHHHHhC--CCCEEEEC
Confidence 6789999999999999999999999999999999999975431 445666666 58887 46
Q ss_pred cCCC
Q psy2008 276 PLQS 279 (311)
Q Consensus 276 p~~~ 279 (311)
|..+
T Consensus 190 P~~~ 193 (199)
T PF13500_consen 190 PEDP 193 (199)
T ss_dssp -SST
T ss_pred CCCc
Confidence 7654
No 70
>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=92.15 E-value=1.8 Score=36.66 Aligned_cols=39 Identities=13% Similarity=-0.028 Sum_probs=24.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
...++|..+. ..-....++...++..+ +.++|+||+-..
T Consensus 114 ~~~~lVv~~~-~~~~~~~~~~~~~~~~~--~~~viltk~D~~ 152 (173)
T cd03115 114 DEVLLVVDAM-TGQDAVNQAKAFNEALG--ITGVILTKLDGD 152 (173)
T ss_pred CeEEEEEECC-CChHHHHHHHHHHhhCC--CCEEEEECCcCC
Confidence 4677788774 33344444444445555 689999998543
No 71
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=92.04 E-value=0.57 Score=39.26 Aligned_cols=21 Identities=10% Similarity=-0.073 Sum_probs=16.2
Q ss_pred hhhHHhCCCcEEEEecCCCCC
Q psy2008 4 NQYSKALDKEASGYSRPKTHN 24 (311)
Q Consensus 4 ~~~aa~~G~rtLlvS~DPa~s 24 (311)
+......|+|++++..||..+
T Consensus 20 ~~~~~~~g~~v~ii~~D~~~~ 40 (148)
T cd03114 20 ITALRARGKRVAVLAIDPSSP 40 (148)
T ss_pred HHHHHHCCCEEEEEEeCCCCC
Confidence 344556899999999998654
No 72
>PRK05632 phosphate acetyltransferase; Reviewed
Probab=90.63 E-value=1.1 Score=47.07 Aligned_cols=41 Identities=15% Similarity=0.097 Sum_probs=31.0
Q ss_pred ceEEEEecCCcccHHH----HHHHHHHHH-hcCCCcceEEEcC--CcC
Q psy2008 197 STFVCVCIAEFLSLYE----TERLVQELA-KTGIDTRNIIVNQ--LVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~E----t~rl~~~L~-~~gi~v~~vvvNr--v~~ 237 (311)
..+++|++++..++.+ +.-..+.++ ..|+++-++|+|| +.+
T Consensus 107 ~pVILV~~~~~~si~d~~~~i~~~~~~l~~~~~~~v~GVIvNr~~v~~ 154 (684)
T PRK05632 107 AEVVLVSSGGNDTPEELAERIELAASSFGGAKNANILGVIINKLNAPV 154 (684)
T ss_pred CCEEEEECCCCCChHHHHHHHHHHHHHhccCCCCcEEEEEEECCCCCH
Confidence 4589999999888544 555555555 6689999999999 544
No 73
>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=90.39 E-value=0.55 Score=37.74 Aligned_cols=26 Identities=19% Similarity=0.042 Sum_probs=20.1
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCchH
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPTGH 127 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Ptg~ 127 (311)
.+.++..++....||++|+||++.-.
T Consensus 74 ~~~~~l~~~~~~~~~~vivDt~ag~e 99 (116)
T cd02034 74 LLNALLRHLVLTRDEQVVVDTEAGLE 99 (116)
T ss_pred HHHHHHHHeEccCCCEEEEecHHHHH
Confidence 66677777666779999999998643
No 74
>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=90.21 E-value=0.21 Score=45.71 Aligned_cols=29 Identities=3% Similarity=-0.076 Sum_probs=17.8
Q ss_pred hhhhHHhCCCcEEEEecCC-CCChhhhhcc
Q psy2008 3 ENQYSKALDKEASGYSRPK-THNISDAFNQ 31 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DP-a~sL~d~l~~ 31 (311)
+|...++.|+||-++..|. .+|+...|+.
T Consensus 21 lA~aLa~~G~kVg~lD~Di~q~S~~r~l~n 50 (261)
T PF09140_consen 21 LAVALARMGKKVGLLDLDIRQPSLPRYLEN 50 (261)
T ss_dssp HHHHHHCTT--EEEEE--TTT-HHHHHHHH
T ss_pred HHHHHHHCCCeEEEEecCCCCCCHHHHHhc
Confidence 3455567999999999999 5677777753
No 75
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=89.64 E-value=5.2 Score=39.15 Aligned_cols=37 Identities=11% Similarity=0.076 Sum_probs=23.5
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
..++|..+ .....+...+++..+ .++++++|+.++=.
T Consensus 318 ~~~LVLsa-g~~~~d~~~i~~~f~--~l~i~glI~TKLDE 354 (407)
T PRK12726 318 LTCFTFSS-GMKSADVMTILPKLA--EIPIDGFIITKMDE 354 (407)
T ss_pred eEEEECCC-cccHHHHHHHHHhcC--cCCCCEEEEEcccC
Confidence 34667665 344455555555533 57789999999854
No 76
>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=88.10 E-value=3.8 Score=40.54 Aligned_cols=23 Identities=35% Similarity=0.414 Sum_probs=16.4
Q ss_pred HHHHHHhcCCCcEEEEcCCCchH
Q psy2008 105 EVLKLVKGMNFSVVVFDTAPTGH 127 (311)
Q Consensus 105 ~l~~~~~~~~yD~IV~Dt~Ptg~ 127 (311)
...+.....+||+||+|||+-.|
T Consensus 173 ~al~~~~~~~~DvVIIDTaGr~~ 195 (428)
T TIGR00959 173 RALEYAKENGFDVVIVDTAGRLQ 195 (428)
T ss_pred HHHHHHHhcCCCEEEEeCCCccc
Confidence 33334455679999999999744
No 77
>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]
Probab=87.49 E-value=3 Score=40.33 Aligned_cols=43 Identities=19% Similarity=0.254 Sum_probs=36.7
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCC--cceEEEcCCcCcC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGID--TRNIIVNQLVFYS 239 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~--v~~vvvNrv~~~~ 239 (311)
..+++|+.|+-.+++.+++++..|++.+.+ .-.+|+||+-...
T Consensus 241 d~iviv~e~sl~slR~ak~lld~l~~~r~~~~~p~lv~n~~~~~~ 285 (366)
T COG4963 241 DEIVIVAEPSLASLRNAKELLDELKRLRPNDPKPILVLNRVGVPK 285 (366)
T ss_pred CeEEEEecccHHHHHHHHHHHHHHHHhCCCCCCceEEeeecCCCC
Confidence 689999999999999999999999986654 4468999987643
No 78
>cd03113 CTGs CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent ammonia to the acceptor substrate at the synthetase domain to form an aminated product. Glutaminase domains have evolved from the same ancestor, whereas the synthetase domains are evolutionarily unrelated and have different functions. This protein family is classified based on the N-terminal synthetase domain.
Probab=86.38 E-value=1.6 Score=39.92 Aligned_cols=61 Identities=20% Similarity=0.235 Sum_probs=43.7
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEE-ec-----CCcccHHHHHHHHHHHHhcCCCcceEEEcC
Q psy2008 166 ADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCV-CI-----AEFLSLYETERLVQELAKTGIDTRNIIVNQ 234 (311)
Q Consensus 166 ~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lV-t~-----pe~l~v~Et~rl~~~L~~~gi~v~~vvvNr 234 (311)
|++.+-++++.+++++.++.+ +.+-|+=| .. ..+.--+-|+..+++|+..||.++++|+|.
T Consensus 145 GDiEs~pf~EAirq~~~~~g~--------~n~~~ihvt~vp~~~~~gE~KTKPtQhSVeaLRs~GIqPDgIVcRs 211 (255)
T cd03113 145 GDIESLPFLEAIRQMKLELGR--------ENVLFIHVTLVPYLKAAGELKTKPTQHSVKELRSIGIQPDILVCRS 211 (255)
T ss_pred ccccccHHHHHHHHHHHHhCc--------CcEEEEEEeeeeeecCCCccccCchHHHHHHHHhCCCCCCEEEEeC
Confidence 366677888888888766432 22333222 22 356667779999999999999999999997
No 79
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=85.29 E-value=3.6 Score=38.53 Aligned_cols=26 Identities=19% Similarity=0.482 Sum_probs=18.9
Q ss_pred HHHHHHHhcCCCcEEEEcCCCchHHH
Q psy2008 104 AEVLKLVKGMNFSVVVFDTAPTGHTL 129 (311)
Q Consensus 104 ~~l~~~~~~~~yD~IV~Dt~Ptg~tL 129 (311)
..+.+.++..+||+|++||++.|+.-
T Consensus 116 ~~~~~~l~~~g~D~viidT~G~~~~e 141 (300)
T TIGR00750 116 RELILLLDAAGYDVIIVETVGVGQSE 141 (300)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCchhh
Confidence 34455556678999999999876544
No 80
>TIGR00313 cobQ cobyric acid synthase CobQ.
Probab=84.05 E-value=9.1 Score=38.38 Aligned_cols=41 Identities=10% Similarity=0.015 Sum_probs=25.7
Q ss_pred ceEEEEecCCcccH-HHHHHHHHHHHhc-CCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFLSL-YETERLVQELAKT-GIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v-~Et~rl~~~L~~~-gi~v~~vvvNrv~~ 237 (311)
+-+++|+..+..++ ..+.-.+..++.. ++.+.++|+||+-+
T Consensus 155 apVILV~d~~~g~~~a~i~gt~~~l~~~~~~~i~GvIlNrv~~ 197 (475)
T TIGR00313 155 ADAILVADIDRGGVFASIYGTLKLLPENWRKLIKGIVINKFRG 197 (475)
T ss_pred CCEEEEEeCCccHHHHHHHHHHHHhChhhcCceEEEEEeccCC
Confidence 44688877776633 3444444444443 36788888998854
No 81
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=83.36 E-value=6.7 Score=35.10 Aligned_cols=43 Identities=12% Similarity=0.017 Sum_probs=37.8
Q ss_pred CceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 196 KSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 196 ~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
...+++|+...--.++.+.-..+.++..|+++.++|+||+.+.
T Consensus 135 ~~pvilV~~~~lg~in~~lLt~~~l~~~~~~~~gvV~N~~~~~ 177 (231)
T PRK12374 135 QLPVLMVVGIQEGCINHALLTAQAIANDGLPLIGWVANRINPG 177 (231)
T ss_pred CCCEEEEECCCcChHHHHHHHHHHHHhCCCcEEEEEEeCccCc
Confidence 3678999977777799999999999999999999999998653
No 82
>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family. Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....
Probab=82.84 E-value=3.4 Score=38.27 Aligned_cols=85 Identities=15% Similarity=0.212 Sum_probs=54.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhc----CCCcceEEEc-CCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKT----GIDTRNIIVN-QLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFH 271 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~----gi~v~~vvvN-rv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~p 271 (311)
-.+++||+-|.||+.-+-.+...++.+ +.++.++|.| |-.+.+ ...++++.+... .|
T Consensus 143 ~evyIVtSge~mslyAANNI~~~i~~~~~~g~~~l~GiI~N~r~~~~e----------------~~~v~~fa~~~g--~~ 204 (273)
T PF00142_consen 143 QEVYIVTSGEFMSLYAANNICKAIKNFADRGGARLGGIICNSRNVDDE----------------EEIVEDFAERIG--TP 204 (273)
T ss_dssp SEEEEEEBSSHHHHHHHHHHHHHHHHHCTTSS-EEEEEEEE-SSSTTH----------------HHHHHHHHHHHT--SE
T ss_pred CEEEEEecCcHHHHHHHHHHHHHHHHHhccCCCceEEEEecCCCCCCc----------------hHHHHHHHHHcC--Cc
Confidence 479999999999999999999999976 5789999999 444332 223344444442 33
Q ss_pred EE-EecC--------------CCCCCCCH--HHHHHHHHHhcCCC
Q psy2008 272 VT-KLPL--------------QSEEIRGV--AKVEAFSRMLVTPF 299 (311)
Q Consensus 272 v~-~vp~--------------~~~e~~g~--~~L~~l~~~l~~~~ 299 (311)
++ .||. ....|..- ...++||+.++.+.
T Consensus 205 i~~~iPr~~~v~~ae~~~~TVie~~P~s~~a~~yr~LA~~I~~~~ 249 (273)
T PF00142_consen 205 IIAFIPRSEIVQRAELYGKTVIEAAPDSEQAQEYRELARKILENP 249 (273)
T ss_dssp EEEEE---HHHHHHHHCTS-CCCC-TTSHHHHHHHHHHHHHHH--
T ss_pred EEEecCchHHHHHHHHcCCEEEEeCCCcHHHHHHHHHHHHHHhCC
Confidence 33 3442 22344443 56788888888654
No 83
>PRK13768 GTPase; Provisional
Probab=79.33 E-value=16 Score=33.24 Aligned_cols=20 Identities=0% Similarity=-0.069 Sum_probs=16.4
Q ss_pred hhhHHhCCCcEEEEecCCCC
Q psy2008 4 NQYSKALDKEASGYSRPKTH 23 (311)
Q Consensus 4 ~~~aa~~G~rtLlvS~DPa~ 23 (311)
+.+++..|++|+++..||+.
T Consensus 23 ~~~l~~~g~~v~~i~~D~~~ 42 (253)
T PRK13768 23 SDWLEEQGYDVAIVNLDPAV 42 (253)
T ss_pred HHHHHhcCCceEEEECCCcc
Confidence 45556689999999999974
No 84
>PLN02974 adenosylmethionine-8-amino-7-oxononanoate transaminase
Probab=79.30 E-value=5.7 Score=42.60 Aligned_cols=69 Identities=14% Similarity=0.118 Sum_probs=54.9
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEec
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLP 276 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp 276 (311)
--++||+.+.=-.|+-|.-.+++|+..|+++.+||+|.... ...+.|++.|..++||+.+|
T Consensus 215 lPvILV~~~~LG~INhtllt~eaL~~rGi~v~gii~~~~~~-------------------~N~~~l~~~~~~~~pv~~lp 275 (817)
T PLN02974 215 LPAILVGDGRLGGISATLAAYESLLLRGYDVVAVVIEDHGL-------------------SNEKALLSYLSNRVPVFVLP 275 (817)
T ss_pred CCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEEeCCcc-------------------chHHHHHHHHhcCCcEEeCC
Confidence 34799999999999999999999999999999999995321 12344556664479999999
Q ss_pred CCCCCCCC
Q psy2008 277 LQSEEIRG 284 (311)
Q Consensus 277 ~~~~e~~g 284 (311)
..+..+..
T Consensus 276 ~~p~~~~~ 283 (817)
T PLN02974 276 PVPEDPGD 283 (817)
T ss_pred CCCCCcch
Confidence 88876644
No 85
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=77.56 E-value=18 Score=36.00 Aligned_cols=14 Identities=29% Similarity=0.342 Sum_probs=11.6
Q ss_pred CCcEEEEcCCCchH
Q psy2008 114 NFSVVVFDTAPTGH 127 (311)
Q Consensus 114 ~yD~IV~Dt~Ptg~ 127 (311)
++|+||+||||-.|
T Consensus 175 ~~DvVIIDTAGr~~ 188 (437)
T PRK00771 175 KADVIIVDTAGRHA 188 (437)
T ss_pred cCCEEEEECCCccc
Confidence 47999999999744
No 86
>PRK14974 cell division protein FtsY; Provisional
Probab=74.02 E-value=22 Score=34.00 Aligned_cols=23 Identities=30% Similarity=0.419 Sum_probs=16.6
Q ss_pred HHHHHHhcCCCcEEEEcCCCchH
Q psy2008 105 EVLKLVKGMNFSVVVFDTAPTGH 127 (311)
Q Consensus 105 ~l~~~~~~~~yD~IV~Dt~Ptg~ 127 (311)
...++....+||+|++|||+-.|
T Consensus 213 ~ai~~~~~~~~DvVLIDTaGr~~ 235 (336)
T PRK14974 213 DAIEHAKARGIDVVLIDTAGRMH 235 (336)
T ss_pred HHHHHHHhCCCCEEEEECCCccC
Confidence 33334455679999999998766
No 87
>PRK00784 cobyric acid synthase; Provisional
Probab=73.99 E-value=27 Score=35.09 Aligned_cols=41 Identities=10% Similarity=0.022 Sum_probs=30.4
Q ss_pred ceEEEEecCCcc-cHHHHHHHHHHHHh-cCCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFL-SLYETERLVQELAK-TGIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l-~v~Et~rl~~~L~~-~gi~v~~vvvNrv~~ 237 (311)
+-+++|+..... ++..+.-.++.+.. .++++.++|+||+-+
T Consensus 158 ~PVILV~~~~~g~~~~~i~~~~~~l~~~~~~~i~GvI~N~v~~ 200 (488)
T PRK00784 158 APVILVADIDRGGVFASLVGTLALLPPEERARVKGFIINKFRG 200 (488)
T ss_pred CCEEEEEeCCcCcHHHHHHHHHHhcChhhCCcEEEEEEECCCC
Confidence 457888887666 46666656666664 468999999999975
No 88
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=73.70 E-value=19 Score=33.40 Aligned_cols=69 Identities=7% Similarity=0.084 Sum_probs=39.0
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPL 277 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~ 277 (311)
..++|..+.. .-.+....+..++. ++++++|+-|+=.... ... .++ +...+ +.||..+-.
T Consensus 187 ~~~LVl~a~~-~~~d~~~~~~~f~~--~~~~~~I~TKlDet~~---~G~-----------~l~-~~~~~--~~Pi~~it~ 246 (270)
T PRK06731 187 YICLTLSASM-KSKDMIEIITNFKD--IHIDGIVFTKFDETAS---SGE-----------LLK-IPAVS--SAPIVLMTD 246 (270)
T ss_pred eEEEEEcCcc-CHHHHHHHHHHhCC--CCCCEEEEEeecCCCC---ccH-----------HHH-HHHHH--CcCEEEEeC
Confidence 4566665543 23556666666654 7889999988743221 111 122 22233 689998876
Q ss_pred CCCCCCCHH
Q psy2008 278 QSEEIRGVA 286 (311)
Q Consensus 278 ~~~e~~g~~ 286 (311)
...-|.++.
T Consensus 247 Gq~vp~di~ 255 (270)
T PRK06731 247 GQDVKKNIH 255 (270)
T ss_pred CCCCCcchh
Confidence 655554443
No 89
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=66.86 E-value=27 Score=34.67 Aligned_cols=41 Identities=10% Similarity=0.158 Sum_probs=25.9
Q ss_pred cCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 192 RDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 192 ~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
.+|..|-+++=+.--..++..|+.+-+. +++.+||+-+.-.
T Consensus 211 ~~P~E~llVvDam~GQdA~~~A~aF~e~-----l~itGvIlTKlDG 251 (451)
T COG0541 211 INPDETLLVVDAMIGQDAVNTAKAFNEA-----LGITGVILTKLDG 251 (451)
T ss_pred cCCCeEEEEEecccchHHHHHHHHHhhh-----cCCceEEEEcccC
Confidence 3687665555555555666666555444 4778999988743
No 90
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=66.43 E-value=39 Score=33.44 Aligned_cols=79 Identities=8% Similarity=0.126 Sum_probs=45.8
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPL 277 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~ 277 (311)
..++|..+. ..-++....++.++. ++++++|+-++=.... ... .+ .+...+ ++||..+-.
T Consensus 353 evlLVLsAT-tk~~d~~~i~~~F~~--~~idglI~TKLDET~k---~G~-----------iL-ni~~~~--~lPIsyit~ 412 (436)
T PRK11889 353 YICLTLSAS-MKSKDMIEIITNFKD--IHIDGIVFTKFDETAS---SGE-----------LL-KIPAVS--SAPIVLMTD 412 (436)
T ss_pred eEEEEECCc-cChHHHHHHHHHhcC--CCCCEEEEEcccCCCC---ccH-----------HH-HHHHHH--CcCEEEEeC
Confidence 457775553 444677777777776 7789999998844321 111 12 233334 689999876
Q ss_pred CCCCCCCHHH--HHHHHHHhc
Q psy2008 278 QSEEIRGVAK--VEAFSRMLV 296 (311)
Q Consensus 278 ~~~e~~g~~~--L~~l~~~l~ 296 (311)
...=|.++.. -+.|++.+.
T Consensus 413 GQ~VPeDI~~A~~~~L~~~ll 433 (436)
T PRK11889 413 GQDVKKNIHIATAEHLAKQML 433 (436)
T ss_pred CCCCCcchhhCCHHHHHHHHh
Confidence 5554444332 334555544
No 91
>PRK06278 cobyrinic acid a,c-diamide synthase; Validated
Probab=65.20 E-value=27 Score=35.09 Aligned_cols=41 Identities=17% Similarity=0.084 Sum_probs=32.7
Q ss_pred ceEEEEecCCcccHHHHHHH----HHHHHhcCCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFLSLYETERL----VQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl----~~~L~~~gi~v~~vvvNrv~~ 237 (311)
+-+++|+.....++.-+.-. .+.|+..++++.+||+|++.+
T Consensus 351 ~PVILV~~~~~g~i~~~~~~i~G~~~~l~~~~i~i~GVIlN~v~~ 395 (476)
T PRK06278 351 FPVYIVSSCSKSGIEGAFVESMAYYSLLKKMGVKVEGIILNKVYN 395 (476)
T ss_pred CCEEEEEcCCCChHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCc
Confidence 56899999999987665443 456667799999999999974
No 92
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=64.96 E-value=13 Score=33.49 Aligned_cols=42 Identities=14% Similarity=0.078 Sum_probs=39.0
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYS 239 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~ 239 (311)
-+++|+...--+++-|.=.+++++..|+++.++|+|+..|..
T Consensus 138 pvILV~~~~LGtINHtlLt~eal~~~gl~l~G~I~n~~~~~~ 179 (223)
T COG0132 138 PVILVVGIKLGTINHTLLTVEALRARGLPLAGWVANGINPEL 179 (223)
T ss_pred CEEEEecCCccHHHHHHHHHHHHHHCCCCEEEEEEccCCCch
Confidence 479999999999999999999999999999999999998754
No 93
>COG2229 Predicted GTPase [General function prediction only]
Probab=64.95 E-value=69 Score=28.07 Aligned_cols=52 Identities=15% Similarity=0.176 Sum_probs=38.7
Q ss_pred HHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcC-CCcceEEEcCC
Q psy2008 182 GNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTG-IDTRNIIVNQL 235 (311)
Q Consensus 182 ~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~g-i~v~~vvvNrv 235 (311)
+|+..+.+.+..-..-.+++|-+...-.. ++++++.-+.... +|+ .|.+|+-
T Consensus 79 ~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~ip~-vVa~NK~ 131 (187)
T COG2229 79 ERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNPIPV-VVAINKQ 131 (187)
T ss_pred HHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccCCCE-EEEeecc
Confidence 56666677777767677777766555554 9999999999877 666 7889985
No 94
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=63.86 E-value=1.6e+02 Score=29.30 Aligned_cols=83 Identities=14% Similarity=0.105 Sum_probs=44.4
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEec
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLP 276 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp 276 (311)
...++|..+..-. .....++... ..++++++|+-++=.... ... .++-.. .+ ++||..+-
T Consensus 334 ~e~~LVLsAt~~~-~~~~~~~~~f--~~~~~~glIlTKLDEt~~---~G~-----------il~i~~-~~--~lPI~ylt 393 (432)
T PRK12724 334 VENLLVLSSTSSY-HHTLTVLKAY--ESLNYRRILLTKLDEADF---LGS-----------FLELAD-TY--SKSFTYLS 393 (432)
T ss_pred CeEEEEEeCCCCH-HHHHHHHHHh--cCCCCCEEEEEcccCCCC---ccH-----------HHHHHH-HH--CCCEEEEe
Confidence 4556666655433 3333333333 345678999888744221 111 222222 22 68898887
Q ss_pred CCCCCCCCHHHH--HHHHHHhcCCC
Q psy2008 277 LQSEEIRGVAKV--EAFSRMLVTPF 299 (311)
Q Consensus 277 ~~~~e~~g~~~L--~~l~~~l~~~~ 299 (311)
....-|.++..- ..|++.+.-|.
T Consensus 394 ~GQ~VPeDi~~A~~~~l~~~i~~~~ 418 (432)
T PRK12724 394 VGQEVPFDILNATKNLMAECVVFPE 418 (432)
T ss_pred cCCCCCCCHHHhhHHHHHHHhcChH
Confidence 766666665543 34666666554
No 95
>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=62.49 E-value=41 Score=29.41 Aligned_cols=21 Identities=14% Similarity=-0.108 Sum_probs=14.1
Q ss_pred hhhhHHhCCCcEEEEecCCCC
Q psy2008 3 ENQYSKALDKEASGYSRPKTH 23 (311)
Q Consensus 3 ~~~~aa~~G~rtLlvS~DPa~ 23 (311)
+|.++..+|+||.++|+|.-+
T Consensus 21 LAa~~~~~~~~v~lis~D~~R 41 (196)
T PF00448_consen 21 LAARLKLKGKKVALISADTYR 41 (196)
T ss_dssp HHHHHHHTT--EEEEEESTSS
T ss_pred HHHHHhhccccceeecCCCCC
Confidence 345555579999999998765
No 96
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=61.08 E-value=1.6e+02 Score=29.17 Aligned_cols=84 Identities=13% Similarity=0.148 Sum_probs=45.7
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPL 277 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~ 277 (311)
..++|.++. ....+...++..++..+ +.++|+.++-+.... . ..++-+.+. ++|+..+-.
T Consensus 333 ~~~LVl~a~-~~~~~l~~~~~~f~~~~--~~~vI~TKlDet~~~---G-----------~i~~~~~~~---~lPv~yit~ 392 (424)
T PRK05703 333 DVYLVLSAT-TKYEDLKDIYKHFSRLP--LDGLIFTKLDETSSL---G-----------SILSLLIES---GLPISYLTN 392 (424)
T ss_pred eEEEEEECC-CCHHHHHHHHHHhCCCC--CCEEEEecccccccc---c-----------HHHHHHHHH---CCCEEEEeC
Confidence 445554443 34455566666666544 589999998653210 0 112222222 689998876
Q ss_pred CCCCCCCHHH--HHHHHHHhcCCCCC
Q psy2008 278 QSEEIRGVAK--VEAFSRMLVTPFEP 301 (311)
Q Consensus 278 ~~~e~~g~~~--L~~l~~~l~~~~~~ 301 (311)
...=|.++.. -+.|++.+++....
T Consensus 393 Gq~VpdDl~~a~~~~l~~~ll~~~~~ 418 (424)
T PRK05703 393 GQRVPDDIKVANPEELVRLLLGGFNK 418 (424)
T ss_pred CCCChhhhhhCCHHHHHHHHhccccc
Confidence 5443333333 44577777766443
No 97
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=61.05 E-value=96 Score=26.28 Aligned_cols=37 Identities=22% Similarity=0.157 Sum_probs=30.1
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQL 235 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv 235 (311)
..++|..+..-.-..+.+.+..+..+++| --+++|++
T Consensus 96 ~ailvVda~~g~~~~~~~~l~~~~~~~~p-~ivvlNK~ 132 (188)
T PF00009_consen 96 IAILVVDANDGIQPQTEEHLKILRELGIP-IIVVLNKM 132 (188)
T ss_dssp EEEEEEETTTBSTHHHHHHHHHHHHTT-S-EEEEEETC
T ss_pred cceeeeecccccccccccccccccccccc-eEEeeeec
Confidence 45667777666778899999999999999 58999998
No 98
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=61.02 E-value=50 Score=33.87 Aligned_cols=27 Identities=11% Similarity=0.332 Sum_probs=17.0
Q ss_pred cHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 209 SLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 209 ~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
+..+..+++..++.. ++.++|+||+-.
T Consensus 470 s~~Dl~eii~~f~~~--~~~gvILTKlDE 496 (559)
T PRK12727 470 HFSDLDEVVRRFAHA--KPQGVVLTKLDE 496 (559)
T ss_pred ChhHHHHHHHHHHhh--CCeEEEEecCcC
Confidence 444555555555553 568899998743
No 99
>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=59.89 E-value=54 Score=26.08 Aligned_cols=38 Identities=16% Similarity=0.075 Sum_probs=24.8
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
.+++|..+......+...+...++..+.|+ -+|+||+-
T Consensus 79 ~ii~v~d~~~~~~~~~~~~~~~~~~~~~pi-iiv~nK~D 116 (157)
T cd01894 79 VILFVVDGREGLTPADEEIAKYLRKSKKPV-ILVVNKVD 116 (157)
T ss_pred EEEEEEeccccCCccHHHHHHHHHhcCCCE-EEEEECcc
Confidence 456665554332234456777888888776 78899973
No 100
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=58.43 E-value=22 Score=33.60 Aligned_cols=21 Identities=0% Similarity=-0.070 Sum_probs=16.6
Q ss_pred hHHhCCCcEEEEecCCCCChh
Q psy2008 6 YSKALDKEASGYSRPKTHNIS 26 (311)
Q Consensus 6 ~aa~~G~rtLlvS~DPa~sL~ 26 (311)
.+-++|+||-|+++||....+
T Consensus 74 ~l~~~G~rVaVlAVDPSSp~T 94 (323)
T COG1703 74 ELRERGHRVAVLAVDPSSPFT 94 (323)
T ss_pred HHHHCCcEEEEEEECCCCCCC
Confidence 345699999999999997443
No 101
>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]
Probab=57.64 E-value=41 Score=30.85 Aligned_cols=40 Identities=23% Similarity=0.392 Sum_probs=34.9
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhc----CCCcceEEEcCCc
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKT----GIDTRNIIVNQLV 236 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~----gi~v~~vvvNrv~ 236 (311)
-.+++||+-|.|++.-|-.+...++++ |++++++|.|+--
T Consensus 144 deiyIVtSge~MalYAANNI~kgi~k~a~~~~~rLgGiIcNsr~ 187 (278)
T COG1348 144 DEIYIVTSGEMMALYAANNIAKGIRKYAKTGGVRLGGIICNSRS 187 (278)
T ss_pred cEEEEEecCchHHHHHHHHHHHHHHHHhhcCCcceeeEEecCCC
Confidence 368999999999999999998888864 5889999999654
No 102
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=56.80 E-value=43 Score=28.36 Aligned_cols=75 Identities=15% Similarity=0.156 Sum_probs=47.1
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEec
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLP 276 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp 276 (311)
-.++.|..+.. +.....+...|.+.|+|+ -+++|++-... +... .-..+.+.+.+ ++|++.+.
T Consensus 80 D~ii~VvDa~~--l~r~l~l~~ql~e~g~P~-vvvlN~~D~a~-----------~~g~-~id~~~Ls~~L--g~pvi~~s 142 (156)
T PF02421_consen 80 DLIIVVVDATN--LERNLYLTLQLLELGIPV-VVVLNKMDEAE-----------RKGI-EIDAEKLSERL--GVPVIPVS 142 (156)
T ss_dssp SEEEEEEEGGG--HHHHHHHHHHHHHTTSSE-EEEEETHHHHH-----------HTTE-EE-HHHHHHHH--TS-EEEEB
T ss_pred CEEEEECCCCC--HHHHHHHHHHHHHcCCCE-EEEEeCHHHHH-----------HcCC-EECHHHHHHHh--CCCEEEEE
Confidence 45666666654 677889999999999998 78899873210 0000 01235677777 58877665
Q ss_pred CCCCCCCCHHHHHH
Q psy2008 277 LQSEEIRGVAKVEA 290 (311)
Q Consensus 277 ~~~~e~~g~~~L~~ 290 (311)
.. .=.|++.|.+
T Consensus 143 a~--~~~g~~~L~~ 154 (156)
T PF02421_consen 143 AR--TGEGIDELKD 154 (156)
T ss_dssp TT--TTBTHHHHHH
T ss_pred eC--CCcCHHHHHh
Confidence 54 3467776654
No 103
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=56.02 E-value=71 Score=31.77 Aligned_cols=47 Identities=17% Similarity=0.191 Sum_probs=34.7
Q ss_pred HHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhc--CCCcceEEEcCCcC
Q psy2008 186 EMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKT--GIDTRNIIVNQLVF 237 (311)
Q Consensus 186 ~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~--gi~v~~vvvNrv~~ 237 (311)
.+.++|. +-+++|.+...++-..+- ++.-++.+ ++++.+||+|||-.
T Consensus 105 ~lAk~l~----~PVvLVid~~~~s~S~AA-iv~G~~~fdp~v~iaGVIlNrVgs 153 (451)
T COG1797 105 DLAKLLG----APVVLVVDASGLSRSVAA-IVKGFKHFDPDVNIAGVILNRVGS 153 (451)
T ss_pred HHHHHhC----CCEEEEEeCcchhHHHHH-HHHHHHhcCCCCceEEEEEecCCC
Confidence 3445674 458999999999866554 45555554 78899999999975
No 104
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=54.50 E-value=1.6e+02 Score=26.22 Aligned_cols=38 Identities=13% Similarity=-0.012 Sum_probs=30.0
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
.+++|..++.-....+++++..+...|+|+ -+|+|++-
T Consensus 112 ~~llVvda~~g~~~~d~~~l~~l~~~~ip~-ivvvNK~D 149 (224)
T cd04165 112 YAMLVVAANAGIIGMTKEHLGLALALNIPV-FVVVTKID 149 (224)
T ss_pred EEEEEEECCCCCcHHHHHHHHHHHHcCCCE-EEEEECcc
Confidence 445666666555688999999999999996 78999984
No 105
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=53.86 E-value=58 Score=29.59 Aligned_cols=56 Identities=21% Similarity=0.160 Sum_probs=39.9
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYE 267 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~ 267 (311)
.+++|..+..-....+.+++..+...|+|+ .+|+||+-.... .....++++++.|.
T Consensus 90 ~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p~-iivvNK~D~~~~-------------~~~~~~~~l~~~~~ 145 (268)
T cd04170 90 AALVVVSAQSGVEVGTEKLWEFADEAGIPR-IIFINKMDRERA-------------DFDKTLAALQEAFG 145 (268)
T ss_pred EEEEEEeCCCCCCHHHHHHHHHHHHcCCCE-EEEEECCccCCC-------------CHHHHHHHHHHHhC
Confidence 567777777766778889999999999886 579999864321 12334567777775
No 106
>KOG1534|consensus
Probab=49.91 E-value=1.6e+02 Score=26.77 Aligned_cols=164 Identities=12% Similarity=0.190 Sum_probs=75.5
Q ss_pred CCeEEEEecchHHHHhhcccchhhhhhhCCccccccCCCchhHHHHHhhcCCCHHHHHHHHHHHHHHh-----cC--CCc
Q psy2008 44 DNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGGMINDVLNDLINGFPGIDEAMSYAEVLKLVK-----GM--NFS 116 (311)
Q Consensus 44 ~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~PG~~E~~aL~~l~~~~~-----~~--~yD 116 (311)
....++.+||..+.-.|= +.-.+.+.. --++++.+ +..-|.=.=+..|+.+.+.++ .| +-|
T Consensus 32 Rs~~vVNLDPAae~f~y~--------~~iDiRdlI---svdDVmEd-l~~GPNGgLv~cmEyl~~NldwL~~~~Gd~edd 99 (273)
T KOG1534|consen 32 RSVHVVNLDPAAEHFNYP--------VTIDIRDLI---SVDDVMED-LDLGPNGGLVYCMEYLLENLDWLEEEIGDVEDD 99 (273)
T ss_pred ceeEEeecCHHHHhhCCc--------ccccHHHhc---cHHHHHHH-hccCCCccchhHHHHHHHHHHHHHhhccCccCC
Confidence 346777777776655442 111111111 11455544 333342222334444443332 35 458
Q ss_pred EEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHH-----------------hh-hchhhhhhhhhcCCCCCCchHHHHHHH
Q psy2008 117 VVVFDTAPTGHTLRLLSFPQNIERGLSKILALR-----------------NQ-IGPFLTQIGTLFGLADFTSDNIAGKFE 178 (311)
Q Consensus 117 ~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~-----------------~k-~~~~~~~l~~~~g~~~~~~d~~~~~l~ 178 (311)
++|||||.- +.|..=-..+...++.+.+|. .| +.+.+..++.+.-. +.+.-.++..+.
T Consensus 100 ylifDcPGQ---IELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~l-E~P~INvlsKMD 175 (273)
T KOG1534|consen 100 YLIFDCPGQ---IELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISL-EVPHINVLSKMD 175 (273)
T ss_pred EEEEeCCCe---eEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHh-cCcchhhhhHHH
Confidence 999999986 444433333444444333322 11 23333444333221 334445555555
Q ss_pred HHHHHHHHHHHHhcCCCCceEEEEec--CCcc---cHHHHHHHHHHHHhcCC
Q psy2008 179 ELLGNVREMNAQFRDPAKSTFVCVCI--AEFL---SLYETERLVQELAKTGI 225 (311)
Q Consensus 179 ~~~~~~~~~~~~L~dp~~T~~~lVt~--pe~l---~v~Et~rl~~~L~~~gi 225 (311)
-++++-++-.+.+-||.. ..++-+ -... =-+=++++...+.++++
T Consensus 176 Llk~~~k~~l~~Fl~~d~--~~l~~~~~~~~~s~Kf~~L~~~i~~~v~d~~M 225 (273)
T KOG1534|consen 176 LLKDKNKKELERFLNPDE--YLLLEDSEINLRSPKFKKLTKCIAQLVDDYSM 225 (273)
T ss_pred HhhhhhHHHHHHhcCCch--hhhhcccccccccHHHHHHHHHHHHHhccccc
Confidence 566655555555667642 222211 1111 12235666777777876
No 107
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=47.77 E-value=1.2e+02 Score=30.42 Aligned_cols=49 Identities=18% Similarity=0.145 Sum_probs=34.2
Q ss_pred HHHhcCCCCceEEEEecCC-------cccHHHHHHHHHHHHhcCCCcceEEEcCCcCc
Q psy2008 188 NAQFRDPAKSTFVCVCIAE-------FLSLYETERLVQELAKTGIDTRNIIVNQLVFY 238 (311)
Q Consensus 188 ~~~L~dp~~T~~~lVt~pe-------~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~ 238 (311)
++.+.|.. |-.++|||.. .--+..-+|+++.|++.|.|. -+|+|..-|.
T Consensus 138 ~kVI~dhs-tIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~~kPf-iivlN~~dp~ 193 (492)
T TIGR02836 138 RKVIQEHS-TIGVVVTTDGTITDIPREDYVEAEERVIEELKELNKPF-IILLNSTHPY 193 (492)
T ss_pred HHHHHhcC-cEEEEEEcCCCccccccccchHHHHHHHHHHHhcCCCE-EEEEECcCCC
Confidence 45677643 4444445332 345666789999999999998 7889998764
No 108
>PRK12740 elongation factor G; Reviewed
Probab=45.19 E-value=2.1e+02 Score=29.85 Aligned_cols=39 Identities=26% Similarity=0.112 Sum_probs=29.2
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
.+++|..+.......+..++..+...|+++ .+|+||+-.
T Consensus 86 ~vllvvd~~~~~~~~~~~~~~~~~~~~~p~-iiv~NK~D~ 124 (668)
T PRK12740 86 GAVVVVCAVGGVEPQTETVWRQAEKYGVPR-IIFVNKMDR 124 (668)
T ss_pred eEEEEEeCCCCcCHHHHHHHHHHHHcCCCE-EEEEECCCC
Confidence 456666666655677888888888899886 579999853
No 109
>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.
Probab=44.92 E-value=24 Score=28.29 Aligned_cols=34 Identities=9% Similarity=0.234 Sum_probs=29.1
Q ss_pred hHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCcEE
Q psy2008 85 DVLNDLINGFPGIDEAMSYAEVLKLVKGMNFSVV 118 (311)
Q Consensus 85 ~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD~I 118 (311)
..+.+++...++++|.++|.++..++..|+|.-+
T Consensus 26 ~tIa~wL~~~~~~~E~v~lIr~~sLmNrG~Yq~A 59 (116)
T PF09477_consen 26 NTIADWLEQEGEMEEVVALIRLSSLMNRGDYQEA 59 (116)
T ss_dssp HHHHHHHHHTTTTHHHHHHHHHHHHHHTT-HHHH
T ss_pred HHHHHHHHhCCcHHHHHHHHHHHHHHhhHHHHHH
Confidence 3556899999999999999999999999999655
No 110
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=43.32 E-value=3e+02 Score=27.60 Aligned_cols=85 Identities=9% Similarity=0.085 Sum_probs=48.8
Q ss_pred EEEEecCCc-ccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecC
Q psy2008 199 FVCVCIAEF-LSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPL 277 (311)
Q Consensus 199 ~~lVt~pe~-l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~ 277 (311)
.++|..+++ .+..+|++-+..+...|++.--+++||+--.. ......+...-++++ ...+....|++.+..
T Consensus 144 alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~-----~~~~~~~~~ei~~~l---~~~~~~~~~iipVSA 215 (460)
T PTZ00327 144 ALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVK-----EAQAQDQYEEIRNFV---KGTIADNAPIIPISA 215 (460)
T ss_pred EEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccC-----HHHHHHHHHHHHHHH---HhhccCCCeEEEeeC
Confidence 355555554 35667888888888899986678999984211 122222221111111 222222577877776
Q ss_pred CCCCCCCHHHHHHHHH
Q psy2008 278 QSEEIRGVAKVEAFSR 293 (311)
Q Consensus 278 ~~~e~~g~~~L~~l~~ 293 (311)
... .|++.|...-.
T Consensus 216 ~~G--~nI~~Ll~~L~ 229 (460)
T PTZ00327 216 QLK--YNIDVVLEYIC 229 (460)
T ss_pred CCC--CCHHHHHHHHH
Confidence 654 57888777655
No 111
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=42.23 E-value=78 Score=25.36 Aligned_cols=46 Identities=4% Similarity=0.024 Sum_probs=37.7
Q ss_pred HHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEE
Q psy2008 186 EMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNII 231 (311)
Q Consensus 186 ~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vv 231 (311)
++.+.+++.+...+++-++|+.-.-.-+..+.+.|+..++++..+-
T Consensus 47 ~L~~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvsRlA 92 (112)
T cd01025 47 KLLERIAKGQVKEVILATNPTVEGEATALYIAKLLKDFGVKVTRLA 92 (112)
T ss_pred HHHHHHhcCCCcEEEEecCCCchHHHHHHHHHHHHhHcCCCeEEEE
Confidence 3344466666789999999999999999999999999888887654
No 112
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=41.24 E-value=3.3e+02 Score=28.31 Aligned_cols=88 Identities=11% Similarity=0.036 Sum_probs=54.3
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhc----CCCcEE
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYE----EDFHVT 273 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~----~~~pv~ 273 (311)
.+++|...+.-...++++.+..++..|++.--+|+||+=-.. ..+.... .+++.+.+. .+.|++
T Consensus 77 ~~lLVVda~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~---------~~~~~~v---~~ei~~~l~~~~~~~~~ii 144 (614)
T PRK10512 77 HALLVVACDDGVMAQTREHLAILQLTGNPMLTVALTKADRVD---------EARIAEV---RRQVKAVLREYGFAEAKLF 144 (614)
T ss_pred EEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEECCccCC---------HHHHHHH---HHHHHHHHHhcCCCCCcEE
Confidence 345566666666778888899999999886679999984211 1111111 222333221 146777
Q ss_pred EecCCCCCCCCHHHHHHHHHHhcCCC
Q psy2008 274 KLPLQSEEIRGVAKVEAFSRMLVTPF 299 (311)
Q Consensus 274 ~vp~~~~e~~g~~~L~~l~~~l~~~~ 299 (311)
.+..... .|++.|.+.-..+..+.
T Consensus 145 ~VSA~tG--~gI~~L~~~L~~~~~~~ 168 (614)
T PRK10512 145 VTAATEG--RGIDALREHLLQLPERE 168 (614)
T ss_pred EEeCCCC--CCCHHHHHHHHHhhccc
Confidence 7766644 58888887766666554
No 113
>PF06418 CTP_synth_N: CTP synthase N-terminus; InterPro: IPR017456 CTP synthase is involved in pyrimidine ribonucleotide/ribonucleoside metabolism, catalysing the synthesis of CTP from UTP by amination of the pyrimidine ring at the 4-position []. The enzyme exists as a dimer of identical chains that aggregates as a tetramer. This gene has been found roughly 500 bp upstream of enolase in both beta (Nitrosomonas europaea) and gamma (Escherichia coli) subdivisions of Proteobacterium [].; GO: 0003883 CTP synthase activity, 0006221 pyrimidine nucleotide biosynthetic process; PDB: 2VO1_A 3NVA_B 1VCN_A 1VCO_A 1VCM_A 3IHL_B 2AD5_A 1S1M_B.
Probab=41.18 E-value=64 Score=30.00 Aligned_cols=59 Identities=22% Similarity=0.232 Sum_probs=40.3
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEe------cCCcccHHHHHHHHHHHHhcCCCcceEEE
Q psy2008 166 ADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVC------IAEFLSLYETERLVQELAKTGIDTRNIIV 232 (311)
Q Consensus 166 ~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt------~pe~l~v~Et~rl~~~L~~~gi~v~~vvv 232 (311)
|++.+.++++.+++++.+.. ++.+-|+-|| ...++--+-|+.-+..|+..||.++-+|+
T Consensus 146 GDIEs~pFlEAirQl~~~~G--------~~n~~~IHvtlVP~l~~~gE~KTKPtQhSVk~Lr~~GI~PDilvc 210 (276)
T PF06418_consen 146 GDIESLPFLEAIRQLRNEVG--------RENVCFIHVTLVPYLKAAGEQKTKPTQHSVKELRSIGIQPDILVC 210 (276)
T ss_dssp TSCCCHHHHHHHHHHHHHH---------TTCEEEEEEEE--EETTTTEE-HHHHHHHHHHHHHTT---SEEEE
T ss_pred cccccccHHHHHHHHHHHhC--------cCcEEEEEEeeeeeeCCCCccCCccHHHHHHHHHhCCCCCCEEEE
Confidence 47778889888888876632 2345555443 34567788899999999999999998875
No 114
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=40.61 E-value=1.5e+02 Score=26.58 Aligned_cols=55 Identities=25% Similarity=0.114 Sum_probs=37.0
Q ss_pred EEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhc
Q psy2008 199 FVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYE 267 (311)
Q Consensus 199 ~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~ 267 (311)
+++|.....-.-.++++++..++..|+|+ -+|+||+--.. ..+ .+.+++|++.|.
T Consensus 91 ~IlVvd~~~g~~~~~~~~~~~~~~~~~P~-iivvNK~D~~~-----a~~--------~~~~~~i~~~~~ 145 (237)
T cd04168 91 AILVISAVEGVQAQTRILWRLLRKLNIPT-IIFVNKIDRAG-----ADL--------EKVYQEIKEKLS 145 (237)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHcCCCE-EEEEECccccC-----CCH--------HHHHHHHHHHHC
Confidence 34444444333457889999999999987 68999984321 111 346778888886
No 115
>PRK00089 era GTPase Era; Reviewed
Probab=39.09 E-value=3e+02 Score=25.05 Aligned_cols=84 Identities=11% Similarity=0.078 Sum_probs=44.7
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcCCCcEEEecC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEEDFHVTKLPL 277 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~~~pv~~vp~ 277 (311)
.+++|.......-.....+...++..+.|+ -+|+|++--.. . .......++.+.+.++ ..+++.+..
T Consensus 87 ~il~vvd~~~~~~~~~~~i~~~l~~~~~pv-ilVlNKiDl~~----~-------~~~l~~~~~~l~~~~~-~~~i~~iSA 153 (292)
T PRK00089 87 LVLFVVDADEKIGPGDEFILEKLKKVKTPV-ILVLNKIDLVK----D-------KEELLPLLEELSELMD-FAEIVPISA 153 (292)
T ss_pred EEEEEEeCCCCCChhHHHHHHHHhhcCCCE-EEEEECCcCCC----C-------HHHHHHHHHHHHhhCC-CCeEEEecC
Confidence 344444444322234566777777777776 68889983221 0 0112224445555554 456666654
Q ss_pred CCCCCCCHHHHHHHHHHhc
Q psy2008 278 QSEEIRGVAKVEAFSRMLV 296 (311)
Q Consensus 278 ~~~e~~g~~~L~~l~~~l~ 296 (311)
. .-.|++.|........
T Consensus 154 ~--~~~gv~~L~~~L~~~l 170 (292)
T PRK00089 154 L--KGDNVDELLDVIAKYL 170 (292)
T ss_pred C--CCCCHHHHHHHHHHhC
Confidence 4 3468887766544433
No 116
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=37.05 E-value=33 Score=30.20 Aligned_cols=36 Identities=14% Similarity=0.290 Sum_probs=23.9
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHH
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQN 137 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~ 137 (311)
++....+.+.+++||+||+|=--..-...|+..-+.
T Consensus 103 ~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eev 138 (191)
T PRK05986 103 GWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEV 138 (191)
T ss_pred HHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHH
Confidence 455666777789999999996554444444444333
No 117
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=35.58 E-value=2.1e+02 Score=23.52 Aligned_cols=72 Identities=21% Similarity=0.224 Sum_probs=44.0
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhhhcCCCCCCchHHHHHHHHHH
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGTLFGLADFTSDNIAGKFEELL 181 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~~~g~~~~~~d~~~~~l~~~~ 181 (311)
....+.+++++.++.+|++|| +..|-+--. .+.++.+|..++
T Consensus 63 l~~~i~~fl~~~~~~vViiD~------lEYL~l~Ng--------------------------------F~~v~KFL~~Lk 104 (136)
T PF05763_consen 63 LLDTIVRFLKENGNGVVIIDG------LEYLILENG--------------------------------FESVLKFLASLK 104 (136)
T ss_pred HHHHHHHHHHhCCCcEEEEec------HHHHHHHcC--------------------------------HHHHHHHHHHhH
Confidence 344677777776778999998 333311111 234555556666
Q ss_pred HHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHH
Q psy2008 182 GNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQE 219 (311)
Q Consensus 182 ~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~ 219 (311)
+. .++. .+.+++|+.|+.+.-+|-.-+...
T Consensus 105 D~-----~~~~---~~~lIl~~~~~al~ere~~lL~re 134 (136)
T PF05763_consen 105 DY-----ALLN---NGTLILVVDPEALDEREWALLRRE 134 (136)
T ss_pred HH-----eecc---CCEEEEEEChhhcCHHHHHHHHHH
Confidence 54 2333 378899999998887765544443
No 118
>PRK05380 pyrG CTP synthetase; Validated
Probab=35.49 E-value=42 Score=34.22 Aligned_cols=59 Identities=20% Similarity=0.221 Sum_probs=41.1
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEe------cCCcccHHHHHHHHHHHHhcCCCcceEEE
Q psy2008 166 ADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVC------IAEFLSLYETERLVQELAKTGIDTRNIIV 232 (311)
Q Consensus 166 ~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt------~pe~l~v~Et~rl~~~L~~~gi~v~~vvv 232 (311)
|++.+-++++.+++++.++.+ +.+-|+=|| ...+.--+-|+.-+..|+..||.++-+|+
T Consensus 145 GDiEs~pf~ea~rq~~~~~g~--------~n~~~ih~t~vp~~~~~~E~KtKPtQhsv~~lr~~Gi~pd~i~~ 209 (533)
T PRK05380 145 GDIESLPFLEAIRQLRLELGR--------ENVLFIHLTLVPYIAAAGELKTKPTQHSVKELRSIGIQPDILVC 209 (533)
T ss_pred ccccccHHHHHHHHHHHhhCC--------CcEEEEEEeccceecCCCcccCCchHHHHHHHHhCCCCCCEEEE
Confidence 366677888888887766322 234443332 23566667799999999999999998876
No 119
>PF15161 Neuropep_like: Neuropeptide-like
Probab=35.39 E-value=22 Score=24.94 Aligned_cols=34 Identities=21% Similarity=0.188 Sum_probs=27.1
Q ss_pred HHHHHHHhcCCCCceEEEEecCCcccHHHHHHHH
Q psy2008 184 VREMNAQFRDPAKSTFVCVCIAEFLSLYETERLV 217 (311)
Q Consensus 184 ~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~ 217 (311)
++.+++.|+|+.+|.+-+.+.-|.+-++.-+|.+
T Consensus 22 FefmqRALQdlkkta~~ld~rtetLll~aErRaL 55 (65)
T PF15161_consen 22 FEFMQRALQDLKKTAYNLDTRTETLLLQAERRAL 55 (65)
T ss_pred HHHHHHHHhhhhhcccchhhhHHHHHHHHHHHHH
Confidence 4556678999999999999988888777666654
No 120
>COG0504 PyrG CTP synthase (UTP-ammonia lyase) [Nucleotide transport and metabolism]
Probab=35.18 E-value=64 Score=32.56 Aligned_cols=59 Identities=24% Similarity=0.234 Sum_probs=40.4
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEe------cCCcccHHHHHHHHHHHHhcCCCcceEEEc
Q psy2008 167 DFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVC------IAEFLSLYETERLVQELAKTGIDTRNIIVN 233 (311)
Q Consensus 167 ~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt------~pe~l~v~Et~rl~~~L~~~gi~v~~vvvN 233 (311)
++.+-++++.+++++.+..+ +.+.|+=|| +..++.-+-|+.-++.|+..||..+.+|+-
T Consensus 146 DIEslpFlEAiRQ~~~e~g~--------~n~~fiH~tlvpyi~~~gE~KTKPTQhSVkeLR~iGI~PDiii~R 210 (533)
T COG0504 146 DIESLPFLEAIRQLRLELGR--------ENVLFIHVTLVPYIAAAGELKTKPTQHSVKELRSIGIQPDILICR 210 (533)
T ss_pred cccccHHHHHHHHHHhhhCc--------ccEEEEEEecceeecccCccCCCCchHHHHHHHhcCCCcceEEEe
Confidence 55566777777777655322 234444333 346677778999999999999999988763
No 121
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=34.82 E-value=2.4e+02 Score=30.29 Aligned_cols=15 Identities=20% Similarity=0.222 Sum_probs=11.8
Q ss_pred CCCcEEEEcCCCchH
Q psy2008 113 MNFSVVVFDTAPTGH 127 (311)
Q Consensus 113 ~~yD~IV~Dt~Ptg~ 127 (311)
.+||+|++|||+-.|
T Consensus 262 ~~~D~VLIDTAGRs~ 276 (767)
T PRK14723 262 GDKHLVLIDTVGMSQ 276 (767)
T ss_pred cCCCEEEEeCCCCCc
Confidence 368999999998544
No 122
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=34.72 E-value=2.2e+02 Score=26.10 Aligned_cols=39 Identities=18% Similarity=0.010 Sum_probs=29.7
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
..++|.....-.-..+.+++..++.+|+|+ -+|+||+--
T Consensus 90 ~ailVVDa~~g~~~~t~~~~~~~~~~~~p~-ivviNK~D~ 128 (270)
T cd01886 90 GAVAVFDAVAGVEPQTETVWRQADRYNVPR-IAFVNKMDR 128 (270)
T ss_pred EEEEEEECCCCCCHHHHHHHHHHHHcCCCE-EEEEECCCC
Confidence 345555565555567889999999999998 689999853
No 123
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=34.07 E-value=34 Score=29.53 Aligned_cols=32 Identities=19% Similarity=0.289 Sum_probs=19.2
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCchHHHHhhh
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLS 133 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~ 133 (311)
++....+.+.++.||+||+|=--..--..+|+
T Consensus 84 ~~~~a~~~i~~~~~dlvILDEi~~a~~~gll~ 115 (172)
T PF02572_consen 84 GLEEAKEAISSGEYDLVILDEINYAVDYGLLS 115 (172)
T ss_dssp HHHHHHHHTT-TT-SEEEEETHHHHHHTTSS-
T ss_pred HHHHHHHHHhCCCCCEEEEcchHHHhHCCCcc
Confidence 45566677778999999999644433334443
No 124
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=33.79 E-value=40 Score=29.32 Aligned_cols=37 Identities=16% Similarity=0.220 Sum_probs=25.4
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHH
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNI 138 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l 138 (311)
.+....+.+.+++||+||+|=--..-..-++..-+.+
T Consensus 103 ~~~~a~~~l~~~~~dlvVLDEi~~Al~~gli~~eeVl 139 (178)
T PRK07414 103 LWQYTQAVVDEGRYSLVVLDELSLAIQFGLIPETEVL 139 (178)
T ss_pred HHHHHHHHHhCCCCCEEEEehhHHHHHCCCccHHHHH
Confidence 4556667777899999999976555555555544443
No 125
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=32.00 E-value=42 Score=32.12 Aligned_cols=27 Identities=19% Similarity=0.389 Sum_probs=20.0
Q ss_pred HHHHHHHHhcCCCcEEEEcCCCchHHH
Q psy2008 103 YAEVLKLVKGMNFSVVVFDTAPTGHTL 129 (311)
Q Consensus 103 L~~l~~~~~~~~yD~IV~Dt~Ptg~tL 129 (311)
+....++++..+||+|++||++.+.+-
T Consensus 137 ~~~~~~~~~~~g~d~viieT~Gv~qs~ 163 (332)
T PRK09435 137 TRETMLLCEAAGYDVILVETVGVGQSE 163 (332)
T ss_pred HHHHHHHHhccCCCEEEEECCCCccch
Confidence 334555566678999999999988553
No 126
>COG1252 Ndh NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]
Probab=31.95 E-value=2.8e+02 Score=27.40 Aligned_cols=109 Identities=18% Similarity=0.263 Sum_probs=58.3
Q ss_pred CCCcEEEEcCCCchHHHHhhhhHHHHHH-----HHHHHHHHHhhhchhhhhhh---------h--hcCCCCCCchHHHHH
Q psy2008 113 MNFSVVVFDTAPTGHTLRLLSFPQNIER-----GLSKILALRNQIGPFLTQIG---------T--LFGLADFTSDNIAGK 176 (311)
Q Consensus 113 ~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~-----~l~~l~~l~~k~~~~~~~l~---------~--~~g~~~~~~d~~~~~ 176 (311)
-.||+.|+.+..+.++ ++.|..-.. -++...++++++...+.... + +.| +....-++..+
T Consensus 98 i~YD~LVvalGs~~~~---fgi~G~~E~a~~lks~edA~~ir~~l~~~fe~a~~~~~~~~~lti~IvG-gG~TGVElAge 173 (405)
T COG1252 98 ISYDYLVVALGSETNY---FGIPGAAEYAFGLKTLEDALRLRRHLLEAFEKASQEEDDRALLTIVIVG-GGPTGVELAGE 173 (405)
T ss_pred ccccEEEEecCCcCCc---CCCCCHHHhCCCCCCHHHHHHHHHHHHHHHHHhhccccccceeEEEEEC-CChhHHHHHHH
Confidence 4699999998776544 444442221 12334444554432222211 1 124 22344566666
Q ss_pred HHHHHHHHHHHHHHhcCCCCceEEEE-ecCC---cccHHHHHHHHHHHHhcCCCc
Q psy2008 177 FEELLGNVREMNAQFRDPAKSTFVCV-CIAE---FLSLYETERLVQELAKTGIDT 227 (311)
Q Consensus 177 l~~~~~~~~~~~~~L~dp~~T~~~lV-t~pe---~l~v~Et~rl~~~L~~~gi~v 227 (311)
|..+..++-+- ...++....+.+| ..|. .++-+-+..+.+.|++.|++|
T Consensus 174 L~~~~~~l~~~--~~~~~~~~~V~LVea~p~ILp~~~~~l~~~a~~~L~~~GV~v 226 (405)
T COG1252 174 LAERLHRLLKK--FRVDPSELRVILVEAGPRILPMFPPKLSKYAERALEKLGVEV 226 (405)
T ss_pred HHHHHHHHhhh--hcCCccccEEEEEccCchhccCCCHHHHHHHHHHHHHCCCEE
Confidence 55554443221 2334445678887 4444 344555677888999999864
No 127
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=31.94 E-value=74 Score=24.68 Aligned_cols=28 Identities=29% Similarity=0.463 Sum_probs=22.1
Q ss_pred HHHHHHhcCCCcEEEEcCCCchHHHHhh
Q psy2008 105 EVLKLVKGMNFSVVVFDTAPTGHTLRLL 132 (311)
Q Consensus 105 ~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL 132 (311)
+|.++++..+.|+||||..=|+.-.|-|
T Consensus 48 ei~~~~~~~~~d~vvfd~~Lsp~Q~rNL 75 (95)
T PF13167_consen 48 EIKELIEELDADLVVFDNELSPSQQRNL 75 (95)
T ss_pred HHHHHHhhcCCCEEEECCCCCHHHHHHH
Confidence 5666667778999999999887776655
No 128
>TIGR00337 PyrG CTP synthase. CTP synthase is involved in pyrimidine ribonucleotide/ribonucleoside metabolism. The enzyme catalyzes the reaction L-glutamine + H2O + UTP + ATP = CTP + phosphate + ADP + L-glutamate. The enzyme exists as a dimer of identical chains that aggregates as a tetramer. This gene has been found circa 500 bp 5' upstream of enolase in both beta (Nitrosomonas europaea) and gamma (E.coli) subdivisions of proteobacterium (FEMS Microbiol Lett 1998 Aug 1;165(1):153-7).
Probab=31.08 E-value=86 Score=32.00 Aligned_cols=59 Identities=24% Similarity=0.242 Sum_probs=39.9
Q ss_pred CCCCchHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEe------cCCcccHHHHHHHHHHHHhcCCCcceEEE
Q psy2008 166 ADFTSDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVC------IAEFLSLYETERLVQELAKTGIDTRNIIV 232 (311)
Q Consensus 166 ~~~~~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt------~pe~l~v~Et~rl~~~L~~~gi~v~~vvv 232 (311)
|++.+-++++.+++++-++.+ +.+-|+=|| ...+.--+-|+.-++.|+..||.++-+|+
T Consensus 146 GDiEs~pf~ea~rq~~~~~g~--------~~~~~ih~t~vp~l~~~~e~KtKPtQhsv~~lr~~Gi~pd~~~~ 210 (525)
T TIGR00337 146 GDIESLPFLEAIRQFRNEVGR--------ENVAFIHVTLVPYIAAAGEQKTKPTQHSVKELRSLGIQPDIIIC 210 (525)
T ss_pred ccccccHHHHHHHHHHHhhCc--------CcEEEEEEeeeeeecCCCcccCCchHHHHHHHHhCCCCCCEEEE
Confidence 366677888888887765322 223333222 23566667799999999999999998876
No 129
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=30.96 E-value=4.2e+02 Score=24.30 Aligned_cols=16 Identities=25% Similarity=0.472 Sum_probs=13.6
Q ss_pred CcEEEEcCCCchHHHH
Q psy2008 115 FSVVVFDTAPTGHTLR 130 (311)
Q Consensus 115 yD~IV~Dt~Ptg~tLr 130 (311)
+.+.|+|||.-|....
T Consensus 63 ~~l~iiDTpGfgd~~~ 78 (276)
T cd01850 63 LKLTVIDTPGFGDNIN 78 (276)
T ss_pred EEEEEEecCCcccccc
Confidence 6799999999988764
No 130
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=30.87 E-value=39 Score=31.60 Aligned_cols=16 Identities=25% Similarity=0.582 Sum_probs=10.3
Q ss_pred hcCCCcEEEEcCCCch
Q psy2008 111 KGMNFSVVVFDTAPTG 126 (311)
Q Consensus 111 ~~~~yD~IV~Dt~Ptg 126 (311)
+.+.||+||+|-|+-.
T Consensus 192 ~~~~fD~IIlDPPsF~ 207 (286)
T PF10672_consen 192 KGGRFDLIILDPPSFA 207 (286)
T ss_dssp HTT-EEEEEE--SSEE
T ss_pred cCCCCCEEEECCCCCC
Confidence 4678999999988743
No 131
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=30.82 E-value=49 Score=28.18 Aligned_cols=36 Identities=14% Similarity=0.212 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHH
Q psy2008 101 MSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQ 136 (311)
Q Consensus 101 ~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~ 136 (311)
..+....+.+.+++||++|+|=--..-.+.++..-+
T Consensus 82 ~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~ 117 (159)
T cd00561 82 EGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEE 117 (159)
T ss_pred HHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHH
Confidence 345566667778999999999655444444554333
No 132
>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=30.75 E-value=86 Score=22.41 Aligned_cols=37 Identities=32% Similarity=0.466 Sum_probs=28.4
Q ss_pred ceEEEEecCCcccHHHHHHH---HHHHHhcCCCcceEEEc
Q psy2008 197 STFVCVCIAEFLSLYETERL---VQELAKTGIDTRNIIVN 233 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl---~~~L~~~gi~v~~vvvN 233 (311)
-.+++|+.|+..++....++ .......+....++|+|
T Consensus 60 ~~vi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vv~N 99 (99)
T cd01983 60 DLVIIVTTPEALAVLGARRLTEVVLELAIEGLRPVGVVVN 99 (99)
T ss_pred CEEEEecCCchhhHHHHHHHHHHHHHhhccCCceEEEEeC
Confidence 46889999999999999988 44445566667777776
No 133
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=30.27 E-value=5.6e+02 Score=28.68 Aligned_cols=98 Identities=20% Similarity=0.261 Sum_probs=56.6
Q ss_pred HHHhcCCCcEEEEcCC--------CchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhhhcCCCCCCchHHHHHHHH
Q psy2008 108 KLVKGMNFSVVVFDTA--------PTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGTLFGLADFTSDNIAGKFEE 179 (311)
Q Consensus 108 ~~~~~~~yD~IV~Dt~--------Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~~~g~~~~~~d~~~~~l~~ 179 (311)
+.+..-+||.|.+|-. ...-.|+||+.|+..-.---.+.++++++. .++..+.+++
T Consensus 197 e~L~~~kFdfifVDDVDA~LkaskNvDriL~LlGf~eE~i~~a~~~~~lr~~~~----------------~~~~~~~~~e 260 (1187)
T COG1110 197 EELSKLKFDFIFVDDVDAILKASKNVDRLLRLLGFSEEVIESAYELIKLRRKLY----------------GEKRAERVRE 260 (1187)
T ss_pred HHhcccCCCEEEEccHHHHHhccccHHHHHHHcCCCHHHHHHHHHHHHHHHHhh----------------hhhhHHHHHH
Confidence 3344467999999953 456678888888865433334445554442 1233334444
Q ss_pred HHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhc
Q psy2008 180 LLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKT 223 (311)
Q Consensus 180 ~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~ 223 (311)
..++.++.+..-++ +.+..+|+++.--|-..=..++..|-.+
T Consensus 261 ~~~~~e~~~~~~r~--k~g~LvvsSATg~~rg~R~~LfReLlgF 302 (1187)
T COG1110 261 ELREVEREREKKRR--KLGILVVSSATGKPRGSRLKLFRELLGF 302 (1187)
T ss_pred HHHHHHHHHHHhcc--CCceEEEeeccCCCCCchHHHHHHHhCC
Confidence 44444444444444 5788899888866655544455555433
No 134
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=30.12 E-value=3.2e+02 Score=22.69 Aligned_cols=69 Identities=16% Similarity=0.163 Sum_probs=37.5
Q ss_pred HHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHHHHHHHHHHHHHhhhcC-CCcEEEecCCCCCCCCHHHHHHHH
Q psy2008 214 ERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRYRTQAKYLDQILDLYEE-DFHVTKLPLQSEEIRGVAKVEAFS 292 (311)
Q Consensus 214 ~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~~~q~~~l~~i~~~f~~-~~pv~~vp~~~~e~~g~~~L~~l~ 292 (311)
.++...+...++++ .+++|++--.. .. .++...+++.+.+.. ..+++. .-..+..|++.+....
T Consensus 125 ~~i~~~l~~~~~~~-iiv~nK~Dl~~-----~~-------~~~~~~~~i~~~l~~~~~~~~~--~Sa~~~~gi~~l~~~i 189 (196)
T PRK00454 125 LQMIEWLKEYGIPV-LIVLTKADKLK-----KG-------ERKKQLKKVRKALKFGDDEVIL--FSSLKKQGIDELRAAI 189 (196)
T ss_pred HHHHHHHHHcCCcE-EEEEECcccCC-----HH-------HHHHHHHHHHHHHHhcCCceEE--EEcCCCCCHHHHHHHH
Confidence 45667777788875 57889874321 10 112222334444430 245554 3444567888887766
Q ss_pred HHhcC
Q psy2008 293 RMLVT 297 (311)
Q Consensus 293 ~~l~~ 297 (311)
..++.
T Consensus 190 ~~~~~ 194 (196)
T PRK00454 190 AKWLA 194 (196)
T ss_pred HHHhc
Confidence 66554
No 135
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=30.03 E-value=2.5e+02 Score=25.66 Aligned_cols=38 Identities=24% Similarity=0.100 Sum_probs=26.5
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
.+++|..+..-.-..+++++..++..++|+ -+++||+-
T Consensus 97 ~~IlVvda~~g~~~~~~~i~~~~~~~~~P~-iivvNK~D 134 (267)
T cd04169 97 SAVMVIDAAKGVEPQTRKLFEVCRLRGIPI-ITFINKLD 134 (267)
T ss_pred EEEEEEECCCCccHHHHHHHHHHHhcCCCE-EEEEECCc
Confidence 345555554333356778888888899985 78999984
No 136
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.75 E-value=1.4e+02 Score=26.47 Aligned_cols=42 Identities=7% Similarity=0.085 Sum_probs=35.4
Q ss_pred HHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceE
Q psy2008 189 AQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNI 230 (311)
Q Consensus 189 ~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~v 230 (311)
+.+++.....+++-|+|+--.-.-+..+.+.|+.++++|..+
T Consensus 128 ~Ri~~~~v~EVIlAt~~tvEGe~Ta~yi~~~lk~~~ikvtRl 169 (195)
T TIGR00615 128 KRLQEESVKEVILATNPTVEGEATALYIARLLQPFGVKVTRI 169 (195)
T ss_pred HHHhcCCCcEEEEeCCCCchHHHHHHHHHHHhhhcCCcEEee
Confidence 335566689999999999999999999999999988888654
No 137
>COG3140 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.23 E-value=88 Score=21.81 Aligned_cols=46 Identities=20% Similarity=0.260 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHHHHhcCCCCCCCCccccc
Q psy2008 252 YRTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFSRMLVTPFEPTNKISERV 309 (311)
Q Consensus 252 ~~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~~~l~~~~~~~~~~~~~~ 309 (311)
.++|++.+++|.++.. +.+..=+++.-+++.|-...+..|++..|.
T Consensus 10 HeqQQ~AVE~Iq~lMa------------eGmSsGEAIa~VA~elRe~hk~~~~~~~~f 55 (60)
T COG3140 10 HEQQQKAVERIQELMA------------EGMSSGEAIALVAQELRENHKGENRIVARF 55 (60)
T ss_pred HHHHHHHHHHHHHHHH------------ccccchhHHHHHHHHHHHHhcccccccccc
Confidence 4688999999999987 233333899999999999988888887665
No 138
>PRK00536 speE spermidine synthase; Provisional
Probab=28.76 E-value=47 Score=30.69 Aligned_cols=34 Identities=12% Similarity=-0.059 Sum_probs=21.0
Q ss_pred CCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecch
Q psy2008 10 LDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPN 54 (311)
Q Consensus 10 ~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~ 54 (311)
.=+|||++--.-...+-.++.-+ .....+|||.+
T Consensus 72 ~pk~VLIiGGGDGg~~REvLkh~-----------~~v~mVeID~~ 105 (262)
T PRK00536 72 ELKEVLIVDGFDLELAHQLFKYD-----------THVDFVQADEK 105 (262)
T ss_pred CCCeEEEEcCCchHHHHHHHCcC-----------CeeEEEECCHH
Confidence 34677777665555555555432 25778888886
No 139
>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=28.21 E-value=97 Score=27.91 Aligned_cols=20 Identities=10% Similarity=0.192 Sum_probs=14.0
Q ss_pred HHHHHHHhcCCCcEEEEcCC
Q psy2008 104 AEVLKLVKGMNFSVVVFDTA 123 (311)
Q Consensus 104 ~~l~~~~~~~~yD~IV~Dt~ 123 (311)
..+..++...+.|+||+|..
T Consensus 130 ~~i~~~~~~~~~~~vvID~l 149 (271)
T cd01122 130 EKVRYMAVSHGIQHIIIDNL 149 (271)
T ss_pred HHHHHHHhcCCceEEEECCH
Confidence 44555555667899999953
No 140
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=28.16 E-value=64 Score=27.91 Aligned_cols=37 Identities=8% Similarity=0.226 Sum_probs=27.6
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHH
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNI 138 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l 138 (311)
++....+.+.+++||+||+|---..-...+++.-+.+
T Consensus 85 ~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~ 121 (173)
T TIGR00708 85 AWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVV 121 (173)
T ss_pred HHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHH
Confidence 4556666677899999999987776667777666554
No 141
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=27.81 E-value=98 Score=21.84 Aligned_cols=24 Identities=17% Similarity=0.220 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHhhhcCCCcEEEe
Q psy2008 251 RYRTQAKYLDQILDLYEEDFHVTKL 275 (311)
Q Consensus 251 r~~~q~~~l~~i~~~f~~~~pv~~v 275 (311)
-.+.|....++|+..|+ +.|++.+
T Consensus 30 sie~Q~~L~~~ik~~F~-~~P~i~V 53 (58)
T PF06858_consen 30 SIEEQLSLFKEIKPLFP-NKPVIVV 53 (58)
T ss_dssp -HHHHHHHHHHHHHHTT-TS-EEEE
T ss_pred CHHHHHHHHHHHHHHcC-CCCEEEE
Confidence 57889999999999998 8898875
No 142
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=27.73 E-value=2.8e+02 Score=26.70 Aligned_cols=127 Identities=16% Similarity=0.208 Sum_probs=71.8
Q ss_pred CCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhhhcCCCCCCchHHH
Q psy2008 95 PGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGTLFGLADFTSDNIA 174 (311)
Q Consensus 95 PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~~~g~~~~~~d~~~ 174 (311)
+|-|-.+....=.+.....+||+|++||+.==|+=. .++
T Consensus 202 ~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~-----------------------------------------nLM 240 (340)
T COG0552 202 EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKK-----------------------------------------NLM 240 (340)
T ss_pred CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCch-----------------------------------------hHH
Confidence 688887655555566667889999999997544321 122
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCceEEEE--ecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcCcCccccchHHHHHHH
Q psy2008 175 GKFEELLGNVREMNAQFRDPAKSTFVCV--CIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVFYSASVDACALCSTRY 252 (311)
Q Consensus 175 ~~l~~~~~~~~~~~~~L~dp~~T~~~lV--t~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~~~~~~~~~~~~~~r~ 252 (311)
++|+++.+-+. ..+.+.- ...++| ++--.-++++++.+-+... ++|+|+-++-...- +.
T Consensus 241 ~EL~KI~rV~~---k~~~~ap-~e~llvlDAttGqnal~QAk~F~eav~-----l~GiIlTKlDgtAK---GG------- 301 (340)
T COG0552 241 DELKKIVRVIK---KDDPDAP-HEILLVLDATTGQNALSQAKIFNEAVG-----LDGIILTKLDGTAK---GG------- 301 (340)
T ss_pred HHHHHHHHHhc---cccCCCC-ceEEEEEEcccChhHHHHHHHHHHhcC-----CceEEEEecccCCC---cc-------
Confidence 22222222111 1111111 234444 5666778888888877754 88999988843211 11
Q ss_pred HHHHHHHHHHHhhhcCCCcEEEecCCCCCCCCHHHHHHHH
Q psy2008 253 RTQAKYLDQILDLYEEDFHVTKLPLQSEEIRGVAKVEAFS 292 (311)
Q Consensus 253 ~~q~~~l~~i~~~f~~~~pv~~vp~~~~e~~g~~~L~~l~ 292 (311)
.+=.|...+ ++||..+=... +++.|..|.
T Consensus 302 -----~il~I~~~l--~~PI~fiGvGE----~~~DL~~Fd 330 (340)
T COG0552 302 -----IILSIAYEL--GIPIKFIGVGE----GYDDLRPFD 330 (340)
T ss_pred -----eeeeHHHHh--CCCEEEEeCCC----ChhhccccC
Confidence 112355566 58888876552 455554443
No 143
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=26.65 E-value=3.3e+02 Score=21.73 Aligned_cols=38 Identities=11% Similarity=0.041 Sum_probs=27.1
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
.+++|..+......++...+..++..++|+ -+|+|++-
T Consensus 76 ~il~v~d~~~~~~~~~~~~~~~~~~~~~p~-ivv~NK~D 113 (168)
T cd01887 76 IAILVVAADDGVMPQTIEAIKLAKAANVPF-IVALNKID 113 (168)
T ss_pred EEEEEEECCCCccHHHHHHHHHHHHcCCCE-EEEEEcee
Confidence 456666665544566777777888899886 78889974
No 144
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=26.22 E-value=2.7e+02 Score=27.64 Aligned_cols=41 Identities=17% Similarity=0.009 Sum_probs=29.9
Q ss_pred ceEEEEecCCcccHHHHHHHHH--HHHh---cCCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQ--ELAK---TGIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~--~L~~---~gi~v~~vvvNrv~~ 237 (311)
+-+++|+.+.-++..-+--+.. .+.. .|+++.+||+|++-+
T Consensus 106 ~PviLVv~~~~g~~s~aa~l~g~~~~~~~~~~~~~i~GvIlN~~~~ 151 (433)
T PRK13896 106 LPVVLVVDAKAGMESVAATALGFRAYADRIGRDIDVAGVIAQRAHG 151 (433)
T ss_pred CCEEEEEcCcccHHHHHHHHHHHHHHHHhccCCCcEEEEEEECCCc
Confidence 4579999999887666544433 3333 489999999999865
No 145
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=25.66 E-value=1e+02 Score=30.52 Aligned_cols=41 Identities=12% Similarity=0.081 Sum_probs=27.1
Q ss_pred ceEEEEecCCcccHHHHHHHHHHHH-hcCCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFLSLYETERLVQELA-KTGIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et~rl~~~L~-~~gi~v~~vvvNrv~~ 237 (311)
+-+++|+.+..++..-+..+..... ..++++.++|+||+.+
T Consensus 115 ~pviLV~~~~~~~~~~a~l~~~~~~~~~~i~i~GvI~N~v~~ 156 (451)
T PRK01077 115 APVVLVVDASGMAQSAAALVLGFATFDPDVRIAGVILNRVGS 156 (451)
T ss_pred CCEEEEECCchHHHHHHHHHHHHHHhCCCCCEEEEEEECCCC
Confidence 4578999888655544433322222 2489999999999954
No 146
>COG2452 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]
Probab=25.34 E-value=2.4e+02 Score=24.82 Aligned_cols=60 Identities=12% Similarity=0.058 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCcC
Q psy2008 175 GKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 175 ~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~~ 237 (311)
.-|..-+..+-++..++.|++ -.-++|+-|+.+.--=.+.+.+.++.+|..+ +++|.--.
T Consensus 94 Sgln~~Rk~~~kll~li~~~~-V~rVvV~ykDRL~RFGfe~le~~~~a~~~ei--vvv~~~e~ 153 (193)
T COG2452 94 SGLNMQRKGLLKLLKLVEGNS-VRRVVVSYKDRLNRFGFELVEAVCKAHNVEI--VVVNQEDK 153 (193)
T ss_pred hhhhhhhhhHHHHHHHHcCCc-eeEEEEEccchHhHHhHHHHHHHHHhcCcEE--EEecCCCC
Confidence 344555666678888999987 6889999999998666888888888898866 88886544
No 147
>KOG1662|consensus
Probab=25.03 E-value=4e+02 Score=23.69 Aligned_cols=57 Identities=21% Similarity=0.163 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHh-cCCCcceEEEcCCcC
Q psy2008 178 EELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAK-TGIDTRNIIVNQLVF 237 (311)
Q Consensus 178 ~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~-~gi~v~~vvvNrv~~ 237 (311)
.++...++.+.+..++ +-++-||+.+++.-.+-.++-..|++ +|-.-.--|=|++-|
T Consensus 119 ~~Ivk~F~~lm~ahrG---ev~~~VtSa~pLd~~~~k~l~~~l~k~l~~gk~l~v~~~vdP 176 (210)
T KOG1662|consen 119 TEIVKAFETLMNAHRG---EVKVEVTSAEPLDAKQLKQLEKALQKILGGGKKLKVENKVDP 176 (210)
T ss_pred HHHHHHHHHHHHHhCC---ceEEEEEecccCChHHHHHHHHHHHHHhcCCceEEEEeecCh
Confidence 4455556666666666 78999999999999999999999998 443333445555544
No 148
>KOG3350|consensus
Probab=24.96 E-value=86 Score=27.54 Aligned_cols=35 Identities=26% Similarity=0.388 Sum_probs=26.3
Q ss_pred CCcEEEEcCC--------CchHHHHhhhhH---------HHHHHHHHHHHHH
Q psy2008 114 NFSVVVFDTA--------PTGHTLRLLSFP---------QNIERGLSKILAL 148 (311)
Q Consensus 114 ~yD~IV~Dt~--------Ptg~tLrlL~lP---------~~l~~~l~~l~~l 148 (311)
.||+||-|-| -|.||++.|.-| +.+..|+.++.++
T Consensus 135 ~fdiivaDPPfL~~eCl~Kts~tik~L~r~~~kvilCtGeimee~~s~~l~~ 186 (217)
T KOG3350|consen 135 HFDIIVADPPFLSEECLAKTSETIKRLQRNQKKVILCTGEIMEEWASALLPV 186 (217)
T ss_pred cccEEEeCCccccchhhhhhHHHHHHHhcCCceEEEechhHhHHHHHHHhhh
Confidence 4999999976 377888888877 5677777666553
No 149
>cd01895 EngA2 EngA2 subfamily. This CD represents the second 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=24.75 E-value=3.6e+02 Score=21.39 Aligned_cols=38 Identities=18% Similarity=0.050 Sum_probs=24.8
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
.+++|.......-.+...++..+...+.++ -+|+||+-
T Consensus 87 ~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~-iiv~nK~D 124 (174)
T cd01895 87 VVLLVIDATEGITEQDLRIAGLILEEGKAL-VIVVNKWD 124 (174)
T ss_pred eEEEEEeCCCCcchhHHHHHHHHHhcCCCE-EEEEeccc
Confidence 456665554433345567777777778766 68899973
No 150
>TIGR02508 type_III_yscG type III secretion protein, YscG family. YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.
Probab=24.65 E-value=1e+02 Score=24.62 Aligned_cols=32 Identities=13% Similarity=0.211 Sum_probs=28.1
Q ss_pred hHHHHHhhcCCCHHHHHHHHHHHHHHhcCCCc
Q psy2008 85 DVLNDLINGFPGIDEAMSYAEVLKLVKGMNFS 116 (311)
Q Consensus 85 ~~~~~~~~~~PG~~E~~aL~~l~~~~~~~~yD 116 (311)
..+.+.+...+.++|.+.|.++..++..|+|.
T Consensus 25 ~tIAdwL~~~~~~~E~v~lIRlsSLmNrG~Yq 56 (115)
T TIGR02508 25 NTIADWLHLKGESEEAVQLIRLSSLMNRGDYQ 56 (115)
T ss_pred HHHHHHHhcCCchHHHHHHHHHHHHHccchHH
Confidence 46678899888889999999999999999983
No 151
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=24.26 E-value=3.3e+02 Score=20.92 Aligned_cols=39 Identities=21% Similarity=0.335 Sum_probs=30.8
Q ss_pred EEEEecCCcccHHHHHHHHHHHHhcCCCc-------ceEEEcCCcC
Q psy2008 199 FVCVCIAEFLSLYETERLVQELAKTGIDT-------RNIIVNQLVF 237 (311)
Q Consensus 199 ~~lVt~pe~l~v~Et~rl~~~L~~~gi~v-------~~vvvNrv~~ 237 (311)
|+++|.-=.+-..|+.++...|...|..+ +.+|+|-+.-
T Consensus 2 v~i~T~GC~~N~~Dse~i~~~l~~~G~~~~~~~e~AD~iiiNTC~V 47 (98)
T PF00919_consen 2 VYIETLGCQMNQYDSERIASILQAAGYEIVDDPEEADVIIINTCTV 47 (98)
T ss_pred EEEEECCCcccHHHHHHHHHHHHhcCCeeecccccCCEEEEEcCCC
Confidence 66777777888999999999999988853 5678886544
No 152
>PF08795 DUF1796: Putative papain-like cysteine peptidase (DUF1796); InterPro: IPR014903 The proteins in this entry are uncharacterised; but are related to papain-like cysteine peptidases.
Probab=24.13 E-value=4.4e+02 Score=22.27 Aligned_cols=58 Identities=14% Similarity=0.056 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCCceEEE-EecCCcc-cHHHHHHHHHHHHh-cCCCcceEEEc
Q psy2008 176 KFEELLGNVREMNAQFRDPAKSTFVC-VCIAEFL-SLYETERLVQELAK-TGIDTRNIIVN 233 (311)
Q Consensus 176 ~l~~~~~~~~~~~~~L~dp~~T~~~l-Vt~pe~l-~v~Et~rl~~~L~~-~gi~v~~vvvN 233 (311)
.-.++..|+++..+.+..+++..|+- +..+... .+.|+..+.+.|++ .+-....+++|
T Consensus 100 ~~~k~~rRi~Rf~~~l~~~~~ilFvr~~~~~~~~~~~e~~~eL~~~L~~~~~~~~~~l~~~ 160 (167)
T PF08795_consen 100 FKEKYDRRIDRFLKKLESSKRILFVRTRIAETGGEDYEEAKELLQVLSELVKGNFFLLLLN 160 (167)
T ss_pred HHHHHHHHHHHHHHHHhCCCcEEEEEEccccCCCCCHHHHHHHHHHHHHHcCCCceEEEEE
Confidence 34567788888888898876544444 2222222 68899999998886 33355566665
No 153
>TIGR00379 cobB cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.
Probab=24.11 E-value=3.4e+02 Score=26.91 Aligned_cols=39 Identities=18% Similarity=0.260 Sum_probs=24.3
Q ss_pred ceEEEEecCCcccHHHH-HHHHHHH--HhcCCCcceEEEcCCcC
Q psy2008 197 STFVCVCIAEFLSLYET-ERLVQEL--AKTGIDTRNIIVNQLVF 237 (311)
Q Consensus 197 T~~~lVt~pe~l~v~Et-~rl~~~L--~~~gi~v~~vvvNrv~~ 237 (311)
.-+++|+.... +..+ ..+...+ ...|+++.++|+||+.+
T Consensus 111 ~pVILV~~~~~--~~~t~~al~~~~~~~~~~i~i~GvIlN~v~~ 152 (449)
T TIGR00379 111 APIVLVMNCQR--LSRSAAAIVLGYRSFDPGVKLKGVILNRVGS 152 (449)
T ss_pred CCEEEEECCch--HHHHHHHHHHHHHhhCCCCCEEEEEEECCCC
Confidence 45788887663 2222 2222222 24599999999999975
No 154
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=23.97 E-value=1.7e+02 Score=25.79 Aligned_cols=24 Identities=13% Similarity=0.300 Sum_probs=19.0
Q ss_pred HHHHHHHHHhcCCCcEEEEcCCCc
Q psy2008 102 SYAEVLKLVKGMNFSVVVFDTAPT 125 (311)
Q Consensus 102 aL~~l~~~~~~~~yD~IV~Dt~Pt 125 (311)
.+..+.+.+++.++++||+|.+-+
T Consensus 108 ll~~l~~~i~~~~~~~iviDs~t~ 131 (234)
T PRK06067 108 LLELIIEFIKSKREDVIIIDSLTI 131 (234)
T ss_pred HHHHHHHHHHhcCCCEEEEecHHH
Confidence 445667777777899999999875
No 155
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=23.46 E-value=4.3e+02 Score=21.88 Aligned_cols=38 Identities=13% Similarity=0.031 Sum_probs=25.6
Q ss_pred eEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 198 TFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 198 ~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
.+++|.....-.......++..+...++|+ .+++|++-
T Consensus 103 ~ii~vvd~~~~~~~~~~~~~~~~~~~~~pv-iiv~nK~D 140 (179)
T TIGR03598 103 GVVLLMDIRHPLKELDLEMLEWLRERGIPV-LIVLTKAD 140 (179)
T ss_pred EEEEEecCCCCCCHHHHHHHHHHHHcCCCE-EEEEECcc
Confidence 456666555433344556778888889886 68899973
No 156
>PF09198 T4-Gluco-transf: Bacteriophage T4 beta-glucosyltransferase; InterPro: IPR015281 Members of this family are DNA-modifying enzymes encoded by bacteriophage T4 that transfer glucose from uridine diphosphoglucose to 5-hydroxymethyl cytosine bases of phage T4 DNA []. ; PDB: 1J39_A 1SXQ_B 1NZF_A 1M5R_B 1JEJ_A 1JIV_A 1NZD_A 1NVK_A 2BGU_A 1JIU_A ....
Probab=22.53 E-value=72 Score=19.94 Aligned_cols=22 Identities=18% Similarity=0.187 Sum_probs=17.7
Q ss_pred cccHHHHHHHHHHHHhcCCCcc
Q psy2008 207 FLSLYETERLVQELAKTGIDTR 228 (311)
Q Consensus 207 ~l~v~Et~rl~~~L~~~gi~v~ 228 (311)
..|-+||..+.+.+++.|+.|+
T Consensus 17 t~p~setiyl~~~~~~mgl~vd 38 (38)
T PF09198_consen 17 TTPSSETIYLFKCISDMGLNVD 38 (38)
T ss_dssp SHHHHHHHHHHHHHHTTT-EEE
T ss_pred ecCccceEeHHHHHHHhCCCCC
Confidence 4577899999999999998763
No 157
>PRK10116 universal stress protein UspC; Provisional
Probab=22.06 E-value=1.4e+02 Score=23.53 Aligned_cols=29 Identities=14% Similarity=0.266 Sum_probs=22.5
Q ss_pred HHHHHHHhcCCCcEEEEcCCCchHHHHhh
Q psy2008 104 AEVLKLVKGMNFSVVVFDTAPTGHTLRLL 132 (311)
Q Consensus 104 ~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL 132 (311)
..|.+++++.++|+||+-+..-++.-+++
T Consensus 92 ~~I~~~a~~~~~DLiV~g~~~~~~~~~~~ 120 (142)
T PRK10116 92 EHILEVCRKHHFDLVICGNHNHSFFSRAS 120 (142)
T ss_pred HHHHHHHHHhCCCEEEEcCCcchHHHHHH
Confidence 46777788889999999998766655654
No 158
>PRK13663 hypothetical protein; Provisional
Probab=21.61 E-value=3e+02 Score=27.45 Aligned_cols=44 Identities=16% Similarity=0.290 Sum_probs=35.7
Q ss_pred hcCCCCceEEEEecCCccc------------HHHHHHHHHHHHhcCCCcceEEEcCCc
Q psy2008 191 FRDPAKSTFVCVCIAEFLS------------LYETERLVQELAKTGIDTRNIIVNQLV 236 (311)
Q Consensus 191 L~dp~~T~~~lVt~pe~l~------------v~Et~rl~~~L~~~gi~v~~vvvNrv~ 236 (311)
|+| ...++++.++.-.- -.++.|++..++.+|+-|++||+.|.-
T Consensus 62 lkD--~~EIvi~I~A~DIe~nKiRgDlGItYd~dVLRLiD~fr~~gl~V~sVVITqy~ 117 (493)
T PRK13663 62 LKD--QVEIVIAINANDIERNKIRGDLGITYDQDVLRLIDDFRELGLYVGSVVITQYD 117 (493)
T ss_pred hhc--cceEEEEEEhhhhhhccccccCCCchhHHHHHHHHHHHhcCceeeeEEEEecC
Confidence 666 47888888775432 357999999999999999999999983
No 159
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=21.43 E-value=1.7e+02 Score=28.78 Aligned_cols=41 Identities=12% Similarity=-0.014 Sum_probs=22.1
Q ss_pred HHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHH-HHHhcCCC
Q psy2008 184 VREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQ-ELAKTGID 226 (311)
Q Consensus 184 ~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~-~L~~~gi~ 226 (311)
.....++|.+. -.+++-|+.-..+..+-.+.+. ++...|..
T Consensus 319 ~~~~~~iL~pg--G~l~~~s~~~~~~~~~f~~~i~~a~~~~~~~ 360 (393)
T COG1092 319 NDLALRLLAPG--GTLVTSSCSRHFSSDLFLEIIARAAAAAGRR 360 (393)
T ss_pred HHHHHHHcCCC--CEEEEEecCCccCHHHHHHHHHHHHHhcCCc
Confidence 33445556554 3455566666777776555543 34444443
No 160
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=20.66 E-value=85 Score=29.02 Aligned_cols=12 Identities=25% Similarity=0.373 Sum_probs=10.2
Q ss_pred CCCcEEEEcCCC
Q psy2008 113 MNFSVVVFDTAP 124 (311)
Q Consensus 113 ~~yD~IV~Dt~P 124 (311)
.+||+|++|||.
T Consensus 271 ~~~d~vliDt~G 282 (282)
T TIGR03499 271 RDKDLILIDTAG 282 (282)
T ss_pred cCCCEEEEeCCC
Confidence 359999999984
No 161
>PF01861 DUF43: Protein of unknown function DUF43; InterPro: IPR002723 This family of prokaryotic proteins have not been characterised. All the members are 350-400 amino acids long.; PDB: 2QM3_A.
Probab=20.48 E-value=5e+02 Score=23.79 Aligned_cols=136 Identities=18% Similarity=0.146 Sum_probs=64.3
Q ss_pred CCCcEEEEecCCCCChhhhhccCCCCCCeeeCCCCCeEEEEecchHHHHhhcccchhhhhhhCCccccccCCCchhHHHH
Q psy2008 10 LDKEASGYSRPKTHNISDAFNQKFTSTPTKVNGIDNLFAMEIDPNIRQTELSQDDILSDEANGGSGNMFGGGMINDVLND 89 (311)
Q Consensus 10 ~G~rtLlvS~DPa~sL~d~l~~~l~~~p~~v~~~~nL~a~eid~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~ 89 (311)
.|+++|++-=|---||+-.+-. -| .++.+++||.. +-+|.. ...++..-. + .-...+
T Consensus 44 ~gk~il~lGDDDLtSlA~al~~----~~------~~I~VvDiDeR--ll~fI~--~~a~~~gl~----i-----~~~~~D 100 (243)
T PF01861_consen 44 EGKRILFLGDDDLTSLALALTG----LP------KRITVVDIDER--LLDFIN--RVAEEEGLP----I-----EAVHYD 100 (243)
T ss_dssp TT-EEEEES-TT-HHHHHHHHT------------SEEEEE-S-HH--HHHHHH--HHHHHHT------E-----EEE---
T ss_pred cCCEEEEEcCCcHHHHHHHhhC----CC------CeEEEEEcCHH--HHHHHH--HHHHHcCCc----e-----EEEEec
Confidence 3799999987777788866521 13 34566666654 446652 111222111 1 011112
Q ss_pred HhhcCCCHHHHHHHHHHHHHHhcCCCcEEEEcCCCchHHHHhhhhHHHHHHHHHHHHHHHhhhchhhhhhhhhcCCCCCC
Q psy2008 90 LINGFPGIDEAMSYAEVLKLVKGMNFSVVVFDTAPTGHTLRLLSFPQNIERGLSKILALRNQIGPFLTQIGTLFGLADFT 169 (311)
Q Consensus 90 ~~~~~PG~~E~~aL~~l~~~~~~~~yD~IV~Dt~Ptg~tLrlL~lP~~l~~~l~~l~~l~~k~~~~~~~l~~~~g~~~~~ 169 (311)
+-..+|- | -.+.||+++-|-|=|...+.|+ +.|
T Consensus 101 lR~~LP~--~-----------~~~~fD~f~TDPPyT~~G~~LF---------lsR------------------------- 133 (243)
T PF01861_consen 101 LRDPLPE--E-----------LRGKFDVFFTDPPYTPEGLKLF---------LSR------------------------- 133 (243)
T ss_dssp TTS---T--T-----------TSS-BSEEEE---SSHHHHHHH---------HHH-------------------------
T ss_pred ccccCCH--H-----------HhcCCCEEEeCCCCCHHHHHHH---------HHH-------------------------
Confidence 2233332 0 1368999999999897555554 332
Q ss_pred chHHHHHHHHHHHHHHHHHHHhcCCCCceEEEEecCCcccHHHHHHHHHHHHhcCCCcceEEEc
Q psy2008 170 SDNIAGKFEELLGNVREMNAQFRDPAKSTFVCVCIAEFLSLYETERLVQELAKTGIDTRNIIVN 233 (311)
Q Consensus 170 ~d~~~~~l~~~~~~~~~~~~~L~dp~~T~~~lVt~pe~l~v~Et~rl~~~L~~~gi~v~~vvvN 233 (311)
..+.|+++. ...++..+--+.|..+-..+.+.+.++|+-+..++-|
T Consensus 134 -----------------gi~~Lk~~g-~~gy~~~~~~~~s~~~~~~~Q~~l~~~gl~i~dii~~ 179 (243)
T PF01861_consen 134 -----------------GIEALKGEG-CAGYFGFTHKEASPDKWLEVQRFLLEMGLVITDIIPD 179 (243)
T ss_dssp -----------------HHHTB-STT--EEEEEE-TTT--HHHHHHHHHHHHTS--EEEEEEEE
T ss_pred -----------------HHHHhCCCC-ceEEEEEecCcCcHHHHHHHHHHHHHCCcCHHHHHhh
Confidence 123466654 3445555555557777788888888999888777754
No 162
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=20.00 E-value=1.6e+02 Score=26.78 Aligned_cols=15 Identities=20% Similarity=0.532 Sum_probs=12.8
Q ss_pred CCCcEEEEcCCCchH
Q psy2008 113 MNFSVVVFDTAPTGH 127 (311)
Q Consensus 113 ~~yD~IV~Dt~Ptg~ 127 (311)
+.||+|++|.|-+|.
T Consensus 139 ~~fD~Vl~D~Pcsg~ 153 (264)
T TIGR00446 139 PKFDAILLDAPCSGE 153 (264)
T ss_pred cCCCEEEEcCCCCCC
Confidence 459999999998875
Done!