Query 044054
Match_columns 400
No_of_seqs 153 out of 905
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 11:02:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044054.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044054hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02759 Formate--tetrahydrofo 100.0 2E-192 5E-197 1466.6 33.2 388 3-400 3-390 (637)
2 PTZ00386 formyl tetrahydrofola 100.0 2E-189 4E-194 1442.7 31.2 381 6-400 5-385 (625)
3 KOG4230 C1-tetrahydrofolate sy 100.0 4E-177 1E-181 1350.6 26.8 383 6-400 302-690 (935)
4 PRK13507 formate--tetrahydrofo 100.0 3E-173 6E-178 1318.2 27.5 337 11-400 2-341 (587)
5 PF01268 FTHFS: Formate--tetra 100.0 5E-170 1E-174 1293.0 16.0 319 16-400 1-319 (557)
6 COG2759 MIS1 Formyltetrahydrof 100.0 2E-166 5E-171 1245.6 23.4 317 18-400 1-317 (554)
7 PRK13506 formate--tetrahydrofo 100.0 2E-163 5E-168 1245.6 27.3 333 16-400 1-333 (578)
8 PRK13505 formate--tetrahydrofo 100.0 2E-158 3E-163 1209.3 27.4 320 15-400 1-320 (557)
9 cd00477 FTHFS Formyltetrahydro 100.0 5E-155 1E-159 1175.1 24.8 303 32-400 1-303 (524)
10 TIGR03029 EpsG chain length de 97.4 0.0002 4.4E-09 66.4 4.7 51 67-131 101-154 (274)
11 TIGR01007 eps_fam capsular exo 96.7 0.0014 2.9E-08 58.3 3.7 52 67-132 15-69 (204)
12 CHL00175 minD septum-site dete 96.6 0.0029 6.3E-08 59.0 5.1 55 64-132 10-67 (281)
13 TIGR03018 pepcterm_TyrKin exop 96.6 0.0027 6E-08 57.2 4.6 52 67-131 33-87 (207)
14 TIGR03453 partition_RepA plasm 96.6 0.0042 9.1E-08 61.5 6.0 38 93-131 115-154 (387)
15 COG0489 Mrp ATPases involved i 96.5 0.003 6.5E-08 60.4 4.2 52 68-133 56-110 (265)
16 PRK11519 tyrosine kinase; Prov 96.5 0.0031 6.8E-08 67.6 4.7 52 67-132 524-578 (719)
17 TIGR01005 eps_transp_fam exopo 96.3 0.0037 8E-08 66.7 4.1 51 67-131 544-597 (754)
18 PRK09841 cryptic autophosphory 96.2 0.0044 9.5E-08 66.6 4.2 51 67-131 529-582 (726)
19 PRK13705 plasmid-partitioning 96.2 0.006 1.3E-07 61.4 4.6 89 28-130 39-156 (388)
20 PHA02519 plasmid partition pro 96.1 0.008 1.7E-07 60.6 5.4 90 28-131 39-157 (387)
21 TIGR01968 minD_bact septum sit 96.0 0.0077 1.7E-07 54.2 4.2 49 69-131 1-52 (261)
22 PRK13869 plasmid-partitioning 95.7 0.017 3.6E-07 58.4 5.6 37 93-130 132-170 (405)
23 TIGR00347 bioD dethiobiotin sy 95.7 0.0074 1.6E-07 51.9 2.5 35 77-124 2-36 (166)
24 cd02033 BchX Chlorophyllide re 95.6 0.018 4E-07 57.4 5.4 52 67-133 29-83 (329)
25 COG2894 MinD Septum formation 95.1 0.022 4.8E-07 56.0 4.1 36 69-118 2-37 (272)
26 cd00550 ArsA_ATPase Oxyanion-t 94.9 0.018 3.8E-07 54.3 2.8 38 93-132 10-50 (254)
27 cd02037 MRP-like MRP (Multiple 94.8 0.027 5.9E-07 48.8 3.3 25 93-118 10-34 (169)
28 COG2805 PilT Tfp pilus assembl 94.7 0.041 9E-07 56.0 4.7 46 61-122 118-163 (353)
29 TIGR03815 CpaE_hom_Actino heli 94.6 0.048 1E-06 52.4 4.8 51 67-131 91-144 (322)
30 cd02036 MinD Bacterial cell di 94.5 0.034 7.3E-07 47.2 3.2 38 93-131 10-50 (179)
31 PRK11670 antiporter inner memb 94.5 0.044 9.6E-07 55.0 4.4 49 69-131 107-158 (369)
32 PRK00698 tmk thymidylate kinas 94.4 0.052 1.1E-06 47.4 4.2 45 68-129 2-46 (205)
33 PRK13185 chlL protochlorophyll 94.3 0.05 1.1E-06 50.5 4.0 37 93-130 12-48 (270)
34 TIGR01969 minD_arch cell divis 94.3 0.034 7.3E-07 50.0 2.8 39 93-132 11-52 (251)
35 PLN02924 thymidylate kinase 94.2 0.066 1.4E-06 50.1 4.7 48 66-129 13-60 (220)
36 PRK10818 cell division inhibit 94.2 0.055 1.2E-06 50.0 4.0 38 93-131 13-53 (270)
37 TIGR03371 cellulose_yhjQ cellu 94.1 0.057 1.2E-06 48.6 4.0 24 93-117 12-35 (246)
38 PRK13230 nitrogenase reductase 94.0 0.044 9.6E-07 51.4 3.1 29 93-122 11-39 (279)
39 PF01656 CbiA: CobQ/CobB/MinD/ 93.8 0.045 9.8E-07 46.9 2.6 29 93-122 9-37 (195)
40 PRK10037 cell division protein 93.8 0.042 9.1E-07 50.9 2.5 38 93-131 12-51 (250)
41 cd02117 NifH_like This family 93.7 0.046 1E-06 49.3 2.5 31 93-124 10-40 (212)
42 TIGR00041 DTMP_kinase thymidyl 93.6 0.11 2.4E-06 45.5 4.7 41 69-125 3-43 (195)
43 cd02040 NifH NifH gene encodes 93.6 0.053 1.2E-06 49.6 2.8 25 93-118 11-35 (270)
44 cd01672 TMPK Thymidine monopho 93.5 0.13 2.7E-06 44.1 4.8 41 70-126 1-41 (200)
45 TIGR01287 nifH nitrogenase iro 93.5 0.062 1.4E-06 50.1 3.1 24 93-117 10-33 (275)
46 PRK13235 nifH nitrogenase redu 93.4 0.057 1.2E-06 50.6 2.7 34 93-127 11-44 (274)
47 COG0125 Tmk Thymidylate kinase 93.4 0.12 2.5E-06 48.7 4.7 44 68-127 2-45 (208)
48 TIGR01281 DPOR_bchL light-inde 93.3 0.057 1.2E-06 50.1 2.5 25 93-118 10-34 (268)
49 cd02032 Bchl_like This family 93.3 0.064 1.4E-06 49.8 2.8 37 93-130 10-46 (267)
50 PF02367 UPF0079: Uncharacteri 93.1 0.088 1.9E-06 46.1 3.2 41 67-131 13-53 (123)
51 cd01983 Fer4_NifH The Fer4_Nif 93.0 0.092 2E-06 39.1 2.8 26 93-120 9-34 (99)
52 PRK13973 thymidylate kinase; P 93.0 0.16 3.5E-06 46.4 4.9 43 68-126 2-44 (213)
53 PF09140 MipZ: ATPase MipZ; I 92.7 0.048 1E-06 53.7 1.1 39 93-132 11-52 (261)
54 PHA02518 ParA-like protein; Pr 92.4 0.11 2.3E-06 45.6 2.8 24 93-117 11-34 (211)
55 PF06564 YhjQ: YhjQ protein; 92.4 0.15 3.2E-06 49.4 4.1 24 93-117 12-35 (243)
56 TIGR02016 BchX chlorophyllide 92.3 0.099 2.2E-06 50.7 2.8 32 93-125 10-41 (296)
57 PRK13232 nifH nitrogenase redu 92.3 0.093 2E-06 49.1 2.5 25 93-118 11-35 (273)
58 cd03110 Fer4_NifH_child This p 92.2 0.085 1.8E-06 45.8 2.0 36 93-133 10-48 (179)
59 CHL00072 chlL photochlorophyll 92.0 0.13 2.8E-06 49.7 3.2 29 93-122 10-38 (290)
60 PF02374 ArsA_ATPase: Anion-tr 91.6 0.068 1.5E-06 52.3 0.8 47 93-143 11-59 (305)
61 PRK13234 nifH nitrogenase redu 91.5 0.18 3.8E-06 48.6 3.4 32 93-125 14-48 (295)
62 TIGR00064 ftsY signal recognit 91.2 0.3 6.5E-06 47.1 4.7 35 68-117 71-105 (272)
63 PRK13233 nifH nitrogenase redu 91.0 0.16 3.4E-06 47.4 2.6 24 93-117 12-36 (275)
64 PRK00090 bioD dithiobiotin syn 90.9 0.18 3.9E-06 45.5 2.7 27 93-122 10-36 (222)
65 PRK13236 nitrogenase reductase 90.8 0.21 4.5E-06 48.2 3.2 29 93-122 16-44 (296)
66 PRK10646 ADP-binding protein; 90.8 0.26 5.7E-06 44.8 3.6 28 67-108 26-53 (153)
67 PRK13231 nitrogenase reductase 90.6 0.12 2.6E-06 47.9 1.4 22 93-116 12-33 (264)
68 PRK00300 gmk guanylate kinase; 90.6 0.32 6.8E-06 43.1 3.9 45 67-126 3-47 (205)
69 PRK13976 thymidylate kinase; P 90.4 0.37 8E-06 44.8 4.3 31 93-123 10-40 (209)
70 PF02223 Thymidylate_kin: Thym 90.4 0.18 4E-06 44.1 2.2 33 93-127 6-38 (186)
71 TIGR00150 HI0065_YjeE ATPase, 89.9 0.44 9.5E-06 42.3 4.2 73 67-173 20-92 (133)
72 PRK13768 GTPase; Provisional 89.4 0.57 1.2E-05 44.4 4.8 32 93-125 12-43 (253)
73 PRK13849 putative crown gall t 89.2 0.29 6.3E-06 46.0 2.7 32 93-126 12-43 (231)
74 PRK07933 thymidylate kinase; V 88.9 0.72 1.6E-05 42.7 5.0 31 93-125 10-40 (213)
75 cd02042 ParA ParA and ParB of 88.7 0.36 7.8E-06 38.3 2.6 30 93-123 10-39 (104)
76 PF13500 AAA_26: AAA domain; P 88.7 0.32 6.9E-06 43.3 2.5 23 93-116 11-33 (199)
77 PRK00889 adenylylsulfate kinas 88.5 0.68 1.5E-05 40.3 4.3 34 67-115 2-35 (175)
78 COG0802 Predicted ATPase or ki 88.4 0.5 1.1E-05 43.3 3.5 28 67-108 23-50 (149)
79 cd03111 CpaE_like This protein 88.3 0.39 8.6E-06 39.5 2.6 30 93-123 10-40 (106)
80 PF13614 AAA_31: AAA domain; P 88.1 0.68 1.5E-05 38.8 3.9 39 93-132 11-52 (157)
81 COG1192 Soj ATPases involved i 88.0 0.36 7.9E-06 44.4 2.5 40 93-133 13-55 (259)
82 PRK08233 hypothetical protein; 88.0 0.42 9E-06 41.0 2.6 26 69-108 3-28 (182)
83 PRK00131 aroK shikimate kinase 87.8 0.53 1.1E-05 39.7 3.1 28 67-108 2-29 (175)
84 COG0003 ArsA Predicted ATPase 87.8 0.46 9.9E-06 47.7 3.2 68 70-174 3-72 (322)
85 cd02035 ArsA ArsA ATPase funct 87.8 0.42 9.1E-06 43.8 2.7 25 93-118 9-33 (217)
86 TIGR03263 guanyl_kin guanylate 87.7 0.47 1E-05 41.1 2.8 43 69-126 1-43 (180)
87 PRK14974 cell division protein 87.6 0.8 1.7E-05 46.1 4.7 36 67-117 138-173 (336)
88 PRK10416 signal recognition pa 87.4 0.84 1.8E-05 45.3 4.7 36 67-117 112-147 (318)
89 PRK04296 thymidine kinase; Pro 87.3 0.9 2E-05 41.1 4.5 45 69-130 2-46 (190)
90 PTZ00301 uridine kinase; Provi 86.8 0.94 2E-05 42.4 4.4 28 70-111 4-31 (210)
91 PRK10436 hypothetical protein; 86.6 0.85 1.8E-05 47.7 4.4 40 69-124 218-257 (462)
92 COG2804 PulE Type II secretory 86.4 0.85 1.8E-05 48.7 4.4 88 62-175 252-355 (500)
93 PRK05480 uridine/cytidine kina 86.2 1.1 2.4E-05 40.2 4.4 26 68-107 5-30 (209)
94 PRK01077 cobyrinic acid a,c-di 85.9 0.74 1.6E-05 47.2 3.5 33 71-117 5-37 (451)
95 smart00763 AAA_PrkA PrkA AAA d 85.7 0.73 1.6E-05 47.2 3.4 142 46-240 52-216 (361)
96 cd02025 PanK Pantothenate kina 85.5 0.83 1.8E-05 42.5 3.4 33 93-149 9-41 (220)
97 PRK12374 putative dithiobiotin 85.3 0.64 1.4E-05 43.0 2.5 23 93-116 13-35 (231)
98 PRK05541 adenylylsulfate kinas 84.5 1.6 3.4E-05 38.1 4.5 35 67-116 5-39 (176)
99 PRK06278 cobyrinic acid a,c-di 83.7 1.3 2.9E-05 46.6 4.3 61 32-108 193-264 (476)
100 PRK00784 cobyric acid synthase 83.3 1.2 2.6E-05 46.2 3.8 33 70-116 3-35 (488)
101 PF01583 APS_kinase: Adenylyls 83.1 1.5 3.4E-05 39.9 4.0 35 68-117 1-35 (156)
102 cd03109 DTBS Dethiobiotin synt 83.1 1.3 2.8E-05 38.0 3.4 23 93-116 9-31 (134)
103 cd02038 FleN-like FleN is a me 83.0 1.5 3.2E-05 37.5 3.6 29 93-122 10-38 (139)
104 TIGR03499 FlhF flagellar biosy 83.0 1.8 3.9E-05 41.8 4.6 27 68-108 193-219 (282)
105 TIGR02525 plasmid_TraJ plasmid 82.5 2.2 4.8E-05 43.5 5.2 42 69-124 149-190 (372)
106 cd03115 SRP The signal recogni 82.4 1.3 2.8E-05 38.4 3.1 25 93-118 10-34 (173)
107 TIGR01420 pilT_fam pilus retra 82.4 2 4.2E-05 42.6 4.7 40 68-122 121-160 (343)
108 TIGR00379 cobB cobyrinic acid 82.0 1 2.3E-05 46.3 2.7 25 93-118 10-34 (449)
109 PRK10867 signal recognition pa 82.0 1.9 4E-05 45.0 4.6 34 69-117 100-134 (433)
110 TIGR02533 type_II_gspE general 81.7 1.4 3.1E-05 46.1 3.7 40 66-122 240-279 (486)
111 TIGR02524 dot_icm_DotB Dot/Icm 81.5 2.3 4.9E-05 43.0 4.9 44 68-125 133-177 (358)
112 PF07015 VirC1: VirC1 protein; 81.5 1.1 2.4E-05 43.5 2.6 24 93-117 12-35 (231)
113 COG1797 CobB Cobyrinic acid a, 81.1 0.99 2.1E-05 47.7 2.2 21 93-114 11-31 (451)
114 PRK06696 uridine kinase; Valid 81.0 2 4.3E-05 39.4 3.9 26 69-108 22-47 (223)
115 PF13207 AAA_17: AAA domain; P 80.3 1.7 3.6E-05 35.0 2.9 15 93-107 9-23 (121)
116 TIGR00235 udk uridine kinase. 80.2 1.7 3.7E-05 39.2 3.2 28 66-107 3-30 (207)
117 PRK03846 adenylylsulfate kinas 79.8 2.8 6E-05 37.7 4.3 35 67-116 22-56 (198)
118 PRK00771 signal recognition pa 79.6 2.5 5.4E-05 44.1 4.5 34 69-117 95-128 (437)
119 PRK15453 phosphoribulokinase; 79.6 2.4 5.3E-05 42.5 4.3 32 68-114 4-35 (290)
120 PF13238 AAA_18: AAA domain; P 79.1 1.8 3.8E-05 34.5 2.6 15 93-107 8-22 (129)
121 cd01394 radB RadB. The archaea 78.8 2.8 6.1E-05 37.7 4.1 38 65-117 15-52 (218)
122 PRK13975 thymidylate kinase; P 78.6 1.9 4.1E-05 37.8 2.9 26 69-108 2-27 (196)
123 KOG0635 Adenosine 5'-phosphosu 78.5 2.7 5.9E-05 40.0 4.0 35 67-116 29-63 (207)
124 TIGR02538 type_IV_pilB type IV 78.4 2.3 5E-05 45.2 3.9 39 69-123 316-354 (564)
125 TIGR02322 phosphon_PhnN phosph 78.3 1.8 4E-05 37.5 2.7 26 69-108 1-26 (179)
126 PRK07667 uridine kinase; Provi 78.0 3.4 7.4E-05 37.3 4.4 21 93-114 27-47 (193)
127 COG0132 BioD Dethiobiotin synt 78.0 2.9 6.3E-05 40.3 4.1 34 70-117 3-36 (223)
128 COG0529 CysC Adenylylsulfate k 77.2 3.4 7.4E-05 39.7 4.3 40 67-121 21-64 (197)
129 cd00227 CPT Chloramphenicol (C 77.1 2.4 5.2E-05 37.2 3.1 26 69-108 2-27 (175)
130 TIGR02237 recomb_radB DNA repa 76.9 3.5 7.6E-05 36.7 4.1 35 66-115 9-43 (209)
131 PRK06762 hypothetical protein; 76.8 2.3 5.1E-05 36.5 2.9 25 69-107 2-26 (166)
132 cd01129 PulE-GspE PulE/GspE Th 76.8 3.8 8.2E-05 39.4 4.6 39 69-123 80-118 (264)
133 cd01131 PilT Pilus retraction 76.5 4.1 8.9E-05 37.0 4.5 30 93-123 11-40 (198)
134 PRK13896 cobyrinic acid a,c-di 76.4 1.9 4.1E-05 44.9 2.6 23 93-116 12-34 (433)
135 PRK13974 thymidylate kinase; P 75.0 5.2 0.00011 36.6 4.8 43 69-126 3-49 (212)
136 PLN02348 phosphoribulokinase 74.9 4.5 9.8E-05 42.2 4.8 16 93-108 59-74 (395)
137 PRK08154 anaerobic benzoate ca 74.1 3.7 8.1E-05 40.1 3.8 27 68-108 132-158 (309)
138 cd00009 AAA The AAA+ (ATPases 73.7 7 0.00015 30.5 4.6 28 67-108 17-44 (151)
139 PRK04040 adenylate kinase; Pro 73.4 2.9 6.4E-05 38.1 2.8 25 69-107 2-26 (188)
140 PF00437 T2SE: Type II/IV secr 73.3 4.7 0.0001 37.6 4.1 39 68-122 126-164 (270)
141 PRK09361 radB DNA repair and r 72.8 5 0.00011 36.3 4.1 37 65-116 19-55 (225)
142 TIGR00708 cobA cob(I)alamin ad 72.7 5.6 0.00012 37.0 4.4 35 67-117 4-38 (173)
143 PF13604 AAA_30: AAA domain; P 72.3 6.1 0.00013 36.0 4.5 36 68-118 17-52 (196)
144 cd02023 UMPK Uridine monophosp 71.6 3.7 7.9E-05 36.5 2.9 15 93-107 9-23 (198)
145 cd02034 CooC The accessory pro 71.3 3.6 7.7E-05 35.1 2.6 39 93-132 9-48 (116)
146 cd01673 dNK Deoxyribonucleosid 70.9 2.9 6.3E-05 36.8 2.1 24 93-123 9-32 (193)
147 PF05729 NACHT: NACHT domain 70.8 4.6 9.9E-05 33.3 3.1 16 93-108 10-25 (166)
148 cd02028 UMPK_like Uridine mono 70.6 4.9 0.00011 36.1 3.5 21 93-114 9-29 (179)
149 TIGR01425 SRP54_euk signal rec 70.6 6.1 0.00013 41.4 4.6 34 69-117 100-133 (429)
150 PRK12726 flagellar biosynthesi 70.0 6.3 0.00014 41.4 4.5 35 67-116 204-238 (407)
151 TIGR00959 ffh signal recogniti 70.0 3.9 8.4E-05 42.6 3.1 25 93-117 109-133 (428)
152 PRK05632 phosphate acetyltrans 69.9 2.9 6.2E-05 45.5 2.2 26 93-120 13-38 (684)
153 TIGR00455 apsK adenylylsulfate 69.4 7.6 0.00016 34.2 4.4 33 67-114 16-48 (184)
154 TIGR03881 KaiC_arch_4 KaiC dom 68.9 6.9 0.00015 35.5 4.1 36 65-115 16-51 (229)
155 KOG3347 Predicted nucleotide k 68.9 4.1 8.8E-05 38.5 2.7 23 72-108 10-32 (176)
156 PHA00729 NTP-binding motif con 68.7 4 8.7E-05 39.4 2.7 16 93-108 27-42 (226)
157 TIGR03574 selen_PSTK L-seryl-t 68.6 5.2 0.00011 37.2 3.3 23 93-116 9-31 (249)
158 PRK13886 conjugal transfer pro 68.4 4.7 0.0001 39.2 3.1 37 93-131 13-50 (241)
159 smart00382 AAA ATPases associa 68.2 4.2 9.1E-05 31.1 2.2 16 93-108 12-27 (148)
160 cd02021 GntK Gluconate kinase 68.1 3.4 7.4E-05 34.8 1.8 16 93-108 9-24 (150)
161 PRK03839 putative kinase; Prov 67.9 4.7 0.0001 35.2 2.8 16 93-108 10-25 (180)
162 PRK13946 shikimate kinase; Pro 67.9 4.2 9.2E-05 36.2 2.5 26 69-108 10-35 (184)
163 COG1703 ArgK Putative periplas 67.8 8.1 0.00018 39.6 4.7 75 93-175 61-144 (323)
164 PF13086 AAA_11: AAA domain; P 67.7 4.9 0.00011 34.8 2.8 15 93-107 27-41 (236)
165 PLN02165 adenylate isopentenyl 67.7 4.6 0.0001 41.1 3.0 29 66-108 40-68 (334)
166 TIGR01360 aden_kin_iso1 adenyl 67.5 5.7 0.00012 34.2 3.2 25 69-107 3-27 (188)
167 KOG3022 Predicted ATPase, nucl 67.0 5.8 0.00013 40.3 3.5 50 71-134 49-101 (300)
168 PRK06217 hypothetical protein; 66.8 4.1 8.9E-05 36.1 2.2 16 93-108 11-26 (183)
169 PRK06067 flagellar accessory p 66.8 8.3 0.00018 35.3 4.2 50 58-122 12-64 (234)
170 PRK05703 flhF flagellar biosyn 66.4 8.7 0.00019 39.7 4.7 25 69-107 221-245 (424)
171 PRK14527 adenylate kinase; Pro 66.2 6.2 0.00014 35.1 3.2 28 67-108 4-31 (191)
172 PF03029 ATP_bind_1: Conserved 66.0 5.5 0.00012 37.9 3.0 65 93-170 6-79 (238)
173 PF00485 PRK: Phosphoribulokin 65.9 4.6 9.9E-05 36.1 2.3 21 93-114 9-29 (194)
174 PRK13764 ATPase; Provisional 65.7 8.4 0.00018 42.1 4.6 37 69-121 257-293 (602)
175 PRK14722 flhF flagellar biosyn 65.7 9.6 0.00021 39.2 4.8 33 67-113 135-167 (374)
176 PF01202 SKI: Shikimate kinase 65.5 3.7 8E-05 35.7 1.6 16 93-108 2-17 (158)
177 PF00625 Guanylate_kin: Guanyl 65.2 6.1 0.00013 35.0 2.9 43 69-125 2-44 (183)
178 PRK06761 hypothetical protein; 65.0 7.6 0.00017 38.5 3.8 40 69-124 3-42 (282)
179 PRK13948 shikimate kinase; Pro 64.8 6.4 0.00014 36.1 3.1 28 67-108 8-35 (182)
180 COG0194 Gmk Guanylate kinase [ 64.5 8.4 0.00018 36.9 3.9 47 68-130 3-49 (191)
181 PRK05439 pantothenate kinase; 64.3 8.3 0.00018 38.7 4.0 34 93-150 96-129 (311)
182 COG1348 NifH Nitrogenase subun 64.0 6.1 0.00013 39.7 2.9 40 93-133 11-50 (278)
183 TIGR00750 lao LAO/AO transport 63.8 13 0.00028 36.1 5.1 41 67-122 32-72 (300)
184 PRK14738 gmk guanylate kinase; 63.7 9 0.0002 35.0 3.8 27 65-105 9-35 (206)
185 PF00448 SRP54: SRP54-type pro 63.4 6.9 0.00015 36.1 3.1 23 93-116 11-33 (196)
186 PRK12339 2-phosphoglycerate ki 63.4 6.2 0.00013 36.6 2.7 26 68-107 2-27 (197)
187 PF00142 Fer4_NifH: 4Fe-4S iro 62.8 5.2 0.00011 40.0 2.3 31 93-124 10-40 (273)
188 PRK05986 cob(I)alamin adenolsy 62.6 11 0.00024 35.6 4.3 35 67-117 21-55 (191)
189 cd00984 DnaB_C DnaB helicase C 62.1 11 0.00024 34.1 4.1 56 65-168 9-64 (242)
190 TIGR03420 DnaA_homol_Hda DnaA 62.1 12 0.00025 33.4 4.2 42 58-114 27-68 (226)
191 PRK04182 cytidylate kinase; Pr 61.8 6.5 0.00014 33.5 2.4 16 93-108 10-25 (180)
192 PRK12724 flagellar biosynthesi 61.8 11 0.00024 39.9 4.5 36 68-117 222-257 (432)
193 TIGR03880 KaiC_arch_3 KaiC dom 61.6 15 0.00032 33.4 4.8 43 65-122 12-55 (224)
194 cd02020 CMPK Cytidine monophos 60.9 5.2 0.00011 32.8 1.6 16 93-108 9-24 (147)
195 PRK09435 membrane ATPase/prote 60.9 44 0.00096 33.9 8.4 116 29-168 19-146 (332)
196 PRK06547 hypothetical protein; 60.8 7.3 0.00016 35.2 2.7 25 69-107 15-39 (172)
197 TIGR02173 cyt_kin_arch cytidyl 60.7 7.1 0.00015 33.1 2.4 16 93-108 10-25 (171)
198 COG0703 AroK Shikimate kinase 60.6 6.6 0.00014 36.7 2.4 16 93-108 12-27 (172)
199 PF03205 MobB: Molybdopterin g 59.9 21 0.00045 31.3 5.3 40 93-133 10-49 (140)
200 cd00046 DEXDc DEAD-like helica 59.6 9 0.0002 29.4 2.7 18 91-108 8-25 (144)
201 PF00004 AAA: ATPase family as 59.6 5.2 0.00011 31.9 1.4 16 93-108 8-23 (132)
202 cd02029 PRK_like Phosphoribulo 59.5 9.5 0.00021 38.2 3.4 21 93-114 9-29 (277)
203 PF13191 AAA_16: AAA ATPase do 59.4 10 0.00022 32.1 3.2 31 66-110 21-51 (185)
204 TIGR03878 thermo_KaiC_2 KaiC d 59.4 13 0.00028 35.4 4.2 40 67-121 34-74 (259)
205 COG0771 MurD UDP-N-acetylmuram 59.4 13 0.00027 39.4 4.4 97 30-171 84-193 (448)
206 PF00931 NB-ARC: NB-ARC domain 59.1 11 0.00024 34.7 3.5 27 67-107 17-43 (287)
207 PF13245 AAA_19: Part of AAA d 58.7 11 0.00023 30.1 3.0 25 69-107 10-34 (76)
208 PRK13851 type IV secretion sys 58.5 13 0.00027 37.7 4.1 39 67-122 160-198 (344)
209 PRK08533 flagellar accessory p 58.4 19 0.0004 33.9 5.0 48 53-115 6-55 (230)
210 COG1855 ATPase (PilT family) [ 58.2 12 0.00026 40.8 4.1 46 59-122 255-300 (604)
211 PRK04220 2-phosphoglycerate ki 58.2 9.7 0.00021 38.3 3.3 38 57-108 80-117 (301)
212 cd01130 VirB11-like_ATPase Typ 57.7 8.8 0.00019 34.3 2.6 27 67-107 23-49 (186)
213 PF13671 AAA_33: AAA domain; P 57.3 8.9 0.00019 31.5 2.4 15 93-107 9-23 (143)
214 TIGR00313 cobQ cobyric acid sy 57.2 7.9 0.00017 40.5 2.5 23 93-116 9-31 (475)
215 cd01122 GP4d_helicase GP4d_hel 57.2 14 0.00031 34.2 4.0 28 66-107 27-54 (271)
216 PRK06995 flhF flagellar biosyn 57.2 16 0.00034 39.0 4.7 32 68-113 255-286 (484)
217 PF03308 ArgK: ArgK protein; 57.1 9.8 0.00021 38.0 3.1 40 93-137 39-78 (266)
218 KOG3062 RNA polymerase II elon 57.1 16 0.00035 36.7 4.5 73 71-178 3-75 (281)
219 PF02606 LpxK: Tetraacyldisacc 56.8 30 0.00065 34.7 6.4 68 67-158 33-100 (326)
220 PRK01184 hypothetical protein; 56.5 8.8 0.00019 33.6 2.4 24 93-121 11-37 (184)
221 PRK03731 aroL shikimate kinase 56.4 10 0.00022 32.7 2.7 16 93-108 12-27 (171)
222 PRK15455 PrkA family serine pr 56.4 12 0.00025 41.6 3.7 70 47-153 78-152 (644)
223 PRK13947 shikimate kinase; Pro 56.4 6.7 0.00015 33.6 1.6 16 93-108 11-26 (171)
224 COG0283 Cmk Cytidylate kinase 56.3 6.4 0.00014 38.4 1.6 16 93-108 14-29 (222)
225 cd00071 GMPK Guanosine monopho 56.2 6.4 0.00014 33.9 1.5 33 93-125 9-41 (137)
226 PLN02748 tRNA dimethylallyltra 55.5 10 0.00022 40.2 3.1 84 66-168 19-106 (468)
227 COG0455 flhG Antiactivator of 55.4 11 0.00025 36.7 3.1 41 93-133 13-56 (262)
228 PRK13833 conjugal transfer pro 55.4 18 0.00039 36.4 4.7 41 69-123 144-184 (323)
229 PRK04308 murD UDP-N-acetylmura 55.1 17 0.00036 36.7 4.3 32 68-116 109-140 (445)
230 PRK05537 bifunctional sulfate 54.9 14 0.0003 39.7 4.0 28 67-108 390-417 (568)
231 PLN02840 tRNA dimethylallyltra 54.8 9.8 0.00021 40.0 2.7 29 66-108 18-46 (421)
232 PRK09270 nucleoside triphospha 54.7 21 0.00045 33.0 4.6 28 67-108 31-58 (229)
233 cd02019 NK Nucleoside/nucleoti 54.6 8.3 0.00018 29.5 1.7 16 92-107 8-23 (69)
234 PRK09825 idnK D-gluconate kina 54.5 12 0.00026 33.8 2.9 25 69-107 3-27 (176)
235 cd00561 CobA_CobO_BtuR ATP:cor 54.5 12 0.00026 34.2 3.0 24 93-117 12-35 (159)
236 TIGR00554 panK_bact pantothena 54.4 12 0.00027 37.0 3.3 34 93-150 72-105 (290)
237 PF08303 tRNA_lig_kinase: tRNA 54.2 6.9 0.00015 36.8 1.4 18 91-108 7-24 (168)
238 cd03271 ABC_UvrA_II The excisi 54.1 14 0.0003 35.9 3.5 33 67-113 19-52 (261)
239 TIGR00176 mobB molybdopterin-g 54.1 12 0.00026 33.3 2.8 26 93-120 9-34 (155)
240 PRK12337 2-phosphoglycerate ki 53.6 11 0.00024 40.3 3.0 27 68-108 254-280 (475)
241 COG0552 FtsY Signal recognitio 53.3 22 0.00047 36.8 4.8 35 69-118 139-173 (340)
242 PRK08118 topology modulation p 53.2 8 0.00017 34.5 1.6 16 93-108 11-26 (167)
243 KOG1970 Checkpoint RAD17-RFC c 52.9 10 0.00022 41.8 2.6 31 64-108 105-135 (634)
244 cd03278 ABC_SMC_barmotin Barmo 52.6 14 0.00031 33.7 3.1 58 44-127 5-62 (197)
245 cd03114 ArgK-like The function 52.4 16 0.00035 32.0 3.4 30 93-123 9-38 (148)
246 PRK00625 shikimate kinase; Pro 52.4 13 0.00027 33.8 2.8 16 93-108 10-25 (173)
247 PRK04663 murD UDP-N-acetylmura 52.3 19 0.00041 36.5 4.2 31 69-116 108-138 (438)
248 PRK05506 bifunctional sulfate 52.3 17 0.00036 39.1 4.0 38 67-120 458-495 (632)
249 PRK01438 murD UDP-N-acetylmura 52.1 19 0.00041 36.6 4.2 33 68-117 121-153 (480)
250 PRK08760 replicative DNA helic 52.1 67 0.0015 33.8 8.3 45 57-115 216-261 (476)
251 COG1072 CoaA Panthothenate kin 52.0 16 0.00035 36.9 3.6 34 93-150 92-125 (283)
252 TIGR01313 therm_gnt_kin carboh 51.9 8 0.00017 33.1 1.4 17 92-108 7-23 (163)
253 PRK00652 lpxK tetraacyldisacch 51.5 13 0.00027 37.5 2.8 39 69-120 49-87 (325)
254 TIGR01087 murD UDP-N-acetylmur 51.4 20 0.00044 35.8 4.2 32 69-117 102-133 (433)
255 PLN02772 guanylate kinase 51.1 14 0.00031 38.7 3.2 70 46-129 109-181 (398)
256 TIGR03877 thermo_KaiC_1 KaiC d 51.1 21 0.00046 33.2 4.1 47 59-121 9-59 (237)
257 TIGR02782 TrbB_P P-type conjug 51.0 24 0.00053 34.7 4.7 40 69-122 132-171 (299)
258 cd00983 recA RecA is a bacter 50.9 19 0.00042 36.4 4.0 69 31-116 10-87 (325)
259 PHA02530 pseT polynucleotide k 50.8 12 0.00025 35.3 2.4 24 70-107 3-26 (300)
260 PRK12727 flagellar biosynthesi 50.6 22 0.00049 38.8 4.7 28 67-108 348-375 (559)
261 PF07693 KAP_NTPase: KAP famil 50.4 13 0.00028 35.0 2.6 19 90-108 27-45 (325)
262 PRK02006 murD UDP-N-acetylmura 49.5 21 0.00046 36.7 4.2 63 30-117 88-152 (498)
263 PF01935 DUF87: Domain of unkn 49.3 24 0.00051 32.0 4.0 33 70-116 24-56 (229)
264 PLN02200 adenylate kinase fami 49.3 18 0.00038 34.3 3.3 26 69-108 43-68 (234)
265 PF03215 Rad17: Rad17 cell cyc 48.9 16 0.00036 39.0 3.4 30 65-108 41-70 (519)
266 COG4240 Predicted kinase [Gene 48.9 15 0.00033 37.1 2.9 25 93-118 60-84 (300)
267 COG1428 Deoxynucleoside kinase 48.7 14 0.00031 36.0 2.6 31 69-117 4-34 (216)
268 PRK10078 ribose 1,5-bisphospho 48.6 13 0.00027 33.1 2.1 25 69-107 2-26 (186)
269 PF13173 AAA_14: AAA domain 48.3 20 0.00043 30.0 3.1 26 68-107 1-26 (128)
270 PRK07414 cob(I)yrinic acid a,c 48.2 30 0.00065 32.6 4.6 34 67-117 20-54 (178)
271 COG0467 RAD55 RecA-superfamily 48.1 25 0.00055 32.9 4.1 43 66-123 20-63 (260)
272 TIGR00630 uvra excinuclease AB 48.1 12 0.00025 42.8 2.2 29 202-230 320-349 (924)
273 PRK01368 murD UDP-N-acetylmura 47.8 24 0.00053 36.4 4.3 78 69-171 104-184 (454)
274 PRK08084 DNA replication initi 47.8 25 0.00055 32.8 4.1 43 58-115 34-76 (235)
275 PRK14494 putative molybdopteri 47.6 22 0.00049 34.2 3.7 26 93-120 11-36 (229)
276 COG0645 Predicted kinase [Gene 47.2 14 0.00031 34.7 2.3 16 93-108 11-26 (170)
277 PRK14530 adenylate kinase; Pro 47.2 18 0.00038 32.9 2.9 16 93-108 13-28 (215)
278 PF06745 KaiC: KaiC; InterPro 47.1 21 0.00046 32.4 3.3 42 67-123 17-60 (226)
279 TIGR00682 lpxK tetraacyldisacc 46.9 26 0.00057 35.1 4.2 41 67-120 26-66 (311)
280 PRK11545 gntK gluconate kinase 46.5 12 0.00025 33.2 1.5 17 92-108 4-20 (163)
281 KOG0744 AAA+-type ATPase [Post 46.4 17 0.00036 38.3 2.8 27 68-108 176-202 (423)
282 PRK03803 murD UDP-N-acetylmura 46.2 26 0.00056 35.4 4.1 32 69-117 108-139 (448)
283 PF08433 KTI12: Chromatin asso 46.2 26 0.00055 34.3 4.0 24 71-108 3-26 (270)
284 PF02492 cobW: CobW/HypB/UreG, 46.1 33 0.00071 30.5 4.3 27 93-121 10-36 (178)
285 PRK14737 gmk guanylate kinase; 46.0 23 0.0005 32.3 3.4 46 67-127 2-47 (186)
286 PF06068 TIP49: TIP49 C-termin 45.8 15 0.00032 38.7 2.4 27 68-108 49-75 (398)
287 COG3265 GntK Gluconate kinase 45.6 11 0.00024 35.4 1.3 16 93-108 5-20 (161)
288 PF07931 CPT: Chloramphenicol 45.6 16 0.00035 33.7 2.3 25 69-107 1-25 (174)
289 PF00910 RNA_helicase: RNA hel 45.5 16 0.00035 30.0 2.2 75 93-178 8-85 (107)
290 TIGR02012 tigrfam_recA protein 45.5 26 0.00057 35.4 4.0 70 30-116 9-87 (321)
291 PRK00349 uvrA excinuclease ABC 45.4 14 0.0003 42.4 2.2 29 202-230 322-351 (943)
292 PRK09354 recA recombinase A; P 45.3 26 0.00057 35.9 4.0 70 30-116 14-92 (349)
293 COG3948 Phage-related baseplat 45.2 25 0.00053 35.7 3.7 83 26-116 120-202 (306)
294 COG1936 Predicted nucleotide k 45.1 12 0.00026 35.6 1.5 23 198-220 90-112 (180)
295 PRK11889 flhF flagellar biosyn 45.1 30 0.00065 36.9 4.5 25 93-118 251-275 (436)
296 PRK14106 murD UDP-N-acetylmura 44.9 29 0.00062 34.8 4.2 31 69-116 108-138 (450)
297 PRK04328 hypothetical protein; 44.8 36 0.00077 32.2 4.6 48 59-122 11-62 (249)
298 PF13555 AAA_29: P-loop contai 44.7 30 0.00065 27.4 3.4 43 44-107 5-47 (62)
299 PRK00091 miaA tRNA delta(2)-is 44.6 18 0.00039 36.1 2.7 26 69-108 4-29 (307)
300 PRK03369 murD UDP-N-acetylmura 44.5 30 0.00065 35.9 4.4 32 69-117 117-148 (488)
301 PRK13900 type IV secretion sys 44.4 24 0.00052 35.4 3.5 37 68-121 159-195 (332)
302 TIGR02768 TraA_Ti Ti-type conj 44.4 27 0.00059 38.7 4.3 35 69-118 368-402 (744)
303 PRK13949 shikimate kinase; Pro 44.3 12 0.00027 33.3 1.4 16 93-108 11-26 (169)
304 PRK13894 conjugal transfer ATP 44.3 35 0.00075 34.2 4.6 41 68-122 147-187 (319)
305 PRK08939 primosomal protein Dn 43.5 39 0.00084 33.5 4.8 72 30-116 107-188 (306)
306 PRK06526 transposase; Provisio 43.4 16 0.00034 35.2 2.0 22 93-115 108-129 (254)
307 PRK14489 putative bifunctional 43.2 32 0.00069 34.6 4.2 27 93-121 215-241 (366)
308 PHA03132 thymidine kinase; Pro 43.1 27 0.00059 38.2 3.9 39 68-125 256-294 (580)
309 PRK05416 glmZ(sRNA)-inactivati 43.1 21 0.00045 35.3 2.8 24 67-104 4-27 (288)
310 PRK09183 transposase/IS protei 43.1 27 0.00058 33.5 3.5 35 67-116 100-134 (259)
311 PRK14493 putative bifunctional 42.7 20 0.00044 35.1 2.7 26 93-121 11-36 (274)
312 TIGR01359 UMP_CMP_kin_fam UMP- 42.6 13 0.00029 32.2 1.3 16 93-108 9-24 (183)
313 COG4088 Predicted nucleotide k 41.9 25 0.00054 35.1 3.1 16 93-108 11-26 (261)
314 PF13401 AAA_22: AAA domain; P 41.9 24 0.00051 28.5 2.6 27 68-108 3-29 (131)
315 PRK02705 murD UDP-N-acetylmura 41.9 34 0.00074 34.4 4.2 34 68-118 108-141 (459)
316 PRK12338 hypothetical protein; 41.9 19 0.00041 36.5 2.4 25 70-108 5-29 (319)
317 COG0572 Udk Uridine kinase [Nu 41.5 19 0.00041 34.9 2.3 16 93-108 18-33 (218)
318 PRK00683 murD UDP-N-acetylmura 41.5 36 0.00079 34.2 4.3 80 68-171 101-184 (418)
319 PF12340 DUF3638: Protein of u 41.4 28 0.00061 34.0 3.4 30 77-107 36-65 (229)
320 COG0332 FabH 3-oxoacyl-[acyl-c 41.2 12 0.00025 38.0 0.8 55 22-77 247-309 (323)
321 COG0857 Pta BioD-like N-termin 41.2 20 0.00043 36.8 2.5 27 78-115 8-34 (354)
322 PRK01390 murD UDP-N-acetylmura 41.2 35 0.00076 34.6 4.2 33 68-117 113-145 (460)
323 PRK01906 tetraacyldisaccharide 41.1 39 0.00085 34.3 4.5 41 67-120 54-94 (338)
324 TIGR00665 DnaB replicative DNA 41.1 48 0.001 33.5 5.1 37 57-107 182-219 (434)
325 cd01120 RecA-like_NTPases RecA 41.0 26 0.00055 28.5 2.7 16 93-108 9-24 (165)
326 smart00072 GuKc Guanylate kina 40.9 31 0.00068 30.7 3.4 47 69-129 2-48 (184)
327 cd02030 NDUO42 NADH:Ubiquinone 40.6 16 0.00035 33.6 1.6 16 93-108 9-24 (219)
328 PF13481 AAA_25: AAA domain; P 40.6 31 0.00067 30.0 3.3 27 67-107 30-56 (193)
329 cd03279 ABC_sbcCD SbcCD and ot 40.4 24 0.00052 32.2 2.6 46 44-107 7-52 (213)
330 PF07517 SecA_DEAD: SecA DEAD- 40.3 21 0.00046 35.2 2.4 33 85-118 92-124 (266)
331 PRK05973 replicative DNA helic 40.3 37 0.00081 32.8 4.0 72 31-122 29-103 (237)
332 TIGR01448 recD_rel helicase, p 40.2 35 0.00075 37.7 4.2 30 68-112 337-366 (720)
333 cd02027 APSK Adenosine 5'-phos 40.2 25 0.00054 30.6 2.6 22 93-115 9-30 (149)
334 TIGR03015 pepcterm_ATPase puta 40.1 25 0.00055 32.2 2.8 25 69-107 43-67 (269)
335 PRK07952 DNA replication prote 40.1 26 0.00057 33.8 3.0 23 93-116 109-131 (244)
336 PF03796 DnaB_C: DnaB-like hel 39.3 44 0.00096 31.2 4.3 45 279-323 151-203 (259)
337 cd00464 SK Shikimate kinase (S 39.1 19 0.00041 30.0 1.6 16 93-108 9-24 (154)
338 PRK05595 replicative DNA helic 38.9 47 0.001 34.2 4.7 45 57-115 188-233 (444)
339 COG0541 Ffh Signal recognition 38.9 25 0.00055 37.6 2.9 33 70-117 101-133 (451)
340 TIGR02881 spore_V_K stage V sp 38.8 21 0.00045 33.6 2.0 19 93-112 52-70 (261)
341 cd01393 recA_like RecA is a b 38.4 44 0.00096 30.0 4.0 28 66-107 16-43 (226)
342 PRK14723 flhF flagellar biosyn 38.3 43 0.00093 37.9 4.6 32 68-113 184-215 (767)
343 PRK00141 murD UDP-N-acetylmura 38.2 44 0.00094 34.5 4.4 31 69-116 121-151 (473)
344 PRK07261 topology modulation p 38.0 19 0.00041 32.1 1.5 15 93-107 10-24 (171)
345 PRK09302 circadian clock prote 37.8 39 0.00085 35.1 4.0 43 65-122 27-71 (509)
346 PRK02472 murD UDP-N-acetylmura 37.4 45 0.00097 33.4 4.2 31 69-116 108-138 (447)
347 TIGR03575 selen_PSTK_euk L-ser 37.3 26 0.00057 35.7 2.6 23 93-115 9-31 (340)
348 PRK12402 replication factor C 37.0 28 0.0006 33.0 2.6 16 93-108 46-61 (337)
349 PF02572 CobA_CobO_BtuR: ATP:c 36.8 45 0.00098 31.0 3.8 34 68-117 3-36 (172)
350 PF01695 IstB_IS21: IstB-like 36.5 28 0.00061 31.5 2.5 34 68-116 46-79 (178)
351 cd01121 Sms Sms (bacterial rad 36.5 57 0.0012 33.4 4.9 46 57-117 68-115 (372)
352 PRK10536 hypothetical protein; 36.5 66 0.0014 32.1 5.1 40 69-124 74-114 (262)
353 COG5008 PilU Tfp pilus assembl 36.4 40 0.00086 35.0 3.7 31 58-103 117-147 (375)
354 PRK12377 putative replication 36.4 28 0.00061 33.7 2.5 22 93-115 111-132 (248)
355 TIGR00376 DNA helicase, putati 36.1 31 0.00067 37.6 3.1 34 70-118 174-207 (637)
356 TIGR00416 sms DNA repair prote 35.7 43 0.00093 35.1 3.9 44 57-115 80-125 (454)
357 PF04851 ResIII: Type III rest 35.7 33 0.00072 28.6 2.6 23 93-119 35-57 (184)
358 COG2403 Predicted GTPase [Gene 35.6 32 0.00069 36.7 2.9 36 75-122 129-164 (449)
359 cd01428 ADK Adenylate kinase ( 35.2 22 0.00047 30.9 1.4 16 93-108 9-24 (194)
360 PRK00635 excinuclease ABC subu 35.0 24 0.00051 43.4 2.1 28 202-229 313-341 (1809)
361 cd04155 Arl3 Arl3 subfamily. 34.9 39 0.00085 28.4 2.9 33 58-104 3-35 (173)
362 PLN02199 shikimate kinase 34.9 31 0.00067 35.1 2.7 28 67-108 100-127 (303)
363 KOG1207 Diacetyl reductase/L-x 34.8 48 0.001 32.6 3.8 36 68-122 6-41 (245)
364 PRK11823 DNA repair protein Ra 34.5 48 0.001 34.6 4.0 45 58-117 67-113 (446)
365 TIGR02880 cbbX_cfxQ probable R 34.5 27 0.0006 33.8 2.2 20 93-113 68-87 (284)
366 PRK04690 murD UDP-N-acetylmura 34.5 46 0.001 34.4 3.9 64 69-153 115-179 (468)
367 PRK03806 murD UDP-N-acetylmura 34.5 53 0.0012 33.0 4.2 31 69-116 105-135 (438)
368 PF09848 DUF2075: Uncharacteri 34.2 49 0.0011 32.7 3.9 35 70-119 2-38 (352)
369 cd02024 NRK1 Nicotinamide ribo 34.1 20 0.00044 33.2 1.2 15 93-107 9-23 (187)
370 PRK05057 aroK shikimate kinase 34.1 22 0.00049 31.6 1.4 15 93-107 14-28 (172)
371 cd03297 ABC_ModC_molybdenum_tr 33.2 39 0.00084 30.4 2.8 24 207-230 115-141 (214)
372 TIGR02640 gas_vesic_GvpN gas v 33.1 38 0.00082 32.2 2.8 27 68-108 20-46 (262)
373 TIGR00017 cmk cytidylate kinas 33.1 25 0.00053 33.0 1.5 16 93-108 12-27 (217)
374 COG1484 DnaC DNA replication p 32.8 34 0.00074 32.9 2.5 23 93-116 115-137 (254)
375 PRK01710 murD UDP-N-acetylmura 32.7 52 0.0011 33.6 3.9 31 69-116 117-147 (458)
376 PRK02496 adk adenylate kinase; 32.4 27 0.00059 30.6 1.6 16 93-108 11-26 (184)
377 PRK10751 molybdopterin-guanine 32.4 55 0.0012 30.4 3.6 29 93-123 16-44 (173)
378 PF12846 AAA_10: AAA-like doma 32.2 38 0.00082 30.7 2.5 25 93-118 11-35 (304)
379 TIGR01085 murE UDP-N-acetylmur 32.2 54 0.0012 33.4 3.9 31 68-115 84-114 (464)
380 PRK10820 DNA-binding transcrip 32.0 32 0.00069 36.3 2.3 61 183-257 361-431 (520)
381 PF03668 ATP_bind_2: P-loop AT 31.9 34 0.00074 34.4 2.4 22 350-371 242-269 (284)
382 PRK11144 modC molybdate transp 31.8 50 0.0011 32.9 3.5 37 47-104 9-45 (352)
383 PF01399 PCI: PCI domain; Int 31.7 25 0.00054 27.4 1.1 37 21-57 53-96 (105)
384 PRK10773 murF UDP-N-acetylmura 31.7 49 0.0011 33.8 3.5 33 65-114 96-128 (453)
385 TIGR02236 recomb_radA DNA repa 31.6 41 0.00089 32.4 2.8 27 67-107 93-119 (310)
386 cd03116 MobB Molybdenum is an 31.5 43 0.00094 30.1 2.8 27 93-121 11-37 (159)
387 PRK09302 circadian clock prote 31.3 61 0.0013 33.7 4.2 37 66-117 270-306 (509)
388 PRK14532 adenylate kinase; Pro 31.2 27 0.00058 30.7 1.4 16 93-108 10-25 (188)
389 PRK08727 hypothetical protein; 31.1 40 0.00088 31.5 2.6 31 70-115 42-72 (233)
390 COG0523 Putative GTPases (G3E 31.0 53 0.0011 33.2 3.6 26 93-121 11-36 (323)
391 cd01124 KaiC KaiC is a circadi 30.8 45 0.00097 28.7 2.7 23 93-116 9-31 (187)
392 cd03283 ABC_MutS-like MutS-lik 30.8 68 0.0015 29.5 4.0 33 68-115 24-58 (199)
393 COG2019 AdkA Archaeal adenylat 30.7 46 0.00099 32.1 2.9 19 228-246 112-130 (189)
394 PRK05800 cobU adenosylcobinami 30.7 44 0.00096 30.2 2.7 15 93-107 11-25 (170)
395 COG0334 GdhA Glutamate dehydro 30.7 75 0.0016 33.8 4.7 91 292-384 119-217 (411)
396 cd02026 PRK Phosphoribulokinas 30.6 35 0.00077 33.1 2.2 15 93-107 9-23 (273)
397 PHA02542 41 41 helicase; Provi 30.5 63 0.0014 34.2 4.2 45 279-323 325-375 (473)
398 PF05155 Phage_X: Phage X fami 30.4 21 0.00046 30.0 0.6 34 204-237 42-78 (92)
399 TIGR02142 modC_ABC molybdenum 30.2 54 0.0012 32.6 3.5 36 47-103 8-43 (354)
400 COG1224 TIP49 DNA helicase TIP 30.2 50 0.0011 35.3 3.3 28 67-108 63-90 (450)
401 PRK13826 Dtr system oriT relax 30.2 61 0.0013 38.2 4.3 36 68-118 396-431 (1102)
402 TIGR02655 circ_KaiC circadian 29.9 75 0.0016 33.2 4.6 40 67-121 261-301 (484)
403 PRK06893 DNA replication initi 29.7 44 0.00094 31.1 2.6 22 93-115 49-70 (229)
404 TIGR03600 phage_DnaB phage rep 29.7 80 0.0017 31.9 4.6 37 57-107 181-218 (421)
405 cd03240 ABC_Rad50 The catalyti 29.6 57 0.0012 29.9 3.3 15 93-107 32-46 (204)
406 PRK12723 flagellar biosynthesi 29.4 48 0.001 34.3 3.0 16 93-108 184-199 (388)
407 cd02022 DPCK Dephospho-coenzym 29.1 38 0.00083 30.1 2.0 13 93-105 9-21 (179)
408 cd03243 ABC_MutS_homologs The 29.0 60 0.0013 29.3 3.2 26 68-107 28-53 (202)
409 KOG2702 Predicted panthothenat 28.9 30 0.00065 35.2 1.5 37 93-150 129-168 (323)
410 PRK07004 replicative DNA helic 28.9 86 0.0019 32.8 4.8 45 57-115 200-245 (460)
411 cd03280 ABC_MutS2 MutS2 homolo 28.9 67 0.0014 29.0 3.5 29 70-113 29-59 (200)
412 PRK14961 DNA polymerase III su 28.8 33 0.00071 34.3 1.7 16 93-108 48-63 (363)
413 PLN03025 replication factor C 28.8 34 0.00074 33.2 1.8 98 202-301 144-251 (319)
414 TIGR02915 PEP_resp_reg putativ 28.7 40 0.00087 33.6 2.3 63 183-256 296-365 (445)
415 PRK04301 radA DNA repair and r 28.7 50 0.0011 32.2 2.9 27 67-107 100-126 (317)
416 PRK10771 thiQ thiamine transpo 28.6 54 0.0012 29.9 3.0 23 67-103 23-45 (232)
417 COG0178 UvrA Excinuclease ATPa 28.6 52 0.0011 38.0 3.3 33 67-113 625-658 (935)
418 PRK06645 DNA polymerase III su 28.4 32 0.0007 36.7 1.7 16 93-108 53-68 (507)
419 PF07728 AAA_5: AAA domain (dy 28.4 39 0.00084 28.1 1.8 15 93-107 9-23 (139)
420 PRK14531 adenylate kinase; Pro 28.4 35 0.00076 30.3 1.6 16 93-108 12-27 (183)
421 cd01125 repA Hexameric Replica 28.3 41 0.00089 31.1 2.1 21 91-113 9-29 (239)
422 PRK05748 replicative DNA helic 28.3 90 0.0019 32.1 4.7 45 57-115 190-235 (448)
423 COG0178 UvrA Excinuclease ATPa 28.2 38 0.00083 39.1 2.2 22 67-102 24-45 (935)
424 KOG1533 Predicted GTPase [Gene 28.1 55 0.0012 33.2 3.1 31 91-122 10-40 (290)
425 PRK14730 coaE dephospho-CoA ki 28.0 52 0.0011 30.1 2.7 15 93-107 11-25 (195)
426 PF05970 PIF1: PIF1-like helic 28.0 90 0.0019 31.3 4.6 35 67-116 20-54 (364)
427 COG2812 DnaX DNA polymerase II 27.8 35 0.00076 36.9 1.8 18 91-108 46-63 (515)
428 PRK00023 cmk cytidylate kinase 27.7 35 0.00076 32.0 1.6 16 93-108 14-29 (225)
429 KOG3877 NADH:ubiquinone oxidor 27.6 56 0.0012 34.1 3.1 53 40-108 39-96 (393)
430 PF00488 MutS_V: MutS domain V 27.6 66 0.0014 30.6 3.4 32 69-115 43-76 (235)
431 cd03270 ABC_UvrA_I The excisio 27.5 53 0.0012 30.4 2.7 25 67-105 19-43 (226)
432 TIGR01081 mpl UDP-N-acetylmura 27.4 54 0.0012 33.3 3.0 29 70-115 103-131 (448)
433 cd03298 ABC_ThiQ_thiamine_tran 27.3 62 0.0014 29.0 3.0 23 67-103 22-44 (211)
434 PF13521 AAA_28: AAA domain; P 27.3 43 0.00092 28.9 1.9 14 93-106 9-22 (163)
435 COG1618 Predicted nucleotide k 27.2 80 0.0017 30.3 3.8 24 93-117 15-38 (179)
436 smart00088 PINT motif in prote 27.1 88 0.0019 24.4 3.5 34 23-56 19-59 (88)
437 smart00753 PAM PCI/PINT associ 27.1 88 0.0019 24.4 3.5 34 23-56 19-59 (88)
438 PF12774 AAA_6: Hydrolytic ATP 27.1 36 0.00077 32.6 1.5 66 93-168 42-110 (231)
439 PF00005 ABC_tran: ABC transpo 27.0 43 0.00093 27.5 1.8 25 67-105 9-33 (137)
440 COG1149 MinD superfamily P-loo 26.7 41 0.00089 34.1 1.9 58 285-349 111-173 (284)
441 PRK14093 UDP-N-acetylmuramoyla 26.7 60 0.0013 33.5 3.2 32 66-114 105-136 (479)
442 PRK14964 DNA polymerase III su 26.5 35 0.00077 36.4 1.6 16 93-108 45-60 (491)
443 PF01637 Arch_ATPase: Archaeal 26.5 32 0.00069 29.8 1.0 27 67-107 18-44 (234)
444 TIGR02788 VirB11 P-type DNA tr 26.3 44 0.00095 32.7 2.1 26 68-107 143-168 (308)
445 TIGR01082 murC UDP-N-acetylmur 26.3 72 0.0016 32.4 3.6 28 69-113 99-126 (448)
446 TIGR01143 murF UDP-N-acetylmur 26.2 65 0.0014 32.4 3.3 32 65-113 70-101 (417)
447 PRK11608 pspF phage shock prot 26.2 37 0.00081 33.5 1.5 63 183-256 163-233 (326)
448 TIGR01817 nifA Nif-specific re 26.1 67 0.0014 33.6 3.4 59 183-256 353-421 (534)
449 PRK13889 conjugal transfer rel 26.0 77 0.0017 36.9 4.2 34 70-118 363-396 (988)
450 PRK14956 DNA polymerase III su 25.8 36 0.00079 36.5 1.5 27 68-108 39-65 (484)
451 PRK11629 lolD lipoprotein tran 25.8 60 0.0013 29.7 2.7 24 67-104 33-56 (233)
452 PRK11860 bifunctional 3-phosph 25.6 56 0.0012 35.5 2.9 16 93-108 452-467 (661)
453 PRK14490 putative bifunctional 25.6 1.3E+02 0.0028 30.3 5.2 39 67-122 3-41 (369)
454 cd03255 ABC_MJ0796_Lo1CDE_FtsE 25.5 62 0.0014 29.0 2.7 24 67-104 28-51 (218)
455 cd03250 ABCC_MRP_domain1 Domai 25.5 65 0.0014 28.8 2.8 22 67-102 29-50 (204)
456 COG2866 Predicted carboxypepti 25.5 33 0.00071 35.3 1.0 94 126-253 135-240 (374)
457 COG1102 Cmk Cytidylate kinase 25.5 44 0.00096 32.0 1.8 59 93-175 10-68 (179)
458 PF13476 AAA_23: AAA domain; P 25.5 70 0.0015 27.2 2.9 26 70-109 20-45 (202)
459 cd03223 ABCD_peroxisomal_ALDP 25.3 65 0.0014 28.3 2.7 23 67-103 25-47 (166)
460 PRK14021 bifunctional shikimat 25.3 62 0.0013 34.5 3.1 16 93-108 16-31 (542)
461 PRK08506 replicative DNA helic 25.2 1.1E+02 0.0024 32.1 4.8 41 283-323 327-375 (472)
462 cd03259 ABC_Carb_Solutes_like 25.1 64 0.0014 28.9 2.7 24 67-104 24-47 (213)
463 PRK00421 murC UDP-N-acetylmura 25.1 92 0.002 31.8 4.1 29 69-114 107-135 (461)
464 PRK14528 adenylate kinase; Pro 25.1 43 0.00094 30.1 1.6 15 93-107 11-25 (186)
465 PRK08903 DnaA regulatory inact 24.8 62 0.0013 29.4 2.6 32 68-114 41-72 (227)
466 PHA02624 large T antigen; Prov 24.8 67 0.0014 35.9 3.2 31 64-108 426-456 (647)
467 TIGR02673 FtsE cell division A 24.8 65 0.0014 28.8 2.7 24 67-104 26-49 (214)
468 CHL00181 cbbX CbbX; Provisiona 24.6 51 0.0011 32.3 2.1 20 93-113 69-88 (287)
469 PRK06749 replicative DNA helic 24.5 1.2E+02 0.0027 31.5 4.9 37 57-107 173-210 (428)
470 KOG1805 DNA replication helica 24.5 60 0.0013 38.1 2.9 34 70-118 686-719 (1100)
471 TIGR01526 nadR_NMN_Atrans nico 24.4 63 0.0014 32.2 2.8 26 69-108 162-187 (325)
472 TIGR00635 ruvB Holliday juncti 24.4 44 0.00096 31.6 1.6 16 93-108 40-55 (305)
473 PRK08181 transposase; Validate 24.4 59 0.0013 31.9 2.5 33 69-116 106-138 (269)
474 PRK00139 murE UDP-N-acetylmura 24.4 1E+02 0.0022 31.6 4.3 32 68-116 94-125 (460)
475 PF00580 UvrD-helicase: UvrD/R 24.1 48 0.001 30.3 1.7 27 93-119 23-51 (315)
476 PRK13695 putative NTPase; Prov 24.0 81 0.0017 27.6 3.1 26 93-119 10-35 (174)
477 PRK14958 DNA polymerase III su 24.0 42 0.00092 35.7 1.6 16 93-108 48-63 (509)
478 PRK14721 flhF flagellar biosyn 23.8 1.2E+02 0.0026 31.9 4.7 15 93-107 201-215 (420)
479 COG0470 HolB ATPase involved i 23.8 48 0.001 30.9 1.7 16 93-108 34-49 (325)
480 KOG0989 Replication factor C, 23.7 46 0.001 34.6 1.7 61 232-299 206-280 (346)
481 cd03247 ABCC_cytochrome_bd The 23.7 73 0.0016 28.0 2.7 23 67-103 26-48 (178)
482 PRK06904 replicative DNA helic 23.7 1.2E+02 0.0026 32.0 4.8 37 57-107 208-245 (472)
483 cd01918 HprK_C HprK/P, the bif 23.6 45 0.00098 30.3 1.5 38 69-120 14-51 (149)
484 COG1341 Predicted GTPase or GT 23.6 1.1E+02 0.0023 32.6 4.3 86 66-167 71-166 (398)
485 PRK05636 replicative DNA helic 23.5 1.1E+02 0.0023 32.8 4.4 45 278-322 395-447 (505)
486 PRK10584 putative ABC transpor 23.5 72 0.0016 28.9 2.8 24 67-104 34-57 (228)
487 TIGR00073 hypB hydrogenase acc 23.5 1E+02 0.0022 28.0 3.7 16 93-108 32-47 (207)
488 cd03301 ABC_MalK_N The N-termi 23.4 74 0.0016 28.5 2.8 24 67-104 24-47 (213)
489 PRK08356 hypothetical protein; 23.3 74 0.0016 28.6 2.8 22 69-104 5-26 (195)
490 PLN02796 D-glycerate 3-kinase 23.3 61 0.0013 33.4 2.5 15 93-107 110-124 (347)
491 cd04784 HTH_CadR-PbrR Helix-Tu 23.2 93 0.002 26.6 3.2 37 194-232 33-69 (127)
492 PRK14022 UDP-N-acetylmuramoyla 23.2 94 0.002 32.0 3.8 32 68-116 109-140 (481)
493 PRK04841 transcriptional regul 23.2 57 0.0012 35.2 2.4 51 59-127 22-72 (903)
494 PRK11388 DNA-binding transcrip 23.2 1.7E+02 0.0038 31.3 5.9 44 93-138 358-407 (638)
495 cd03227 ABC_Class2 ABC-type Cl 23.1 1.2E+02 0.0026 26.5 4.0 25 69-107 21-47 (162)
496 TIGR00618 sbcc exonuclease Sbc 23.1 65 0.0014 36.7 2.9 41 45-107 8-50 (1042)
497 TIGR00960 3a0501s02 Type II (G 23.1 73 0.0016 28.6 2.7 24 67-104 27-50 (216)
498 TIGR01351 adk adenylate kinase 23.0 43 0.00093 30.4 1.2 15 93-107 9-23 (210)
499 PF00406 ADK: Adenylate kinase 23.0 55 0.0012 27.9 1.8 16 93-108 6-21 (151)
500 cd01128 rho_factor Transcripti 22.8 99 0.0022 29.9 3.7 46 67-126 14-61 (249)
No 1
>PLN02759 Formate--tetrahydrofolate ligase
Probab=100.00 E-value=2.2e-192 Score=1466.62 Aligned_cols=388 Identities=87% Similarity=1.317 Sum_probs=381.4
Q ss_pred CCCCCcCcccCCCCCCcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCC
Q 044054 3 SSKTVRKLQVASPVPADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPL 82 (400)
Q Consensus 3 ~~~~~~~l~~~~pm~sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~ 82 (400)
-|....++.++.||||||||||+++++||++||+++||++|||||||+|||||+++++++++++|+|||||||||||||+
T Consensus 3 ~~~~~~~~~~~~~~~sDieIa~~~~~~~I~~iA~~lgl~~~~le~YG~ykAKi~l~~l~~~~~~~~gklIlVTaitPTP~ 82 (637)
T PLN02759 3 MSSSRRKLEVKSPVPADIDIAQSVEPLHISEIAKALGLLPDEYDLYGKYKAKVLLSVRDRLAGAPDGYYVVVAGITPTPL 82 (637)
T ss_pred CcCCCCCCCCCCCCCCHHHHHhhCCCcCHHHHHHHcCCChhhhccCCCcceEEcHHHHhhhccCCCCcEEEEEecCCCCC
Confidence 34445567889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHH
Q 044054 83 GEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAA 162 (400)
Q Consensus 83 ~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA 162 (400)
|||||||||||+|||++|+||++++|||||||||||||||||||||||||+|||||||||||||||||||
T Consensus 83 ----------GEGKTTttIGL~~aL~~~lgk~~~~~lRePSlGP~FGiKGGAaGGGysQv~Pme~iNLHfTGD~hAItaA 152 (637)
T PLN02759 83 ----------GEGKSTTTIGLCQALGAYLDKKVVTCLRQPSQGPTFGIKGGAAGGGYSQVIPMEEFNLHLTGDIHAITAA 152 (637)
T ss_pred ----------CCCchhHHHHHHHHHHHHhCCeeEEEeecCCcCCcCCcccccCCCcccccccHhhhcccccchHHHHHHH
Confidence 9999999999999997569999999999999999999999999999999999999999999999999999
Q ss_pred HhHHHHHHHhhhhcccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeee
Q 044054 163 NNLLAAAIDTRIFHEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWR 242 (400)
Q Consensus 163 ~NLlaA~idn~i~~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~ 242 (400)
||||+|+|||||||+|+|+|++||+||||..++|+|+|+++|+|||+||||+||||++|||||+++|++|+|||++|+|+
T Consensus 153 ~NLlaA~idn~i~~~n~~~~~~l~~~l~p~~~~~~r~~~~~~~~rl~~l~i~~~~p~~lt~~e~~~~~~L~IDp~~I~w~ 232 (637)
T PLN02759 153 NNLLAAAIDTRVFHEATQSDKALFNRLCPANKEGKRSFAAVMFRRLKKLGISKTDPDELTPEERKKFARLDIDPASITWR 232 (637)
T ss_pred HHHHHHHHHHHHhhccccchhhhhhccccccccccccccHHHHHHHHhhccCcCCccccCHHHhhhhhccCcCcceeEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCcccccceeeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhH
Q 044054 243 RVMDVNDRFLRKITIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGAL 322 (400)
Q Consensus 243 Rv~D~NDR~LR~I~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAm 322 (400)
||||||||+||+|+||+|++++|++||+|||||||||||||||||+|++|||+|||||||||++||+||||+||+|+|||
T Consensus 233 RvlD~NDR~LR~I~vGlgg~~~G~~Re~gFdITvASEiMAILcLa~dl~Dlk~Rlg~ivvg~~~~g~pVta~DL~~~GAm 312 (637)
T PLN02759 233 RVMDVNDRFLRKITVGQGPEEKGMTRETGFDITVASEIMAVLALTTSLADMRERLGKMVIGNSKAGEPVTADDLGVGGAL 312 (637)
T ss_pred eeccccchhhhceeeCcCCCCCCCcccCCceeeHHHHHHHHHHHcCCHHHHHHHHhCEEEEEcCCCCceeHHHcCchHhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCCCcceeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 323 TVLMKDAINPTLMQTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 323 t~LLkdAikPnLvQTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
|+|||||||||||||+|||||||||||||||||||||||||++||||+|.+||||||||||||||||||||||||++|
T Consensus 313 t~LLkDAikPNLvQTlEgtPa~vHgGPFANIAhG~nSviAtk~ALkla~~~dyvVTEAGFGaDlGaEKF~dIkcR~~g 390 (637)
T PLN02759 313 TVLMKDAIHPTLMQTLEGTPVLVHAGPFANIAHGNSSIVADQIALKLVGPGGFVVTEAGFGADIGTEKFMNIKCRYSG 390 (637)
T ss_pred HHHHHhhhCccceeecCCCceEEecCCcccccccchHHHHHHHHHhhcCCCCeEEEecccCCCCchhheecccccccC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999987
No 2
>PTZ00386 formyl tetrahydrofolate synthetase; Provisional
Probab=100.00 E-value=1.9e-189 Score=1442.74 Aligned_cols=381 Identities=69% Similarity=1.068 Sum_probs=375.7
Q ss_pred CCcCcccCCCCCCcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCC
Q 044054 6 TVRKLQVASPVPADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEG 85 (400)
Q Consensus 6 ~~~~l~~~~pm~sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~ 85 (400)
+..+|.++.||||||||||+++++||++||+++||++|||||||+|||||+++++++++++|+|||||||||||||+
T Consensus 5 ~~~~~~~~~~~~sDieIa~~~~~~~I~~iA~~lgl~~~~le~YG~ykAKv~l~~~~~~~~~~~gklIlVTaitPTP~--- 81 (625)
T PTZ00386 5 TTRKLSCQWPVPSDIDIAQSVKPQPITSVAESAGILLSELDPYGSTRAKVKLSVLKRLENSPNGKYVVVAGMNPTPL--- 81 (625)
T ss_pred CCCCCCCCCCCCCHHHHHhhCCCcCHHHHHHHcCCCHHHHHhcCCcceecCHHHHHhhccCCCCcEEEEeecCCCCC---
Confidence 34567889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhH
Q 044054 86 EITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNL 165 (400)
Q Consensus 86 ~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NL 165 (400)
|||||||||||+|||++|+||++++|||||||||||||||||||||||||+||||||||||||||||||||||
T Consensus 82 -------GEGKtTttIGL~~aL~~~lgk~~~~~lRePSlGP~FGiKGGAaGGGysQv~Pme~iNLHfTGD~HAItaA~NL 154 (625)
T PTZ00386 82 -------GEGKSTTTIGLAQSLGAHLHRKTFACIRQPSQGPTFGIKGGAAGGGYSQVIPMEDFNLHGTGDIHAITAANNL 154 (625)
T ss_pred -------CCCccchhhhhHHHHHHHhCcceEEEEecCCcCCcCCcccccCCCccccccchhhccccccchHHHHHHHHHH
Confidence 9999999999999996699999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhcccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeeccc
Q 044054 166 LAAAIDTRIFHEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVM 245 (400)
Q Consensus 166 laA~idn~i~~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~ 245 (400)
|||+|||||||+|+|+|++||+||| +|+|+|+++|++||+||||+|+||++|||||+++|+||||||++|+|+|||
T Consensus 155 laA~iDn~i~~~n~~~d~~l~~~l~----~~~r~~~~~~~~rl~~lgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~ 230 (625)
T PTZ00386 155 LAAALDTRIFHERTQSDAALYRRLT----DELKKFTPIMLKRLEKLGISKTDPKQLTEEERVRFARLDIDPDTISWRRVT 230 (625)
T ss_pred HHHHHHHHHhhccccchhHHHhhhc----cccccccHHHHHHHHhhccCcCCccccCHHHhhhhhhcCcCcceeEEEeec
Confidence 9999999999999999999999999 799999999999999999999999999999999999999999999999999
Q ss_pred ccCcccccceeeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHH
Q 044054 246 DVNDRFLRKITIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVL 325 (400)
Q Consensus 246 D~NDR~LR~I~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~L 325 (400)
|||||+||+|+||+|++++|++||+|||||||||||||||||+|++|||+|||||||||++||+||||+||+|+||||+|
T Consensus 231 D~NDR~LR~I~vGlG~~~~G~~Re~gFdITvASEiMAIl~La~dl~Dlr~Rlg~ivva~~~~g~pVta~DL~~~GAmt~L 310 (625)
T PTZ00386 231 DVNDRMLREITIGQGKEEKGITRKTGFDISVASEVMAILALATDLADMRQRLGAIVVAKSKSGEPVTAEDLGCAGAMTVL 310 (625)
T ss_pred cccchhhhceeeCcCCCCCCCcccCCceeEHHHHHHHHHHHhCCHHHHHHHHhceeeeecCCCCceeHHHcCchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCCcceeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 326 MKDAINPTLMQTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 326 LkdAikPnLvQTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
||||||||||||+|||||||||||||||||||||||||++||||+|.+||||||||||||||||||||||||++|
T Consensus 311 LkDAikPNLvQTlEgtPa~VHgGPFANIAhG~nSviAt~~ALkla~~~dyvVTEAGFGaDlGaEKF~dIkcR~sg 385 (625)
T PTZ00386 311 MKDTIEPTLMQTLEGTPVLVHAGPFGNIAHGNSSIVADQIALKLAGQDGFVLTEAGFGADIGCEKFFNIKCRTSG 385 (625)
T ss_pred HHhhcccceeeecCCCceEEecCCcchhhcccHHHHHHHHHHHhCCCCCeEEEeccccCCCCchhhccccccccC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999997
No 3
>KOG4230 consensus C1-tetrahydrofolate synthase [Coenzyme transport and metabolism]
Probab=100.00 E-value=4.5e-177 Score=1350.58 Aligned_cols=383 Identities=68% Similarity=1.072 Sum_probs=379.1
Q ss_pred CCcCcccCCCCCCcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCC
Q 044054 6 TVRKLQVASPVPADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEG 85 (400)
Q Consensus 6 ~~~~l~~~~pm~sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~ 85 (400)
.+.+|++++|+||||||||+++|++|.++|+|+||.++|+|.||+|||||++++++||++|++|||||||+|||||+
T Consensus 302 ~~~pl~l~tpvpsdidisrsq~pk~i~~la~e~gi~s~ele~yg~~kakv~l~v~erl~hr~dg~yvvvsgitptp~--- 378 (935)
T KOG4230|consen 302 DLLPLKLKTPVPSDIDISRSQEPKLIGQLAKELGIYSHELELYGHYKAKVNLAVLERLKHRKDGKYVVVSGITPTPL--- 378 (935)
T ss_pred CCCccccCCCCCcccchhhccCcchHHHHHHHhchhhHHHHhhcchhhhcCHHHHHHHhccCCCcEEEEeccCCCCC---
Confidence 46678999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhH
Q 044054 86 EITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNL 165 (400)
Q Consensus 86 ~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NL 165 (400)
||||||||.||+|||+ +|||.+++|+||||||||||+|||||||||||||||||||||+|||||||||||||
T Consensus 379 -------gegkst~t~glvqal~-~l~k~~iacvrqpsqgptfgvkggaagggysq~ipmdefnlhltgdihaitaannl 450 (935)
T KOG4230|consen 379 -------GEGKSTTTAGLVQALG-ALGKLAIACVRQPSQGPTFGVKGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNL 450 (935)
T ss_pred -------CCCcchhHHHHHHHHH-hhCCcceeeecCCCcCCccccccccCCCccceeeehhhcccccccchhhhhhhhHH
Confidence 9999999999999997 69999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhcccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeeccc
Q 044054 166 LAAAIDTRIFHEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVM 245 (400)
Q Consensus 166 laA~idn~i~~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~ 245 (400)
|||+||+|||||+||+|.+||+|||| +|||+|+|+|+|+|||++|||+|+||++|||||+++|.||||||++|+|+||+
T Consensus 451 laaaidtrmfhe~tq~daal~krlvp-~kng~r~f~~~m~rrlkrl~i~k~dp~~lt~ee~~~farlnidpdtit~~rvl 529 (935)
T KOG4230|consen 451 LAAAIDTRMFHENTQSDAALYKRLVP-VKNGKRKFTPSMIRRLKRLGIEKTDPEDLTPEEIKKFARLNIDPDTITINRVL 529 (935)
T ss_pred HHHHHHHHHHhhcccchHHHHHhhcc-ccCCeeecCHHHHHHHHHhccccCCcccCCHHHHHHhHcccCCCCeeEEEEEe
Confidence 99999999999999999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred ccCcccccceeeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHH
Q 044054 246 DVNDRFLRKITIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVL 325 (400)
Q Consensus 246 D~NDR~LR~I~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~L 325 (400)
|+|||+||+|+||+.++|+|++|.+|||||||||||||||||+||+|||+||||||||.+++|+||||+||||+||+|+|
T Consensus 530 dvndrflr~itig~a~tekg~tr~t~fdisvase~mailals~dl~dm~erlgrmvva~dk~g~pvtaedlgv~galtvl 609 (935)
T KOG4230|consen 530 DVNDRFLRQITIGQAPTEKGHTRTTGFDISVASECMAILALSKDLNDMKERLGRMVVAADKYGEPVTAEDLGVSGALTVL 609 (935)
T ss_pred ccchhhhhheecccCccccCcccccccceehHHHHHHHHHHhccHHHHHHHhhcEEEeecCCCCcccHHhcCcchhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCCcceeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCC------eEEeecccccCcccccccccccccC
Q 044054 326 MKDAINPTLMQTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGG------IVVTEAGFGADIGAEKFMNIKCRYS 399 (400)
Q Consensus 326 LkdAikPnLvQTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~d------yvVTEAGFGaDlG~EKF~nIkcr~s 399 (400)
|||||||||||||||||+|||+||||||+||+||||||+|||||+|+|. ||||||||++|||+|||||||||+|
T Consensus 610 lkdaikpnlmqtlegtpv~vhagpfanisigassiiadrialklvgte~~~keagyvvteagf~~dmgmekffnikcr~s 689 (935)
T KOG4230|consen 610 LKDAIKPNLMQTLEGTPVFVHAGPFANISIGASSIIADRIALKLVGTESRPKEAGYVVTEAGFASDMGMEKFFNIKCRYS 689 (935)
T ss_pred HHhhcchhHHhhccCCeeEEecccccccccchHHHHHHHHHHHhcCCCCCcccCceEEEecccccccchhheeeeeeecC
Confidence 9999999999999999999999999999999999999999999999985 9999999999999999999999999
Q ss_pred C
Q 044054 400 G 400 (400)
Q Consensus 400 g 400 (400)
|
T Consensus 690 g 690 (935)
T KOG4230|consen 690 G 690 (935)
T ss_pred C
Confidence 7
No 4
>PRK13507 formate--tetrahydrofolate ligase; Provisional
Probab=100.00 E-value=2.7e-173 Score=1318.16 Aligned_cols=337 Identities=51% Similarity=0.789 Sum_probs=330.3
Q ss_pred ccCCCCCCcHHHHccCC--CCCHHHHHHHcCCCCcchhcccCceeeecch-hhhhhcCCCCCcEEEEeccCCCCCCCCCC
Q 044054 11 QVASPVPADIDIANSVE--PLHISEIAQELNLKPNHYDLYGKYKAKVLLS-VLDELEGSADGYYVVVGEITRTPLGEGEI 87 (400)
Q Consensus 11 ~~~~pm~sDieIa~~~~--~~pI~eiA~~lGL~~dele~YG~yKAKv~l~-~l~~~~~~~~Gk~VlVTaItPTP~~~~~~ 87 (400)
++++|+||||||||+++ ++||++||+++||++|||||||+|||||+++ ++++++++|+|||||||||||||+
T Consensus 2 ~~~~~~~sdieIa~~~~~~~~~I~~ia~~lgl~~~~le~YG~~kAKi~l~~~l~~~~~~~~gklIlVTaitPTP~----- 76 (587)
T PRK13507 2 ALDPTKMKDWEIAEEAEKFMKPVEELAEELGLTKEELLPYGHYIAKVDFRKVLDRLKDRPDGKYIDVTAITPTPL----- 76 (587)
T ss_pred CCCCCCCCHHHHHHhhhccCCCHHHHHHHcCCCHHHHHhcCCcceeecHHHHHHhhccCCCCeEEEEeccCCCCC-----
Confidence 46789999999999999 8899999999999999999999999999998 899999999999999999999999
Q ss_pred CcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHH
Q 044054 88 TQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLA 167 (400)
Q Consensus 88 ~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLla 167 (400)
|||||||||||+|||+ ++||++++|||||||||||||||||||||||||+||||||||||||||||||||||||
T Consensus 77 -----GEGKtTttIGL~~aL~-~lgk~~~~~lRePSlGP~FGiKGGAaGGGysQv~Pme~iNLHfTGD~hAitaA~NLla 150 (587)
T PRK13507 77 -----GEGKSTTTMGLVQGLG-KRGKKVSGAIRQPSGGPTMNIKGSAAGGGLSQCIPLTPFSLGLTGDINAIMNAHNLAM 150 (587)
T ss_pred -----CCCccchhhhHHHHHH-hhcCceEEEEecCCcCCcCCcccccCCCccccccchhhccccccChHHHHHHHHHHHH
Confidence 9999999999999995 8999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhcccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeeccccc
Q 044054 168 AAIDTRIFHEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDV 247 (400)
Q Consensus 168 A~idn~i~~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~ 247 (400)
|+|||||||+|+|+|++|+.| .|++|+|||++|+|+|||||
T Consensus 151 A~idn~i~~~n~~~~~~l~~~---------------------------------------~~~~L~IDp~~I~w~RvlD~ 191 (587)
T PRK13507 151 VALTARMQHERNYTDEQLARR---------------------------------------GLKRLDIDPTRVEMGWIIDF 191 (587)
T ss_pred HHHHHHHhccCccccchhhcc---------------------------------------cccccCCCcceeeEeecccc
Confidence 999999999999999998653 37799999999999999999
Q ss_pred CcccccceeeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHHhh
Q 044054 248 NDRFLRKITIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVLMK 327 (400)
Q Consensus 248 NDR~LR~I~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLk 327 (400)
|||+||+|+||+|++++|++||+|||||||||||||||||+|++|||+|||||||||++||+||||+||+++||||+|||
T Consensus 192 NDR~LR~I~vGlG~~~~G~~Re~gFdITvASEiMAIlcLa~~l~Dlk~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLk 271 (587)
T PRK13507 192 CAQALRNIIIGIGGKTDGYMMQSGFGIAVSSEVMAILSVATDLKDLRERIGKIVVAYDKNGKPVTTADLEVDGAMTAWMV 271 (587)
T ss_pred cchhhhceeeCcCCCCCCccccCCceeeHHHHHHHHHHHcCCHHHHHHHHhcEEEEEcCCCCeeeHHhccchHhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCcceeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 328 DAINPTLMQTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 328 dAikPnLvQTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
||||||||||+||||+||||||||||||||||||||++||||+ ||||||||||||||||||||||||.+|
T Consensus 272 DAikPNLvQTlEgtPa~vHgGPFANIAHG~nSviAt~~ALkla---dyvVTEAGFGaDlGaEKF~dIkcr~~g 341 (587)
T PRK13507 272 RAINPNLLQTIEGQPVFVHAGPFANIAIGQSSIIADRVGLKLA---DYHVTESGFGADIGFEKFWNLKCRLSG 341 (587)
T ss_pred hhcCcceeeecCCCceEEecCCcchhhcccHHHHHHHHHHhcC---CeEEeccccCCCCChhheeeeeccccC
Confidence 9999999999999999999999999999999999999999999 999999999999999999999999987
No 5
>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6.3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....
Probab=100.00 E-value=5.3e-170 Score=1292.96 Aligned_cols=319 Identities=61% Similarity=0.986 Sum_probs=269.9
Q ss_pred CCCcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCc
Q 044054 16 VPADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEG 95 (400)
Q Consensus 16 m~sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEG 95 (400)
|||||||||+++++||++||+++||++||+||||+|||||+++++++++++|+|||||||||||||+ |||
T Consensus 1 m~sd~~ia~~~~~~~i~~ia~~~gl~~~~~~~yG~~kaKi~~~~~~~~~~~~~gklilVTaitPTp~----------GEG 70 (557)
T PF01268_consen 1 MKSDIEIAQSAKLKPIEEIAEKLGLPEDDLEPYGRYKAKIDLSVLERLKDKPDGKLILVTAITPTPA----------GEG 70 (557)
T ss_dssp --GGSTTTCTT----HHHHHHCTT--GGGEEEETTTEEEE-TCHHHHTTTS---EEEEEEESS--TT----------S-S
T ss_pred CCCHHHHHhcCCCCCHHHHHHHcCCCHHHHHhcCCCCcEeChHHHhhccccCCCcEEEEEecCCCCC----------CCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999 999
Q ss_pred cchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHHHHhhhh
Q 044054 96 KSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAAIDTRIF 175 (400)
Q Consensus 96 KTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~idn~i~ 175 (400)
||||||||+||| +|+||++++|||||||||||||||||||||||||+|||||||||||||||||||||||||+||||||
T Consensus 71 KtTttiGL~~al-~~lg~~~~~~lRePSlGP~fG~KGGAaGGG~sqv~Pme~iNLhfTGD~hAIt~A~NLlaA~idn~i~ 149 (557)
T PF01268_consen 71 KTTTTIGLAQAL-NRLGKKAIAALREPSLGPVFGIKGGAAGGGYSQVVPMEDINLHFTGDFHAITAANNLLAAMIDNHIY 149 (557)
T ss_dssp HHHHHHHHHHHH-HHTT--EEEEE----CHHHHCST-STTCETTEEEESHHHHHTTTTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred ceeHHHHHHHHH-HhcCCceEEEEecCCCCCccCccccccCCceeEEechHHeeccccCcHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999 6999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccce
Q 044054 176 HEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRKI 255 (400)
Q Consensus 176 ~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~I 255 (400)
|+| +|+|||++|+|+||||||||+||+|
T Consensus 150 ~gn----------------------------------------------------~l~iDp~~I~w~Rv~D~NDR~LR~i 177 (557)
T PF01268_consen 150 HGN----------------------------------------------------ELNIDPRRITWKRVLDMNDRALRNI 177 (557)
T ss_dssp TTS----------------------------------------------------TT-EECCCE---EEESS--GGGSSE
T ss_pred ccc----------------------------------------------------cCCCCcceeeeeeeccccchhhhhe
Confidence 998 5999999999999999999999999
Q ss_pred eeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHHhhhccCCCcc
Q 044054 256 TIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVLMKDAINPTLM 335 (400)
Q Consensus 256 ~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLkdAikPnLv 335 (400)
+||+|++.+|++||+|||||||||+|||||||+|++|||+|||||||||++||+||||+||+++||||+|||||||||||
T Consensus 178 ~iglg~~~~G~~r~~~FdIT~ASEiMAilcLa~~l~Dlk~Rl~~ivv~~~~~~~pvta~dl~~~Gam~~LLkdAikPNLv 257 (557)
T PF01268_consen 178 VIGLGGKANGVPREDGFDITVASEIMAILCLATDLEDLKERLGRIVVAYTKDGKPVTAEDLGAAGAMTALLKDAIKPNLV 257 (557)
T ss_dssp EESTSSCCC---EEE-EEEGGGSHHHHHHHC-SSHHHHHHHHHC-EEEEETTS-EEECHHHT-HHHHHHHTTTTTS-EEE
T ss_pred eeCCCCCCCCCcccCceeeEechhhheehhhhcCHHHHHHHHhCEEEEEcCCCCeEEHHHcCCcHhHHHHHHhhcCchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 336 QTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 336 QTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
||+||||+||||||||||||||||||||++||||+ ||||||||||||||||||||||||++|
T Consensus 258 QTlEgtPa~vHgGPFANIAhG~nSviAt~~al~l~---dyvvTEAGFGaDlGaEKF~dIkcr~~g 319 (557)
T PF01268_consen 258 QTLEGTPAFVHGGPFANIAHGCNSVIATKMALKLA---DYVVTEAGFGADLGAEKFFDIKCRKSG 319 (557)
T ss_dssp EETTS-EEEE-----SSSS--B--HHHHHHHHHHS---SEEEEEBSSSTTTHHHHHHHTHHHHHT
T ss_pred hhcccCceEEeccccccccccCchHHHHHHHHhhc---ceeecccccccccChhhhcCccchhcc
Confidence 99999999999999999999999999999999999 999999999999999999999999986
No 6
>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]
Probab=100.00 E-value=2.3e-166 Score=1245.57 Aligned_cols=317 Identities=60% Similarity=0.966 Sum_probs=314.6
Q ss_pred CcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccc
Q 044054 18 ADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKS 97 (400)
Q Consensus 18 sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKT 97 (400)
|||||||+++++||.|||+++||..||||+||+|||||+++.+++++++++|||||||||||||+ |||||
T Consensus 1 sDieIa~~~~~k~I~~ia~k~Gl~~d~lelYG~ykAKi~~~~~~~l~~k~~gKlILVTaitPTPa----------GEGKs 70 (554)
T COG2759 1 SDIEIARAATMKPIEEIAEKLGLSADDLELYGHYKAKISLEVIKRLKNKPDGKLILVTAITPTPA----------GEGKT 70 (554)
T ss_pred ChhhhhhhcccccHHHHHHHcCCCHHHhhhccchhhhcCHHHHHhhccCCCceEEEEEecCCCCC----------CCCcc
Confidence 79999999999999999999999999999999999999999999999999999999999999999 99999
Q ss_pred hhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHHHHhhhhcc
Q 044054 98 TTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAAIDTRIFHE 177 (400)
Q Consensus 98 TttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~idn~i~~~ 177 (400)
||||||+|||+ ++||++++|||||||||||||||||||||||||+|||||||||||||||||+|||||+|+|||||||+
T Consensus 71 TttiGL~~al~-~lgK~~i~alRePSlGP~fGiKGGAaGGGyaqv~PmediNLHfTGD~HAItaAnNllsA~Idnhi~~g 149 (554)
T COG2759 71 TTTIGLVDALN-KLGKKAIIALREPSLGPVFGIKGGAAGGGYAQVLPMEDINLHFTGDFHAITAANNLLSAAIDNHIYHG 149 (554)
T ss_pred eeeehHHHHHH-hcCchheEEeccCCcCCccccccccCCCceeeeeehhhccccccCchhHHHHHHHHHHHHHHhhhhcC
Confidence 99999999995 99999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccceee
Q 044054 178 ASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRKITI 257 (400)
Q Consensus 178 ~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~I~i 257 (400)
| +|+|||+||+|+||||||||+||+|++
T Consensus 150 n----------------------------------------------------~l~ID~~rI~wkRv~DmNDRaLR~I~v 177 (554)
T COG2759 150 N----------------------------------------------------ELGIDPRRITWKRVVDMNDRALRSIVV 177 (554)
T ss_pred c----------------------------------------------------ccCcCcceEEEEeeeccchhhhhheee
Confidence 8 699999999999999999999999999
Q ss_pred ccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHHhhhccCCCccee
Q 044054 258 GQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVLMKDAINPTLMQT 337 (400)
Q Consensus 258 G~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLkdAikPnLvQT 337 (400)
|+|++.+|+|||+|||||||||||||||||+|+.|||+|||||||||++||+|||++||++.||||+|||||||||||||
T Consensus 178 glg~~~~G~~RedgFdITvASEiMAIlcLa~dlkDlk~Rl~~iviay~~~~~PV~~~Dl~~~GAma~lLkDAikPNLvQT 257 (554)
T COG2759 178 GLGGPENGVPREDGFDITVASEIMAILCLATDLKDLKERLGRIVIAYDYDGKPVTAGDLKVEGAMAALLKDAIKPNLVQT 257 (554)
T ss_pred ccCCccCCcccCCCceeehHHHHHHHHHHhhhHHHHHHHHhheEEEEecCCCceeeeccccchHHHHHHHhhccccceee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 338 LEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 338 lEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
+||||+||||||||||||||||||||++||||+ ||||||||||||||+|||||||||.+|
T Consensus 258 lEgtPa~VHgGPFANIAhGcnSiiAt~~AlkL~---dy~VTEAGFgaDlGaEKF~dIK~r~~g 317 (554)
T COG2759 258 LEGTPAFVHGGPFANIAHGCNSIIATKTALKLA---DYVVTEAGFGADLGAEKFFDIKCRSSG 317 (554)
T ss_pred cCCCceeEecCccchhhccchhHHHHHHHHhhc---CeEEEecccccccchhhhcceeccccC
Confidence 999999999999999999999999999999999 999999999999999999999999987
No 7
>PRK13506 formate--tetrahydrofolate ligase; Provisional
Probab=100.00 E-value=2.2e-163 Score=1245.62 Aligned_cols=333 Identities=59% Similarity=0.933 Sum_probs=327.4
Q ss_pred CCCcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCc
Q 044054 16 VPADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEG 95 (400)
Q Consensus 16 m~sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEG 95 (400)
|+|||||||+++++||++||+++||++|||||||+|||||+++++++++++|+||||+||+++|||+ |||
T Consensus 1 m~sdieia~~~~~~~I~~ia~~lgl~~~~l~~YG~~kAKi~~~~~~~~~~~~~~k~IlVTs~~PTp~----------GEG 70 (578)
T PRK13506 1 MLSDIEISRQAPLKPIAEIAAKLGLLPDELSPFGHTKAKVSLSVLKRLADKPKGKLVLVTAITPTPL----------GEG 70 (578)
T ss_pred CCchHHHHhhCCCCCHHHHHHHcCCCHHHHhhcCCcceecCHHHHHhhccCCCCeEEEEEecCCCCC----------CCC
Confidence 7899999999999999999999999999999999999999999999999889999999999999999 999
Q ss_pred cchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHHHHhhhh
Q 044054 96 KSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAAIDTRIF 175 (400)
Q Consensus 96 KTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~idn~i~ 175 (400)
|||||+||+|+| +++|++++.|||||||||+||+||||+|||||||+|||||||||||||||||||||||+|+||||||
T Consensus 71 KTT~si~La~~l-a~~Gk~~i~~LR~Pslg~~fg~kgga~GGGlsqvlpme~iNLHfTGD~hAItaA~NLlaA~iDn~i~ 149 (578)
T PRK13506 71 KTVTTIGLTQGL-NALGQKVCACIRQPSMGPVFGVKGGAAGGGYAQVVPMEELNLHLTGDIHAVSAAHNLAAAAIDARLF 149 (578)
T ss_pred HHHHHHHHHHHH-HHhCCceEEEeccCCcCCccCCCCCCCCCCeeeeeeHhhccccccChHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999 5999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccce
Q 044054 176 HEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRKI 255 (400)
Q Consensus 176 ~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~I 255 (400)
|+|+++|++| +|+++|++|||||++|+|+||||||||+||+|
T Consensus 150 ~gn~~~~~~~--------------------------------------~~~~~~~~l~IDp~~I~w~Rv~DmNDR~LR~I 191 (578)
T PRK13506 150 HEQRLGYDAF--------------------------------------EAQSGLPALDIDPEQILWKRVVDHNDRALRMI 191 (578)
T ss_pred ccCccCccch--------------------------------------hhhccccccCcCcCeeEEeecccccchhhhce
Confidence 9998877664 38999999999999999999999999999999
Q ss_pred eeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHHhhhccCCCcc
Q 044054 256 TIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVLMKDAINPTLM 335 (400)
Q Consensus 256 ~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLkdAikPnLv 335 (400)
+||+|+++||++||+|||||||||||||||||+|++|||+|||||||||++||+||||+||+++||||+|||||||||||
T Consensus 192 ~vglg~~~~G~~Re~gFdITvASEiMAIlcLa~dl~Dlk~Rl~~ivv~~~~~g~pVta~DL~~~GAm~~LLkDAikPNLv 271 (578)
T PRK13506 192 TVGLGENGNGPEREDGFDITAASELMAILALSRDLKDMRQRIGRLVLAYNLQGQPITAEDLGVAGAMTVIMKDAIEPTLM 271 (578)
T ss_pred eeCcCCCCCCCcccCCceeeHHHHHHHHHHHcCCHHHHHHHhhcEEEEEcCCCCceeHHHccchHhHHHHHHHhccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 336 QTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 336 QTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
||+||||+||||||||||||||||||||++||||+ ||||||||||||||||||||||||++|
T Consensus 272 QTlEgtPa~vHgGPFANIAhG~nSviAt~~aLkla---DyvVTEAGFGaDlGaEKF~dIkcr~~g 333 (578)
T PRK13506 272 QTLEGVPCLIHAGPFANIAHGNSSIIADRIALKLA---DYVVTEGGFGSDMGFEKFCNIKARQSG 333 (578)
T ss_pred eecCCCeeEEecCCcccccccchHHHHHHHHHhhc---CeEEeeccccCCCCCceeeeeeeccCC
Confidence 99999999999999999999999999999999999 999999999999999999999999987
No 8
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=100.00 E-value=1.6e-158 Score=1209.27 Aligned_cols=320 Identities=57% Similarity=0.925 Sum_probs=316.9
Q ss_pred CCCCcHHHHccCCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCC
Q 044054 15 PVPADIDIANSVEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGE 94 (400)
Q Consensus 15 pm~sDieIa~~~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GE 94 (400)
+|||||||||+++++||.+||+++||++|+||+||+|||||+++.+++++++|++|+|+||+++|||+ ||
T Consensus 1 ~~~sd~eia~~~~~~~i~~ia~~~gl~~~~~e~Yg~~kaki~~~~~~~~~~~~~~k~IlVTS~~PTp~----------GE 70 (557)
T PRK13505 1 TMKSDIEIAQEATLKPITEIAAKLGIPEDDLEPYGKYKAKISLDKIKALKDKKDGKLILVTAINPTPA----------GE 70 (557)
T ss_pred CCCChHHHHhhCCCcCHHHHHHHcCCCHHHHHhccCcceeeCHHHHhhhccCCCCeEEEEecCCCCCC----------CC
Confidence 68999999999999999999999999999999999999999999999998889999999999999999 99
Q ss_pred ccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHHHHhhh
Q 044054 95 GKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAAIDTRI 174 (400)
Q Consensus 95 GKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~idn~i 174 (400)
||||||++|+|+| +++|++++++||||||||+||+||||||||||||+|||||||||||||||||||||||||+|||||
T Consensus 71 GKTt~sinLA~~l-a~~GkkvlliLR~Psl~~~fg~kggaaGGG~~qvlpme~inLhftGD~hAit~A~NLlaA~idn~i 149 (557)
T PRK13505 71 GKSTVTVGLGDAL-NKIGKKTVIALREPSLGPVFGIKGGAAGGGYAQVVPMEDINLHFTGDFHAITSANNLLAALIDNHI 149 (557)
T ss_pred CHHHHHHHHHHHH-HHcCCeEEEEEecCCcccccCCCCCcCCCCceeeecHhHccccccChHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999 599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcccccChhHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccc
Q 044054 175 FHEASQSDKALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRK 254 (400)
Q Consensus 175 ~~~~~~~~~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~ 254 (400)
||+| +|+|||++|+|+||||||||+||+
T Consensus 150 ~~gn----------------------------------------------------~l~id~~~i~w~Rv~D~NDR~LR~ 177 (557)
T PRK13505 150 HQGN----------------------------------------------------ELGIDPRRITWKRVLDMNDRALRN 177 (557)
T ss_pred hccC----------------------------------------------------ccCCCcceeEEEecccccchhhhc
Confidence 9998 799999999999999999999999
Q ss_pred eeeccCCCCCCcceecceeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHHhhhccCCCc
Q 044054 255 ITIGQGPEEKGMVRETGFDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVLMKDAINPTL 334 (400)
Q Consensus 255 I~iG~g~~~~G~~re~gFdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLkdAikPnL 334 (400)
|+||+|++.+|+|||+|||||||||||||||||+|++|||+|||||||||++||+||||+||+++||||+||||||||||
T Consensus 178 i~iglg~~~~G~~re~gFdIT~ASEiMAilcLa~~l~Dl~~Rl~~ivv~~~~~~~pvt~~dl~~~GAm~~lLkdAi~PnL 257 (557)
T PRK13505 178 IVVGLGGPANGVPREDGFDITVASEIMAILCLATDLKDLKERLGRIVVGYTYDGKPVTVKDLKVEGAMALLLKDAIKPNL 257 (557)
T ss_pred eEeccCCCCCCCcccCCceeeHHHHHHHHHHHhCCHHHHHHHHhCEEEEEcCCCCceeHHHcCchHHHHHHHHhhcccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeecCceeEEeccccchhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 335 MQTLEGTPVLVHAGPFANIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 335 vQTlEgtP~~VH~GPFANIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
|||+||||+||||||||||||||||||||++||||+ ||||||||||||||||||||||||.+|
T Consensus 258 vQTle~tPa~vHgGPFANIAhG~nSviAt~~al~la---dyvvTEaGFGaDlGaEKF~dIkcr~~g 320 (557)
T PRK13505 258 VQTLEGTPAFVHGGPFANIAHGCNSVLATKTALKLA---DYVVTEAGFGADLGAEKFLDIKCRKAG 320 (557)
T ss_pred eeecCCCceEEecCCcchhhcccHHHHHHHHHHhhC---CEEEecccccCCCCCceeeeeecccCC
Confidence 999999999999999999999999999999999999 999999999999999999999999987
No 9
>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.
Probab=100.00 E-value=5.2e-155 Score=1175.11 Aligned_cols=303 Identities=69% Similarity=1.072 Sum_probs=299.6
Q ss_pred HHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhc
Q 044054 32 SEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFL 111 (400)
Q Consensus 32 ~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~l 111 (400)
.+||+++||++||+||||+|||||+++++++++++|++|||+||+++|||+ ||||||||+||+|+| +++
T Consensus 1 ~~ia~~lgl~~~~~~~yG~~kaKi~~~~~~~~~~~~~~k~IlVTs~~PTp~----------GEGKTT~si~La~~l-a~~ 69 (524)
T cd00477 1 EEIAKELGLLEDELEPYGKYKAKVDLDVLKRLEKRPDGKLILVTAITPTPA----------GEGKTTTTIGLAQAL-NAH 69 (524)
T ss_pred ChhHHHcCCCHHHHHhccCcceeecHHHHhhhccCCCCeEEEEEeCCCCCC----------CCCHHHHHHHHHHHH-HHh
Confidence 379999999999999999999999999999999999999999999999999 999999999999999 589
Q ss_pred CCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHHHHhhhhcccccChhHhhhhcCC
Q 044054 112 DKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAAIDTRIFHEASQSDKALFNRLCP 191 (400)
Q Consensus 112 gk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~idn~i~~~~~~~~~~l~~rl~p 191 (400)
|+++++|||||||||+||+||||||||||||+|||||||||||||||||||||||+|+|||||||+|
T Consensus 70 Gkk~l~~LR~PSlg~~fg~kggaaGGG~sqvlpme~iNLhfTGD~hAItaA~NLlaA~iDn~i~~gn------------- 136 (524)
T cd00477 70 GKKAIACLREPSLGPTFGIKGGAAGGGYSQVIPMEEINLHFTGDIHAITAANNLLAAAIDNHIHHGN------------- 136 (524)
T ss_pred CCcEEEEEecCCcCcccCCCCCCCCCChhhcccHhhhcccccchHHHHHHHHHHHHHHHHHHHhccc-------------
Confidence 9999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccceeeccCCCCCCcceecc
Q 044054 192 PNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRKITIGQGPEEKGMVRETG 271 (400)
Q Consensus 192 ~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~I~iG~g~~~~G~~re~g 271 (400)
+|+|||++|+|+||||||||+||+|+||+|++.+|+|||+|
T Consensus 137 ---------------------------------------~l~iDp~~I~w~Rv~D~NDR~LR~iviglGg~~~G~~re~g 177 (524)
T cd00477 137 ---------------------------------------RLDIDPRRITWKRVLDVNDRALRKIVIGLGGKENGVPRETG 177 (524)
T ss_pred ---------------------------------------ccCCCcceeEEEecccccchhhhceEeccCCCCCCccccCC
Confidence 79999999999999999999999999999999999999999
Q ss_pred eeeeehhHHHHHHHhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchhHHHHhhhccCCCcceeecCceeEEeccccc
Q 044054 272 FDISVASEIMAVLALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGALTVLMKDAINPTLMQTLEGTPVLVHAGPFA 351 (400)
Q Consensus 272 FdItvASEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GAmt~LLkdAikPnLvQTlEgtP~~VH~GPFA 351 (400)
||||||||||||||||+|++|||+|||||||||++||+||||+||+++||||+|||||||||||||+||||+||||||||
T Consensus 178 FdITvASEiMAIlcLa~~l~DLk~Rl~~ivv~~~~~g~PVta~DL~~~GAmt~LLkdAikPNLvQTlEgtPa~vHgGPFA 257 (524)
T cd00477 178 FDITVASEIMAILCLATDLEDLKERLGRIVVAYSKDGEPVTAEDLGVAGAMAVLLKDAIKPNLVQTLEGTPAFVHGGPFA 257 (524)
T ss_pred ceeeHHHHHHHHHHHcCCHHHHHHHHhCEEEEEcCCCCcEeHHHcCchHhHHHHHHhhhCccceeecCCCceEEecCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcccCchHHHHHHHHHhcCCCCeEEeecccccCcccccccccccccCC
Q 044054 352 NIAHGNSSIVADKIALKLVGPGGIVVTEAGFGADIGAEKFMNIKCRYSG 400 (400)
Q Consensus 352 NIAhG~nSiiA~~~aLklag~~dyvVTEAGFGaDlG~EKF~nIkcr~sg 400 (400)
||||||||||||++||||+ ||||||||||||||||||||||||.+|
T Consensus 258 NIAhGcnSviAtk~al~la---DyvVTEAGFGaDlGaEKF~dIkcr~~g 303 (524)
T cd00477 258 NIAHGCNSIIADKIALKLA---DYVVTEAGFGADLGAEKFFNIKCRYSG 303 (524)
T ss_pred cccccchHHHHHHHHHhhc---CeEEeeccccCCCCCceeeeeeeccCC
Confidence 9999999999999999999 999999999999999999999999987
No 10
>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=97.38 E-value=0.0002 Score=66.43 Aligned_cols=51 Identities=25% Similarity=0.326 Sum_probs=43.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIR 131 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiK 131 (400)
+..|.|.||+-.| ||||||++..|+.+| ++.|+++.+ .+|.|++.-.||.+
T Consensus 101 ~~~~vi~vts~~~-------------g~Gktt~a~nLA~~l-a~~g~~VllID~D~~~~~~~~~~~~~ 154 (274)
T TIGR03029 101 EGRKALAVVSAKS-------------GEGCSYIAANLAIVF-SQLGEKTLLIDANLRDPVQHRNFKLS 154 (274)
T ss_pred CCCeEEEEECCCC-------------CCCHHHHHHHHHHHH-HhcCCeEEEEeCCCCCccHHHhcCCC
Confidence 4678999998754 899999999999999 689999885 78999988888764
No 11
>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=96.75 E-value=0.0014 Score=58.34 Aligned_cols=52 Identities=27% Similarity=0.352 Sum_probs=42.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCcccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRG 132 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKG 132 (400)
++-|.|.||+..+ |+||||++..|+.+| ++.|+++.+ .++.|++.-.|+.+.
T Consensus 15 ~~~kvI~v~s~kg-------------G~GKTt~a~~LA~~l-a~~G~rVllID~D~~~~~l~~~~~~~~ 69 (204)
T TIGR01007 15 AEIKVLLITSVKP-------------GEGKSTTSANIAVAF-AQAGYKTLLIDGDMRNSVMSGTFKSQN 69 (204)
T ss_pred CCCcEEEEecCCC-------------CCCHHHHHHHHHHHH-HhCCCeEEEEeCCCCChhHHHHhCCCC
Confidence 4478999988754 899999999999999 588999874 578888877777654
No 12
>CHL00175 minD septum-site determining protein; Validated
Probab=96.62 E-value=0.0029 Score=59.03 Aligned_cols=55 Identities=22% Similarity=0.237 Sum_probs=43.7
Q ss_pred cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCcccccc
Q 044054 64 EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIRG 132 (400)
Q Consensus 64 ~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiKG 132 (400)
+.++.+|.|.|++-.+ |.||||+|..|+.+| ++.|+++.+. ++.+++.-.||+..
T Consensus 10 ~~~~~~~vi~v~s~KG-------------GvGKTt~a~nLA~~L-a~~g~~vlliD~D~~~~~l~~~lg~~~ 67 (281)
T CHL00175 10 KSATMSRIIVITSGKG-------------GVGKTTTTANLGMSI-ARLGYRVALIDADIGLRNLDLLLGLEN 67 (281)
T ss_pred hcCCCceEEEEEcCCC-------------CCcHHHHHHHHHHHH-HhCCCeEEEEeCCCCCCChhhhcCCCC
Confidence 4446789999988543 999999999999999 5889998763 55577777888864
No 13
>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=96.60 E-value=0.0027 Score=57.21 Aligned_cols=52 Identities=33% Similarity=0.431 Sum_probs=41.2
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIR 131 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiK 131 (400)
..+|.|.||+- .- |+||||++..|+.+|....|+++.+ ..+.|++...||++
T Consensus 33 ~~~~vi~v~s~---kg----------G~GkSt~a~nLA~~la~~~g~~VLlvD~D~~~~~~~~~~~~~ 87 (207)
T TIGR03018 33 KNNNLIMVTSS---LP----------GEGKSFTAINLAISLAQEYDKTVLLIDADLRRPSLHRTLGLE 87 (207)
T ss_pred CCCeEEEEECC---CC----------CCCHHHHHHHHHHHHHHhcCCeEEEEECCCCChhhhheeCCC
Confidence 45888888864 33 9999999999999994236999875 67888888888765
No 14
>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=96.55 E-value=0.0042 Score=61.52 Aligned_cols=38 Identities=34% Similarity=0.415 Sum_probs=30.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE--ecCCCCCCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC--LRQPLQGPTFGIR 131 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~--lRqPS~GP~FGiK 131 (400)
|+||||||+-|+.+| +..|+++.+. =-|+|+.-.||..
T Consensus 115 GvGKTT~a~nLA~~L-a~~G~rVLlID~DpQ~~ls~~~g~~ 154 (387)
T TIGR03453 115 GSGKTTTAAHLAQYL-ALRGYRVLAIDLDPQASLSALFGYQ 154 (387)
T ss_pred CcCHHHHHHHHHHHH-HhcCCCEEEEecCCCCCHHHHcCCC
Confidence 999999999999999 5789997652 1367776678764
No 15
>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=96.47 E-value=0.003 Score=60.45 Aligned_cols=52 Identities=35% Similarity=0.325 Sum_probs=44.6
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccccC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRGG 133 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKGG 133 (400)
..+.|+||+= +- |+||||||.-|+.+| +..|+++.+ .+|.||+-..||+...
T Consensus 56 ~~~~I~V~S~---kg----------GvGKStva~nLA~al-A~~G~rVlliDaD~~gps~~~~l~~~~~ 110 (265)
T COG0489 56 VKNVIAVTSG---KG----------GVGKSTVAVNLAAAL-AQLGKRVLLLDADLRGPSIPRMLGLENL 110 (265)
T ss_pred cceEEEEEeC---CC----------CCcHHHHHHHHHHHH-HhcCCcEEEEeCcCCCCchHHHhCCCCC
Confidence 4677888764 44 999999999999999 699999986 7999999999999653
No 16
>PRK11519 tyrosine kinase; Provisional
Probab=96.45 E-value=0.0031 Score=67.63 Aligned_cols=52 Identities=15% Similarity=0.264 Sum_probs=44.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCcccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRG 132 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKG 132 (400)
...|.|+||+..| ||||||++.-|+.+| +..|+++.. .+|.|++.-.||...
T Consensus 524 ~~~kvi~vts~~~-------------geGKTt~a~nLA~~l-a~~g~rvLlID~Dlr~~~~~~~~~~~~ 578 (719)
T PRK11519 524 AQNNVLMMTGVSP-------------SIGKTFVCANLAAVI-SQTNKRVLLIDCDMRKGYTHELLGTNN 578 (719)
T ss_pred CCceEEEEECCCC-------------CCCHHHHHHHHHHHH-HhCCCcEEEEeCCCCCCcHHHHhCCCC
Confidence 4578999998765 899999999999999 689999876 589999988888753
No 17
>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=96.28 E-value=0.0037 Score=66.65 Aligned_cols=51 Identities=18% Similarity=0.025 Sum_probs=43.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIR 131 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiK 131 (400)
...|.|.||+-.| ||||||++..|+.+| ++.|+++++ .+|+|++.-.||+.
T Consensus 544 ~~~kvi~vts~~~-------------G~GKTt~a~nLA~~l-A~~g~rvLlID~D~~~~~l~~~~~~~ 597 (754)
T TIGR01005 544 AEPEVVETQRPRP-------------VLGKSDIEANAAALI-ASGGKRALLIDADGRKAALSQILVAR 597 (754)
T ss_pred CCceEEEeecCCC-------------CCChhHHHHHHHHHH-HhCCCeEEEEeCCCCchhHHHHhCCc
Confidence 4578999998754 899999999999999 589999876 48999999889875
No 18
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=96.22 E-value=0.0044 Score=66.63 Aligned_cols=51 Identities=22% Similarity=0.288 Sum_probs=44.3
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIR 131 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiK 131 (400)
...|.|+||+-.| ||||||++..||.+| +..|+++.. .+|.|++.-.||+.
T Consensus 529 ~~~kvI~vtS~~~-------------g~GKTtva~nLA~~l-a~~G~rVLlID~D~r~~~l~~~~~~~ 582 (726)
T PRK09841 529 TENNILMITGATP-------------DSGKTFVSSTLAAVI-AQSDQKVLFIDADLRRGYSHNLFTVS 582 (726)
T ss_pred CCCeEEEEecCCC-------------CCCHHHHHHHHHHHH-HhCCCeEEEEeCCCCCCcHHHHcCCC
Confidence 4679999998755 899999999999999 689999885 69999988778765
No 19
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=96.15 E-value=0.006 Score=61.36 Aligned_cols=89 Identities=18% Similarity=0.153 Sum_probs=58.0
Q ss_pred CCCHHHHHHHcCCCCcchhcc--------------cCceee--ecchhhhhh-------cCCCCC---cEEEEeccCCCC
Q 044054 28 PLHISEIAQELNLKPNHYDLY--------------GKYKAK--VLLSVLDEL-------EGSADG---YYVVVGEITRTP 81 (400)
Q Consensus 28 ~~pI~eiA~~lGL~~dele~Y--------------G~yKAK--v~l~~l~~~-------~~~~~G---k~VlVTaItPTP 81 (400)
...|.|+|+.+|++++.+-.| |+..-+ .+|+-+.++ ..++.| |.|.|+.. .
T Consensus 39 ~~~i~e~A~~~gvs~~tiR~ye~~gll~~~~~~~~gr~~~~~~ftL~ei~~lr~~~~~~~~r~~~~~~~vIai~n~---K 115 (388)
T PRK13705 39 RWRIGEAADLVGVSSQAIRDAEKAGRLPHPDMEMRGRVEQRVGYTIEQINHMRDVFGTRLRRAEDVFPPVIGVAAH---K 115 (388)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHcCCCCCCCcCCCCcchhhcCcCHHHHHHHHHhhcccccccCCCCCeEEEEECC---C
Confidence 447999999999998887766 321111 333333221 122333 55555543 3
Q ss_pred CCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCcccc
Q 044054 82 LGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGI 130 (400)
Q Consensus 82 ~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGi 130 (400)
= |.||||||+.|+.+| +..|+++.+. -.|-++--.||.
T Consensus 116 G----------GVGKTT~a~nLA~~L-A~~G~rVLlID~~DpQ~nlt~~~g~ 156 (388)
T PRK13705 116 G----------GVYKTSVSVHLAQDL-ALKGLRVLLVEGNDPQGTASMYHGW 156 (388)
T ss_pred C----------CchHHHHHHHHHHHH-HhcCCCeEEEcCCCCCCchhhhcCc
Confidence 3 999999999999999 6899998764 356566555654
No 20
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=96.14 E-value=0.008 Score=60.63 Aligned_cols=90 Identities=18% Similarity=0.156 Sum_probs=57.4
Q ss_pred CCCHHHHHHHcCCCCcchhcc--------------cCceee--ecchhhhh-------hcCCCCC---cEEEEeccCCCC
Q 044054 28 PLHISEIAQELNLKPNHYDLY--------------GKYKAK--VLLSVLDE-------LEGSADG---YYVVVGEITRTP 81 (400)
Q Consensus 28 ~~pI~eiA~~lGL~~dele~Y--------------G~yKAK--v~l~~l~~-------~~~~~~G---k~VlVTaItPTP 81 (400)
.-.+.|+|+.+|+.+..+-.| |+-..+ .+++-+.+ ...++.+ +.|.|+.. .
T Consensus 39 ~f~~~eaA~l~gvs~~~lr~~~~~g~~p~~~~~~~gr~~~R~~ytl~eI~~lr~~~~~~~~r~~~~~~~vIav~n~---K 115 (387)
T PHA02519 39 RWGITEVADLIGVTPQAIRDAEKSGRLPPPDFETRGRVERRAGYTIDQISHMRDHFGNPNQRPDDKNPVVLAVMSH---K 115 (387)
T ss_pred CcCHHHHHHHhCcCHHHHHHHHHcCCCCCCccCCCCcccccceEcHHHHHHHHHHhhccccCcCCCCceEEEEecC---C
Confidence 337999999999997776654 221112 33332222 1122333 34444432 3
Q ss_pred CCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCccccc
Q 044054 82 LGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIR 131 (400)
Q Consensus 82 ~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiK 131 (400)
= |.||||||+-|+++| +..|+++.+. -.|.|+--.||.+
T Consensus 116 G----------GVGKTTta~nLA~~L-A~~G~rVLlIDl~DpQ~nlt~~~g~~ 157 (387)
T PHA02519 116 G----------GVYKTSSAVHTAQWL-ALQGHRVLLIEGNDPQGTASMYHGYV 157 (387)
T ss_pred C----------CCcHHHHHHHHHHHH-HhCCCcEEEEeCCCCCCCcccccCcC
Confidence 3 999999999999999 5899998763 4666777778754
No 21
>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=96.02 E-value=0.0077 Score=54.22 Aligned_cols=49 Identities=35% Similarity=0.321 Sum_probs=36.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCccccc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIR 131 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiK 131 (400)
||.|.|++.. = |+||||++..|+.+| ++.|+++.+. .++|++.-.||++
T Consensus 1 ~~ii~v~s~k---G----------GvGKTt~a~~lA~~l-a~~g~~vlliD~D~~~~~~~~~lg~~ 52 (261)
T TIGR01968 1 ARVIVITSGK---G----------GVGKTTTTANLGTAL-ARLGKKVVLIDADIGLRNLDLLLGLE 52 (261)
T ss_pred CeEEEEecCC---C----------CccHHHHHHHHHHHH-HHcCCeEEEEECCCCCCCeeEEeCCC
Confidence 5777777653 3 999999999999999 5889998764 3445555556664
No 22
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=95.72 E-value=0.017 Score=58.44 Aligned_cols=37 Identities=35% Similarity=0.497 Sum_probs=28.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE-e-cCCCCCCcccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC-L-RQPLQGPTFGI 130 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~-l-RqPS~GP~FGi 130 (400)
|.||||||+-|+++| ++.|+++.+. + -|.|+--.||+
T Consensus 132 GvGKTTta~nLA~~L-A~~G~rVLlIDlDpQ~~lt~~~g~ 170 (405)
T PRK13869 132 GSGKTTTSAHLAQYL-ALQGYRVLAVDLDPQASLSALLGV 170 (405)
T ss_pred CCCHHHHHHHHHHHH-HhcCCceEEEcCCCCCCHHHHcCC
Confidence 999999999999999 6899997653 2 44454444654
No 23
>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=95.68 E-value=0.0074 Score=51.91 Aligned_cols=35 Identities=29% Similarity=0.341 Sum_probs=28.6
Q ss_pred cCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCC
Q 044054 77 ITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 77 ItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~ 124 (400)
||+|-- |+||||++.||+.+| ++-|+++. ++.|.+
T Consensus 2 I~~t~~----------~~GKT~va~~L~~~l-~~~g~~V~--~~kP~~ 36 (166)
T TIGR00347 2 VTGTDT----------GVGKTVASSALAAKL-KKAGYSVG--YYKPVQ 36 (166)
T ss_pred eecCCC----------CccHHHHHHHHHHHH-HHCCCcEE--EEEeee
Confidence 567777 999999999999999 57898874 466655
No 24
>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=95.62 E-value=0.018 Score=57.36 Aligned_cols=52 Identities=21% Similarity=0.153 Sum_probs=43.3
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccccC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRGG 133 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKGG 133 (400)
+..|.|.||+ .- |+||||++.-|+.+| ++.|+++.+ -+|.||+.-.||++..
T Consensus 29 ~~~~ii~v~g----kg----------G~GKSt~a~nLa~~l-a~~g~rVllid~D~~~~~~~~~~g~~~~ 83 (329)
T cd02033 29 KKTQIIAIYG----KG----------GIGKSFTLANLSYMM-AQQGKRVLLIGCDPKSDTTSLLFGGKAC 83 (329)
T ss_pred CCCeEEEEEC----CC----------CCCHHHHHHHHHHHH-HHCCCcEEEEEeeecccccchhccccCC
Confidence 4678888874 34 999999999999999 588999875 3899999999997643
No 25
>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]
Probab=95.14 E-value=0.022 Score=55.97 Aligned_cols=36 Identities=50% Similarity=0.624 Sum_probs=31.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
+|.|+||+ |.| |.||||||--|+-|| +++||++++.
T Consensus 2 ~~iIVvTS------GKG-------GVGKTTttAnig~aL-A~~GkKv~li 37 (272)
T COG2894 2 ARIIVVTS------GKG-------GVGKTTTTANIGTAL-AQLGKKVVLI 37 (272)
T ss_pred ceEEEEec------CCC-------CcCccchhHHHHHHH-HHcCCeEEEE
Confidence 68899986 555 999999999999999 7999998753
No 26
>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=94.95 E-value=0.018 Score=54.26 Aligned_cols=38 Identities=26% Similarity=0.200 Sum_probs=33.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCcccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIRG 132 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiKG 132 (400)
|+||||++..|+.++ +..|+++.+. .| ||++-+||++-
T Consensus 10 G~GKtt~a~~la~~~-a~~g~~vLlvd~D~~-~sl~~~~~~~~ 50 (254)
T cd00550 10 GVGKTTISAATAVRL-AEQGKKVLLVSTDPA-HSLSDSFNQEF 50 (254)
T ss_pred CchHHHHHHHHHHHH-HHCCCCceEEeCCCc-ccHHHHhCCcc
Confidence 999999999999999 5889998763 44 79999999984
No 27
>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=94.81 E-value=0.027 Score=48.83 Aligned_cols=25 Identities=52% Similarity=0.461 Sum_probs=23.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|+||||+++.|+.+| +..|+++.+.
T Consensus 10 G~GKTt~a~~LA~~l-a~~g~~vllv 34 (169)
T cd02037 10 GVGKSTVAVNLALAL-AKLGYKVGLL 34 (169)
T ss_pred cCChhHHHHHHHHHH-HHcCCcEEEE
Confidence 999999999999999 5889998875
No 28
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=94.68 E-value=0.041 Score=55.97 Aligned_cols=46 Identities=28% Similarity=0.390 Sum_probs=34.9
Q ss_pred hhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 61 DELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 61 ~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
.++.++++| +|||||- - |+|||||--.+.+-+| +--...+.++-.|
T Consensus 118 ~~~~~~~~G-LILVTGp----T----------GSGKSTTlAamId~iN-~~~~~HIlTIEDP 163 (353)
T COG2805 118 RELAESPRG-LILVTGP----T----------GSGKSTTLAAMIDYIN-KHKAKHILTIEDP 163 (353)
T ss_pred HHHHhCCCc-eEEEeCC----C----------CCcHHHHHHHHHHHHh-ccCCcceEEecCc
Confidence 344455666 9999984 3 9999999999999996 5556667777665
No 29
>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=94.60 E-value=0.048 Score=52.43 Aligned_cols=51 Identities=24% Similarity=0.076 Sum_probs=38.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIR 131 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiK 131 (400)
+.||.|.|++-. = |.||||++..|+.+| ++.|+++++. .+.+++.-.||++
T Consensus 91 ~~~~vIav~~~K---G----------GvGkTT~a~nLA~~l-a~~g~~VlLvD~D~~~~~~~~~lg~~ 144 (322)
T TIGR03815 91 ARGVVVAVIGGR---G----------GAGASTLAAALALAA-ARHGLRTLLVDADPWGGGLDLLLGAE 144 (322)
T ss_pred CCceEEEEEcCC---C----------CCcHHHHHHHHHHHH-HhcCCCEEEEecCCCCCCeeeeecCC
Confidence 469999998753 3 999999999999999 5889887653 3444444456665
No 30
>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=94.53 E-value=0.034 Score=47.21 Aligned_cols=38 Identities=42% Similarity=0.411 Sum_probs=31.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIR 131 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiK 131 (400)
|+||||++..|+.+| ++.|+++.+. .++|++.-.||..
T Consensus 10 G~GKtt~a~~la~~l-~~~g~~vllvD~D~~~~~~~~~~~~~ 50 (179)
T cd02036 10 GVGKTTTTANLGTAL-AQLGYKVVLIDADLGLRNLDLILGLE 50 (179)
T ss_pred CCCHHHHHHHHHHHH-HhCCCeEEEEeCCCCCCCchhhcccc
Confidence 999999999999999 5889998774 6677776666654
No 31
>PRK11670 antiporter inner membrane protein; Provisional
Probab=94.50 E-value=0.044 Score=54.97 Aligned_cols=49 Identities=31% Similarity=0.245 Sum_probs=39.8
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIR 131 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiK 131 (400)
.|.|.|++-- = |+||||||+-|+.+| ++.|+++.+ .++-||+--.||+.
T Consensus 107 ~~vIaV~S~K---G----------GVGKTT~avNLA~aL-A~~G~rVlLID~D~qgps~~~~lg~~ 158 (369)
T PRK11670 107 KNIIAVSSGK---G----------GVGKSSTAVNLALAL-AAEGAKVGILDADIYGPSIPTMLGAE 158 (369)
T ss_pred CEEEEEeCCC---C----------CCCHHHHHHHHHHHH-HHCCCcEEEEeCCCCCCCcchhcCCc
Confidence 4677776642 3 999999999999999 689999876 58889887678874
No 32
>PRK00698 tmk thymidylate kinase; Validated
Probab=94.43 E-value=0.052 Score=47.44 Aligned_cols=45 Identities=31% Similarity=0.423 Sum_probs=35.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccc
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFG 129 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FG 129 (400)
+|++|+|.|+ - |.||||.+--|++.|. ..| ..+...|+|+ +-.+|
T Consensus 2 ~~~~I~ieG~----~----------gsGKsT~~~~L~~~l~-~~~-~~~~~~~~p~-~~~~~ 46 (205)
T PRK00698 2 RGMFITIEGI----D----------GAGKSTQIELLKELLE-QQG-RDVVFTREPG-GTPLG 46 (205)
T ss_pred CceEEEEECC----C----------CCCHHHHHHHHHHHHH-HcC-CceeEeeCCC-CChHH
Confidence 3789999997 4 8999999999999994 667 4466789998 43344
No 33
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=94.29 E-value=0.05 Score=50.46 Aligned_cols=37 Identities=43% Similarity=0.510 Sum_probs=27.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCcccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGI 130 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGi 130 (400)
|.|||||++-|+.+| ++.|+++.+.=-.|-.-=+|++
T Consensus 12 GVGKTT~~~nLA~~l-a~~G~kVLliD~Dpq~~~t~~l 48 (270)
T PRK13185 12 GIGKSTTSSNLSAAF-AKLGKKVLQIGCDPKHDSTFTL 48 (270)
T ss_pred CCCHHHHHHHHHHHH-HHCCCeEEEEeccCCcchhhhh
Confidence 999999999999999 5899997765345533233443
No 34
>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=94.28 E-value=0.034 Score=49.99 Aligned_cols=39 Identities=36% Similarity=0.417 Sum_probs=31.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCCCcccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQGPTFGIRG 132 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~GP~FGiKG 132 (400)
|.||||+++.||.+| ++.|+++.+. ..++++.-.||++.
T Consensus 11 GvGKTt~a~~LA~~l-a~~g~~VlliD~D~~~~~~~~~~g~~~ 52 (251)
T TIGR01969 11 GTGKTTITANLGVAL-AKLGKKVLALDADITMANLELILGMED 52 (251)
T ss_pred CCcHHHHHHHHHHHH-HHCCCeEEEEeCCCCCccceeEeCCCC
Confidence 999999999999999 5889987763 34567766677764
No 35
>PLN02924 thymidylate kinase
Probab=94.20 E-value=0.066 Score=50.10 Aligned_cols=48 Identities=25% Similarity=0.258 Sum_probs=39.3
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccc
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFG 129 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FG 129 (400)
.+.|++|++.|+ - |.||||.+.-|++.|. ..|.++ ..+|+|..+...|
T Consensus 13 ~~~g~~IviEGi----D----------GsGKsTq~~~L~~~l~-~~g~~v-~~~~ep~~~~~~g 60 (220)
T PLN02924 13 ESRGALIVLEGL----D----------RSGKSTQCAKLVSFLK-GLGVAA-ELWRFPDRTTSVG 60 (220)
T ss_pred CCCCeEEEEECC----C----------CCCHHHHHHHHHHHHH-hcCCCc-eeeeCCCCCChHH
Confidence 356999999998 3 9999999999999995 668876 6789997554444
No 36
>PRK10818 cell division inhibitor MinD; Provisional
Probab=94.15 E-value=0.055 Score=50.05 Aligned_cols=38 Identities=26% Similarity=0.297 Sum_probs=30.5
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIR 131 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiK 131 (400)
|.||||+++.|+-+| ++.|+++++ ...+|++.-.||+.
T Consensus 13 GvGKTt~a~nlA~~l-a~~g~~vllvD~D~~~~~~~~~lg~~ 53 (270)
T PRK10818 13 GVGKTTSSAAIATGL-AQKGKKTVVIDFDIGLRNLDLIMGCE 53 (270)
T ss_pred CCcHHHHHHHHHHHH-HHCCCeEEEEECCCCCCChhhhhCCC
Confidence 999999999999999 588999876 34556665567665
No 37
>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=94.14 E-value=0.057 Score=48.65 Aligned_cols=24 Identities=42% Similarity=0.603 Sum_probs=21.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|+||||+|+.|+.+| ++.|+++.+
T Consensus 12 GvGKTt~a~nla~~l-a~~g~~Vll 35 (246)
T TIGR03371 12 GVGKTTLTANLASAL-KLLGEPVLA 35 (246)
T ss_pred CccHHHHHHHHHHHH-HhCCCcEEE
Confidence 999999999999999 588998765
No 38
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=94.02 E-value=0.044 Score=51.42 Aligned_cols=29 Identities=45% Similarity=0.470 Sum_probs=24.5
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|.||||||+.|+.+| ++.|+++.+.==.|
T Consensus 11 GVGKTT~a~nLA~~L-a~~G~rVLliD~Dp 39 (279)
T PRK13230 11 GIGKSTTVCNIAAAL-AESGKKVLVVGCDP 39 (279)
T ss_pred CCcHHHHHHHHHHHH-HhCCCEEEEEeeCC
Confidence 999999999999999 69999987653343
No 39
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=93.83 E-value=0.045 Score=46.92 Aligned_cols=29 Identities=45% Similarity=0.476 Sum_probs=23.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|.||||+|..|+.+| ++.|+++++.=-.|
T Consensus 9 G~GKTt~a~~la~~l-a~~g~~VlliD~D~ 37 (195)
T PF01656_consen 9 GVGKTTIAANLAQAL-ARKGKKVLLIDLDP 37 (195)
T ss_dssp TSSHHHHHHHHHHHH-HHTTS-EEEEEEST
T ss_pred CccHHHHHHHHHhcc-ccccccccccccCc
Confidence 999999999999999 47899988754443
No 40
>PRK10037 cell division protein; Provisional
Probab=93.81 E-value=0.042 Score=50.90 Aligned_cols=38 Identities=24% Similarity=0.388 Sum_probs=30.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE-e-cCCCCCCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC-L-RQPLQGPTFGIR 131 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~-l-RqPS~GP~FGiK 131 (400)
|.||||+++.|+.+| ++.|+++.+. + .|.++.-.||+.
T Consensus 12 GvGKTT~a~nLA~~L-a~~G~rVLlID~D~q~~~s~~~g~~ 51 (250)
T PRK10037 12 GVGTTSITAALAWSL-QMLGENVLVIDACPDNLLRLSFNVD 51 (250)
T ss_pred CccHHHHHHHHHHHH-HhcCCcEEEEeCChhhhHHHHhCCC
Confidence 999999999999999 5899998763 2 355566667664
No 41
>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=93.70 E-value=0.046 Score=49.32 Aligned_cols=31 Identities=45% Similarity=0.476 Sum_probs=25.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~ 124 (400)
|.||||+|.-|+.+| ++.|+++.+.=-.|-.
T Consensus 10 GvGKTt~~~nLA~~l-a~~G~rvLliD~D~q~ 40 (212)
T cd02117 10 GIGKSTTSQNLSAAL-AEMGKKVLQVGCDPKA 40 (212)
T ss_pred cCcHHHHHHHHHHHH-HHCCCcEEEEeCCCCC
Confidence 999999999999999 6899997654344443
No 42
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=93.65 E-value=0.11 Score=45.46 Aligned_cols=41 Identities=29% Similarity=0.306 Sum_probs=34.0
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
|++|+|.|+ - |.||||.+--|++.|+ ..|.++ ..+++|+-.
T Consensus 3 g~~IvieG~----~----------GsGKsT~~~~L~~~l~-~~g~~v-~~~~~~~~~ 43 (195)
T TIGR00041 3 GMFIVIEGI----D----------GAGKTTQANLLKKLLQ-ENGYDV-LFTREPGGT 43 (195)
T ss_pred ceEEEEECC----C----------CCCHHHHHHHHHHHHH-HcCCeE-EEEeCCCCC
Confidence 899999997 3 8999999999999995 568775 468888743
No 43
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=93.58 E-value=0.053 Score=49.65 Aligned_cols=25 Identities=56% Similarity=0.598 Sum_probs=22.7
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.||||+|+.|+.+| ++.|+++.+.
T Consensus 11 GvGKTT~~~nLA~~L-a~~G~kVlli 35 (270)
T cd02040 11 GIGKSTTTQNLSAAL-AEMGKKVMIV 35 (270)
T ss_pred cCCHHHHHHHHHHHH-HhCCCeEEEE
Confidence 999999999999999 5899988764
No 44
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=93.54 E-value=0.13 Score=44.08 Aligned_cols=41 Identities=29% Similarity=0.337 Sum_probs=33.1
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCC
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGP 126 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP 126 (400)
++|++.|+ - |.||||.+--|++.|. ..|.++ ..+++|+-++
T Consensus 1 ~~I~ieG~----~----------GsGKtT~~~~L~~~l~-~~g~~v-~~~~~~~~~~ 41 (200)
T cd01672 1 MFIVFEGI----D----------GAGKTTLIELLAERLE-ARGYEV-VLTREPGGTP 41 (200)
T ss_pred CEEEEECC----C----------CCCHHHHHHHHHHHHH-HcCCeE-EEEeCCCCCc
Confidence 46777775 3 9999999999999994 678875 7899998654
No 45
>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=93.50 E-value=0.062 Score=50.09 Aligned_cols=24 Identities=54% Similarity=0.612 Sum_probs=21.7
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|.||||+|+.|+.+| ++.|+++.+
T Consensus 10 GVGKTT~a~nLA~~L-a~~G~~Vll 33 (275)
T TIGR01287 10 GIGKSTTTQNIAAAL-AEMGKKVMI 33 (275)
T ss_pred cCcHHHHHHHHHHHH-HHCCCeEEE
Confidence 999999999999999 588988765
No 46
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=93.43 E-value=0.057 Score=50.58 Aligned_cols=34 Identities=41% Similarity=0.400 Sum_probs=26.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPT 127 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~ 127 (400)
|.|||||++.|+.+| ++.|+++.+.==.|-..-+
T Consensus 11 GVGKTT~~~nLA~~L-a~~G~rVLlID~Dpq~~~t 44 (274)
T PRK13235 11 GIGKSTTTQNTVAGL-AEMGKKVMVVGCDPKADST 44 (274)
T ss_pred CccHHHHHHHHHHHH-HHCCCcEEEEecCCccccc
Confidence 999999999999999 6899998765334444333
No 47
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=93.38 E-value=0.12 Score=48.74 Aligned_cols=44 Identities=30% Similarity=0.352 Sum_probs=37.9
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCc
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPT 127 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~ 127 (400)
+|++|++-|| - |.||||.+.-|.+.| ...|. .+...|||+-+|+
T Consensus 2 ~g~fI~iEGi----D----------GaGKTT~~~~L~~~l-~~~g~-~v~~trEP~~~~i 45 (208)
T COG0125 2 KGMFIVIEGI----D----------GAGKTTQAELLKERL-EERGI-KVVLTREPGGTPI 45 (208)
T ss_pred CceEEEEECC----C----------CCCHHHHHHHHHHHH-HHcCC-eEEEEeCCCCChH
Confidence 5899999998 4 999999999999999 46677 5778999987665
No 48
>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=93.32 E-value=0.057 Score=50.07 Aligned_cols=25 Identities=48% Similarity=0.561 Sum_probs=22.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.||||||+-|+.+| ++.|+++.+.
T Consensus 10 GVGKTT~~~nLA~~L-a~~g~rVLli 34 (268)
T TIGR01281 10 GIGKSTTSSNLSVAF-AKLGKRVLQI 34 (268)
T ss_pred cCcHHHHHHHHHHHH-HhCCCeEEEE
Confidence 999999999999999 5889997653
No 49
>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=93.28 E-value=0.064 Score=49.82 Aligned_cols=37 Identities=43% Similarity=0.460 Sum_probs=28.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCcccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGI 130 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGi 130 (400)
|.||||+|+-|+.+| ++.|+++.+.==.|...=++++
T Consensus 10 GvGKTT~a~nLA~~l-a~~G~rvlliD~Dpq~~~~~~l 46 (267)
T cd02032 10 GIGKSTTSSNLSVAL-AKRGKKVLQIGCDPKHDSTFTL 46 (267)
T ss_pred CCCHHHHHHHHHHHH-HHCCCcEEEEecCCCCCcceec
Confidence 999999999999999 6889998765445543333444
No 50
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=93.10 E-value=0.088 Score=46.12 Aligned_cols=41 Identities=34% Similarity=0.628 Sum_probs=28.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIR 131 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiK 131 (400)
+.|.+|+..| ++ |.||||.+.|++++|+ +.++-.=|||.+-
T Consensus 13 ~~g~vi~L~G----dL----------GaGKTtf~r~l~~~lg----------~~~~V~SPTF~l~ 53 (123)
T PF02367_consen 13 KPGDVILLSG----DL----------GAGKTTFVRGLARALG----------IDEEVTSPTFSLV 53 (123)
T ss_dssp SS-EEEEEEE----ST----------TSSHHHHHHHHHHHTT------------S----TTTTSE
T ss_pred CCCCEEEEEC----CC----------CCCHHHHHHHHHHHcC----------CCCCcCCCCeEEE
Confidence 5688999987 47 9999999999999995 2234556788764
No 51
>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=93.04 E-value=0.092 Score=39.10 Aligned_cols=26 Identities=38% Similarity=0.489 Sum_probs=21.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
|+||||++..|++.| ++.|.++. ++.
T Consensus 9 G~Gktt~~~~l~~~l-~~~g~~v~-~~~ 34 (99)
T cd01983 9 GVGKTTLAANLAAAL-AKRGKRVL-LID 34 (99)
T ss_pred CCCHHHHHHHHHHHH-HHCCCeEE-EEC
Confidence 899999999999999 46777764 444
No 52
>PRK13973 thymidylate kinase; Provisional
Probab=92.98 E-value=0.16 Score=46.41 Aligned_cols=43 Identities=28% Similarity=0.304 Sum_probs=35.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGP 126 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP 126 (400)
+|++|++-|+ - |.||||.+..|++.|. ..|.++ ...|+|+..|
T Consensus 2 ~g~~IviEG~----d----------GsGKtTq~~~l~~~l~-~~g~~~-~~~~~p~~~~ 44 (213)
T PRK13973 2 RGRFITFEGG----E----------GAGKSTQIRLLAERLR-AAGYDV-LVTREPGGSP 44 (213)
T ss_pred CceEEEEEcC----C----------CCCHHHHHHHHHHHHH-HCCCeE-EEEECCCCCc
Confidence 3899999998 3 9999999999999994 567764 6789998655
No 53
>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=92.66 E-value=0.048 Score=53.72 Aligned_cols=39 Identities=44% Similarity=0.432 Sum_probs=30.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCcccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRG 132 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKG 132 (400)
|.||||||+=|+-|| ++.|+++-+ -+||||+.=.|+-+.
T Consensus 11 GvGKSTva~~lA~aL-a~~G~kVg~lD~Di~q~S~~r~l~nr~ 52 (261)
T PF09140_consen 11 GVGKSTVAVNLAVAL-ARMGKKVGLLDLDIRQPSLPRYLENRA 52 (261)
T ss_dssp TTTHHHHHHHHHHHH-HCTT--EEEEE--TTT-HHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHH-HHCCCeEEEEecCCCCCCHHHHHhccc
Confidence 999999999999999 699999876 689999977777643
No 54
>PHA02518 ParA-like protein; Provisional
Probab=92.45 E-value=0.11 Score=45.63 Aligned_cols=24 Identities=33% Similarity=0.379 Sum_probs=21.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|.||||+++.|+.+| ++.|+++.+
T Consensus 11 GvGKTT~a~~la~~l-a~~g~~vll 34 (211)
T PHA02518 11 GAGKTTVATNLASWL-HADGHKVLL 34 (211)
T ss_pred CCCHHHHHHHHHHHH-HhCCCeEEE
Confidence 899999999999999 588998875
No 55
>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=92.40 E-value=0.15 Score=49.40 Aligned_cols=24 Identities=46% Similarity=0.540 Sum_probs=22.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|.||||+|..|+.+| +++|+++++
T Consensus 12 GvG~TTltAnLA~aL-~~~G~~Vla 35 (243)
T PF06564_consen 12 GVGKTTLTANLAWAL-ARLGESVLA 35 (243)
T ss_pred CCCHHHHHHHHHHHH-HHCCCcEEE
Confidence 999999999999999 699999776
No 56
>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=92.34 E-value=0.099 Score=50.71 Aligned_cols=32 Identities=34% Similarity=0.433 Sum_probs=26.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
|+||||||+-|+.+| +..|+++.+.==.|..+
T Consensus 10 GvGKTT~a~nLA~~L-a~~g~rVLlID~Dpq~~ 41 (296)
T TIGR02016 10 GSGKSFTTTNLSHMM-AEMGKRVLQLGCDPKHD 41 (296)
T ss_pred CCCHHHHHHHHHHHH-HHCCCeEEEEEecCCCC
Confidence 999999999999999 57899988755555433
No 57
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=92.31 E-value=0.093 Score=49.12 Aligned_cols=25 Identities=44% Similarity=0.553 Sum_probs=22.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.|||||++-|+-+| ++.|+++.+.
T Consensus 11 GVGKTT~a~nLA~~L-a~~G~rVllv 35 (273)
T PRK13232 11 GIGKSTTTQNLTAAL-STMGNKILLV 35 (273)
T ss_pred CCcHHHHHHHHHHHH-HhhCCCeEEE
Confidence 999999999999999 5899998764
No 58
>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=92.21 E-value=0.085 Score=45.82 Aligned_cols=36 Identities=31% Similarity=0.266 Sum_probs=30.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccccC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRGG 133 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKGG 133 (400)
|+||||++.-|+.+| +++.+ .+|.|++--.||++..
T Consensus 10 G~GKSt~a~nLA~~l-----~~vlliD~D~~~~~~~~~~~~~~~ 48 (179)
T cd03110 10 GTGKTTVTAALAALL-----KNVVLADCDVDAPNLHLFLKPEIE 48 (179)
T ss_pred CCCHHHHHHHHHHHH-----hCcEEEECCCCCCchhhhcCCCcc
Confidence 999999999999998 45543 6889999888999863
No 59
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=92.04 E-value=0.13 Score=49.66 Aligned_cols=29 Identities=45% Similarity=0.457 Sum_probs=24.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|.|||||++-|+.+| ++.|+++.+.==.|
T Consensus 10 GVGKTTta~nLA~~L-a~~G~rVLlID~Dp 38 (290)
T CHL00072 10 GIGKSTTSCNISIAL-ARRGKKVLQIGCDP 38 (290)
T ss_pred CCcHHHHHHHHHHHH-HHCCCeEEEEeccC
Confidence 999999999999999 68999976543333
No 60
>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=91.64 E-value=0.068 Score=52.29 Aligned_cols=47 Identities=30% Similarity=0.375 Sum_probs=35.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC--CCCCccccccCcCCCCceeee
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP--LQGPTFGIRGGAAGGGYSQVI 143 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP--S~GP~FGiKGGAaGGGysQvi 143 (400)
|.||||+|..++..+ ++.|+++.++==.| |+|.+||.+- |+.-.+|-
T Consensus 11 GVGKTT~aaA~A~~~-A~~G~rtLlvS~Dpa~~L~d~l~~~~---~~~~~~v~ 59 (305)
T PF02374_consen 11 GVGKTTVAAALALAL-ARRGKRTLLVSTDPAHSLSDVLGQKL---GGEPTKVE 59 (305)
T ss_dssp TSSHHHHHHHHHHHH-HHTTS-EEEEESSTTTHHHHHHTS-----BSS-EEET
T ss_pred CCCcHHHHHHHHHHH-hhCCCCeeEeecCCCccHHHHhCCcC---CCCCeEec
Confidence 999999999999999 57899998886666 6888999964 33444443
No 61
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=91.48 E-value=0.18 Score=48.63 Aligned_cols=32 Identities=28% Similarity=0.306 Sum_probs=26.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE---ecCCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC---LRQPLQG 125 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~---lRqPS~G 125 (400)
|.|||||++-|+.+| ++.|+++.+. .+.++..
T Consensus 14 GvGKTt~~~nLa~~l-a~~g~kVLliD~D~q~~~~~ 48 (295)
T PRK13234 14 GIGKSTTSQNTLAAL-VEMGQKILIVGCDPKADSTR 48 (295)
T ss_pred CccHHHHHHHHHHHH-HHCCCeEEEEeccccccccc
Confidence 999999999999999 6899998775 4555544
No 62
>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=91.20 E-value=0.3 Score=47.14 Aligned_cols=35 Identities=26% Similarity=0.218 Sum_probs=28.4
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+.+.|++++ |- |+|||||+.-|+..+ ...|+++..
T Consensus 71 ~~~vi~l~G----~~----------G~GKTTt~akLA~~l-~~~g~~V~l 105 (272)
T TIGR00064 71 KPNVILFVG----VN----------GVGKTTTIAKLANKL-KKQGKSVLL 105 (272)
T ss_pred CCeEEEEEC----CC----------CCcHHHHHHHHHHHH-HhcCCEEEE
Confidence 467888886 55 999999999999999 577877654
No 63
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=91.05 E-value=0.16 Score=47.41 Aligned_cols=24 Identities=54% Similarity=0.641 Sum_probs=21.2
Q ss_pred CCccchhHHHHHHHHhhh-cCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAF-LDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~-lgk~~~~ 117 (400)
|.|||||++-|+-+| ++ .|+++.+
T Consensus 12 GVGKTT~a~nLA~~L-a~~~G~rvLl 36 (275)
T PRK13233 12 GIGKSTTTQNTAAAM-AYFHDKKVFI 36 (275)
T ss_pred CCcHHHHHHHHHHHH-HHhcCCeEEE
Confidence 999999999999999 56 6999664
No 64
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=90.90 E-value=0.18 Score=45.53 Aligned_cols=27 Identities=33% Similarity=0.351 Sum_probs=22.7
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|.|||++|.||+++| ++.|.++.. +.|
T Consensus 10 ~~GKT~vs~~L~~~l-~~~g~~v~~--~KP 36 (222)
T PRK00090 10 DVGKTVVTAALAQAL-REAGYSVAG--YKP 36 (222)
T ss_pred CcCHHHHHHHHHHHH-HHcCCceEE--Eee
Confidence 899999999999999 588988753 454
No 65
>PRK13236 nitrogenase reductase; Reviewed
Probab=90.80 E-value=0.21 Score=48.16 Aligned_cols=29 Identities=31% Similarity=0.407 Sum_probs=24.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|.||||||+-|+.+| ++.|+++.+.==.|
T Consensus 16 GVGKTt~a~NLA~~L-a~~G~rVLliD~D~ 44 (296)
T PRK13236 16 GIGKSTTSQNTLAAM-AEMGQRILIVGCDP 44 (296)
T ss_pred cCCHHHHHHHHHHHH-HHCCCcEEEEEccC
Confidence 999999999999999 57899988753333
No 66
>PRK10646 ADP-binding protein; Provisional
Probab=90.76 E-value=0.26 Score=44.78 Aligned_cols=28 Identities=36% Similarity=0.478 Sum_probs=24.4
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+.|.+|+..| ++ |.||||.+.||+++|+
T Consensus 26 ~~g~vi~L~G----dL----------GaGKTtf~rgl~~~Lg 53 (153)
T PRK10646 26 DGATVIYLYG----DL----------GAGKTTFSRGFLQALG 53 (153)
T ss_pred CCCcEEEEEC----CC----------CCCHHHHHHHHHHHcC
Confidence 4588899887 47 9999999999999995
No 67
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=90.64 E-value=0.12 Score=47.94 Aligned_cols=22 Identities=36% Similarity=0.427 Sum_probs=19.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.||||||+-|+.+| ++.| ++.
T Consensus 12 GvGKTT~a~nLA~~L-a~~G-rVL 33 (264)
T PRK13231 12 GIGKSTTVSNMAAAY-SNDH-RVL 33 (264)
T ss_pred CCcHHHHHHHHhccc-CCCC-EEE
Confidence 999999999999999 5789 754
No 68
>PRK00300 gmk guanylate kinase; Provisional
Probab=90.57 E-value=0.32 Score=43.08 Aligned_cols=45 Identities=31% Similarity=0.390 Sum_probs=35.3
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGP 126 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP 126 (400)
+.|++|+++| |- |+||||++.-|++-+. .+.......-|+|..|-
T Consensus 3 ~~g~~i~i~G----~s----------GsGKstl~~~l~~~~~-~~~~~~~~~tr~p~~ge 47 (205)
T PRK00300 3 RRGLLIVLSG----PS----------GAGKSTLVKALLERDP-NLQLSVSATTRAPRPGE 47 (205)
T ss_pred CCCCEEEEEC----CC----------CCCHHHHHHHHHhhCc-cceeccCccccCCCCCC
Confidence 4699999998 45 9999999999988773 55555556778998775
No 69
>PRK13976 thymidylate kinase; Provisional
Probab=90.38 E-value=0.37 Score=44.78 Aligned_cols=31 Identities=29% Similarity=0.377 Sum_probs=25.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
|.||||.+.-|++.|..+.|...+...|||+
T Consensus 10 GsGKsTq~~~L~~~L~~~~g~~~v~~~~eP~ 40 (209)
T PRK13976 10 GSGKTTQSRLLAEYLSDIYGENNVVLTREPG 40 (209)
T ss_pred CCCHHHHHHHHHHHHHHhcCCcceEEeeCCC
Confidence 9999999999999995333644556789997
No 70
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=90.37 E-value=0.18 Score=44.12 Aligned_cols=33 Identities=33% Similarity=0.277 Sum_probs=29.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPT 127 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~ 127 (400)
|+||||.+.-|.+.| ...|.+ +...++|+-.|+
T Consensus 6 GsGKtT~~~~L~~~l-~~~~~~-~~~~~~~~~~~~ 38 (186)
T PF02223_consen 6 GSGKTTQIRLLAEAL-KEKGYK-VIITFPPGSTPI 38 (186)
T ss_dssp TSSHHHHHHHHHHHH-HHTTEE-EEEEESSTSSHH
T ss_pred CCCHHHHHHHHHHHH-HHcCCc-ccccCCCCCChH
Confidence 999999999999999 478888 888899987764
No 71
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=89.93 E-value=0.44 Score=42.27 Aligned_cols=73 Identities=23% Similarity=0.328 Sum_probs=48.3
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMD 146 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPme 146 (400)
+.|++|++.| ++ |.||||.+.+++++|+ . .++-.-|||-+--- -+..
T Consensus 20 ~~~~~i~l~G----~l----------GaGKTtl~~~l~~~lg-~---------~~~v~SPTf~lv~~---------Y~~~ 66 (133)
T TIGR00150 20 DFGTVVLLKG----DL----------GAGKTTLVQGLLQGLG-I---------QGNVTSPTFTLVNE---------YNEG 66 (133)
T ss_pred CCCCEEEEEc----CC----------CCCHHHHHHHHHHHcC-C---------CCcccCCCeeeeee---------cccC
Confidence 5688999988 46 9999999999999995 2 22344678887633 2222
Q ss_pred ccccccchhhhHHHHHHhHHHHHHHhh
Q 044054 147 EFNLHLTGDIHAITAANNLLAAAIDTR 173 (400)
Q Consensus 147 eiNLHfTGD~HAItaA~NLlaA~idn~ 173 (400)
...++ -=|+..+.....+..-.+|..
T Consensus 67 ~~~l~-H~DlYRl~~~~e~~~lg~ee~ 92 (133)
T TIGR00150 67 NLMVY-HFDLYRLADPEELELMGLEDY 92 (133)
T ss_pred CCcEE-EechhhcCChhHHHHCChHHh
Confidence 22221 236777777777766666643
No 72
>PRK13768 GTPase; Provisional
Probab=89.36 E-value=0.57 Score=44.42 Aligned_cols=32 Identities=28% Similarity=0.228 Sum_probs=27.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
|.||||++.+|+++| ...|+++...=-.|...
T Consensus 12 G~GKTt~~~~~~~~l-~~~g~~v~~i~~D~~~~ 43 (253)
T PRK13768 12 GSGKTTLTKALSDWL-EEQGYDVAIVNLDPAVE 43 (253)
T ss_pred CccHHHHHHHHHHHH-HhcCCceEEEECCCccc
Confidence 999999999999999 57899988876777543
No 73
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=89.24 E-value=0.29 Score=46.03 Aligned_cols=32 Identities=41% Similarity=0.593 Sum_probs=25.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGP 126 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP 126 (400)
|.|||||++-|+.+| ++.|+++.+.==.| ||+
T Consensus 12 GvGKTT~a~nLA~~l-a~~G~~VlliD~Dp-Q~s 43 (231)
T PRK13849 12 GAGKTTALMGLCAAL-ASDGKRVALFEADE-NRP 43 (231)
T ss_pred CccHHHHHHHHHHHH-HhCCCcEEEEeCCC-CCC
Confidence 999999999999999 58899876543333 444
No 74
>PRK07933 thymidylate kinase; Validated
Probab=88.93 E-value=0.72 Score=42.66 Aligned_cols=31 Identities=39% Similarity=0.417 Sum_probs=25.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
|+||||.+.-|++.|. .-|.+ +...|+|..|
T Consensus 10 GsGKST~~~~L~~~L~-~~g~~-v~~~~~P~~~ 40 (213)
T PRK07933 10 GAGKRTLTEALRAALE-ARGRS-VATLAFPRYG 40 (213)
T ss_pred CCCHHHHHHHHHHHHH-HCCCe-EEEEecCCCC
Confidence 9999999999999995 56776 6678999644
No 75
>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=88.74 E-value=0.36 Score=38.33 Aligned_cols=30 Identities=43% Similarity=0.474 Sum_probs=24.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
|.||||++..|++.+ ++.|+++...==.|+
T Consensus 10 G~Gkst~~~~la~~~-~~~~~~vl~~d~d~~ 39 (104)
T cd02042 10 GVGKTTTAVNLAAAL-ARRGKRVLLIDLDPQ 39 (104)
T ss_pred CcCHHHHHHHHHHHH-HhCCCcEEEEeCCCC
Confidence 899999999999999 477888766544444
No 76
>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=88.70 E-value=0.32 Score=43.30 Aligned_cols=23 Identities=39% Similarity=0.488 Sum_probs=20.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.|||+++.||+++| .+.|.++.
T Consensus 11 ~vGKT~vslgL~~~l-~~~g~~v~ 33 (199)
T PF13500_consen 11 GVGKTVVSLGLARAL-RRRGIKVG 33 (199)
T ss_dssp SSSHHHHHHHHHHHH-HHTTSEEE
T ss_pred CCCHHHHHHHHHHHH-HhCCCceE
Confidence 899999999999999 57777754
No 77
>PRK00889 adenylylsulfate kinase; Provisional
Probab=88.55 E-value=0.68 Score=40.32 Aligned_cols=34 Identities=26% Similarity=0.259 Sum_probs=27.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
++|++|+++|. - |.||||++.-|++.|. .-|.++
T Consensus 2 ~~g~~i~~~G~----~----------GsGKST~a~~la~~l~-~~g~~v 35 (175)
T PRK00889 2 QRGVTVWFTGL----S----------GAGKTTIARALAEKLR-EAGYPV 35 (175)
T ss_pred CCCeEEEEECC----C----------CCCHHHHHHHHHHHHH-HcCCeE
Confidence 56899999986 3 8999999999999994 555443
No 78
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=88.42 E-value=0.5 Score=43.26 Aligned_cols=28 Identities=36% Similarity=0.614 Sum_probs=24.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+.|.+|+..+ ++ |.||||.+.|++++|+
T Consensus 23 ~~g~Vv~L~G----dL----------GAGKTtf~rgi~~~Lg 50 (149)
T COG0802 23 KAGDVVLLSG----DL----------GAGKTTLVRGIAKGLG 50 (149)
T ss_pred CCCCEEEEEc----CC----------cCChHHHHHHHHHHcC
Confidence 4688999987 47 9999999999999995
No 79
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=88.30 E-value=0.39 Score=39.50 Aligned_cols=30 Identities=27% Similarity=0.231 Sum_probs=23.7
Q ss_pred CCccchhHHHHHHHHhhhc-CCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFL-DKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~l-gk~~~~~lRqPS 123 (400)
|+||||++..|+-++ ++. |+++...==.|.
T Consensus 10 g~gkt~~~~~la~~~-~~~~~~~~~l~d~d~~ 40 (106)
T cd03111 10 GVGATTLAANLAVAL-AKEAGRRVLLVDLDLQ 40 (106)
T ss_pred CCcHHHHHHHHHHHH-HhcCCCcEEEEECCCC
Confidence 999999999999999 566 888776423333
No 80
>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=88.08 E-value=0.68 Score=38.81 Aligned_cols=39 Identities=36% Similarity=0.407 Sum_probs=26.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCcccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRG 132 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKG 132 (400)
|.||||++..||..| +.-|++++. ..+.|++--.|+...
T Consensus 11 g~G~t~~a~~lA~~l-a~~~~~Vllid~~~~~~~~~~~~~~~~ 52 (157)
T PF13614_consen 11 GVGKTTLALNLAAAL-ARKGKKVLLIDFDFFSPSLSRLLGIEP 52 (157)
T ss_dssp TSSHHHHHHHHHHHH-HHTTT-EEEEE--SSS-HHHHHTTSSS
T ss_pred CCCHHHHHHHHHHHH-HhcCCCeEEEECCCCCCCccccccccc
Confidence 899999999999999 578877554 345555544455443
No 81
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=88.02 E-value=0.36 Score=44.45 Aligned_cols=40 Identities=40% Similarity=0.474 Sum_probs=27.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCC---ccccccC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGP---TFGIRGG 133 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP---~FGiKGG 133 (400)
|.||||||+=|+-+|..+-|+++.+-==.|. |- .||.+..
T Consensus 13 GvGKTT~a~nLa~~La~~~~~kVLliDlDpQ-~s~t~~~~~~~~ 55 (259)
T COG1192 13 GVGKTTTAVNLAAALAKRGGKKVLLIDLDPQ-GSLTSWLGLRPD 55 (259)
T ss_pred CccHHHHHHHHHHHHHHhcCCcEEEEeCCCc-chhhHhcCCCcc
Confidence 9999999999999994254577665433443 32 2666544
No 82
>PRK08233 hypothetical protein; Provisional
Probab=87.96 E-value=0.42 Score=40.95 Aligned_cols=26 Identities=27% Similarity=0.372 Sum_probs=21.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+++|.|+|. - |.||||++..|++.|+
T Consensus 3 ~~iI~I~G~----~----------GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 3 TKIITIAAV----S----------GGGKTTLTERLTHKLK 28 (182)
T ss_pred ceEEEEECC----C----------CCCHHHHHHHHHhhCC
Confidence 578888883 4 8999999999999883
No 83
>PRK00131 aroK shikimate kinase; Reviewed
Probab=87.82 E-value=0.53 Score=39.71 Aligned_cols=28 Identities=36% Similarity=0.444 Sum_probs=23.7
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+.++.|+++|. . |.||||++..|++.|+
T Consensus 2 ~~~~~i~l~G~----~----------GsGKstla~~La~~l~ 29 (175)
T PRK00131 2 LKGPNIVLIGF----M----------GAGKSTIGRLLAKRLG 29 (175)
T ss_pred CCCCeEEEEcC----C----------CCCHHHHHHHHHHHhC
Confidence 35778999986 4 8999999999999884
No 84
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=87.80 E-value=0.46 Score=47.67 Aligned_cols=68 Identities=29% Similarity=0.322 Sum_probs=50.5
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC--CCCCccccccCcCCCCceeeecCcc
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP--LQGPTFGIRGGAAGGGYSQVIPMDE 147 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP--S~GP~FGiKGGAaGGGysQviPmee 147 (400)
+||++||- | |.||||+|.+++=.+ +..|+++.+.--.| |+|.+|+++
T Consensus 3 riv~f~GK-------G-------GVGKTT~aaA~A~~l-A~~g~kvLlvStDPAhsL~d~f~~e---------------- 51 (322)
T COG0003 3 RIVFFTGK-------G-------GVGKTTIAAATAVKL-AESGKKVLLVSTDPAHSLGDVFDLE---------------- 51 (322)
T ss_pred EEEEEecC-------C-------cccHHHHHHHHHHHH-HHcCCcEEEEEeCCCCchHhhhccc----------------
Confidence 57777754 3 999999999999999 57898876666666 777777663
Q ss_pred cccccchhhhHHHHHHhHHHHHHHhhh
Q 044054 148 FNLHLTGDIHAITAANNLLAAAIDTRI 174 (400)
Q Consensus 148 iNLHfTGD~HAItaA~NLlaA~idn~i 174 (400)
+.-|..+|+ .||-+..||...
T Consensus 52 ----lg~~~~~I~--~nL~a~eiD~~~ 72 (322)
T COG0003 52 ----LGHDPRKVG--PNLDALELDPEK 72 (322)
T ss_pred ----cCCchhhcC--CCCceeeecHHH
Confidence 235677777 788777777543
No 85
>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=87.76 E-value=0.42 Score=43.75 Aligned_cols=25 Identities=36% Similarity=0.352 Sum_probs=22.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|+||||++..|+..+ ++.|+++...
T Consensus 9 g~Gkt~~~~~la~~~-a~~g~~~~l~ 33 (217)
T cd02035 9 GVGKTTIAAATAVRL-AEEGKKVLLV 33 (217)
T ss_pred CchHHHHHHHHHHHH-HHCCCcEEEE
Confidence 899999999999999 5889998764
No 86
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=87.73 E-value=0.47 Score=41.06 Aligned_cols=43 Identities=30% Similarity=0.414 Sum_probs=31.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGP 126 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP 126 (400)
||+|++.| |- |.||||++.-|++-+. ......-.+.|+|..|.
T Consensus 1 g~ii~l~G----~~----------GsGKsTl~~~L~~~~~-~~~~~~~~~tr~~~~g~ 43 (180)
T TIGR03263 1 GLLIVISG----PS----------GVGKSTLVKALLEEDP-NLKFSISATTRKPRPGE 43 (180)
T ss_pred CcEEEEEC----CC----------CCCHHHHHHHHHccCc-cccccccceeeCCCCCC
Confidence 67888888 45 9999998888887663 34444445678888664
No 87
>PRK14974 cell division protein FtsY; Provisional
Probab=87.58 E-value=0.8 Score=46.06 Aligned_cols=36 Identities=28% Similarity=0.199 Sum_probs=28.3
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.+.++|+++|. - |.|||||..-|+..|. ..|++++.
T Consensus 138 ~~~~vi~~~G~----~----------GvGKTTtiakLA~~l~-~~g~~V~l 173 (336)
T PRK14974 138 GKPVVIVFVGV----N----------GTGKTTTIAKLAYYLK-KNGFSVVI 173 (336)
T ss_pred CCCeEEEEEcC----C----------CCCHHHHHHHHHHHHH-HcCCeEEE
Confidence 34678999984 4 9999999999999994 66766543
No 88
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=87.39 E-value=0.84 Score=45.28 Aligned_cols=36 Identities=28% Similarity=0.273 Sum_probs=29.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+.|++|++.| |- |+|||||+.-|+..+ ...|+++.+
T Consensus 112 ~~~~vi~lvG----pn----------GsGKTTt~~kLA~~l-~~~g~~V~L 147 (318)
T PRK10416 112 KKPFVILVVG----VN----------GVGKTTTIGKLAHKY-KAQGKKVLL 147 (318)
T ss_pred CCCeEEEEEC----CC----------CCcHHHHHHHHHHHH-HhcCCeEEE
Confidence 3578898888 55 999999999999999 466776654
No 89
>PRK04296 thymidine kinase; Provisional
Probab=87.31 E-value=0.9 Score=41.06 Aligned_cols=45 Identities=18% Similarity=0.168 Sum_probs=33.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCcccc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGI 130 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGi 130 (400)
|+++|+|| |. |.||||.+++++..+. .-|+++... .|++.+.++.
T Consensus 2 g~i~litG----~~----------GsGKTT~~l~~~~~~~-~~g~~v~i~--k~~~d~~~~~ 46 (190)
T PRK04296 2 AKLEFIYG----AM----------NSGKSTELLQRAYNYE-ERGMKVLVF--KPAIDDRYGE 46 (190)
T ss_pred cEEEEEEC----CC----------CCHHHHHHHHHHHHHH-HcCCeEEEE--eccccccccC
Confidence 67888886 34 8999999999999883 558776644 4666655543
No 90
>PTZ00301 uridine kinase; Provisional
Probab=86.77 E-value=0.94 Score=42.39 Aligned_cols=28 Identities=21% Similarity=0.261 Sum_probs=21.9
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhc
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFL 111 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~l 111 (400)
++|-|+|. . |+||||+|..|++.|+.++
T Consensus 4 ~iIgIaG~----S----------gSGKTTla~~l~~~l~~~~ 31 (210)
T PTZ00301 4 TVIGISGA----S----------GSGKSSLSTNIVSELMAHC 31 (210)
T ss_pred EEEEEECC----C----------cCCHHHHHHHHHHHHHhhc
Confidence 46777774 3 8999999999999985343
No 91
>PRK10436 hypothetical protein; Provisional
Probab=86.56 E-value=0.85 Score=47.72 Aligned_cols=40 Identities=20% Similarity=0.262 Sum_probs=30.4
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~ 124 (400)
.-+|||||- - |+|||||...+.+.++ ..+ +.+..+=.|-=
T Consensus 218 ~GliLvtGp----T----------GSGKTTtL~a~l~~~~-~~~-~~i~TiEDPvE 257 (462)
T PRK10436 218 QGLILVTGP----T----------GSGKTVTLYSALQTLN-TAQ-INICSVEDPVE 257 (462)
T ss_pred CCeEEEECC----C----------CCChHHHHHHHHHhhC-CCC-CEEEEecCCcc
Confidence 558999984 3 9999999988888884 545 45778887753
No 92
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=86.44 E-value=0.85 Score=48.72 Aligned_cols=88 Identities=24% Similarity=0.388 Sum_probs=59.2
Q ss_pred hhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCcee
Q 044054 62 ELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQ 141 (400)
Q Consensus 62 ~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQ 141 (400)
++-++|.| +||||| |- |+|||||-..+.+-++ .-.++ +..+=.|-==..=|| .|
T Consensus 252 ~~~~~p~G-liLvTG----PT----------GSGKTTTLY~~L~~ln-~~~~n-I~TiEDPVE~~~~gI---------~Q 305 (500)
T COG2804 252 RLLNRPQG-LILVTG----PT----------GSGKTTTLYAALSELN-TPERN-IITIEDPVEYQLPGI---------NQ 305 (500)
T ss_pred HHHhCCCe-EEEEeC----CC----------CCCHHHHHHHHHHHhc-CCCce-EEEeeCCeeeecCCc---------ce
Confidence 33445666 899998 45 9999999999999994 44444 888777643222222 24
Q ss_pred eecCccccccc----------------chhhhHHHHHHhHHHHHHHhhhh
Q 044054 142 VIPMDEFNLHL----------------TGDIHAITAANNLLAAAIDTRIF 175 (400)
Q Consensus 142 viPmeeiNLHf----------------TGD~HAItaA~NLlaA~idn~i~ 175 (400)
+-==+++.|-| -|.|---..|.=.+-|++--|+-
T Consensus 306 ~qVN~k~gltfa~~LRa~LRqDPDvImVGEIRD~ETAeiavqAalTGHLV 355 (500)
T COG2804 306 VQVNPKIGLTFARALRAILRQDPDVIMVGEIRDLETAEIAVQAALTGHLV 355 (500)
T ss_pred eecccccCCCHHHHHHHHhccCCCeEEEeccCCHHHHHHHHHHHhcCCeE
Confidence 43333666654 47777778888888888877764
No 93
>PRK05480 uridine/cytidine kinase; Provisional
Probab=86.17 E-value=1.1 Score=40.17 Aligned_cols=26 Identities=19% Similarity=0.303 Sum_probs=21.4
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
++..|.++| |- |.||||++..|++.|
T Consensus 5 ~~~iI~I~G----~s----------GsGKTTl~~~l~~~l 30 (209)
T PRK05480 5 KPIIIGIAG----GS----------GSGKTTVASTIYEEL 30 (209)
T ss_pred CCEEEEEEC----CC----------CCCHHHHHHHHHHHh
Confidence 467888888 45 999999998888766
No 94
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=85.88 E-value=0.74 Score=47.22 Aligned_cols=33 Identities=33% Similarity=0.446 Sum_probs=26.4
Q ss_pred EEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 71 YVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 71 ~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
-|+||+ |.- |.||||+|.||+++| ++.|.++..
T Consensus 5 ~i~I~g---t~s----------~~GKT~it~~L~~~L-~~~G~~V~~ 37 (451)
T PRK01077 5 ALVIAA---PAS----------GSGKTTVTLGLMRAL-RRRGLRVQP 37 (451)
T ss_pred EEEEEe---CCC----------CCcHHHHHHHHHHHH-HhCCCCcce
Confidence 477777 456 899999999999999 577876543
No 95
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=85.66 E-value=0.73 Score=47.22 Aligned_cols=142 Identities=21% Similarity=0.360 Sum_probs=83.0
Q ss_pred hcccCceeeecc-hhhhhhcC--CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 46 DLYGKYKAKVLL-SVLDELEG--SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 46 e~YG~yKAKv~l-~~l~~~~~--~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
+.||.++|+-.+ +.+..... ....|+++++| |- |.||||++.-|+.+|+.+ .|+
T Consensus 52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~G----PP----------GsGKStla~~La~~l~~y--------s~t- 108 (361)
T smart00763 52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLG----PV----------GGGKSSLVECLKRGLEEY--------SKT- 108 (361)
T ss_pred hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEEC----CC----------CCCHHHHHHHHHHHHhhh--------ccc-
Confidence 588888886554 33333222 23457778877 45 999999999999999633 233
Q ss_pred CCCCccccccCcCCCCceeeecCccccccc--------------------chhhhHHHHHHhHHHHHHHhhhhcccccCh
Q 044054 123 LQGPTFGIRGGAAGGGYSQVIPMDEFNLHL--------------------TGDIHAITAANNLLAAAIDTRIFHEASQSD 182 (400)
Q Consensus 123 S~GP~FGiKGGAaGGGysQviPmeeiNLHf--------------------TGD~HAItaA~NLlaA~idn~i~~~~~~~~ 182 (400)
.-||.|-+||+. ..-||-|-=||+ .||+--+.. ..+++. |.++- ..
T Consensus 109 ~eG~~Y~~~~~~------~~sp~~e~Pl~l~p~~~r~~~~~~~~~~~~~~~~~l~p~c~------~~l~~e-~~gd~-~~ 174 (361)
T smart00763 109 PEGRRYTFKWNG------EESPMHEDPLHLFPDELREDLEDEYGIPRRRLEGDLSPWCR------KRLDEE-YGGDI-EK 174 (361)
T ss_pred ccCceEEEEecC------CCCCCccCCcccCCHHHHHHHHHHhCCChhhcCCCCCHHHH------HHHHHH-hCCCc-ce
Confidence 468888888764 556776665554 333333311 122221 32221 00
Q ss_pred hHhhhhcCCCCCcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCcee
Q 044054 183 KALFNRLCPPNKEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASIT 240 (400)
Q Consensus 183 ~~l~~rl~p~~~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~ 240 (400)
-..-+..+.+..+.||.+..|.|=..+.+..+. =+||++++.
T Consensus 175 ---------------~~V~~~~~s~~~~~gi~~~~P~D~~~qdi~~L~-G~vd~~k~~ 216 (361)
T smart00763 175 ---------------FEVVRVNFSELRRIGIGKFEPKDENNQDISELT-GKVDIRKLE 216 (361)
T ss_pred ---------------EEEEEecCCeecceEEEEECCCCCCcccHHHHh-cccCHHHhc
Confidence 112233445566779999988887666666554 245555544
No 96
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=85.54 E-value=0.83 Score=42.54 Aligned_cols=33 Identities=30% Similarity=0.209 Sum_probs=26.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFN 149 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiN 149 (400)
|+||||++--|+..|. ... +++...+++||++.
T Consensus 9 GSGKTTla~~L~~~l~-~~~-----------------------~~~~v~vi~~D~f~ 41 (220)
T cd02025 9 AVGKSTTARVLQALLS-RWP-----------------------DHPNVELITTDGFL 41 (220)
T ss_pred CCCHHHHHHHHHHHHh-hcC-----------------------CCCcEEEEecCccc
Confidence 8999999999999884 221 24668899999983
No 97
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=85.27 E-value=0.64 Score=43.03 Aligned_cols=23 Identities=39% Similarity=0.382 Sum_probs=20.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.|||++|.||+++| .+.|.++.
T Consensus 13 ~vGKT~vt~~L~~~l-~~~g~~v~ 35 (231)
T PRK12374 13 SVGKTVVSRALLQAL-ASQGKTVA 35 (231)
T ss_pred CCCHHHHHHHHHHHH-HHCCCeEE
Confidence 899999999999999 47777754
No 98
>PRK05541 adenylylsulfate kinase; Provisional
Probab=84.51 E-value=1.6 Score=38.09 Aligned_cols=35 Identities=26% Similarity=0.482 Sum_probs=28.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
++|++|+++|+ . |.||||++.-|+..|. .-+..++
T Consensus 5 ~~~~~I~i~G~----~----------GsGKst~a~~l~~~l~-~~~~~~~ 39 (176)
T PRK05541 5 PNGYVIWITGL----A----------GSGKTTIAKALYERLK-LKYSNVI 39 (176)
T ss_pred CCCCEEEEEcC----C----------CCCHHHHHHHHHHHHH-HcCCcEE
Confidence 56899999997 3 9999999999999994 4454443
No 99
>PRK06278 cobyrinic acid a,c-diamide synthase; Validated
Probab=83.66 E-value=1.3 Score=46.56 Aligned_cols=61 Identities=20% Similarity=0.191 Sum_probs=37.1
Q ss_pred HHHHHHcCCCCcchhcccCceeeecchhhh-----------hhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhH
Q 044054 32 SEIAQELNLKPNHYDLYGKYKAKVLLSVLD-----------ELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTT 100 (400)
Q Consensus 32 ~eiA~~lGL~~dele~YG~yKAKv~l~~l~-----------~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTtt 100 (400)
..+-+.+|..+|+.|--=+ |-|..-+.+. ....+++ -|+|||. -. |.||||+|
T Consensus 193 ~~~L~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~i~Iagt---~T----------g~GKT~vt 256 (476)
T PRK06278 193 ENFLKYLKIKEDEKEEIFK-KNKILKEKLKSRSGISTNNKKEERNKPK--GIILLAT---GS----------ESGKTFLT 256 (476)
T ss_pred HHHHHHcCCChHHHHHHHH-HhHHHHHHHHHHhcccccccchhhcCCC--eEEEEeC---CC----------CCCHHHHH
Confidence 4466788888887664321 2222111111 1222233 3778774 56 99999999
Q ss_pred HHHHHHHh
Q 044054 101 VGLCQALG 108 (400)
Q Consensus 101 iGL~~aL~ 108 (400)
.||+++|.
T Consensus 257 ~~L~~al~ 264 (476)
T PRK06278 257 TSIAGKLR 264 (476)
T ss_pred HHHHHHHH
Confidence 99999995
No 100
>PRK00784 cobyric acid synthase; Provisional
Probab=83.26 E-value=1.2 Score=46.22 Aligned_cols=33 Identities=36% Similarity=0.433 Sum_probs=26.6
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|-|+||| |.- |.|||++|.||+++| ++.|.++.
T Consensus 3 ~~ifItG---T~T----------~vGKT~vt~~L~~~l-~~~G~~v~ 35 (488)
T PRK00784 3 KALMVQG---TAS----------DAGKSTLVAGLCRIL-ARRGYRVA 35 (488)
T ss_pred ceEEEEe---CCC----------CCcHHHHHHHHHHHH-HHCCCeEe
Confidence 3477777 456 899999999999999 47787755
No 101
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=83.11 E-value=1.5 Score=39.86 Aligned_cols=35 Identities=26% Similarity=0.278 Sum_probs=28.2
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+|..|.+||. . |.||||++..|.+.|. ..|.++..
T Consensus 1 ~g~vIwltGl----s----------GsGKtTlA~~L~~~L~-~~g~~~~~ 35 (156)
T PF01583_consen 1 KGFVIWLTGL----S----------GSGKTTLARALERRLF-ARGIKVYL 35 (156)
T ss_dssp S-EEEEEESS----T----------TSSHHHHHHHHHHHHH-HTTS-EEE
T ss_pred CCEEEEEECC----C----------CCCHHHHHHHHHHHHH-HcCCcEEE
Confidence 3678899987 3 8999999999999994 77888776
No 102
>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=83.09 E-value=1.3 Score=37.97 Aligned_cols=23 Identities=30% Similarity=0.257 Sum_probs=19.8
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.||||+|.||...| ++.|.++.
T Consensus 9 ~~Gkt~~~~~l~~~l-~~~~~~v~ 31 (134)
T cd03109 9 DIGKTVATAILARAL-KEKGYRVA 31 (134)
T ss_pred CcCHHHHHHHHHHHH-HHCCCeEE
Confidence 899999999999999 46677754
No 103
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=82.99 E-value=1.5 Score=37.50 Aligned_cols=29 Identities=31% Similarity=0.355 Sum_probs=24.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|+||||++..|+..+. ..|++++..=-.|
T Consensus 10 g~gkt~~~~~~a~~~~-~~~~~~~~vd~D~ 38 (139)
T cd02038 10 GVGKTNISANLALALA-KLGKRVLLLDADL 38 (139)
T ss_pred CCcHHHHHHHHHHHHH-HCCCcEEEEECCC
Confidence 9999999999999994 7798877755444
No 104
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=82.96 E-value=1.8 Score=41.78 Aligned_cols=27 Identities=30% Similarity=0.380 Sum_probs=22.2
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.+++|++.| |- |.|||||+..|+..+.
T Consensus 193 ~~~vi~~vG----pt----------GvGKTTt~~kLa~~~~ 219 (282)
T TIGR03499 193 QGGVIALVG----PT----------GVGKTTTLAKLAARFV 219 (282)
T ss_pred CCeEEEEEC----CC----------CCCHHHHHHHHHHHHH
Confidence 467777776 35 9999999999999984
No 105
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=82.50 E-value=2.2 Score=43.54 Aligned_cols=42 Identities=19% Similarity=0.290 Sum_probs=30.8
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~ 124 (400)
..+|||||- - |+|||||...|.+.++.......+.++=+|.-
T Consensus 149 ~GlilI~G~----T----------GSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E 190 (372)
T TIGR02525 149 AGLGLICGE----T----------GSGKSTLAASIYQHCGETYPDRKIVTYEDPIE 190 (372)
T ss_pred CCEEEEECC----C----------CCCHHHHHHHHHHHHHhcCCCceEEEEecCch
Confidence 347889874 3 99999999999999853233455778877754
No 106
>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=82.45 E-value=1.3 Score=38.40 Aligned_cols=25 Identities=40% Similarity=0.391 Sum_probs=20.8
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|+||||++.-|+..+. ..|++++.+
T Consensus 10 G~GKTt~~~~la~~~~-~~g~~v~~i 34 (173)
T cd03115 10 GVGKTTTAAKLALYLK-KKGKKVLLV 34 (173)
T ss_pred CCCHHHHHHHHHHHHH-HCCCcEEEE
Confidence 9999999999999994 668776553
No 107
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=82.36 E-value=2 Score=42.59 Aligned_cols=40 Identities=20% Similarity=0.227 Sum_probs=31.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
.+.+|+|+|- - |+|||||...|...+. ...+..+.++-+|
T Consensus 121 ~~g~ili~G~----t----------GSGKTT~l~al~~~i~-~~~~~~i~tiEdp 160 (343)
T TIGR01420 121 PRGLILVTGP----T----------GSGKSTTLASMIDYIN-KNAAGHIITIEDP 160 (343)
T ss_pred cCcEEEEECC----C----------CCCHHHHHHHHHHhhC-cCCCCEEEEEcCC
Confidence 4678899884 3 9999999999998884 3345567788877
No 108
>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=81.97 E-value=1 Score=46.28 Aligned_cols=25 Identities=32% Similarity=0.452 Sum_probs=21.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.||||+|.||+++| ++.|.++...
T Consensus 10 ~vGKT~vt~~L~~~L-~~~G~~V~~f 34 (449)
T TIGR00379 10 GVGKTTISTGIMKAL-SRRKLRVQPF 34 (449)
T ss_pred CCcHHHHHHHHHHHH-HHCCCceeEE
Confidence 999999999999999 5789886553
No 109
>PRK10867 signal recognition particle protein; Provisional
Probab=81.97 E-value=1.9 Score=44.99 Aligned_cols=34 Identities=29% Similarity=0.246 Sum_probs=27.4
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhc-CCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFL-DKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~l-gk~~~~ 117 (400)
-++|++++ |- |+|||||+.-||..|. .. |+++..
T Consensus 100 p~vI~~vG----~~----------GsGKTTtaakLA~~l~-~~~G~kV~l 134 (433)
T PRK10867 100 PTVIMMVG----LQ----------GAGKTTTAGKLAKYLK-KKKKKKVLL 134 (433)
T ss_pred CEEEEEEC----CC----------CCcHHHHHHHHHHHHH-HhcCCcEEE
Confidence 36788886 45 9999999999999994 56 887764
No 110
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=81.75 E-value=1.4 Score=46.13 Aligned_cols=40 Identities=23% Similarity=0.352 Sum_probs=28.8
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
++.| +|+|||- - |+|||||...+.+.++ .-++ .+..+=.|
T Consensus 240 ~~~G-lilitGp----t----------GSGKTTtL~a~L~~l~-~~~~-~iiTiEDp 279 (486)
T TIGR02533 240 RPHG-IILVTGP----T----------GSGKTTTLYAALSRLN-TPER-NILTVEDP 279 (486)
T ss_pred cCCC-EEEEEcC----C----------CCCHHHHHHHHHhccC-CCCC-cEEEEcCC
Confidence 3444 8999984 3 9999999998888884 4444 46666665
No 111
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=81.55 E-value=2.3 Score=43.00 Aligned_cols=44 Identities=20% Similarity=0.268 Sum_probs=33.3
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcC-CcEEEEecCCCCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLD-KKVVTCLRQPLQG 125 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lg-k~~~~~lRqPS~G 125 (400)
.+.+|+|+|- - |+|||||...|++.++...+ ...++.+-.|.--
T Consensus 133 ~~glilI~Gp----T----------GSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~ 177 (358)
T TIGR02524 133 QEGIVFITGA----T----------GSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEF 177 (358)
T ss_pred cCCEEEEECC----C----------CCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceE
Confidence 5779999984 3 99999999999998853333 3467788888653
No 112
>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=81.50 E-value=1.1 Score=43.48 Aligned_cols=24 Identities=33% Similarity=0.486 Sum_probs=21.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|.||||+.+.||.+| ++.|+++..
T Consensus 12 GaGKTT~~~~LAs~l-a~~G~~V~l 35 (231)
T PF07015_consen 12 GAGKTTAAMALASEL-AARGARVAL 35 (231)
T ss_pred CCcHHHHHHHHHHHH-HHCCCeEEE
Confidence 999999999999999 577988765
No 113
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=81.13 E-value=0.99 Score=47.73 Aligned_cols=21 Identities=48% Similarity=0.593 Sum_probs=18.4
Q ss_pred CCccchhHHHHHHHHhhhcCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~ 114 (400)
|.||||+|+||.++|. +-|.+
T Consensus 11 G~GKTTvT~glm~aL~-~rg~~ 31 (451)
T COG1797 11 GSGKTTVTLGLMRALR-RRGLK 31 (451)
T ss_pred CCcHHHHHHHHHHHHH-hcCCc
Confidence 9999999999999994 66655
No 114
>PRK06696 uridine kinase; Validated
Probab=81.03 E-value=2 Score=39.44 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=21.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
-.+|.|+|. - |.||||++-.|++.|+
T Consensus 22 ~~iI~I~G~----s----------gsGKSTlA~~L~~~l~ 47 (223)
T PRK06696 22 PLRVAIDGI----T----------ASGKTTFADELAEEIK 47 (223)
T ss_pred ceEEEEECC----C----------CCCHHHHHHHHHHHHH
Confidence 357888883 5 8999999999999995
No 115
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=80.34 E-value=1.7 Score=35.02 Aligned_cols=15 Identities=47% Similarity=0.616 Sum_probs=13.8
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||++.-|++.+
T Consensus 9 gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 9 GSGKSTLAKELAERL 23 (121)
T ss_dssp TSSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH
Confidence 899999999998877
No 116
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=80.20 E-value=1.7 Score=39.23 Aligned_cols=28 Identities=25% Similarity=0.442 Sum_probs=23.2
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+|.|.+|.++| |- |.||||++.-|++.+
T Consensus 3 ~~~g~vi~I~G----~s----------GsGKSTl~~~l~~~l 30 (207)
T TIGR00235 3 KPKGIIIGIGG----GS----------GSGKTTVARKIYEQL 30 (207)
T ss_pred CCCeEEEEEEC----CC----------CCCHHHHHHHHHHHh
Confidence 47799999998 45 999999887777766
No 117
>PRK03846 adenylylsulfate kinase; Provisional
Probab=79.76 E-value=2.8 Score=37.74 Aligned_cols=35 Identities=29% Similarity=0.254 Sum_probs=27.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.|++|.++|. . |.||||++.-|++.|. ..|..++
T Consensus 22 ~~~~~i~i~G~----~----------GsGKSTla~~l~~~l~-~~~~~~~ 56 (198)
T PRK03846 22 HKGVVLWFTGL----S----------GSGKSTVAGALEEALH-ELGVSTY 56 (198)
T ss_pred CCCEEEEEECC----C----------CCCHHHHHHHHHHHHH-hCCCCEE
Confidence 56899999986 4 8999999999999883 4455433
No 118
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=79.64 E-value=2.5 Score=44.09 Aligned_cols=34 Identities=24% Similarity=0.152 Sum_probs=27.6
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
..+|+++| |- |+|||||+.-|+..|. ..|+++..
T Consensus 95 p~vI~lvG----~~----------GsGKTTtaakLA~~L~-~~g~kV~l 128 (437)
T PRK00771 95 PQTIMLVG----LQ----------GSGKTTTAAKLARYFK-KKGLKVGL 128 (437)
T ss_pred CeEEEEEC----CC----------CCcHHHHHHHHHHHHH-HcCCeEEE
Confidence 46788887 35 9999999999999994 66877665
No 119
>PRK15453 phosphoribulokinase; Provisional
Probab=79.56 E-value=2.4 Score=42.51 Aligned_cols=32 Identities=13% Similarity=0.081 Sum_probs=25.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
+..+|.|||- . |+||||++..|++.|+ +.+.+
T Consensus 4 k~piI~ItG~----S----------GsGKTTva~~l~~if~-~~~~~ 35 (290)
T PRK15453 4 KHPIIAVTGS----S----------GAGTTTVKRAFEKIFR-RENIN 35 (290)
T ss_pred CCcEEEEECC----C----------CCCHHHHHHHHHHHHh-hcCCC
Confidence 4568999985 3 8999999999999994 66643
No 120
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=79.11 E-value=1.8 Score=34.46 Aligned_cols=15 Identities=40% Similarity=0.616 Sum_probs=13.5
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||++--|.+-+
T Consensus 8 GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 8 GSGKTTIAKELAERL 22 (129)
T ss_dssp TSSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH
Confidence 899999998888876
No 121
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=78.82 E-value=2.8 Score=37.68 Aligned_cols=38 Identities=29% Similarity=0.310 Sum_probs=30.0
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.-+.|.+++|+| |. |.||||++.-++..+. ..|.+++.
T Consensus 15 Gi~~g~i~~i~G----~~----------GsGKT~l~~~~a~~~~-~~g~~v~y 52 (218)
T cd01394 15 GVERGTVTQVYG----PP----------GTGKTNIAIQLAVETA-GQGKKVAY 52 (218)
T ss_pred CccCCeEEEEEC----CC----------CCCHHHHHHHHHHHHH-hcCCeEEE
Confidence 347899999999 45 8999999999998883 55666543
No 122
>PRK13975 thymidylate kinase; Provisional
Probab=78.63 E-value=1.9 Score=37.80 Aligned_cols=26 Identities=31% Similarity=0.433 Sum_probs=22.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
|++|++.|+ - |.||||.+.-|++.|+
T Consensus 2 ~~~I~ieG~----~----------GsGKtT~~~~L~~~l~ 27 (196)
T PRK13975 2 NKFIVFEGI----D----------GSGKTTQAKLLAEKLN 27 (196)
T ss_pred CeEEEEECC----C----------CCCHHHHHHHHHHHhC
Confidence 578888886 4 9999999999999994
No 123
>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]
Probab=78.52 E-value=2.7 Score=40.04 Aligned_cols=35 Identities=31% Similarity=0.349 Sum_probs=29.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.+|=.|-+|+.+ |+||||++..|.|+|. ..|+-+.
T Consensus 29 qkGcviWiTGLS--------------gSGKStlACaL~q~L~-qrgkl~Y 63 (207)
T KOG0635|consen 29 QKGCVIWITGLS--------------GSGKSTLACALSQALL-QRGKLTY 63 (207)
T ss_pred CCCcEEEEeccC--------------CCCchhHHHHHHHHHH-hcCceEE
Confidence 569999999983 8999999999999995 5677654
No 124
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=78.41 E-value=2.3 Score=45.19 Aligned_cols=39 Identities=18% Similarity=0.196 Sum_probs=29.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
.-+|||||- - |+|||||-..+...++ ... ..+..+-.|-
T Consensus 316 ~Glilv~G~----t----------GSGKTTtl~a~l~~~~-~~~-~~i~tiEdpv 354 (564)
T TIGR02538 316 QGMVLVTGP----T----------GSGKTVSLYTALNILN-TEE-VNISTAEDPV 354 (564)
T ss_pred CCeEEEECC----C----------CCCHHHHHHHHHHhhC-CCC-ceEEEecCCc
Confidence 348899984 3 9999999988888884 444 4577888773
No 125
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=78.35 E-value=1.8 Score=37.55 Aligned_cols=26 Identities=27% Similarity=0.151 Sum_probs=21.4
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
|++|+|+|- . |.||||++-.|+..+.
T Consensus 1 ~~~~~i~G~----s----------GsGKttl~~~l~~~~~ 26 (179)
T TIGR02322 1 GRLIYVVGP----S----------GAGKDTLLDYARARLA 26 (179)
T ss_pred CcEEEEECC----C----------CCCHHHHHHHHHHHcC
Confidence 567888874 4 9999999999988884
No 126
>PRK07667 uridine kinase; Provisional
Probab=77.95 E-value=3.4 Score=37.29 Aligned_cols=21 Identities=19% Similarity=0.123 Sum_probs=17.2
Q ss_pred CCccchhHHHHHHHHhhhcCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~ 114 (400)
|.||||++.-|++.|+ ..|.+
T Consensus 27 gsGKStla~~L~~~l~-~~~~~ 47 (193)
T PRK07667 27 RSGKTTFVANLKENMK-QEGIP 47 (193)
T ss_pred CCCHHHHHHHHHHHHH-hCCCc
Confidence 8999999999999995 44443
No 127
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=77.95 E-value=2.9 Score=40.27 Aligned_cols=34 Identities=29% Similarity=0.249 Sum_probs=27.7
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|-++||| |.- |-|||++|-+|+++|. .-|.+++.
T Consensus 3 ~~~fVtG---TDT----------~VGKTv~S~aL~~~l~-~~g~~~~~ 36 (223)
T COG0132 3 KRFFVTG---TDT----------GVGKTVVSAALAQALK-QQGYSVAG 36 (223)
T ss_pred ceEEEEe---CCC----------CccHHHHHHHHHHHHH-hCCCeeEE
Confidence 4678888 566 8999999999999994 66888653
No 128
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=77.18 E-value=3.4 Score=39.71 Aligned_cols=40 Identities=25% Similarity=0.233 Sum_probs=34.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE----EecC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT----CLRQ 121 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~----~lRq 121 (400)
.+|..|..|+. . |+||||++-.|.+.| ...|+++.+ .||.
T Consensus 21 ~~~~viW~TGL----S----------GsGKSTiA~ale~~L-~~~G~~~y~LDGDnvR~ 64 (197)
T COG0529 21 QKGAVIWFTGL----S----------GSGKSTIANALEEKL-FAKGYHVYLLDGDNVRH 64 (197)
T ss_pred CCCeEEEeecC----C----------CCCHHHHHHHHHHHH-HHcCCeEEEecChhHhh
Confidence 56889999997 4 999999999999999 478998876 4564
No 129
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=77.11 E-value=2.4 Score=37.22 Aligned_cols=26 Identities=23% Similarity=0.308 Sum_probs=22.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
|++|+++|. - |.||||++.-|++.+.
T Consensus 2 ~~~i~l~G~----~----------gsGKst~a~~l~~~~~ 27 (175)
T cd00227 2 GRIIILNGG----S----------SAGKSSIARALQSVLA 27 (175)
T ss_pred CCEEEEECC----C----------CCCHHHHHHHHHHhhC
Confidence 788888885 3 8999999999998873
No 130
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=76.85 E-value=3.5 Score=36.73 Aligned_cols=35 Identities=26% Similarity=0.254 Sum_probs=26.7
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
-|.|.+++|+| |. |.|||+.+.-++.... +.|.++
T Consensus 9 i~~g~i~~i~G----~~----------GsGKT~l~~~~~~~~~-~~g~~v 43 (209)
T TIGR02237 9 VERGTITQIYG----PP----------GSGKTNICMILAVNAA-RQGKKV 43 (209)
T ss_pred CCCCeEEEEEC----CC----------CCCHHHHHHHHHHHHH-hCCCeE
Confidence 37799999999 45 9999999988877663 445443
No 131
>PRK06762 hypothetical protein; Provisional
Probab=76.76 E-value=2.3 Score=36.47 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=20.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.++|+++|. . |.||||.+.-|++.+
T Consensus 2 ~~li~i~G~----~----------GsGKST~A~~L~~~l 26 (166)
T PRK06762 2 TTLIIIRGN----S----------GSGKTTIAKQLQERL 26 (166)
T ss_pred CeEEEEECC----C----------CCCHHHHHHHHHHHh
Confidence 367888886 3 899999999998887
No 132
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=76.76 E-value=3.8 Score=39.37 Aligned_cols=39 Identities=23% Similarity=0.284 Sum_probs=28.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
+.+|+|+|- - |+|||||...|.+.+. ..++ .++.+=+|.
T Consensus 80 ~GlilisG~----t----------GSGKTT~l~all~~i~-~~~~-~iitiEdp~ 118 (264)
T cd01129 80 HGIILVTGP----T----------GSGKTTTLYSALSELN-TPEK-NIITVEDPV 118 (264)
T ss_pred CCEEEEECC----C----------CCcHHHHHHHHHhhhC-CCCC-eEEEECCCc
Confidence 458899885 3 8999999999999884 4333 466676653
No 133
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=76.49 E-value=4.1 Score=36.98 Aligned_cols=30 Identities=23% Similarity=0.395 Sum_probs=23.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
|.||||+...|...+. .-.+..+.++-+|-
T Consensus 11 GSGKTTll~~ll~~~~-~~~~~~i~t~e~~~ 40 (198)
T cd01131 11 GSGKSTTLAAMIDYIN-KNKTHHILTIEDPI 40 (198)
T ss_pred CCCHHHHHHHHHHHhh-hcCCcEEEEEcCCc
Confidence 9999999999998884 33345677787764
No 134
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=76.40 E-value=1.9 Score=44.91 Aligned_cols=23 Identities=30% Similarity=0.302 Sum_probs=20.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.||||+|.||+++| .+.|.++.
T Consensus 12 ~~GKT~vt~gl~~~l-~~~g~~v~ 34 (433)
T PRK13896 12 GVGKTVATLATIRAL-EDAGYAVQ 34 (433)
T ss_pred CCCHHHHHHHHHHHH-HHCCCeeE
Confidence 999999999999999 47787764
No 135
>PRK13974 thymidylate kinase; Provisional
Probab=74.99 E-value=5.2 Score=36.63 Aligned_cols=43 Identities=26% Similarity=0.220 Sum_probs=33.1
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCC----cEEEEecCCCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDK----KVVTCLRQPLQGP 126 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk----~~~~~lRqPS~GP 126 (400)
|++|++-|+ - |+||||.+--|++.|. .-|+ ..+...|+|.-.|
T Consensus 3 g~~i~~eG~----d----------GsGKsT~~~~l~~~l~-~~g~~~~~~~~~~~~~p~~~~ 49 (212)
T PRK13974 3 GKFIVLEGI----D----------GCGKTTQIDHLSKWLP-SSGLMPKGAKLIITREPGGTL 49 (212)
T ss_pred CcEEEEECC----C----------CCCHHHHHHHHHHHHH-hcCccccCCeeeeeeCCCCCc
Confidence 788888887 3 8999999999999994 3443 3567788987444
No 136
>PLN02348 phosphoribulokinase
Probab=74.87 E-value=4.5 Score=42.16 Aligned_cols=16 Identities=44% Similarity=0.515 Sum_probs=15.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||++..|++.|+
T Consensus 59 GSGKSTfA~~L~~~Lg 74 (395)
T PLN02348 59 GCGKSTFMRRLTSVFG 74 (395)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 8999999999999995
No 137
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=74.06 E-value=3.7 Score=40.06 Aligned_cols=27 Identities=30% Similarity=0.284 Sum_probs=22.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.++.|+++|. - |.||||++.-|++.|+
T Consensus 132 ~~~~I~l~G~----~----------GsGKStvg~~La~~Lg 158 (309)
T PRK08154 132 RRRRIALIGL----R----------GAGKSTLGRMLAARLG 158 (309)
T ss_pred CCCEEEEECC----C----------CCCHHHHHHHHHHHcC
Confidence 5788999987 3 9999999999988773
No 138
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=73.66 E-value=7 Score=30.45 Aligned_cols=28 Identities=18% Similarity=0.134 Sum_probs=23.2
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+.++.|+|+|- - |.||||++.-+++.+.
T Consensus 17 ~~~~~v~i~G~----~----------G~GKT~l~~~i~~~~~ 44 (151)
T cd00009 17 PPPKNLLLYGP----P----------GTGKTTLARAIANELF 44 (151)
T ss_pred CCCCeEEEECC----C----------CCCHHHHHHHHHHHhh
Confidence 46788999874 4 9999999999998883
No 139
>PRK04040 adenylate kinase; Provisional
Probab=73.42 E-value=2.9 Score=38.13 Aligned_cols=25 Identities=32% Similarity=0.254 Sum_probs=21.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.+.|+|||+ - |.||||++.-|++.|
T Consensus 2 ~~~i~v~G~----p----------G~GKtt~~~~l~~~l 26 (188)
T PRK04040 2 MKVVVVTGV----P----------GVGKTTVLNKALEKL 26 (188)
T ss_pred CeEEEEEeC----C----------CCCHHHHHHHHHHHh
Confidence 368899987 2 899999999999988
No 140
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=73.31 E-value=4.7 Score=37.63 Aligned_cols=39 Identities=18% Similarity=0.261 Sum_probs=29.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
.++.|+|+|-| |+||||+...|.+.+. .. ...++++=+|
T Consensus 126 ~~~~ili~G~t--------------GSGKTT~l~all~~i~-~~-~~~iv~iEd~ 164 (270)
T PF00437_consen 126 GRGNILISGPT--------------GSGKTTLLNALLEEIP-PE-DERIVTIEDP 164 (270)
T ss_dssp TTEEEEEEEST--------------TSSHHHHHHHHHHHCH-TT-TSEEEEEESS
T ss_pred cceEEEEECCC--------------ccccchHHHHHhhhcc-cc-ccceEEeccc
Confidence 47899999863 9999999999998884 33 3566666653
No 141
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=72.84 E-value=5 Score=36.32 Aligned_cols=37 Identities=30% Similarity=0.351 Sum_probs=28.8
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.-+.|++++|+| |. |.||||++.-++..+ ...|.+++
T Consensus 19 Gi~~g~i~~i~G----~~----------GsGKT~l~~~la~~~-~~~~~~v~ 55 (225)
T PRK09361 19 GFERGTITQIYG----PP----------GSGKTNICLQLAVEA-AKNGKKVI 55 (225)
T ss_pred CCCCCeEEEEEC----CC----------CCCHHHHHHHHHHHH-HHCCCeEE
Confidence 337899999999 55 899999999998877 34465544
No 142
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=72.66 E-value=5.6 Score=36.97 Aligned_cols=35 Identities=29% Similarity=0.308 Sum_probs=27.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.+|-+.+.|+ - |-||||.++||+-.. ...|.++..
T Consensus 4 ~~Gli~v~~g-----~----------GkGKtt~a~g~a~ra-~~~g~~v~i 38 (173)
T TIGR00708 4 ERGIIIVHTG-----N----------GKGKTTAAFGMALRA-LGHGKKVGV 38 (173)
T ss_pred cccEEEEECC-----C----------CCChHHHHHHHHHHH-HHCCCeEEE
Confidence 3587888866 3 999999999999887 467888754
No 143
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=72.34 E-value=6.1 Score=36.02 Aligned_cols=36 Identities=31% Similarity=0.379 Sum_probs=27.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
+.++++|+| |+ |.||||+...+.+++. .-|++++++
T Consensus 17 ~~~~~~l~G----~a----------GtGKT~~l~~~~~~~~-~~g~~v~~~ 52 (196)
T PF13604_consen 17 GDRVSVLQG----PA----------GTGKTTLLKALAEALE-AAGKRVIGL 52 (196)
T ss_dssp TCSEEEEEE----ST----------TSTHHHHHHHHHHHHH-HTT--EEEE
T ss_pred CCeEEEEEE----CC----------CCCHHHHHHHHHHHHH-hCCCeEEEE
Confidence 457999988 47 9999999999999994 556665544
No 144
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=71.60 E-value=3.7 Score=36.49 Aligned_cols=15 Identities=33% Similarity=0.572 Sum_probs=12.9
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||++--|+..|
T Consensus 9 GsGKSTl~~~l~~~l 23 (198)
T cd02023 9 GSGKTTVAEEIIEQL 23 (198)
T ss_pred CCCHHHHHHHHHHHh
Confidence 999999998887766
No 145
>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=71.30 E-value=3.6 Score=35.06 Aligned_cols=39 Identities=23% Similarity=0.140 Sum_probs=27.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecC-CCCCCcccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQ-PLQGPTFGIRG 132 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRq-PS~GP~FGiKG 132 (400)
|.||||++.-|++.| +..|+++.+.=-. ||+-.-|+.+.
T Consensus 9 G~GKTt~a~~la~~l-~~~g~~V~~id~D~~~~~~~~~~~~ 48 (116)
T cd02034 9 GVGKTTIAALLARYL-AEKGKPVLAIDADPDDLPERLSVEV 48 (116)
T ss_pred CCCHHHHHHHHHHHH-HHCCCcEEEEECCchhhHHHHhhcc
Confidence 899999999999999 5778876643333 45544455554
No 146
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=70.85 E-value=2.9 Score=36.76 Aligned_cols=24 Identities=33% Similarity=0.531 Sum_probs=19.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
|.||||.+.-|++.+ | +.+++||.
T Consensus 9 GsGKSTl~~~L~~~~----~---~~~~~Ep~ 32 (193)
T cd01673 9 GAGKSTLAKELAEHL----G---YEVVPEPV 32 (193)
T ss_pred CCCHHHHHHHHHHHh----C---Cccccccc
Confidence 999999999888765 2 34679986
No 147
>PF05729 NACHT: NACHT domain
Probab=70.83 E-value=4.6 Score=33.32 Aligned_cols=16 Identities=50% Similarity=0.565 Sum_probs=15.0
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||+...+++.+.
T Consensus 10 G~GKStll~~~~~~~~ 25 (166)
T PF05729_consen 10 GSGKSTLLRKLAQQLA 25 (166)
T ss_pred CCChHHHHHHHHHHHH
Confidence 9999999999999994
No 148
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=70.61 E-value=4.9 Score=36.08 Aligned_cols=21 Identities=29% Similarity=0.284 Sum_probs=16.8
Q ss_pred CCccchhHHHHHHHHhhhcCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~ 114 (400)
|.||||++--|++.|. ..|.+
T Consensus 9 gsGKttla~~l~~~l~-~~~~~ 29 (179)
T cd02028 9 GSGKTTFAKKLSNQLR-VNGIG 29 (179)
T ss_pred CCCHHHHHHHHHHHHH-HcCCC
Confidence 8999999999999994 33443
No 149
>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=70.59 E-value=6.1 Score=41.43 Aligned_cols=34 Identities=21% Similarity=0.119 Sum_probs=27.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
-++|+++|. - |.|||||+.-|+..| .+.|+++.+
T Consensus 100 ~~vi~lvG~----~----------GvGKTTtaaKLA~~l-~~~G~kV~l 133 (429)
T TIGR01425 100 QNVIMFVGL----Q----------GSGKTTTCTKLAYYY-QRKGFKPCL 133 (429)
T ss_pred CeEEEEECC----C----------CCCHHHHHHHHHHHH-HHCCCCEEE
Confidence 357778773 4 999999999999999 467887654
No 150
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=69.97 E-value=6.3 Score=41.43 Aligned_cols=35 Identities=26% Similarity=0.168 Sum_probs=27.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
..+++|+++| |- |.|||||...|+..+. .-|+++.
T Consensus 204 ~~~~ii~lvG----pt----------GvGKTTt~akLA~~l~-~~g~~V~ 238 (407)
T PRK12726 204 SNHRIISLIG----QT----------GVGKTTTLVKLGWQLL-KQNRTVG 238 (407)
T ss_pred cCCeEEEEEC----CC----------CCCHHHHHHHHHHHHH-HcCCeEE
Confidence 3578888887 45 8999999999998883 5576654
No 151
>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=69.96 E-value=3.9 Score=42.59 Aligned_cols=25 Identities=40% Similarity=0.359 Sum_probs=20.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|+|||||+.-||..|..+.|+++..
T Consensus 109 GsGKTTtaakLA~~l~~~~g~kV~l 133 (428)
T TIGR00959 109 GSGKTTTCGKLAYYLKKKQGKKVLL 133 (428)
T ss_pred CCcHHHHHHHHHHHHHHhCCCeEEE
Confidence 9999999999999983256887754
No 152
>PRK05632 phosphate acetyltransferase; Reviewed
Probab=69.89 E-value=2.9 Score=45.45 Aligned_cols=26 Identities=31% Similarity=0.429 Sum_probs=21.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
|.|||++|.||+++| .+.|.++. ..|
T Consensus 13 ~~GKT~vslgL~~~L-~~~G~~Vg-~fK 38 (684)
T PRK05632 13 GVGLTSVSLGLMRAL-ERKGVKVG-FFK 38 (684)
T ss_pred CCCHHHHHHHHHHHH-HhCCCeEE-EeC
Confidence 899999999999999 47787744 455
No 153
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=69.42 E-value=7.6 Score=34.19 Aligned_cols=33 Identities=24% Similarity=0.255 Sum_probs=26.4
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
..|++|+++|. . |.||||++-.|...+. .-|..
T Consensus 16 ~~~~~i~i~G~----~----------GsGKstla~~l~~~l~-~~~~~ 48 (184)
T TIGR00455 16 HRGVVIWLTGL----S----------GSGKSTIANALEKKLE-SKGYR 48 (184)
T ss_pred CCCeEEEEECC----C----------CCCHHHHHHHHHHHHH-HcCCc
Confidence 56899999986 3 8999999999999883 44443
No 154
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=68.92 E-value=6.9 Score=35.45 Aligned_cols=36 Identities=22% Similarity=0.277 Sum_probs=26.4
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
.=+.|..++|+| |. |.||||++.-++-.. ..-|+++
T Consensus 16 Gi~~G~~~~i~G----~~----------G~GKT~l~~~~~~~~-~~~g~~~ 51 (229)
T TIGR03881 16 GIPRGFFVAVTG----EP----------GTGKTIFCLHFAYKG-LRDGDPV 51 (229)
T ss_pred CCcCCeEEEEEC----CC----------CCChHHHHHHHHHHH-HhcCCeE
Confidence 347799999999 66 999999998876543 1336554
No 155
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=68.89 E-value=4.1 Score=38.54 Aligned_cols=23 Identities=43% Similarity=0.653 Sum_probs=19.5
Q ss_pred EEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 72 VVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 72 VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
||||| || |.||||++.-|+..++
T Consensus 10 ILvtG---TP-----------G~GKstl~~~lae~~~ 32 (176)
T KOG3347|consen 10 ILVTG---TP-----------GTGKSTLAERLAEKTG 32 (176)
T ss_pred EEEeC---CC-----------CCCchhHHHHHHHHhC
Confidence 88988 56 7999999999997773
No 156
>PHA00729 NTP-binding motif containing protein
Probab=68.73 E-value=4 Score=39.41 Aligned_cols=16 Identities=25% Similarity=0.420 Sum_probs=14.9
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++..|++.++
T Consensus 27 GvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 27 GSGKTTYALKVARDVF 42 (226)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 8999999999999884
No 157
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=68.58 E-value=5.2 Score=37.16 Aligned_cols=23 Identities=35% Similarity=0.394 Sum_probs=18.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.||||.+..|++.|. ..|.+++
T Consensus 9 GSGKST~a~~La~~l~-~~~~~v~ 31 (249)
T TIGR03574 9 GVGKSTFSKELAKKLS-EKNIDVI 31 (249)
T ss_pred CCCHHHHHHHHHHHHH-HcCCceE
Confidence 8999999999999994 4555543
No 158
>PRK13886 conjugal transfer protein TraL; Provisional
Probab=68.35 E-value=4.7 Score=39.16 Aligned_cols=37 Identities=27% Similarity=0.271 Sum_probs=27.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCc-cccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPT-FGIR 131 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~-FGiK 131 (400)
|.||||++..|+++| ++.|+++.+.=-.|+ .|+ .|.|
T Consensus 13 GvGKSt~a~~la~~l-~~~g~~vl~iD~D~~-n~~~~~~~ 50 (241)
T PRK13886 13 GVGKSFIAATIAQYK-ASKGQKPLCIDTDPV-NATFEGYK 50 (241)
T ss_pred CCcHHHHHHHHHHHH-HhCCCCEEEEECCCC-CchhhhHH
Confidence 999999999999999 578988654435555 354 3454
No 159
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=68.18 E-value=4.2 Score=31.08 Aligned_cols=16 Identities=44% Similarity=0.729 Sum_probs=14.8
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++..|+..+.
T Consensus 12 G~GKTtl~~~l~~~~~ 27 (148)
T smart00382 12 GSGKTTLARALARELG 27 (148)
T ss_pred CCcHHHHHHHHHhccC
Confidence 9999999999999884
No 160
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=68.08 E-value=3.4 Score=34.80 Aligned_cols=16 Identities=50% Similarity=0.733 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.++
T Consensus 9 GsGKST~a~~l~~~~~ 24 (150)
T cd02021 9 GSGKSTVGKALAERLG 24 (150)
T ss_pred CCCHHHHHHHHHhhcC
Confidence 8999999999988873
No 161
>PRK03839 putative kinase; Provisional
Probab=67.94 E-value=4.7 Score=35.24 Aligned_cols=16 Identities=44% Similarity=0.632 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.++
T Consensus 10 GsGKsT~~~~La~~~~ 25 (180)
T PRK03839 10 GVGKTTVSKLLAEKLG 25 (180)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999999873
No 162
>PRK13946 shikimate kinase; Provisional
Probab=67.92 E-value=4.2 Score=36.24 Aligned_cols=26 Identities=38% Similarity=0.471 Sum_probs=22.1
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.+.|+|+|+ . |.||||++.-|++.|+
T Consensus 10 ~~~I~l~G~----~----------GsGKsti~~~LA~~Lg 35 (184)
T PRK13946 10 KRTVVLVGL----M----------GAGKSTVGRRLATMLG 35 (184)
T ss_pred CCeEEEECC----C----------CCCHHHHHHHHHHHcC
Confidence 457999997 3 8999999999999884
No 163
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=67.79 E-value=8.1 Score=39.60 Aligned_cols=75 Identities=23% Similarity=0.306 Sum_probs=46.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCccccccc---------chhhhHHHHHH
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHL---------TGDIHAITAAN 163 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHf---------TGD~HAItaA~ 163 (400)
|.||||+.-.|.+-| .+-|+++.+--=.||-- ..||+==| -=+-|.+++-|- -|=.--|+.|-
T Consensus 61 GaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp----~TGGsiLG---DRiRM~~~~~~~~vFiRs~~srG~lGGlS~at 132 (323)
T COG1703 61 GAGKSTLIEALGREL-RERGHRVAVLAVDPSSP----FTGGSILG---DRIRMQRLAVDPGVFIRSSPSRGTLGGLSRAT 132 (323)
T ss_pred CCchHHHHHHHHHHH-HHCCcEEEEEEECCCCC----CCCccccc---cHhhHHhhccCCCeEEeecCCCccchhhhHHH
Confidence 799999999999999 58899887766677754 23332111 114455555321 13333355555
Q ss_pred hHHHHHHHhhhh
Q 044054 164 NLLAAAIDTRIF 175 (400)
Q Consensus 164 NLlaA~idn~i~ 175 (400)
+=+.+++|+.=|
T Consensus 133 ~~~i~~ldAaG~ 144 (323)
T COG1703 133 REAIKLLDAAGY 144 (323)
T ss_pred HHHHHHHHhcCC
Confidence 555666776544
No 164
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=67.74 E-value=4.9 Score=34.76 Aligned_cols=15 Identities=40% Similarity=0.607 Sum_probs=13.8
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.|||||...++..+
T Consensus 27 GTGKT~~l~~~i~~~ 41 (236)
T PF13086_consen 27 GTGKTTTLASIIAQL 41 (236)
T ss_dssp TSSHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHh
Confidence 999999999988888
No 165
>PLN02165 adenylate isopentenyltransferase
Probab=67.71 E-value=4.6 Score=41.14 Aligned_cols=29 Identities=31% Similarity=0.377 Sum_probs=24.4
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
++.|++|++.|- | |.||||+++-|++.++
T Consensus 40 ~~~g~iivIiGP--T------------GSGKStLA~~LA~~l~ 68 (334)
T PLN02165 40 NCKDKVVVIMGA--T------------GSGKSRLSVDLATRFP 68 (334)
T ss_pred CCCCCEEEEECC--C------------CCcHHHHHHHHHHHcC
Confidence 467998888873 3 8999999999999984
No 166
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=67.50 E-value=5.7 Score=34.17 Aligned_cols=25 Identities=16% Similarity=0.145 Sum_probs=20.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.++|+|.|. - |.||||++.-|++.+
T Consensus 3 ~~ii~i~G~----~----------GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 3 CKIIFIVGG----P----------GSGKGTQCEKIVEKY 27 (188)
T ss_pred CcEEEEECC----C----------CCCHHHHHHHHHHHh
Confidence 457888775 3 899999999998876
No 167
>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]
Probab=66.98 E-value=5.8 Score=40.26 Aligned_cols=50 Identities=42% Similarity=0.468 Sum_probs=40.7
Q ss_pred EEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccccCc
Q 044054 71 YVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRGGA 134 (400)
Q Consensus 71 ~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKGGA 134 (400)
.|+|++ |.| |.||||||.=|+-+| ++.|+++.+ -|=-||+==-||.+|-.
T Consensus 49 iI~VlS------GKG-------GVGKSTvt~nla~~L-a~~g~~vglLD~Dl~GPSiP~m~g~e~~~ 101 (300)
T KOG3022|consen 49 IILVLS------GKG-------GVGKSTVTVNLALAL-ASEGKKVGLLDADLCGPSIPRMMGLEGEV 101 (300)
T ss_pred EEEEEe------CCC-------CCchhHHHHHHHHHH-hcCCCcEEEEeecccCCCchhhcCCCCce
Confidence 677765 555 999999999999999 578888765 56778887779999875
No 168
>PRK06217 hypothetical protein; Validated
Probab=66.83 E-value=4.1 Score=36.09 Aligned_cols=16 Identities=31% Similarity=0.530 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.|+
T Consensus 11 GsGKSTla~~L~~~l~ 26 (183)
T PRK06217 11 GSGTTTLGAALAERLD 26 (183)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 8999999999998773
No 169
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=66.77 E-value=8.3 Score=35.33 Aligned_cols=50 Identities=22% Similarity=0.183 Sum_probs=34.5
Q ss_pred hhhhhh--cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE-EEEecCC
Q 044054 58 SVLDEL--EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV-VTCLRQP 122 (400)
Q Consensus 58 ~~l~~~--~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~-~~~lRqP 122 (400)
.-||++ ..-|.|..++|+| |. |.||||.+..++... .+.|.++ ++.+.++
T Consensus 12 ~~LD~~l~gG~~~g~~~~i~G----~~----------GsGKt~l~~~~~~~~-~~~g~~~~y~~~e~~ 64 (234)
T PRK06067 12 EELDRKLGGGIPFPSLILIEG----DH----------GTGKSVLSQQFVYGA-LKQGKKVYVITTENT 64 (234)
T ss_pred HHHHHhhCCCCcCCcEEEEEC----CC----------CCChHHHHHHHHHHH-HhCCCEEEEEEcCCC
Confidence 345553 2447899999998 34 899999999986654 2346665 4455555
No 170
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=66.40 E-value=8.7 Score=39.72 Aligned_cols=25 Identities=36% Similarity=0.420 Sum_probs=20.6
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|++|++.+ |- |.|||||+..|+-.+
T Consensus 221 ~~~i~~vG----pt----------GvGKTTt~~kLA~~~ 245 (424)
T PRK05703 221 GGVVALVG----PT----------GVGKTTTLAKLAARY 245 (424)
T ss_pred CcEEEEEC----CC----------CCCHHHHHHHHHHHH
Confidence 67777764 35 999999999999988
No 171
>PRK14527 adenylate kinase; Provisional
Probab=66.20 E-value=6.2 Score=35.11 Aligned_cols=28 Identities=32% Similarity=0.354 Sum_probs=23.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+.+++|+|.|- - |.||||.+.-|++.++
T Consensus 4 ~~~~~i~i~G~----p----------GsGKsT~a~~La~~~~ 31 (191)
T PRK14527 4 TKNKVVIFLGP----P----------GAGKGTQAERLAQELG 31 (191)
T ss_pred CCCcEEEEECC----C----------CCCHHHHHHHHHHHhC
Confidence 46889999984 4 8999999999998884
No 172
>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity.; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.
Probab=66.03 E-value=5.5 Score=37.86 Aligned_cols=65 Identities=31% Similarity=0.408 Sum_probs=39.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCC-----CCCCccccccCcCCCCceeee----cCcccccccchhhhHHHHHH
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQP-----LQGPTFGIRGGAAGGGYSQVI----PMDEFNLHLTGDIHAITAAN 163 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqP-----S~GP~FGiKGGAaGGGysQvi----PmeeiNLHfTGD~HAItaA~ 163 (400)
|+||||.+-++.|-+ ...|+++...==.| ...|-+-|+ ..+ =|++.+| |--=|+..|=
T Consensus 6 GSGKTT~~~~~~~~~-~~~~~~~~~vNLDPa~~~~~y~~~iDir---------d~i~~~evm~~~~L---GPNGal~~~m 72 (238)
T PF03029_consen 6 GSGKTTFCKGLSEWL-ESNGRDVYIVNLDPAVENLPYPPDIDIR---------DLISVEEVMEEYGL---GPNGALIYCM 72 (238)
T ss_dssp TSSHHHHHHHHHHHH-TTT-S-EEEEE--TT-S--SS--SEEGG---------GT--HHHHHTT-T-----HHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH-HhccCCceEEEcchHhcccccCchHHHH---------hhhhhhhhhhhcCc---CCcHHHHHHH
Confidence 999999999999999 47777766532233 223333333 111 1788888 6677888888
Q ss_pred hHHHHHH
Q 044054 164 NLLAAAI 170 (400)
Q Consensus 164 NLlaA~i 170 (400)
+++..-+
T Consensus 73 e~l~~~~ 79 (238)
T PF03029_consen 73 EYLEENI 79 (238)
T ss_dssp HHHGGGH
T ss_pred HHHHHHH
Confidence 8877766
No 173
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=65.92 E-value=4.6 Score=36.15 Aligned_cols=21 Identities=33% Similarity=0.317 Sum_probs=17.8
Q ss_pred CCccchhHHHHHHHHhhhcCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~ 114 (400)
|+||||+|.-|++.|+ ..|..
T Consensus 9 gSGKTTla~~L~~~L~-~~~~~ 29 (194)
T PF00485_consen 9 GSGKTTLAKRLAQILN-KRGIP 29 (194)
T ss_dssp TSSHHHHHHHHHHHHT-TCTTT
T ss_pred CCCHHHHHHHHHHHhC-ccCcC
Confidence 8999999999999995 45554
No 174
>PRK13764 ATPase; Provisional
Probab=65.74 E-value=8.4 Score=42.08 Aligned_cols=37 Identities=22% Similarity=0.293 Sum_probs=27.0
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
.+.|||||- - |.||||+...|++.+. .-++ .+.++-.
T Consensus 257 ~~~ILIsG~----T----------GSGKTTll~AL~~~i~-~~~r-iV~TiED 293 (602)
T PRK13764 257 AEGILIAGA----P----------GAGKSTFAQALAEFYA-DMGK-IVKTMES 293 (602)
T ss_pred CCEEEEECC----C----------CCCHHHHHHHHHHHHh-hCCC-EEEEECC
Confidence 456899984 3 9999999999999995 4444 3445543
No 175
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=65.73 E-value=9.6 Score=39.25 Aligned_cols=33 Identities=27% Similarity=0.248 Sum_probs=24.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk 113 (400)
++|+.|++.| |- |.|||||..-|+..+..+.|.
T Consensus 135 ~~g~ii~lvG----pt----------GvGKTTtiakLA~~~~~~~G~ 167 (374)
T PRK14722 135 ERGGVFALMG----PT----------GVGKTTTTAKLAARCVMRFGA 167 (374)
T ss_pred cCCcEEEEEC----CC----------CCCHHHHHHHHHHHHHHhcCC
Confidence 3577777766 34 999999999999876334454
No 176
>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....
Probab=65.55 E-value=3.7 Score=35.75 Aligned_cols=16 Identities=50% Similarity=0.628 Sum_probs=15.1
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||+..-|++.|+
T Consensus 2 GsGKStvg~~lA~~L~ 17 (158)
T PF01202_consen 2 GSGKSTVGKLLAKRLG 17 (158)
T ss_dssp TSSHHHHHHHHHHHHT
T ss_pred CCcHHHHHHHHHHHhC
Confidence 8999999999999995
No 177
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=65.18 E-value=6.1 Score=34.95 Aligned_cols=43 Identities=30% Similarity=0.341 Sum_probs=33.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
+|.|+++| |. |.||||+.--|.+.+..+++.-..-+-|.|-.|
T Consensus 2 ~r~ivl~G----ps----------g~GK~~l~~~L~~~~~~~~~~~v~~TTR~~r~~ 44 (183)
T PF00625_consen 2 RRPIVLVG----PS----------GSGKSTLAKRLIQEFPDKFGRVVSHTTRPPRPG 44 (183)
T ss_dssp SSEEEEES----ST----------TSSHHHHHHHHHHHSTTTEEEEEEEESS-GGTT
T ss_pred CCEEEEEC----CC----------CCCHHHHHHHHHHhcccccccceeecccCCccc
Confidence 56677765 56 999999999999998656776667788998766
No 178
>PRK06761 hypothetical protein; Provisional
Probab=64.98 E-value=7.6 Score=38.48 Aligned_cols=40 Identities=23% Similarity=0.118 Sum_probs=30.6
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~ 124 (400)
+++|+|+|. - |.||||++.-|++.|. ..|.++.. .++|..
T Consensus 3 ~~lIvI~G~----~----------GsGKTTla~~L~~~L~-~~g~~v~~-~~~~~~ 42 (282)
T PRK06761 3 TKLIIIEGL----P----------GFGKSTTAKMLNDILS-QNGIEVEL-YLEGNL 42 (282)
T ss_pred CcEEEEECC----C----------CCCHHHHHHHHHHhcC-cCceEEEE-EecCCC
Confidence 578999986 3 8999999999999994 55766544 555544
No 179
>PRK13948 shikimate kinase; Provisional
Probab=64.77 E-value=6.4 Score=36.15 Aligned_cols=28 Identities=29% Similarity=0.336 Sum_probs=21.5
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+.+..|+++|+ . |.||||++.-|++.|+
T Consensus 8 ~~~~~I~LiG~----~----------GsGKSTvg~~La~~lg 35 (182)
T PRK13948 8 RPVTWVALAGF----M----------GTGKSRIGWELSRALM 35 (182)
T ss_pred CCCCEEEEECC----C----------CCCHHHHHHHHHHHcC
Confidence 44566777775 3 9999999999988873
No 180
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=64.50 E-value=8.4 Score=36.86 Aligned_cols=47 Identities=32% Similarity=0.414 Sum_probs=39.8
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCcccc
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGI 130 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGi 130 (400)
+|+++++|| |. |.||||+...|-+.. .+...+-.+=|+|--|=+=|+
T Consensus 3 ~G~l~vlsg----PS----------G~GKsTl~k~L~~~~--~l~~SVS~TTR~pR~gEv~G~ 49 (191)
T COG0194 3 KGLLIVLSG----PS----------GVGKSTLVKALLEDD--KLRFSVSATTRKPRPGEVDGV 49 (191)
T ss_pred CceEEEEEC----CC----------CCCHHHHHHHHHhhc--CeEEEEEeccCCCCCCCcCCc
Confidence 699999997 78 999999999998888 477788889999999865543
No 181
>PRK05439 pantothenate kinase; Provisional
Probab=64.27 E-value=8.3 Score=38.72 Aligned_cols=34 Identities=26% Similarity=0.168 Sum_probs=25.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNL 150 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNL 150 (400)
|.||||++--|.+.|+ +.. +|-..+|++||+|-+
T Consensus 96 gsGKSTla~~L~~~l~-~~~-----------------------~~~~v~vi~~DdFy~ 129 (311)
T PRK05439 96 AVGKSTTARLLQALLS-RWP-----------------------EHPKVELVTTDGFLY 129 (311)
T ss_pred CCCHHHHHHHHHHHHH-hhC-----------------------CCCceEEEecccccc
Confidence 5999999999999884 331 123468999999854
No 182
>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]
Probab=64.00 E-value=6.1 Score=39.65 Aligned_cols=40 Identities=45% Similarity=0.454 Sum_probs=31.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGG 133 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGG 133 (400)
|-|||||+.-|+-|| +.+||+++..==.|--=-|+-+-||
T Consensus 11 GIGKSTts~N~aAAl-a~~GkkVl~vGCDPKaDSTr~Llgg 50 (278)
T COG1348 11 GIGKSTTSQNLAAAL-AELGKKVLIVGCDPKADSTRLLLGG 50 (278)
T ss_pred CcCcchhHHHHHHHH-HHcCCeEEEEcCCCCcchHHHHhCC
Confidence 789999999999999 6899999876556655555544443
No 183
>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=63.77 E-value=13 Score=36.12 Aligned_cols=41 Identities=27% Similarity=0.182 Sum_probs=31.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
..++.|.|++- - |.||||+...|+..+. ..|.++.+.-=.|
T Consensus 32 ~~~~~i~i~G~----~----------G~GKttl~~~l~~~~~-~~~~~v~~i~~D~ 72 (300)
T TIGR00750 32 GNAHRVGITGT----P----------GAGKSTLLEALGMELR-RRGLKVAVIAVDP 72 (300)
T ss_pred CCceEEEEECC----C----------CCCHHHHHHHHHHHHH-HCCCeEEEEecCC
Confidence 46889998863 4 8999999999999994 6788776543333
No 184
>PRK14738 gmk guanylate kinase; Provisional
Probab=63.69 E-value=9 Score=35.02 Aligned_cols=27 Identities=26% Similarity=0.388 Sum_probs=21.1
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ 105 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~ 105 (400)
+.+++++|+++| |. |.||||+.-.|.+
T Consensus 9 ~~~~~~~ivi~G----ps----------G~GK~tl~~~L~~ 35 (206)
T PRK14738 9 KPAKPLLVVISG----PS----------GVGKDAVLARMRE 35 (206)
T ss_pred CCCCCeEEEEEC----cC----------CCCHHHHHHHHHh
Confidence 446799999998 45 9999997766653
No 185
>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=63.44 E-value=6.9 Score=36.10 Aligned_cols=23 Identities=43% Similarity=0.458 Sum_probs=17.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.|||||..-|+..+..+ |+++.
T Consensus 11 GvGKTTt~aKLAa~~~~~-~~~v~ 33 (196)
T PF00448_consen 11 GVGKTTTIAKLAARLKLK-GKKVA 33 (196)
T ss_dssp TSSHHHHHHHHHHHHHHT-T--EE
T ss_pred CCchHhHHHHHHHHHhhc-cccce
Confidence 999999999999999533 66543
No 186
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=63.36 E-value=6.2 Score=36.58 Aligned_cols=26 Identities=19% Similarity=0.285 Sum_probs=21.8
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.+++|+|+|. - |.||||++--|++-+
T Consensus 2 ~~~~i~i~G~----~----------G~GKst~a~~l~~~~ 27 (197)
T PRK12339 2 ESTIHFIGGI----P----------GVGKTSISGYIARHR 27 (197)
T ss_pred CceEEEEECC----C----------CCCHHHHHHHHHHhc
Confidence 3678999986 2 899999999888876
No 187
>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=62.78 E-value=5.2 Score=40.03 Aligned_cols=31 Identities=45% Similarity=0.460 Sum_probs=23.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~ 124 (400)
|-|||||+--|+-|| +..|++++..==.|--
T Consensus 10 GIGKST~~~Nlsaal-a~~G~kVl~iGCDPK~ 40 (273)
T PF00142_consen 10 GIGKSTTASNLSAAL-AEMGKKVLQIGCDPKA 40 (273)
T ss_dssp TSSHHHHHHHHHHHH-HHTT--EEEEEESSSS
T ss_pred CcccChhhhHHHHHH-HhccceeeEecccCCC
Confidence 889999999999999 6899998764444433
No 188
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=62.65 E-value=11 Score=35.64 Aligned_cols=35 Identities=31% Similarity=0.350 Sum_probs=27.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+.|.+++.|+- |-||||.++|++... ...|.++..
T Consensus 21 ~~g~v~v~~g~---------------GkGKtt~a~g~a~ra-~g~G~~V~i 55 (191)
T PRK05986 21 EKGLLIVHTGN---------------GKGKSTAAFGMALRA-VGHGKKVGV 55 (191)
T ss_pred cCCeEEEECCC---------------CCChHHHHHHHHHHH-HHCCCeEEE
Confidence 45888888654 999999999999877 457887654
No 189
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=62.11 E-value=11 Score=34.13 Aligned_cols=56 Identities=16% Similarity=0.230 Sum_probs=39.4
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeec
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIP 144 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviP 144 (400)
.-+.|.+++|+|- . |.||||.+.-++..+....|.
T Consensus 9 Gl~~G~l~lI~G~----~----------G~GKT~~~~~~~~~~~~~~g~------------------------------- 43 (242)
T cd00984 9 GLQPGDLIIIAAR----P----------SMGKTAFALNIAENIAKKQGK------------------------------- 43 (242)
T ss_pred CCCCCeEEEEEeC----C----------CCCHHHHHHHHHHHHHHhCCC-------------------------------
Confidence 4478999999996 3 899999998887666322122
Q ss_pred CcccccccchhhhHHHHHHhHHHH
Q 044054 145 MDEFNLHLTGDIHAITAANNLLAA 168 (400)
Q Consensus 145 meeiNLHfTGD~HAItaA~NLlaA 168 (400)
--|.|+.+.+.-...+++++.
T Consensus 44 ---~vly~s~E~~~~~~~~r~~~~ 64 (242)
T cd00984 44 ---PVLFFSLEMSKEQLLQRLLAS 64 (242)
T ss_pred ---ceEEEeCCCCHHHHHHHHHHH
Confidence 235677777777777777664
No 190
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=62.11 E-value=12 Score=33.45 Aligned_cols=42 Identities=21% Similarity=0.259 Sum_probs=28.9
Q ss_pred hhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 58 SVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 58 ~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
+.++++.....++.|+++| |. |.||||++..++..+. ..+.+
T Consensus 27 ~~l~~~~~~~~~~~lll~G----~~----------G~GKT~la~~~~~~~~-~~~~~ 68 (226)
T TIGR03420 27 AALRQLAAGKGDRFLYLWG----ES----------GSGKSHLLQAACAAAE-ERGKS 68 (226)
T ss_pred HHHHHHHhcCCCCeEEEEC----CC----------CCCHHHHHHHHHHHHH-hcCCc
Confidence 3444432234567888888 56 9999999999998874 34443
No 191
>PRK04182 cytidylate kinase; Provisional
Probab=61.81 E-value=6.5 Score=33.49 Aligned_cols=16 Identities=44% Similarity=0.650 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||++.-|++.|+
T Consensus 10 GsGKstia~~la~~lg 25 (180)
T PRK04182 10 GSGKTTVARLLAEKLG 25 (180)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 8999999999988773
No 192
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=61.75 E-value=11 Score=39.86 Aligned_cols=36 Identities=25% Similarity=0.258 Sum_probs=26.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.+++|+|+| |. |.|||||+.-|+..+....|+++..
T Consensus 222 ~~~vi~lvG----pt----------GvGKTTtaaKLA~~~~~~~G~~V~L 257 (432)
T PRK12724 222 QRKVVFFVG----PT----------GSGKTTSIAKLAAKYFLHMGKSVSL 257 (432)
T ss_pred CCeEEEEEC----CC----------CCCHHHHHHHHHHHHHHhcCCeEEE
Confidence 356777776 45 9999999999997653345766654
No 193
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=61.57 E-value=15 Score=33.42 Aligned_cols=43 Identities=23% Similarity=0.230 Sum_probs=30.4
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE-EEEecCC
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV-VTCLRQP 122 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~-~~~lRqP 122 (400)
.-|.|..++|+| |- |.|||+.+..++-.. ...|+++ ..++.+|
T Consensus 12 Gi~~g~~~li~G----~~----------G~GKt~~~~~~~~~~-~~~g~~~~y~s~e~~ 55 (224)
T TIGR03880 12 GFPEGHVIVVIG----EY----------GTGKTTFSLQFLYQG-LKNGEKAMYISLEER 55 (224)
T ss_pred CCCCCeEEEEEC----CC----------CCCHHHHHHHHHHHH-HhCCCeEEEEECCCC
Confidence 346799999999 34 899999998887654 2347665 4455553
No 194
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=60.91 E-value=5.2 Score=32.85 Aligned_cols=16 Identities=50% Similarity=0.667 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||++..|+..++
T Consensus 9 GsGKst~a~~la~~~~ 24 (147)
T cd02020 9 GSGKSTVAKLLAKKLG 24 (147)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999998873
No 195
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=60.86 E-value=44 Score=33.87 Aligned_cols=116 Identities=19% Similarity=0.120 Sum_probs=63.7
Q ss_pred CCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcC-CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 29 LHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEG-SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 29 ~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~-~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.....||+-+-+-++.-.-+ ......+++++.. ..+..+|-|||- - |.||||+.--|...|
T Consensus 19 g~~~a~a~~it~~e~~~~~~----~~~~~~l~~~~~~~~~~~~~igi~G~----~----------GaGKSTl~~~l~~~l 80 (332)
T PRK09435 19 GDRAALARAITLVESTRPDH----RALAQELLDALLPHTGNALRIGITGV----P----------GVGKSTFIEALGMHL 80 (332)
T ss_pred CCHHHHHHHHHHHhCCCchh----hHHHHHHHHHHhhcCCCcEEEEEECC----C----------CCCHHHHHHHHHHHH
Confidence 34555666665544332111 1122345555432 233456666663 4 899999999999999
Q ss_pred hhhcCCcEEEEecCCCCCCccccccCcC-----------CCCceeeecCcccccccchhhhHHHHHHhHHHH
Q 044054 108 GAFLDKKVVTCLRQPLQGPTFGIRGGAA-----------GGGYSQVIPMDEFNLHLTGDIHAITAANNLLAA 168 (400)
Q Consensus 108 ~~~lgk~~~~~lRqPS~GP~FGiKGGAa-----------GGGysQviPmeeiNLHfTGD~HAItaA~NLlaA 168 (400)
. ..|.++.+.-=.||-- .-|||. ...-.-+.+|.- --|+-|.-+++..|-.++.+
T Consensus 81 ~-~~g~~v~vi~~Dp~s~----~~~gallgd~~r~~~~~~~~~~~~r~~~~-~~~l~~~a~~~~~~~~~~~~ 146 (332)
T PRK09435 81 I-EQGHKVAVLAVDPSST----RTGGSILGDKTRMERLSRHPNAFIRPSPS-SGTLGGVARKTRETMLLCEA 146 (332)
T ss_pred H-HCCCeEEEEEeCCCcc----ccchhhhchHhHHHhhcCCCCeEEEecCC-cccccchHHHHHHHHHHHhc
Confidence 5 6688887766666532 223321 111234444444 44555666666666555543
No 196
>PRK06547 hypothetical protein; Provisional
Probab=60.79 E-value=7.3 Score=35.24 Aligned_cols=25 Identities=24% Similarity=0.242 Sum_probs=19.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
-.+|+|+| |. |.||||++.-|++.+
T Consensus 15 ~~~i~i~G----~~----------GsGKTt~a~~l~~~~ 39 (172)
T PRK06547 15 MITVLIDG----RS----------GSGKTTLAGALAART 39 (172)
T ss_pred CEEEEEEC----CC----------CCCHHHHHHHHHHHh
Confidence 45777776 35 999999999988875
No 197
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=60.67 E-value=7.1 Score=33.08 Aligned_cols=16 Identities=38% Similarity=0.526 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||++.-|++.|+
T Consensus 10 GSGKstia~~la~~lg 25 (171)
T TIGR02173 10 GSGKTTVAKILAEKLS 25 (171)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 9999999999988773
No 198
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=60.65 E-value=6.6 Score=36.69 Aligned_cols=16 Identities=50% Similarity=0.640 Sum_probs=15.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||+..-||++|+
T Consensus 12 GaGKSTIGr~LAk~L~ 27 (172)
T COG0703 12 GAGKSTIGRALAKALN 27 (172)
T ss_pred CCCHhHHHHHHHHHcC
Confidence 9999999999999995
No 199
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=59.91 E-value=21 Score=31.30 Aligned_cols=40 Identities=18% Similarity=0.064 Sum_probs=29.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGG 133 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGG 133 (400)
+.||||+..-|..-| ...|.++.+...-.--.+.|..-|.
T Consensus 10 ~sGKTTl~~~Li~~l-~~~g~~v~~ik~~~~g~~~~d~pG~ 49 (140)
T PF03205_consen 10 NSGKTTLIRKLINEL-KRRGYRVAVIKHTDHGQFEIDPPGT 49 (140)
T ss_dssp TSSHHHHHHHHHHHH-HHTT--EEEEEE-STTSTTCSTTCH
T ss_pred CCCHHHHHHHHHHHH-hHcCCceEEEEEccCCCcccCCCCc
Confidence 899999999999999 4779998877766554556666665
No 200
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=59.62 E-value=9 Score=29.45 Aligned_cols=18 Identities=28% Similarity=0.303 Sum_probs=15.6
Q ss_pred cCCCccchhHHHHHHHHh
Q 044054 91 PLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 91 ~~GEGKTTttiGL~~aL~ 108 (400)
|-|.|||++.+.+...+.
T Consensus 8 ~~G~GKT~~~~~~~~~~~ 25 (144)
T cd00046 8 PTGSGKTLAALLPILELL 25 (144)
T ss_pred CCCCchhHHHHHHHHHHH
Confidence 349999999999999884
No 201
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=59.62 E-value=5.2 Score=31.90 Aligned_cols=16 Identities=50% Similarity=0.702 Sum_probs=14.7
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.++
T Consensus 8 G~GKT~l~~~la~~l~ 23 (132)
T PF00004_consen 8 GTGKTTLARALAQYLG 23 (132)
T ss_dssp TSSHHHHHHHHHHHTT
T ss_pred CCCeeHHHHHHHhhcc
Confidence 9999999999999883
No 202
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=59.52 E-value=9.5 Score=38.21 Aligned_cols=21 Identities=14% Similarity=0.167 Sum_probs=18.2
Q ss_pred CCccchhHHHHHHHHhhhcCCc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~ 114 (400)
|+||||++..|.+.|+ ..|.+
T Consensus 9 GSGKTTv~~~l~~~l~-~~g~~ 29 (277)
T cd02029 9 GAGTTTVKRAFEHIFA-REGIH 29 (277)
T ss_pred CCCHHHHHHHHHHHHH-hcCCc
Confidence 8999999999999994 66754
No 203
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=59.42 E-value=10 Score=32.11 Aligned_cols=31 Identities=19% Similarity=0.182 Sum_probs=20.3
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhh
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAF 110 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~ 110 (400)
...+++|+|+|- . |.|||++..-+.+.+..+
T Consensus 21 ~~~~~~~ll~G~----~----------G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 21 SGSPRNLLLTGE----S----------GSGKTSLLRALLDRLAER 51 (185)
T ss_dssp S-----EEE-B-----T----------TSSHHHHHHHHHHHHHHH
T ss_pred cCCCcEEEEECC----C----------CCCHHHHHHHHHHHHHhc
Confidence 356899999984 5 999999999999988533
No 204
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=59.41 E-value=13 Score=35.43 Aligned_cols=40 Identities=13% Similarity=0.056 Sum_probs=28.3
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE-EEEecC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV-VTCLRQ 121 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~-~~~lRq 121 (400)
|.|..++|+|- - |.||||.+.-++... +..|.++ +..+-+
T Consensus 34 p~gs~~lI~G~----p----------GtGKT~l~~qf~~~~-a~~Ge~vlyis~Ee 74 (259)
T TIGR03878 34 PAYSVINITGV----S----------DTGKSLMVEQFAVTQ-ASRGNPVLFVTVES 74 (259)
T ss_pred ECCcEEEEEcC----C----------CCCHHHHHHHHHHHH-HhCCCcEEEEEecC
Confidence 67999999984 4 899999988876554 2447665 344433
No 205
>COG0771 MurD UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]
Probab=59.36 E-value=13 Score=39.44 Aligned_cols=97 Identities=20% Similarity=0.292 Sum_probs=62.3
Q ss_pred CHHHHHHHcCCCC-cchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 30 HISEIAQELNLKP-NHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 30 pI~eiA~~lGL~~-dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
|+-+.|++.|++. .|+|++=++- +..+.|-|||. =||||||-=+++-|
T Consensus 84 p~v~~A~~~gi~i~~dieL~~r~~--------------~~~p~vaITGT----------------NGKTTTTsli~~~l- 132 (448)
T COG0771 84 PLVEAAKAAGIEIIGDIELFYRLS--------------GEAPIVAITGT----------------NGKTTTTSLIAHLL- 132 (448)
T ss_pred HHHHHHHHcCCcEEeHHHHHHHhc--------------CCCCEEEEECC----------------CchHHHHHHHHHHH-
Confidence 6777888888873 3555543221 23559999987 59999999999999
Q ss_pred hhcCCcEEEEecCCCCCCccccccCcCCCCceeee-----------cCcccccccchhhhHHHH-HHhHHHHHHH
Q 044054 109 AFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVI-----------PMDEFNLHLTGDIHAITA-ANNLLAAAID 171 (400)
Q Consensus 109 ~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQvi-----------PmeeiNLHfTGD~HAIta-A~NLlaA~id 171 (400)
+..|.++.+ ||--|...+++. =+..|.||.|=.+..--| =-|+-..=+|
T Consensus 133 ~~~G~~~~l--------------gGNIG~p~l~~~~~~~~~d~~VlElSSfQL~~~~~~~P~iavilNi~~DHLD 193 (448)
T COG0771 133 KAAGLDALL--------------GGNIGTPALELLEQAEPADVYVLELSSFQLETTSSLRPEIAVILNISEDHLD 193 (448)
T ss_pred HhcCCCcee--------------ccccCccHHHhhcccCCCCEEEEEccccccccCccCCccEEEEecCCHHHhh
Confidence 588988764 344455544444 455788888865544322 1344444444
No 206
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=59.06 E-value=11 Score=34.68 Aligned_cols=27 Identities=22% Similarity=0.228 Sum_probs=23.5
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
++.++|.++|+ . |-||||++.-+++-.
T Consensus 17 ~~~~~v~I~G~----~----------G~GKT~LA~~~~~~~ 43 (287)
T PF00931_consen 17 NEVRVVAIVGM----G----------GIGKTTLARQVARDL 43 (287)
T ss_dssp TSSEEEEEEES----T----------TSSHHHHHHHHHCHH
T ss_pred CCeEEEEEEcC----C----------cCCcceeeeeccccc
Confidence 56889999998 4 999999999988773
No 207
>PF13245 AAA_19: Part of AAA domain
Probab=58.68 E-value=11 Score=30.13 Aligned_cols=25 Identities=36% Similarity=0.405 Sum_probs=20.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.++++|+| |. |.|||||..-++..+
T Consensus 10 ~~~~vv~g----~p----------GtGKT~~~~~~i~~l 34 (76)
T PF13245_consen 10 SPLFVVQG----PP----------GTGKTTTLAARIAEL 34 (76)
T ss_pred CCeEEEEC----CC----------CCCHHHHHHHHHHHH
Confidence 55777775 56 999999999988888
No 208
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=58.49 E-value=13 Score=37.75 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=28.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
..++-|+|+|= - |.||||+...|.+.+. . ..+ ++++-+|
T Consensus 160 ~~~~nilI~G~----t----------GSGKTTll~aLl~~i~-~-~~r-ivtiEd~ 198 (344)
T PRK13851 160 VGRLTMLLCGP----T----------GSGKTTMSKTLISAIP-P-QER-LITIEDT 198 (344)
T ss_pred HcCCeEEEECC----C----------CccHHHHHHHHHcccC-C-CCC-EEEECCC
Confidence 35778999984 3 9999999999998884 2 333 4555544
No 209
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=58.36 E-value=19 Score=33.85 Aligned_cols=48 Identities=19% Similarity=0.169 Sum_probs=31.3
Q ss_pred eeecchhhhh-hc-CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 53 AKVLLSVLDE-LE-GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 53 AKv~l~~l~~-~~-~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
-|+..+-|++ +. .=+.|..++|++- . |.||||++.-++..+ ..-|.++
T Consensus 6 ~~~~~~~ld~~l~ggi~~g~~~~i~G~----~----------G~GKTtl~~~~~~~~-~~~g~~~ 55 (230)
T PRK08533 6 IELSRDELHKRLGGGIPAGSLILIEGD----E----------STGKSILSQRLAYGF-LQNGYSV 55 (230)
T ss_pred EEEEEeeeehhhCCCCCCCcEEEEECC----C----------CCCHHHHHHHHHHHH-HhCCCcE
Confidence 3444455544 22 2367899999984 4 899999987777666 2446544
No 210
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=58.24 E-value=12 Score=40.80 Aligned_cols=46 Identities=30% Similarity=0.491 Sum_probs=32.2
Q ss_pred hhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 59 VLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 59 ~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
+.+||..+..| |||.+ |- |.||||.+.+|+.-+ +..|| .+-++-.|
T Consensus 255 l~eRL~eraeG--ILIAG----~P----------GaGKsTFaqAlAefy-~~~Gk-iVKTmEsP 300 (604)
T COG1855 255 LKERLEERAEG--ILIAG----AP----------GAGKSTFAQALAEFY-ASQGK-IVKTMESP 300 (604)
T ss_pred HHHHHHhhhcc--eEEec----CC----------CCChhHHHHHHHHHH-HhcCc-EEeeccCc
Confidence 45566655555 66665 34 899999999999999 47788 34444433
No 211
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=58.23 E-value=9.7 Score=38.30 Aligned_cols=38 Identities=24% Similarity=0.385 Sum_probs=27.5
Q ss_pred chhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 57 LSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 57 l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+..+.+....+.--.|+++|. . |.||||++.-|+..|+
T Consensus 80 y~~~~~i~~~~~p~iIlI~G~----s----------gsGKStlA~~La~~l~ 117 (301)
T PRK04220 80 YLLWRRIRKSKEPIIILIGGA----S----------GVGTSTIAFELASRLG 117 (301)
T ss_pred HHHHHHHhcCCCCEEEEEECC----C----------CCCHHHHHHHHHHHhC
Confidence 445555555444568888875 3 8999999999998774
No 212
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=57.69 E-value=8.8 Score=34.30 Aligned_cols=27 Identities=19% Similarity=0.236 Sum_probs=22.7
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.|+.|++++ |- |+||||+...|+..+
T Consensus 23 ~~g~~i~I~G----~t----------GSGKTTll~aL~~~i 49 (186)
T cd01130 23 EARKNILISG----GT----------GSGKTTLLNALLAFI 49 (186)
T ss_pred hCCCEEEEEC----CC----------CCCHHHHHHHHHhhc
Confidence 3488899998 45 999999999998887
No 213
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=57.32 E-value=8.9 Score=31.53 Aligned_cols=15 Identities=47% Similarity=0.607 Sum_probs=12.8
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||++-.|++.+
T Consensus 9 gsGKSt~a~~l~~~~ 23 (143)
T PF13671_consen 9 GSGKSTLAKRLAKRL 23 (143)
T ss_dssp TSSHHHHHHHHHHHS
T ss_pred CCCHHHHHHHHHHHC
Confidence 899999988887666
No 214
>TIGR00313 cobQ cobyric acid synthase CobQ.
Probab=57.20 E-value=7.9 Score=40.46 Aligned_cols=23 Identities=48% Similarity=0.641 Sum_probs=20.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.|||++|.|||+.| ++.|.++.
T Consensus 9 ~vGKT~v~~~L~~~l-~~~G~~v~ 31 (475)
T TIGR00313 9 SAGKSTLTAGLCRIL-ARRGYRVA 31 (475)
T ss_pred CCCHHHHHHHHHHHH-HhCCCeEE
Confidence 899999999999999 57787754
No 215
>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=57.18 E-value=14 Score=34.24 Aligned_cols=28 Identities=21% Similarity=0.211 Sum_probs=23.7
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
-+.|.+++|+|- . |.||||++.-++..+
T Consensus 27 ~~~g~~~~i~g~----~----------G~GKT~l~~~~~~~~ 54 (271)
T cd01122 27 LRKGELIILTAG----T----------GVGKTTFLREYALDL 54 (271)
T ss_pred EcCCcEEEEEcC----C----------CCCHHHHHHHHHHHH
Confidence 367999999984 4 899999999988776
No 216
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=57.17 E-value=16 Score=39.04 Aligned_cols=32 Identities=25% Similarity=0.109 Sum_probs=23.3
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk 113 (400)
+|++|++.|- - |.|||||..-|+-.+-.+.|.
T Consensus 255 ~g~Vi~LvGp----n----------GvGKTTTiaKLA~~~~~~~G~ 286 (484)
T PRK06995 255 RGGVFALMGP----T----------GVGKTTTTAKLAARCVMRHGA 286 (484)
T ss_pred CCcEEEEECC----C----------CccHHHHHHHHHHHHHHhcCC
Confidence 4677777764 3 999999999999877323343
No 217
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=57.15 E-value=9.8 Score=37.99 Aligned_cols=40 Identities=35% Similarity=0.379 Sum_probs=25.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGG 137 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGG 137 (400)
|.||||+.--|...+. .-|+++.+--=.||-= ..|||==|
T Consensus 39 GaGKSTli~~l~~~~~-~~g~~VaVlAVDPSSp----~tGGAlLG 78 (266)
T PF03308_consen 39 GAGKSTLIDALIRELR-ERGKRVAVLAVDPSSP----FTGGALLG 78 (266)
T ss_dssp TSSHHHHHHHHHHHHH-HTT--EEEEEE-GGGG----CC---SS-
T ss_pred CCcHHHHHHHHHHHHh-hcCCceEEEEECCCCC----CCCCcccc
Confidence 7999999999999995 6788876665566643 55565333
No 218
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=57.09 E-value=16 Score=36.68 Aligned_cols=73 Identities=30% Similarity=0.334 Sum_probs=56.0
Q ss_pred EEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCccccc
Q 044054 71 YVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNL 150 (400)
Q Consensus 71 ~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNL 150 (400)
+|++||. |. +||||-+.-|.++|..+.-|.++.-+-+-| ||++-.
T Consensus 3 LVvi~G~---P~-----------SGKstrA~~L~~~l~~~~~K~~v~ii~des----lg~~~n----------------- 47 (281)
T KOG3062|consen 3 LVVICGL---PC-----------SGKSTRAVELREALKERGTKQSVRIIDDES----LGIEKN----------------- 47 (281)
T ss_pred eEEEeCC---CC-----------CCchhHHHHHHHHHHhhcccceEEEechhh----cCCCCc-----------------
Confidence 6788775 66 999999999999996443365887777777 445421
Q ss_pred ccchhhhHHHHHHhHHHHHHHhhhhccc
Q 044054 151 HLTGDIHAITAANNLLAAAIDTRIFHEA 178 (400)
Q Consensus 151 HfTGD~HAItaA~NLlaA~idn~i~~~~ 178 (400)
--+||..+=-++.-.|-+++|.++-.+.
T Consensus 48 s~y~~s~~EK~lRg~L~S~v~R~Lsk~~ 75 (281)
T KOG3062|consen 48 SNYGDSQAEKALRGKLRSAVDRSLSKGD 75 (281)
T ss_pred ccccccHHHHHHHHHHHHHHHhhcccCc
Confidence 1358888888889999999999987664
No 219
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=56.84 E-value=30 Score=34.75 Aligned_cols=68 Identities=21% Similarity=0.137 Sum_probs=48.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMD 146 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPme 146 (400)
.+=.+|.|-.| |== |.|||.+++-|++.| ...|.+..+.-| |-+|-..| -.-+|-|-.
T Consensus 33 ~~vpVIsVGNl--tvG----------GTGKTP~v~~L~~~L-~~~G~~~~IlSR--------GYg~~~~~-~~~~v~~~~ 90 (326)
T PF02606_consen 33 LPVPVISVGNL--TVG----------GTGKTPLVIWLARLL-QARGYRPAILSR--------GYGRKSKG-EPILVSDGS 90 (326)
T ss_pred CCCcEEEEccc--ccC----------CCCchHHHHHHHHHH-HhcCCceEEEcC--------CCCCCCCC-CeEEEeCCC
Confidence 44568888888 666 999999999999999 477999888877 34333332 233444444
Q ss_pred ccccccchhhhH
Q 044054 147 EFNLHLTGDIHA 158 (400)
Q Consensus 147 eiNLHfTGD~HA 158 (400)
+-+-+||=-.
T Consensus 91 --~~~~~GDEp~ 100 (326)
T PF02606_consen 91 --DAEEVGDEPL 100 (326)
T ss_pred --ChhhhcCHHH
Confidence 8888888443
No 220
>PRK01184 hypothetical protein; Provisional
Probab=56.53 E-value=8.8 Score=33.61 Aligned_cols=24 Identities=25% Similarity=0.427 Sum_probs=16.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE---ecC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC---LRQ 121 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~---lRq 121 (400)
|.||||++. +++ .+|-..+.+ +|+
T Consensus 11 GsGKsT~a~-~~~----~~g~~~i~~~d~lr~ 37 (184)
T PRK01184 11 GSGKGEFSK-IAR----EMGIPVVVMGDVIRE 37 (184)
T ss_pred CCCHHHHHH-HHH----HcCCcEEEhhHHHHH
Confidence 899999875 544 446666654 665
No 221
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=56.42 E-value=10 Score=32.70 Aligned_cols=16 Identities=56% Similarity=0.804 Sum_probs=14.6
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.|+
T Consensus 12 GsGKst~~~~la~~lg 27 (171)
T PRK03731 12 GCGKTTVGMALAQALG 27 (171)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999998884
No 222
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=56.39 E-value=12 Score=41.61 Aligned_cols=70 Identities=24% Similarity=0.351 Sum_probs=47.5
Q ss_pred cccCceeeecc-hhh----hhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 47 LYGKYKAKVLL-SVL----DELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 47 ~YG~yKAKv~l-~~l----~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
.||-.++|=.+ ++| ..+. .++++++..| |- |.||||.+.-|+.+|. +.
T Consensus 78 ~yGlee~ieriv~~l~~Aa~gl~--~~~~IL~LvG----Pp----------G~GKSsLa~~la~~le-~~---------- 130 (644)
T PRK15455 78 FYGMEEAIEQIVSYFRHAAQGLE--EKKQILYLLG----PV----------GGGKSSLAERLKSLME-RV---------- 130 (644)
T ss_pred ccCcHHHHHHHHHHHHHHHHhcC--CCCceEEEec----CC----------CCCchHHHHHHHHHHH-hC----------
Confidence 47877776442 444 2332 3456655554 45 9999999999999995 43
Q ss_pred CCCCCccccccCcCCCCceeeecCcccccccc
Q 044054 122 PLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLT 153 (400)
Q Consensus 122 PS~GP~FGiKGGAaGGGysQviPmeeiNLHfT 153 (400)
|.+-+|||- +.-||-|=-||+-
T Consensus 131 ----~~Y~~kg~~------~~sP~~e~PL~L~ 152 (644)
T PRK15455 131 ----PIYVLKANG------ERSPVNESPLGLF 152 (644)
T ss_pred ----cceeecCCC------CCCCCCCCCCCCC
Confidence 677778632 7778888777665
No 223
>PRK13947 shikimate kinase; Provisional
Probab=56.37 E-value=6.7 Score=33.64 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=14.7
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.|+
T Consensus 11 GsGKst~a~~La~~lg 26 (171)
T PRK13947 11 GTGKTTVGKRVATTLS 26 (171)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999998884
No 224
>COG0283 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=56.34 E-value=6.4 Score=38.43 Aligned_cols=16 Identities=50% Similarity=0.669 Sum_probs=15.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++..|++.|+
T Consensus 14 gsGKsTvak~lA~~Lg 29 (222)
T COG0283 14 GSGKSTVAKILAEKLG 29 (222)
T ss_pred ccChHHHHHHHHHHhC
Confidence 9999999999999995
No 225
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=56.25 E-value=6.4 Score=33.89 Aligned_cols=33 Identities=30% Similarity=0.351 Sum_probs=23.8
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
|.||||++.-|++-+..+.+...-.+-|+|..|
T Consensus 9 GsGKstl~~~L~~~~~~~~~~~v~~tTr~p~~~ 41 (137)
T cd00071 9 GVGKSTLLKRLLEEFDPNFGFSVSHTTRKPRPG 41 (137)
T ss_pred CCCHHHHHHHHHhcCCccceecccccccCCCCC
Confidence 999999888888876434445444567888755
No 226
>PLN02748 tRNA dimethylallyltransferase
Probab=55.46 E-value=10 Score=40.20 Aligned_cols=84 Identities=20% Similarity=0.171 Sum_probs=46.1
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh-hhcCCcEEEEecCCCCC---CccccccCcCCCCcee
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG-AFLDKKVVTCLRQPLQG---PTFGIRGGAAGGGYSQ 141 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~-~~lgk~~~~~lRqPS~G---P~FGiKGGAaGGGysQ 141 (400)
.+++++|+|+| || |.||||+++-|++.++ ..++-.++-.-|.=..| |+--=.-|.-==-+.-
T Consensus 19 ~~~~~~i~i~G--pt------------gsGKs~la~~la~~~~~eii~~DsmQVYrgLdIgTaKpt~eE~~~VpHHLid~ 84 (468)
T PLN02748 19 KGKAKVVVVMG--PT------------GSGKSKLAVDLASHFPVEIINADSMQVYSGLDVLTNKVPLHEQKGVPHHLLGV 84 (468)
T ss_pred CCCCCEEEEEC--CC------------CCCHHHHHHHHHHhcCeeEEcCchheeeCCcchhcCCCCHHHHcCCCCeeEee
Confidence 35688999987 34 8999999999999984 23344443333322221 1111112222233445
Q ss_pred eecCcccccccchhhhHHHHHHhHHHH
Q 044054 142 VIPMDEFNLHLTGDIHAITAANNLLAA 168 (400)
Q Consensus 142 viPmeeiNLHfTGD~HAItaA~NLlaA 168 (400)
|-|-|++|. ||| ...|..++..
T Consensus 85 v~p~e~ysv---~~F--~~~A~~~I~~ 106 (468)
T PLN02748 85 ISPSVEFTA---KDF--RDHAVPLIEE 106 (468)
T ss_pred cCCCCcCcH---HHH--HHHHHHHHHH
Confidence 667777777 565 3334444433
No 227
>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]
Probab=55.42 E-value=11 Score=36.71 Aligned_cols=41 Identities=32% Similarity=0.298 Sum_probs=25.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCC---CccccccC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG---PTFGIRGG 133 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G---P~FGiKGG 133 (400)
|.||||+|.-|+-.+.+..|+++++-==.++|| -.||+++.
T Consensus 13 GvGKTtitanlga~~~~~~~k~V~~iDaD~g~~nL~~~~g~~~~ 56 (262)
T COG0455 13 GVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESK 56 (262)
T ss_pred CccHHHHHHhHHHHHHhhCCCeEEEEecCCCCCcHHHHhCCCCC
Confidence 999999999995555345555544322234444 34666654
No 228
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=55.42 E-value=18 Score=36.44 Aligned_cols=41 Identities=17% Similarity=0.177 Sum_probs=28.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
++-|||+|= - |.||||+...|.+.+........++++-+|.
T Consensus 144 ~~nilI~G~----t----------GSGKTTll~aL~~~i~~~~~~~rivtiEd~~ 184 (323)
T PRK13833 144 RLNIVISGG----T----------GSGKTTLANAVIAEIVASAPEDRLVILEDTA 184 (323)
T ss_pred CCeEEEECC----C----------CCCHHHHHHHHHHHHhcCCCCceEEEecCCc
Confidence 456888884 3 9999999999999883222334566666543
No 229
>PRK04308 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=55.11 E-value=17 Score=36.70 Aligned_cols=32 Identities=16% Similarity=0.035 Sum_probs=26.8
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.+.|-|||. -||||||-=|++.| ...|+++.
T Consensus 109 ~~~~I~ITGT----------------~GKTTTt~li~~iL-~~~g~~~~ 140 (445)
T PRK04308 109 GDKVIAITGS----------------NGKTTVTSLVGYLC-IKCGLDTV 140 (445)
T ss_pred CCCEEEEECC----------------CcHHHHHHHHHHHH-HHcCCCeE
Confidence 4689999997 69999999999999 47788753
No 230
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=54.86 E-value=14 Score=39.73 Aligned_cols=28 Identities=32% Similarity=0.409 Sum_probs=24.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
..|..|++||. - |.||||++..|++.|+
T Consensus 390 ~~g~~Ivl~Gl----~----------GSGKSTia~~La~~L~ 417 (568)
T PRK05537 390 KQGFTVFFTGL----S----------GAGKSTIAKALMVKLM 417 (568)
T ss_pred CCCeEEEEECC----C----------CChHHHHHHHHHHHhh
Confidence 45889999986 4 9999999999999995
No 231
>PLN02840 tRNA dimethylallyltransferase
Probab=54.77 E-value=9.8 Score=39.96 Aligned_cols=29 Identities=24% Similarity=0.362 Sum_probs=23.6
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.+++++|+|+|- . |.||||++.-|++.++
T Consensus 18 ~~~~~vi~I~Gp----t----------gsGKTtla~~La~~~~ 46 (421)
T PLN02840 18 TKKEKVIVISGP----T----------GAGKSRLALELAKRLN 46 (421)
T ss_pred ccCCeEEEEECC----C----------CCCHHHHHHHHHHHCC
Confidence 355778888773 4 8999999999999985
No 232
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=54.72 E-value=21 Score=32.96 Aligned_cols=28 Identities=29% Similarity=0.119 Sum_probs=21.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.+..+|.++|. - |.||||++--|++.|.
T Consensus 31 ~~~~iigi~G~----~----------GsGKTTl~~~L~~~l~ 58 (229)
T PRK09270 31 QRRTIVGIAGP----P----------GAGKSTLAEFLEALLQ 58 (229)
T ss_pred CCCEEEEEECC----C----------CCCHHHHHHHHHHHhh
Confidence 34556666664 4 9999999999999984
No 233
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=54.60 E-value=8.3 Score=29.51 Aligned_cols=16 Identities=44% Similarity=0.563 Sum_probs=14.6
Q ss_pred CCCccchhHHHHHHHH
Q 044054 92 LGEGKSTTTVGLCQAL 107 (400)
Q Consensus 92 ~GEGKTTttiGL~~aL 107 (400)
.|.||||++.-|++.|
T Consensus 8 ~gsGKst~~~~l~~~l 23 (69)
T cd02019 8 SGSGKSTVAKKLAEQL 23 (69)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 3899999999999988
No 234
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=54.54 E-value=12 Score=33.75 Aligned_cols=25 Identities=20% Similarity=0.270 Sum_probs=20.3
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|++|+++|. . |+||||+..-|+.-+
T Consensus 3 ge~i~l~G~----s----------GsGKSTl~~~la~~l 27 (176)
T PRK09825 3 GESYILMGV----S----------GSGKSLIGSKIAALF 27 (176)
T ss_pred CcEEEEECC----C----------CCCHHHHHHHHHHhc
Confidence 678888775 4 999999988888766
No 235
>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=54.53 E-value=12 Score=34.19 Aligned_cols=24 Identities=29% Similarity=0.346 Sum_probs=20.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|-||||.++|++-.. ...|+++..
T Consensus 12 G~Gkt~~a~g~~~ra-~~~g~~v~~ 35 (159)
T cd00561 12 GKGKTTAALGLALRA-LGHGYRVGV 35 (159)
T ss_pred CCCHHHHHHHHHHHH-HHCCCeEEE
Confidence 999999999999887 356888664
No 236
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=54.41 E-value=12 Score=37.03 Aligned_cols=34 Identities=32% Similarity=0.224 Sum_probs=25.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNL 150 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNL 150 (400)
|+||||++.-|..-|. ++ |+ +|..++++||.+.+
T Consensus 72 GSGKSTlar~L~~ll~-~~----------~~-------------~g~V~vi~~D~f~~ 105 (290)
T TIGR00554 72 AVGKSTTARILQALLS-RW----------PE-------------HRKVELITTDGFLH 105 (290)
T ss_pred CCCHHHHHHHHHHHHh-hc----------CC-------------CCceEEEecccccc
Confidence 8999999987777663 32 22 35678999998765
No 237
>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=54.25 E-value=6.9 Score=36.75 Aligned_cols=18 Identities=33% Similarity=0.656 Sum_probs=15.2
Q ss_pred cCCCccchhHHHHHHHHh
Q 044054 91 PLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 91 ~~GEGKTTttiGL~~aL~ 108 (400)
+-|.||||+++.|+.-++
T Consensus 7 tiGCGKTTva~aL~~LFg 24 (168)
T PF08303_consen 7 TIGCGKTTVALALSNLFG 24 (168)
T ss_pred CCCcCHHHHHHHHHHHcC
Confidence 349999999999988774
No 238
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=54.12 E-value=14 Score=35.91 Aligned_cols=33 Identities=30% Similarity=0.285 Sum_probs=25.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHH-HHHHHHhhhcCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTV-GLCQALGAFLDK 113 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTtti-GL~~aL~~~lgk 113 (400)
|.|.++.||+. . |+||||+.. .|..++.++++.
T Consensus 19 p~g~~~~vtGv----S----------GsGKStL~~~~l~~~~~~~~~~ 52 (261)
T cd03271 19 PLGVLTCVTGV----S----------GSGKSSLINDTLYPALARRLHL 52 (261)
T ss_pred cCCcEEEEECC----C----------CCchHHHHHHHHHHHHHHHhcc
Confidence 78999999997 5 999999774 667777544443
No 239
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=54.06 E-value=12 Score=33.28 Aligned_cols=26 Identities=27% Similarity=0.323 Sum_probs=20.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
|.||||++..|...|. ..|.++. .+.
T Consensus 9 gsGKTtl~~~l~~~l~-~~G~~V~-viK 34 (155)
T TIGR00176 9 NSGKTTLIERLVKALK-ARGYRVA-TIK 34 (155)
T ss_pred CCCHHHHHHHHHHHHH-hcCCeEE-EEe
Confidence 8999999999999994 5687644 443
No 240
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=53.61 E-value=11 Score=40.28 Aligned_cols=27 Identities=33% Similarity=0.530 Sum_probs=23.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+-.+|+|.|.+ |.||||++..|+..++
T Consensus 254 ~p~vil~~G~~--------------G~GKSt~a~~LA~~lg 280 (475)
T PRK12337 254 RPLHVLIGGVS--------------GVGKSVLASALAYRLG 280 (475)
T ss_pred CCeEEEEECCC--------------CCCHHHHHHHHHHHcC
Confidence 46789999863 8999999999999885
No 241
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=53.25 E-value=22 Score=36.81 Aligned_cols=35 Identities=26% Similarity=0.357 Sum_probs=30.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
-.+||+.|+| |.|||||--=||.-| ..-|++++.+
T Consensus 139 p~Vil~vGVN--------------G~GKTTTIaKLA~~l-~~~g~~Vlla 173 (340)
T COG0552 139 PFVILFVGVN--------------GVGKTTTIAKLAKYL-KQQGKSVLLA 173 (340)
T ss_pred cEEEEEEecC--------------CCchHhHHHHHHHHH-HHCCCeEEEE
Confidence 5689999997 999999998899999 5789998874
No 242
>PRK08118 topology modulation protein; Reviewed
Probab=53.16 E-value=8 Score=34.48 Aligned_cols=16 Identities=44% Similarity=0.528 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.++
T Consensus 11 GsGKSTlak~L~~~l~ 26 (167)
T PRK08118 11 GSGKSTLARQLGEKLN 26 (167)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999988874
No 243
>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=52.93 E-value=10 Score=41.83 Aligned_cols=31 Identities=32% Similarity=0.388 Sum_probs=25.8
Q ss_pred cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 64 EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 64 ~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
..+-.+++.|+|| |. |.|||||-.-|+.-|+
T Consensus 105 ~~~l~~~iLLltG----Ps----------GcGKSTtvkvLskelg 135 (634)
T KOG1970|consen 105 TPKLGSRILLLTG----PS----------GCGKSTTVKVLSKELG 135 (634)
T ss_pred ccCCCceEEEEeC----CC----------CCCchhHHHHHHHhhC
Confidence 3345578999998 78 9999999999998884
No 244
>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w
Probab=52.59 E-value=14 Score=33.69 Aligned_cols=58 Identities=19% Similarity=0.290 Sum_probs=35.2
Q ss_pred chhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 44 HYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 44 ele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
.+.-|..|+-.+++++ +.| +++++| |- |+||||+...|+-.+. ......+|.++
T Consensus 5 ~~~~fr~~~~~~~l~~-------~~g-~~~i~G----~n----------GsGKStll~al~~l~~----~~~~~~~~~~~ 58 (197)
T cd03278 5 ELKGFKSFADKTTIPF-------PPG-LTAIVG----PN----------GSGKSNIIDAIRWVLG----EQSAKSLRGEK 58 (197)
T ss_pred EEeCCcCcCCCeeeec-------CCC-cEEEEC----CC----------CCCHHHHHHHHHHHhc----cccchhhcccC
Confidence 4566777755666652 236 777766 44 9999999888765552 22233355555
Q ss_pred CCCc
Q 044054 124 QGPT 127 (400)
Q Consensus 124 ~GP~ 127 (400)
.|-+
T Consensus 59 ~~~~ 62 (197)
T cd03278 59 MSDV 62 (197)
T ss_pred HHHH
Confidence 5544
No 245
>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=52.44 E-value=16 Score=32.04 Aligned_cols=30 Identities=37% Similarity=0.355 Sum_probs=24.5
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
|.||||++.-|+..+ ...|.++...-=.|+
T Consensus 9 GsGKTt~~~~l~~~~-~~~g~~v~ii~~D~~ 38 (148)
T cd03114 9 GAGKSTLIDALITAL-RARGKRVAVLAIDPS 38 (148)
T ss_pred CCcHHHHHHHHHHHH-HHCCCEEEEEEeCCC
Confidence 999999999999999 467888776555553
No 246
>PRK00625 shikimate kinase; Provisional
Probab=52.40 E-value=13 Score=33.84 Aligned_cols=16 Identities=25% Similarity=0.281 Sum_probs=14.1
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.|+
T Consensus 10 GsGKTT~~k~La~~l~ 25 (173)
T PRK00625 10 TVGKTSFGKALAKFLS 25 (173)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999988773
No 247
>PRK04663 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=52.30 E-value=19 Score=36.47 Aligned_cols=31 Identities=23% Similarity=0.028 Sum_probs=26.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.|.|-|||. -||||||-=|++.| ...|+++.
T Consensus 108 ~~~I~VTGT----------------nGKTTTt~ll~~iL-~~~g~~~~ 138 (438)
T PRK04663 108 KPVIAITGS----------------NGKSTVTDLTGVMA-KAAGVKVA 138 (438)
T ss_pred CCEEEEeCC----------------CCHHHHHHHHHHHH-HHCCCCEE
Confidence 579999987 79999999999999 47888754
No 248
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=52.29 E-value=17 Score=39.06 Aligned_cols=38 Identities=24% Similarity=0.126 Sum_probs=28.7
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
+++++|++||. . |+||||.+..|++.|. ..|. .+..|+
T Consensus 458 ~~~~~i~~~G~----~----------gsGKst~a~~l~~~l~-~~~~-~~~~l~ 495 (632)
T PRK05506 458 QKPATVWFTGL----S----------GSGKSTIANLVERRLH-ALGR-HTYLLD 495 (632)
T ss_pred CCcEEEEecCC----C----------CchHHHHHHHHHHHHH-HcCC-CEEEEc
Confidence 45899999997 3 8999999999999994 3343 344444
No 249
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=52.10 E-value=19 Score=36.62 Aligned_cols=33 Identities=21% Similarity=0.216 Sum_probs=28.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+.+.|-|||. -|||||+-=|++.| ...|+++..
T Consensus 121 ~~~~I~VTGT----------------nGKTTTt~mi~~iL-~~~g~~~~~ 153 (480)
T PRK01438 121 PAPWLAVTGT----------------NGKTTTVQMLASML-RAAGLRAAA 153 (480)
T ss_pred CCCEEEEeCC----------------CcHHHHHHHHHHHH-HHcCCCeEE
Confidence 5679999997 79999999999999 478888654
No 250
>PRK08760 replicative DNA helicase; Provisional
Probab=52.10 E-value=67 Score=33.83 Aligned_cols=45 Identities=16% Similarity=0.193 Sum_probs=31.1
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
+.-||++ ..-.+|.+|+|+|- - |-||||++.-++.....+-|+++
T Consensus 216 ~~~LD~~t~G~~~G~LivIaar----P----------g~GKTafal~iA~~~a~~~g~~V 261 (476)
T PRK08760 216 YNDFDAMTAGLQPTDLIILAAR----P----------AMGKTTFALNIAEYAAIKSKKGV 261 (476)
T ss_pred cHHHHHHhcCCCCCceEEEEeC----C----------CCChhHHHHHHHHHHHHhcCCce
Confidence 3456654 23467999999996 2 79999999999876632335443
No 251
>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]
Probab=51.96 E-value=16 Score=36.88 Aligned_cols=34 Identities=29% Similarity=0.284 Sum_probs=26.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCccccc
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNL 150 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNL 150 (400)
|.|||||+-=|+.+|+ +-+.... .|++|||-|-.
T Consensus 92 avGKST~ar~L~~ll~-~~~~~~~-----------------------v~lvpmDGFhy 125 (283)
T COG1072 92 AVGKSTTARILQALLS-RWPESPK-----------------------VDLVTMDGFHY 125 (283)
T ss_pred cccHHHHHHHHHHHHh-hCCCCCc-----------------------eEEEecccccc
Confidence 4999999999999994 5444421 49999998743
No 252
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=51.95 E-value=8 Score=33.10 Aligned_cols=17 Identities=47% Similarity=0.692 Sum_probs=14.6
Q ss_pred CCCccchhHHHHHHHHh
Q 044054 92 LGEGKSTTTVGLCQALG 108 (400)
Q Consensus 92 ~GEGKTTttiGL~~aL~ 108 (400)
-|.||||++.-|++.++
T Consensus 7 ~GsGKSTla~~l~~~l~ 23 (163)
T TIGR01313 7 AGSGKSTIASALAHRLG 23 (163)
T ss_pred CCCCHHHHHHHHHHhcC
Confidence 39999999999988873
No 253
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=51.46 E-value=13 Score=37.52 Aligned_cols=39 Identities=31% Similarity=0.307 Sum_probs=31.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
-.+|.|-.| |== |.|||++++-|++.| ...|.++.+--|
T Consensus 49 ~pvIsVGNi--~vG----------GtGKTP~v~~L~~~l-~~~g~~~~ilsR 87 (325)
T PRK00652 49 VPVIVVGNI--TVG----------GTGKTPVVIALAEQL-QARGLKPGVVSR 87 (325)
T ss_pred CCEEEEcCe--eCC----------CCChHHHHHHHHHHH-HHCCCeEEEECC
Confidence 447777666 555 999999999999999 477988877766
No 254
>TIGR01087 murD UDP-N-acetylmuramoylalanine--D-glutamate ligase.
Probab=51.39 E-value=20 Score=35.82 Aligned_cols=32 Identities=28% Similarity=0.143 Sum_probs=27.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.+.|-|||. -||||||-=|++.| ...|++++.
T Consensus 102 ~~~I~VTGT----------------~GKTTTt~li~~iL-~~~g~~~~~ 133 (433)
T TIGR01087 102 LPVVAITGT----------------NGKTTTTSLLYHLL-KAAGLKAFL 133 (433)
T ss_pred CCEEEEECC----------------CCHHHHHHHHHHHH-HhcCCCeEE
Confidence 478999987 79999999999999 578888654
No 255
>PLN02772 guanylate kinase
Probab=51.14 E-value=14 Score=38.66 Aligned_cols=70 Identities=19% Similarity=0.185 Sum_probs=46.0
Q ss_pred hcccCceeeecchhhhhhcC--CC-CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 46 DLYGKYKAKVLLSVLDELEG--SA-DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 46 e~YG~yKAKv~l~~l~~~~~--~~-~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
.||.+-..|+.-+-+-++.. .+ +.|+|+++| |. |.||||+.--|.+.+...++.-.-.+=|.|
T Consensus 109 t~~~~~~~~~~~~eV~~~~~~~~~~~~k~iVlsG----PS----------GvGKsTL~~~L~~~~p~~~~~~vshTTR~p 174 (398)
T PLN02772 109 TPFVREQKKLLGTEVVAWSKGVRGNAEKPIVISG----PS----------GVGKGTLISMLMKEFPSMFGFSVSHTTRAP 174 (398)
T ss_pred CHHHHhhcccccceeeecccCCCCCCCcEEEEEC----CC----------CCCHHHHHHHHhhhccccccccccccCCCC
Confidence 36666555554433333321 22 578999997 67 999999888888766334565556678988
Q ss_pred CCCCccc
Q 044054 123 LQGPTFG 129 (400)
Q Consensus 123 S~GP~FG 129 (400)
-.|.+-|
T Consensus 175 R~gE~dG 181 (398)
T PLN02772 175 REMEKDG 181 (398)
T ss_pred cccccCC
Confidence 8875543
No 256
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=51.12 E-value=21 Score=33.17 Aligned_cols=47 Identities=21% Similarity=0.296 Sum_probs=31.4
Q ss_pred hhhhh-c-CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH-HHHhhhcCCcE-EEEecC
Q 044054 59 VLDEL-E-GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC-QALGAFLDKKV-VTCLRQ 121 (400)
Q Consensus 59 ~l~~~-~-~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~-~aL~~~lgk~~-~~~lRq 121 (400)
-||++ . .=|.|..+||+| |. |.||||.+.=++ .++ +-|.++ ++++-|
T Consensus 9 ~LD~~l~GG~~~gs~~lI~G----~p----------GsGKT~la~~~l~~~~--~~ge~~lyvs~ee 59 (237)
T TIGR03877 9 GMDEILHGGIPERNVVLLSG----GP----------GTGKSIFSQQFLWNGL--QMGEPGIYVALEE 59 (237)
T ss_pred hHHHHhcCCCcCCeEEEEEc----CC----------CCCHHHHHHHHHHHHH--HcCCcEEEEEeeC
Confidence 35552 2 347899999999 55 899999887654 444 347776 345554
No 257
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=50.99 E-value=24 Score=34.69 Aligned_cols=40 Identities=18% Similarity=0.124 Sum_probs=27.4
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
++-|+|+|- - |+||||+...|.+.+...-....++++=+|
T Consensus 132 ~~~ilI~G~----t----------GSGKTTll~al~~~i~~~~~~~ri~tiEd~ 171 (299)
T TIGR02782 132 RKNILVVGG----T----------GSGKTTLANALLAEIAKNDPTDRVVIIEDT 171 (299)
T ss_pred CCeEEEECC----C----------CCCHHHHHHHHHHHhhccCCCceEEEECCc
Confidence 567888874 3 999999999999888421123345666554
No 258
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=50.85 E-value=19 Score=36.44 Aligned_cols=69 Identities=17% Similarity=0.162 Sum_probs=43.5
Q ss_pred HHHHHHHcCCCCcchhcccC----ceeeecc--hhhhhh-c--CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHH
Q 044054 31 ISEIAQELNLKPNHYDLYGK----YKAKVLL--SVLDEL-E--GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTV 101 (400)
Q Consensus 31 I~eiA~~lGL~~dele~YG~----yKAKv~l--~~l~~~-~--~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTtti 101 (400)
+.+|-+++|=. .+-..|. ...+++. ..||.+ . .=|.|++++|.+ |. |.||||++.
T Consensus 10 ~~~i~~~~g~~--~~~~~~~~~~~~~~~isTGi~~LD~~Lg~GGlp~G~iteI~G----p~----------GsGKTtLal 73 (325)
T cd00983 10 LKQIEKKFGKG--SIMKLGDDAVQDVEVIPTGSLSLDIALGIGGYPKGRIIEIYG----PE----------SSGKTTLAL 73 (325)
T ss_pred HHHHHHHhCCc--ceEECccccccCCceecCCCHHHHHHhcCCCccCCeEEEEEC----CC----------CCCHHHHHH
Confidence 56666666532 2333332 1123333 235553 3 458899999998 56 899999999
Q ss_pred HHHHHHhhhcCCcEE
Q 044054 102 GLCQALGAFLDKKVV 116 (400)
Q Consensus 102 GL~~aL~~~lgk~~~ 116 (400)
-++-.. .+.|.+++
T Consensus 74 ~~~~~~-~~~g~~~v 87 (325)
T cd00983 74 HAIAEA-QKLGGTVA 87 (325)
T ss_pred HHHHHH-HHcCCCEE
Confidence 988777 45666655
No 259
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=50.83 E-value=12 Score=35.31 Aligned_cols=24 Identities=21% Similarity=0.187 Sum_probs=20.0
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
++|+++|. - |.||||.+.-|++.+
T Consensus 3 ~liil~G~----p----------GSGKSTla~~L~~~~ 26 (300)
T PHA02530 3 KIILTVGV----P----------GSGKSTWAREFAAKN 26 (300)
T ss_pred EEEEEEcC----C----------CCCHHHHHHHHHHHC
Confidence 57788775 3 899999999998877
No 260
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=50.55 E-value=22 Score=38.83 Aligned_cols=28 Identities=32% Similarity=0.463 Sum_probs=22.5
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
..|++|.++| |- |.|||||+.-|+..+.
T Consensus 348 ~~G~vIaLVG----Pt----------GvGKTTtaakLAa~la 375 (559)
T PRK12727 348 ERGGVIALVG----PT----------GAGKTTTIAKLAQRFA 375 (559)
T ss_pred cCCCEEEEEC----CC----------CCCHHHHHHHHHHHHH
Confidence 3578888876 34 9999999999998773
No 261
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=50.39 E-value=13 Score=35.04 Aligned_cols=19 Identities=32% Similarity=0.207 Sum_probs=16.2
Q ss_pred CcCCCccchhHHHHHHHHh
Q 044054 90 YPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 90 ~~~GEGKTTttiGL~~aL~ 108 (400)
.+||.||||.---+-+.|.
T Consensus 27 G~WGsGKSs~l~~l~~~L~ 45 (325)
T PF07693_consen 27 GEWGSGKSSFLNMLKEELK 45 (325)
T ss_pred CCCCCCHHHHHHHHHHHHh
Confidence 3699999999888888884
No 262
>PRK02006 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=49.54 E-value=21 Score=36.72 Aligned_cols=63 Identities=22% Similarity=0.171 Sum_probs=40.6
Q ss_pred CHHHHHHHcCCCCc-chhcccCceeeecchhhhhhcCC-CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 30 HISEIAQELNLKPN-HYDLYGKYKAKVLLSVLDELEGS-ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 30 pI~eiA~~lGL~~d-ele~YG~yKAKv~l~~l~~~~~~-~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|.-.-|++.|++-- +.|.+... ++.+..+ ...+.|-|||. -||||||-=|++.|
T Consensus 88 ~~~~~a~~~~i~v~~~~e~~~~~--------~~~l~~~~~~~~~I~VTGT----------------nGKTTTt~ml~~iL 143 (498)
T PRK02006 88 PLVAAARERGIPVWGEIELFAQA--------LAALGASGYAPKVLAITGT----------------NGKTTTTALTGLLC 143 (498)
T ss_pred HHHHHHHHCCCcEEEHHHHHHHH--------HhhhccccCCCCEEEEECC----------------CcHHHHHHHHHHHH
Confidence 55555666776643 44443322 2222111 12379999997 69999999999999
Q ss_pred hhhcCCcEEE
Q 044054 108 GAFLDKKVVT 117 (400)
Q Consensus 108 ~~~lgk~~~~ 117 (400)
...|+++..
T Consensus 144 -~~~g~~~~~ 152 (498)
T PRK02006 144 -ERAGKKVAV 152 (498)
T ss_pred -HHcCCCEEE
Confidence 578988664
No 263
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=49.34 E-value=24 Score=32.03 Aligned_cols=33 Identities=30% Similarity=0.228 Sum_probs=24.7
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+-+.|.|.| |.|||+|+--|.+.+..+.+.+.+
T Consensus 24 ~H~~I~G~T--------------GsGKS~~~~~ll~~l~~~~~~~~i 56 (229)
T PF01935_consen 24 RHIAIFGTT--------------GSGKSNTVKVLLEELLKKKGAKVI 56 (229)
T ss_pred ceEEEECCC--------------CCCHHHHHHHHHHHHHhcCCCCEE
Confidence 357888885 999999999999999324444433
No 264
>PLN02200 adenylate kinase family protein
Probab=49.26 E-value=18 Score=34.31 Aligned_cols=26 Identities=27% Similarity=0.436 Sum_probs=21.3
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.++|+|+|. | |.||||.+.-|++.++
T Consensus 43 ~~ii~I~G~---P-----------GSGKsT~a~~La~~~g 68 (234)
T PLN02200 43 PFITFVLGG---P-----------GSGKGTQCEKIVETFG 68 (234)
T ss_pred CEEEEEECC---C-----------CCCHHHHHHHHHHHhC
Confidence 457888875 2 8999999999998874
No 265
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=48.94 E-value=16 Score=38.99 Aligned_cols=30 Identities=37% Similarity=0.513 Sum_probs=25.1
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.+...+++|+|| |. |.|||||-.-||+.|+
T Consensus 41 ~~~~~~iLlLtG----P~----------G~GKtttv~~La~elg 70 (519)
T PF03215_consen 41 GSSPKRILLLTG----PS----------GCGKTTTVKVLAKELG 70 (519)
T ss_pred cCCCcceEEEEC----CC----------CCCHHHHHHHHHHHhC
Confidence 344577899998 88 9999999999999884
No 266
>COG4240 Predicted kinase [General function prediction only]
Probab=48.92 E-value=15 Score=37.06 Aligned_cols=25 Identities=28% Similarity=0.263 Sum_probs=20.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|+||||+|+-|..-| .+.|-.+++.
T Consensus 60 GSGKStls~~i~~~L-~~kg~ert~~ 84 (300)
T COG4240 60 GSGKSTLSALIVRLL-AAKGLERTAT 84 (300)
T ss_pred CCchhhHHHHHHHHH-HHhcccceEE
Confidence 999999999999999 5777434443
No 267
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=48.72 E-value=14 Score=35.97 Aligned_cols=31 Identities=32% Similarity=0.462 Sum_probs=21.1
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
..+|+|.|+ - |.||||.|.-|++-| |-+++.
T Consensus 4 ~~~IvI~G~----I----------G~GKSTLa~~La~~l----~~~~~~ 34 (216)
T COG1428 4 AMVIVIEGM----I----------GAGKSTLAQALAEHL----GFKVFY 34 (216)
T ss_pred ccEEEEecc----c----------ccCHHHHHHHHHHHh----CCceee
Confidence 357788774 4 999999776666555 555443
No 268
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=48.62 E-value=13 Score=33.12 Aligned_cols=25 Identities=28% Similarity=0.344 Sum_probs=18.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|+.|+++| |- |.||||+..-|+..+
T Consensus 2 g~~i~l~G----~s----------GsGKsTl~~~l~~~~ 26 (186)
T PRK10078 2 GKLIWLMG----PS----------GSGKDSLLAALRQRE 26 (186)
T ss_pred CcEEEEEC----CC----------CCCHHHHHHHHhccC
Confidence 56777776 45 999999988886544
No 269
>PF13173 AAA_14: AAA domain
Probab=48.35 E-value=20 Score=30.00 Aligned_cols=26 Identities=23% Similarity=0.291 Sum_probs=21.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|+|.++++|. - |.||||+..=+++.+
T Consensus 1 n~~~~~l~G~----R----------~vGKTtll~~~~~~~ 26 (128)
T PF13173_consen 1 NRKIIILTGP----R----------GVGKTTLLKQLAKDL 26 (128)
T ss_pred CCCeEEEECC----C----------CCCHHHHHHHHHHHh
Confidence 4678888874 4 999999998888777
No 270
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=48.21 E-value=30 Score=32.55 Aligned_cols=34 Identities=15% Similarity=0.110 Sum_probs=26.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH-HHhhhcCCcEEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ-ALGAFLDKKVVT 117 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~-aL~~~lgk~~~~ 117 (400)
++|-+.+-|+- |-||||.++|++- |+| .|+++..
T Consensus 20 ~~Gli~VYtGd---------------GKGKTTAAlGlalRAaG--~G~rV~i 54 (178)
T PRK07414 20 IEGLVQVFTSS---------------QRNFFTSVMAQALRIAG--QGTPVLI 54 (178)
T ss_pred CCCEEEEEeCC---------------CCCchHHHHHHHHHHhc--CCCEEEE
Confidence 67888888886 9999999999974 444 4887664
No 271
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=48.12 E-value=25 Score=32.88 Aligned_cols=43 Identities=16% Similarity=0.119 Sum_probs=31.7
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE-EEecCCC
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV-TCLRQPL 123 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~-~~lRqPS 123 (400)
=|.|+.+||+|- - |.|||+.+.-.+-.. +.-|.+++ +.++|+.
T Consensus 20 ~p~g~~~lI~G~----p----------GsGKT~f~~qfl~~~-~~~ge~vlyvs~~e~~ 63 (260)
T COG0467 20 LPRGSVVLITGP----P----------GTGKTIFALQFLYEG-AREGEPVLYVSTEESP 63 (260)
T ss_pred CcCCcEEEEEcC----C----------CCcHHHHHHHHHHHH-HhcCCcEEEEEecCCH
Confidence 378999999984 4 899999887766666 34577764 5676653
No 272
>TIGR00630 uvra excinuclease ABC, A subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=48.09 E-value=12 Score=42.82 Aligned_cols=29 Identities=17% Similarity=0.257 Sum_probs=20.7
Q ss_pred HHHHHHHHHhcCCCCCC-CCCCHHHhhhhc
Q 044054 202 NIMFRRLRKLGISKTKP-EDLTPEEINRFA 230 (400)
Q Consensus 202 ~~~~~rl~klgi~~~~p-~~lt~ee~~~~~ 230 (400)
..+.+.+++.||+-..| .+||+||+..+-
T Consensus 320 ~~l~~~~~~~g~~~~~p~~~l~~~~~~~ll 349 (924)
T TIGR00630 320 QMLKSLAEHYGFDLDTPWKDLPEEVQKAVL 349 (924)
T ss_pred HHHHHHHHHcCCCCCCChHHCCHHHHHHHh
Confidence 34555667889976664 578999888774
No 273
>PRK01368 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=47.79 E-value=24 Score=36.43 Aligned_cols=78 Identities=21% Similarity=0.262 Sum_probs=50.4
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE--ecCCCCCCccccccCcCCCCceeeecCc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC--LRQPLQGPTFGIRGGAAGGGYSQVIPMD 146 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~--lRqPS~GP~FGiKGGAaGGGysQviPme 146 (400)
.++|-|||. -||||||-=|++.| ...|+++.++ +--| ...... +..+. |+=+.
T Consensus 104 ~~~IaVTGT----------------nGKTTTt~ll~~iL-~~~g~~~~~~GniG~p----~l~~~~---~~~~~-VlE~s 158 (454)
T PRK01368 104 LKFIAITGT----------------NGKSTTTALISHIL-NSNGLDYPVAGNIGVP----ALQAKA---SKDGY-VLELS 158 (454)
T ss_pred CCEEEEECC----------------CcHHHHHHHHHHHH-HhcCCCeEEEccCCHH----HhcccC---CCCEE-EEEcC
Confidence 468999986 69999999999999 5789887654 2222 222222 23444 88899
Q ss_pred ccccccchhhhH-HHHHHhHHHHHHH
Q 044054 147 EFNLHLTGDIHA-ITAANNLLAAAID 171 (400)
Q Consensus 147 eiNLHfTGD~HA-ItaA~NLlaA~id 171 (400)
++.|+++--+|. |..-.|+=..=+|
T Consensus 159 s~ql~~~~~~~P~iavitNI~~DHLd 184 (454)
T PRK01368 159 SFQLDLVKTFTAKIAVLLNITPDHLD 184 (454)
T ss_pred chhhccccccCCCEEEEecCChhHhh
Confidence 999888754432 2223455444455
No 274
>PRK08084 DNA replication initiation factor; Provisional
Probab=47.77 E-value=25 Score=32.84 Aligned_cols=43 Identities=19% Similarity=0.252 Sum_probs=29.1
Q ss_pred hhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 58 SVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 58 ~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
..+.++...+.+..++++| |. |.|||++..+++..+. ..|+++
T Consensus 34 ~~l~~~~~~~~~~~l~l~G----p~----------G~GKThLl~a~~~~~~-~~~~~v 76 (235)
T PRK08084 34 AALQNALRQEHSGYIYLWS----RE----------GAGRSHLLHAACAELS-QRGRAV 76 (235)
T ss_pred HHHHHHHhCCCCCeEEEEC----CC----------CCCHHHHHHHHHHHHH-hCCCeE
Confidence 3444443334455777776 45 9999999999999885 446554
No 275
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=47.57 E-value=22 Score=34.22 Aligned_cols=26 Identities=19% Similarity=0.178 Sum_probs=20.8
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
|.||||+...|+..|. ..|.++. .+.
T Consensus 11 gsGKTtl~~~l~~~L~-~~G~~V~-viK 36 (229)
T PRK14494 11 DSGKTTLIEKILKNLK-ERGYRVA-TAK 36 (229)
T ss_pred CChHHHHHHHHHHHHH-hCCCeEE-EEE
Confidence 8999999999999994 6677654 443
No 276
>COG0645 Predicted kinase [General function prediction only]
Probab=47.20 E-value=14 Score=34.70 Aligned_cols=16 Identities=56% Similarity=0.850 Sum_probs=15.1
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++-+|++.|+
T Consensus 11 GsGKstlA~~l~~~lg 26 (170)
T COG0645 11 GSGKSTLARGLAELLG 26 (170)
T ss_pred CccHhHHHHHHHhhcC
Confidence 8999999999999996
No 277
>PRK14530 adenylate kinase; Provisional
Probab=47.16 E-value=18 Score=32.94 Aligned_cols=16 Identities=38% Similarity=0.729 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||.+.-|++.++
T Consensus 13 GsGKsT~~~~La~~~~ 28 (215)
T PRK14530 13 GAGKGTQSSNLAEEFG 28 (215)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999988873
No 278
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=47.11 E-value=21 Score=32.37 Aligned_cols=42 Identities=26% Similarity=0.468 Sum_probs=28.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH-HHHhhhcCCcE-EEEecCCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC-QALGAFLDKKV-VTCLRQPL 123 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~-~aL~~~lgk~~-~~~lRqPS 123 (400)
|.|..+||+| |. |.|||+.+.-++ .++ ...|.++ .+++-+|.
T Consensus 17 p~gs~~li~G----~~----------GsGKT~l~~q~l~~~~-~~~ge~vlyvs~ee~~ 60 (226)
T PF06745_consen 17 PKGSVVLISG----PP----------GSGKTTLALQFLYNGL-KNFGEKVLYVSFEEPP 60 (226)
T ss_dssp ETTSEEEEEE----ST----------TSSHHHHHHHHHHHHH-HHHT--EEEEESSS-H
T ss_pred CCCcEEEEEe----CC----------CCCcHHHHHHHHHHhh-hhcCCcEEEEEecCCH
Confidence 7899999998 35 999999998866 455 2337776 45666665
No 279
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=46.89 E-value=26 Score=35.06 Aligned_cols=41 Identities=29% Similarity=0.252 Sum_probs=33.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
..=.+|.|-.| |== |.|||.+++-|++.| ...|.+..+.-|
T Consensus 26 ~~vPVIsVGNi--tvG----------GTGKTP~v~~La~~l-~~~G~~~~IlSR 66 (311)
T TIGR00682 26 APVPVVIVGNL--SVG----------GTGKTPVVVWLAELL-KDRGLRVGVLSR 66 (311)
T ss_pred CCCCEEEEecc--ccC----------CcChHHHHHHHHHHH-HHCCCEEEEECC
Confidence 34558999888 555 999999999999999 477988887777
No 280
>PRK11545 gntK gluconate kinase 1; Provisional
Probab=46.46 E-value=12 Score=33.18 Aligned_cols=17 Identities=29% Similarity=0.432 Sum_probs=14.8
Q ss_pred CCCccchhHHHHHHHHh
Q 044054 92 LGEGKSTTTVGLCQALG 108 (400)
Q Consensus 92 ~GEGKTTttiGL~~aL~ 108 (400)
.|.||||++-.|+..++
T Consensus 4 sGsGKSTla~~la~~l~ 20 (163)
T PRK11545 4 SGSGKSAVASEVAHQLH 20 (163)
T ss_pred CCCcHHHHHHHHHHHhC
Confidence 49999999999988874
No 281
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=46.42 E-value=17 Score=38.32 Aligned_cols=27 Identities=26% Similarity=0.380 Sum_probs=23.6
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
..|+||++| |- |.|||++..+|||-|.
T Consensus 176 ~NRliLlhG----PP----------GTGKTSLCKaLaQkLS 202 (423)
T KOG0744|consen 176 WNRLILLHG----PP----------GTGKTSLCKALAQKLS 202 (423)
T ss_pred eeeEEEEeC----CC----------CCChhHHHHHHHHhhe
Confidence 368999997 56 9999999999999995
No 282
>PRK03803 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=46.22 E-value=26 Score=35.41 Aligned_cols=32 Identities=22% Similarity=0.185 Sum_probs=27.1
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.+.|-|||. -||||||-=|++.| .+.|+.+..
T Consensus 108 ~~~I~VTGT----------------~GKTTTt~li~~iL-~~~g~~~~~ 139 (448)
T PRK03803 108 APVIAITGS----------------NGKSTVTTLVGEMA-KAAGKRVAV 139 (448)
T ss_pred CCEEEEECC----------------CcHHHHHHHHHHHH-HhcCCCeEE
Confidence 578999987 79999999999999 578887654
No 283
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=46.17 E-value=26 Score=34.30 Aligned_cols=24 Identities=25% Similarity=0.407 Sum_probs=19.8
Q ss_pred EEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 71 YVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 71 ~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
||++||+ | |+||||.+.-|.+.|.
T Consensus 3 Liil~G~---P-----------~SGKTt~a~~L~~~~~ 26 (270)
T PF08433_consen 3 LIILCGL---P-----------CSGKTTRAKELKKYLE 26 (270)
T ss_dssp EEEEE-----T-----------TSSHHHHHHHHHHHHH
T ss_pred EEEEEcC---C-----------CCcHHHHHHHHHHHHH
Confidence 7899997 5 4999999999999995
No 284
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=46.14 E-value=33 Score=30.55 Aligned_cols=27 Identities=22% Similarity=0.273 Sum_probs=19.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
|+||||+-.-|.+ . ..-|.+..+-.-|
T Consensus 10 GsGKTTli~~ll~-~-~~~~~~~~vI~ne 36 (178)
T PF02492_consen 10 GSGKTTLINHLLK-R-NRQGERVAVIVNE 36 (178)
T ss_dssp TSSHHHHHHHHHH-H-HTTTS-EEEEECS
T ss_pred CCCHHHHHHHHHH-H-hcCCceeEEEEcc
Confidence 9999999888887 3 3457776655544
No 285
>PRK14737 gmk guanylate kinase; Provisional
Probab=45.95 E-value=23 Score=32.31 Aligned_cols=46 Identities=22% Similarity=0.201 Sum_probs=32.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCc
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPT 127 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~ 127 (400)
..+++|+++| |. |.||||+.--|.+-+. .+....-.+=|.|-.|-+
T Consensus 2 ~~~~~ivl~G----ps----------G~GK~tl~~~l~~~~~-~~~~~v~~TTR~~r~gE~ 47 (186)
T PRK14737 2 ASPKLFIISS----VA----------GGGKSTIIQALLEEHP-DFLFSISCTTRAPRPGDE 47 (186)
T ss_pred CCCeEEEEEC----CC----------CCCHHHHHHHHHhcCC-ccccccCccCCCCCCCCC
Confidence 3588999997 67 9999999999887662 343333446677777743
No 286
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=45.75 E-value=15 Score=38.69 Aligned_cols=27 Identities=26% Similarity=0.624 Sum_probs=22.6
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
-||-||+++ |- |.|||.+++|++|.|+
T Consensus 49 aGr~iLiaG----pp----------GtGKTAlA~~ia~eLG 75 (398)
T PF06068_consen 49 AGRAILIAG----PP----------GTGKTALAMAIAKELG 75 (398)
T ss_dssp TT-EEEEEE-----T----------TSSHHHHHHHHHHHCT
T ss_pred cCcEEEEeC----CC----------CCCchHHHHHHHHHhC
Confidence 599999997 45 9999999999999985
No 287
>COG3265 GntK Gluconate kinase [Carbohydrate transport and metabolism]
Probab=45.64 E-value=11 Score=35.38 Aligned_cols=16 Identities=50% Similarity=0.748 Sum_probs=14.9
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||+...|++.|+
T Consensus 5 G~GKStvg~~lA~~lg 20 (161)
T COG3265 5 GSGKSTVGSALAERLG 20 (161)
T ss_pred ccCHHHHHHHHHHHcC
Confidence 9999999999999985
No 288
>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae. Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.
Probab=45.59 E-value=16 Score=33.72 Aligned_cols=25 Identities=24% Similarity=0.353 Sum_probs=18.2
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|++|+++|. +. +||||++..|...|
T Consensus 1 g~iI~LNG~---sS-----------SGKSsia~~Lq~~~ 25 (174)
T PF07931_consen 1 GQIIILNGP---SS-----------SGKSSIARALQERL 25 (174)
T ss_dssp --EEEEEE----TT-----------SSHHHHHHHHHHHS
T ss_pred CeEEEEeCC---CC-----------CCHHHHHHHHHHhC
Confidence 678998884 55 89999988887766
No 289
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=45.49 E-value=16 Score=29.99 Aligned_cols=75 Identities=25% Similarity=0.290 Sum_probs=42.8
Q ss_pred CCccchhHHHHHHHHhhhcCCc---EEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHH
Q 044054 93 GEGKSTTTVGLCQALGAFLDKK---VVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAA 169 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~---~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~ 169 (400)
|.|||+++-=|+..|..+++.. .+-. |.|..-.-=|.+|- -|+=+|||.=--.+- .- +-.+.+-.+
T Consensus 8 G~GKS~l~~~l~~~l~~~~~~~~~~~vy~-~~~~~~~w~gY~~q-------~vvi~DD~~~~~~~~--~~-~~~~~l~~l 76 (107)
T PF00910_consen 8 GIGKSTLAKELAKDLLKHIGEPTKDSVYT-RNPGDKFWDGYQGQ-------PVVIIDDFGQDNDGY--NY-SDESELIRL 76 (107)
T ss_pred CCCHHHHHHHHHHHHHHHhccCCCCcEEe-CCCccchhhccCCC-------cEEEEeecCcccccc--ch-HHHHHHHHH
Confidence 9999999999999997666332 3333 77766555555532 355555554322220 00 123445556
Q ss_pred HHhhhhccc
Q 044054 170 IDTRIFHEA 178 (400)
Q Consensus 170 idn~i~~~~ 178 (400)
+|+.-|.-+
T Consensus 77 ~s~~~~~~~ 85 (107)
T PF00910_consen 77 ISSNPFQPN 85 (107)
T ss_pred HhcCCcccc
Confidence 676666544
No 290
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=45.49 E-value=26 Score=35.41 Aligned_cols=70 Identities=14% Similarity=0.142 Sum_probs=43.8
Q ss_pred CHHHHHHHcCCCCcchhcccCce----eeecc--hhhhhh-c--CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhH
Q 044054 30 HISEIAQELNLKPNHYDLYGKYK----AKVLL--SVLDEL-E--GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTT 100 (400)
Q Consensus 30 pI~eiA~~lGL~~dele~YG~yK----AKv~l--~~l~~~-~--~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTtt 100 (400)
.+++|.++.|=. .+-..|..+ .+++. ..||.+ . .=|.|.+++|.+ |. |.||||++
T Consensus 9 ~~~~~~~~~g~~--~~~~~~~~~~~~~~~i~TGi~~LD~~Lg~GGlp~G~iteI~G----~~----------GsGKTtLa 72 (321)
T TIGR02012 9 ALAQIEKQFGKG--SIMRLGEKSVMDVETISTGSLSLDLALGVGGLPRGRIIEIYG----PE----------SSGKTTLA 72 (321)
T ss_pred HHHHHHHHcCcc--eeEECcccccccCceecCCCHHHHHHhcCCCCcCCeEEEEEC----CC----------CCCHHHHH
Confidence 356677776632 333444321 12332 245553 2 458899999998 56 89999998
Q ss_pred HHHHHHHhhhcCCcEE
Q 044054 101 VGLCQALGAFLDKKVV 116 (400)
Q Consensus 101 iGL~~aL~~~lgk~~~ 116 (400)
.-++... .+.|.+++
T Consensus 73 L~~~~~~-~~~g~~v~ 87 (321)
T TIGR02012 73 LHAIAEA-QKAGGTAA 87 (321)
T ss_pred HHHHHHH-HHcCCcEE
Confidence 8877776 35576654
No 291
>PRK00349 uvrA excinuclease ABC subunit A; Reviewed
Probab=45.41 E-value=14 Score=42.40 Aligned_cols=29 Identities=17% Similarity=0.263 Sum_probs=20.5
Q ss_pred HHHHHHHHHhcCCCCCC-CCCCHHHhhhhc
Q 044054 202 NIMFRRLRKLGISKTKP-EDLTPEEINRFA 230 (400)
Q Consensus 202 ~~~~~rl~klgi~~~~p-~~lt~ee~~~~~ 230 (400)
..+.+.++..||+-..| .+||+|++..+-
T Consensus 322 ~~l~~~~~~~g~~~~~p~~~l~~~~~~~ll 351 (943)
T PRK00349 322 QMLKSLAEHYGFDLDTPWKDLPEEVQDIIL 351 (943)
T ss_pred HHHHHHHHHcCCCCCCchHHCCHHHHHHHc
Confidence 44555667889976665 578988887664
No 292
>PRK09354 recA recombinase A; Provisional
Probab=45.26 E-value=26 Score=35.91 Aligned_cols=70 Identities=16% Similarity=0.121 Sum_probs=44.8
Q ss_pred CHHHHHHHcCCCCcchhcccC----ceeeecc--hhhhhh-c--CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhH
Q 044054 30 HISEIAQELNLKPNHYDLYGK----YKAKVLL--SVLDEL-E--GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTT 100 (400)
Q Consensus 30 pI~eiA~~lGL~~dele~YG~----yKAKv~l--~~l~~~-~--~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTtt 100 (400)
.|.+|-++.|=. .+-..|. ...+++. ..||.+ . .=|.|.+++|.+ |. |.||||++
T Consensus 14 ~~~~i~~~~g~~--~~~~~~~~~~~~~~~isTGi~~LD~~LG~GGip~G~IteI~G----~~----------GsGKTtLa 77 (349)
T PRK09354 14 ALKQIEKQFGKG--SIMRLGDDAAMDVEVISTGSLALDIALGIGGLPRGRIVEIYG----PE----------SSGKTTLA 77 (349)
T ss_pred HHHHHHHHhCCC--CceEcccccccCCceecCCcHHHHHHhcCCCCcCCeEEEEEC----CC----------CCCHHHHH
Confidence 467777777643 2333343 1223443 235553 2 458899999998 56 89999999
Q ss_pred HHHHHHHhhhcCCcEE
Q 044054 101 VGLCQALGAFLDKKVV 116 (400)
Q Consensus 101 iGL~~aL~~~lgk~~~ 116 (400)
.-++... .+.|..++
T Consensus 78 l~~~~~~-~~~G~~~~ 92 (349)
T PRK09354 78 LHAIAEA-QKAGGTAA 92 (349)
T ss_pred HHHHHHH-HHcCCcEE
Confidence 8877666 35676655
No 293
>COG3948 Phage-related baseplate assembly protein [General function prediction only]
Probab=45.20 E-value=25 Score=35.74 Aligned_cols=83 Identities=22% Similarity=0.259 Sum_probs=63.6
Q ss_pred CCCCCHHHHHHHcCCCCcchhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH
Q 044054 26 VEPLHISEIAQELNLKPNHYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ 105 (400)
Q Consensus 26 ~~~~pI~eiA~~lGL~~dele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~ 105 (400)
+.+..=..+-+.+-+.+|-+.--|.|+|-+-+.. ..+|+++-|++++|+| +|+-++-+|+ ||--+-.--|-+
T Consensus 120 ~~mE~DdalR~RiqlA~Eg~SvAGp~gAY~~ha~------sad~~V~DvsatsPap-aEv~vtvls~-~~nG~~~~~lL~ 191 (306)
T COG3948 120 AVMESDDALRKRIQLAPEGLSVAGPTGAYIFHAL------SADGRVADVSATSPAP-AEVVVTVLSR-EGNGQPGEDLLD 191 (306)
T ss_pred ccccccHHHHHHHhhchhhccccCCccceeeeee------ccCcceeeccccCCCC-ceEEEEEeec-ccCCCCCHHHHH
Confidence 3444556677888899999988888887765431 3579999999999999 5999999999 888887777877
Q ss_pred HHhhhcCCcEE
Q 044054 106 ALGAFLDKKVV 116 (400)
Q Consensus 106 aL~~~lgk~~~ 116 (400)
+....+++...
T Consensus 192 aV~~avn~E~v 202 (306)
T COG3948 192 AVERAVNKESV 202 (306)
T ss_pred HHHHHhccccc
Confidence 77555555543
No 294
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=45.09 E-value=12 Score=35.58 Aligned_cols=23 Identities=26% Similarity=0.462 Sum_probs=17.0
Q ss_pred cchhHHHHHHHHHhcCCCCCCCC
Q 044054 198 RSFSNIMFRRLRKLGISKTKPED 220 (400)
Q Consensus 198 r~f~~~~~~rl~klgi~~~~p~~ 220 (400)
|+-......||++-|.+..+-.+
T Consensus 90 R~~p~~L~~RLk~RGy~~eKI~E 112 (180)
T COG1936 90 RADPEVLYERLKGRGYSEEKILE 112 (180)
T ss_pred cCCHHHHHHHHHHcCCCHHHHHH
Confidence 45567888999999987665443
No 295
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=45.06 E-value=30 Score=36.88 Aligned_cols=25 Identities=28% Similarity=0.175 Sum_probs=20.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.|||||..-|+-.|. .-|+++...
T Consensus 251 GvGKTTTiaKLA~~L~-~~GkkVglI 275 (436)
T PRK11889 251 GVGKTTTLAKMAWQFH-GKKKTVGFI 275 (436)
T ss_pred CCcHHHHHHHHHHHHH-HcCCcEEEE
Confidence 9999999999999884 567766543
No 296
>PRK14106 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=44.90 E-value=29 Score=34.79 Aligned_cols=31 Identities=26% Similarity=0.261 Sum_probs=25.8
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.+.|-|||- -|||||+-=|++.| ...|+.+.
T Consensus 108 ~~vI~ITGS----------------~GKTTt~~~l~~iL-~~~g~~~~ 138 (450)
T PRK14106 108 APIVAITGT----------------NGKTTTTTLLGEIF-KNAGRKTL 138 (450)
T ss_pred CCEEEEeCC----------------CchHHHHHHHHHHH-HHcCCCeE
Confidence 678988886 79999999999999 47787543
No 297
>PRK04328 hypothetical protein; Provisional
Probab=44.81 E-value=36 Score=32.23 Aligned_cols=48 Identities=21% Similarity=0.261 Sum_probs=31.9
Q ss_pred hhhhh-c-CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH-HHHhhhcCCcE-EEEecCC
Q 044054 59 VLDEL-E-GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC-QALGAFLDKKV-VTCLRQP 122 (400)
Q Consensus 59 ~l~~~-~-~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~-~aL~~~lgk~~-~~~lRqP 122 (400)
-||++ . .=|.|..++|+| |. |.||||.+.=++ .++ .-|.++ ++.+.|+
T Consensus 11 ~LD~lL~GGip~gs~ili~G----~p----------GsGKT~l~~~fl~~~~--~~ge~~lyis~ee~ 62 (249)
T PRK04328 11 GMDEILYGGIPERNVVLLSG----GP----------GTGKSIFSQQFLWNGL--QMGEPGVYVALEEH 62 (249)
T ss_pred hHHHHhcCCCcCCcEEEEEc----CC----------CCCHHHHHHHHHHHHH--hcCCcEEEEEeeCC
Confidence 45553 2 237899999999 56 899999887754 445 347765 3455443
No 298
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=44.66 E-value=30 Score=27.42 Aligned_cols=43 Identities=19% Similarity=0.288 Sum_probs=27.9
Q ss_pred chhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 44 HYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 44 ele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
++.-||.|..+ ++++ .++|+..++|+= - |.||||+--.+.=+|
T Consensus 5 ~L~Nw~~f~~~-~~~~------~~~g~~tli~G~----n----------GsGKSTllDAi~~~L 47 (62)
T PF13555_consen 5 QLVNWGSFDGE-TIDF------DPRGDVTLITGP----N----------GSGKSTLLDAIQTVL 47 (62)
T ss_pred EEeccCccCCe-EEee------cCCCcEEEEECC----C----------CCCHHHHHHHHHHHH
Confidence 34556666552 2221 256788888874 4 999999877776666
No 299
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=44.63 E-value=18 Score=36.09 Aligned_cols=26 Identities=23% Similarity=0.399 Sum_probs=21.6
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.++|+|+| |. |.||||+++-|++.++
T Consensus 4 ~~~i~i~G----pt----------gsGKt~la~~la~~~~ 29 (307)
T PRK00091 4 PKVIVIVG----PT----------ASGKTALAIELAKRLN 29 (307)
T ss_pred ceEEEEEC----CC----------CcCHHHHHHHHHHhCC
Confidence 46888887 34 8999999999999884
No 300
>PRK03369 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=44.46 E-value=30 Score=35.91 Aligned_cols=32 Identities=31% Similarity=0.321 Sum_probs=26.4
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.++|-|||. -|||||+-=|++.| ...|+++..
T Consensus 117 ~~vIgITGT----------------nGKTTTt~li~~iL-~~~g~~~~~ 148 (488)
T PRK03369 117 RRWLVVTGT----------------NGKTTTTSMLHAML-IAAGRRSVL 148 (488)
T ss_pred CCEEEEECC----------------CcHHHHHHHHHHHH-HHcCCceEE
Confidence 368989886 69999999999999 478877653
No 301
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=44.43 E-value=24 Score=35.42 Aligned_cols=37 Identities=11% Similarity=0.122 Sum_probs=26.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
.++-|+|+|- - |+||||+...|.+.+. . ..+ ++++-+
T Consensus 159 ~~~nili~G~----t----------gSGKTTll~aL~~~ip-~-~~r-i~tiEd 195 (332)
T PRK13900 159 SKKNIIISGG----T----------STGKTTFTNAALREIP-A-IER-LITVED 195 (332)
T ss_pred cCCcEEEECC----C----------CCCHHHHHHHHHhhCC-C-CCe-EEEecC
Confidence 4677888884 3 9999999999999884 2 333 555533
No 302
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=44.35 E-value=27 Score=38.67 Aligned_cols=35 Identities=29% Similarity=0.238 Sum_probs=28.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
.++++||| ++ |.||||+..++.+++ ...|.+++.|
T Consensus 368 ~~~~il~G----~a----------GTGKTtll~~i~~~~-~~~g~~V~~~ 402 (744)
T TIGR02768 368 GDIAVVVG----RA----------GTGKSTMLKAAREAW-EAAGYRVIGA 402 (744)
T ss_pred CCEEEEEe----cC----------CCCHHHHHHHHHHHH-HhCCCeEEEE
Confidence 46888988 47 999999999999999 4678877665
No 303
>PRK13949 shikimate kinase; Provisional
Probab=44.32 E-value=12 Score=33.31 Aligned_cols=16 Identities=44% Similarity=0.696 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.|+
T Consensus 11 GsGKstl~~~La~~l~ 26 (169)
T PRK13949 11 GAGKTTLGKALARELG 26 (169)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 8999999999998883
No 304
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=44.26 E-value=35 Score=34.18 Aligned_cols=41 Identities=15% Similarity=0.062 Sum_probs=26.5
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
.++-|+|+|- - |.||||+...|++.+-..-....++++=+|
T Consensus 147 ~~~~ilI~G~----t----------GSGKTTll~aL~~~~~~~~~~~rivtIEd~ 187 (319)
T PRK13894 147 AHRNILVIGG----T----------GSGKTTLVNAIINEMVIQDPTERVFIIEDT 187 (319)
T ss_pred cCCeEEEECC----C----------CCCHHHHHHHHHHhhhhcCCCceEEEEcCC
Confidence 3567888874 3 999999999999876211123345555443
No 305
>PRK08939 primosomal protein DnaI; Reviewed
Probab=43.53 E-value=39 Score=33.53 Aligned_cols=72 Identities=13% Similarity=0.053 Sum_probs=42.4
Q ss_pred CHHHHHHHcCCCC----cchhcccCc---eee---ecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchh
Q 044054 30 HISEIAQELNLKP----NHYDLYGKY---KAK---VLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTT 99 (400)
Q Consensus 30 pI~eiA~~lGL~~----dele~YG~y---KAK---v~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTt 99 (400)
-+...-+..+++. -.++-|... +.+ ...+++++....+.+|=++++| |. |.|||.+
T Consensus 107 ~~~~~i~~a~~p~~~~~atf~~~~~~~~~~~~~~~~~~~fi~~~~~~~~~~gl~L~G----~~----------G~GKThL 172 (306)
T PRK08939 107 AIKKRIQSIYMPKDLLQASLADIDLDDRDRLDALMAALDFLEAYPPGEKVKGLYLYG----DF----------GVGKSYL 172 (306)
T ss_pred HHHHHHHHcCCCHhHhcCcHHHhcCCChHHHHHHHHHHHHHHHhhccCCCCeEEEEC----CC----------CCCHHHH
Confidence 3555556777775 233433311 111 1133444433323456677766 45 9999999
Q ss_pred HHHHHHHHhhhcCCcEE
Q 044054 100 TVGLCQALGAFLDKKVV 116 (400)
Q Consensus 100 tiGL~~aL~~~lgk~~~ 116 (400)
+.+|+..|. ..|+++.
T Consensus 173 a~Aia~~l~-~~g~~v~ 188 (306)
T PRK08939 173 LAAIANELA-KKGVSST 188 (306)
T ss_pred HHHHHHHHH-HcCCCEE
Confidence 999999994 6677754
No 306
>PRK06526 transposase; Provisional
Probab=43.39 E-value=16 Score=35.24 Aligned_cols=22 Identities=27% Similarity=0.392 Sum_probs=19.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
|.|||+++.+|+..+. +.|+++
T Consensus 108 GtGKThLa~al~~~a~-~~g~~v 129 (254)
T PRK06526 108 GTGKTHLAIGLGIRAC-QAGHRV 129 (254)
T ss_pred CCchHHHHHHHHHHHH-HCCCch
Confidence 9999999999999884 667765
No 307
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=43.23 E-value=32 Score=34.58 Aligned_cols=27 Identities=22% Similarity=0.252 Sum_probs=22.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
|.||||+..-|...|. ..|.++ +.+..
T Consensus 215 ~~GKtt~~~~l~~~l~-~~g~~v-~~iKh 241 (366)
T PRK14489 215 GTGKTTLLEKLIPELI-ARGYRI-GLIKH 241 (366)
T ss_pred CCCHHHHHHHHHHHHH-HcCCEE-EEEEE
Confidence 8999999999999994 667765 55664
No 308
>PHA03132 thymidine kinase; Provisional
Probab=43.13 E-value=27 Score=38.24 Aligned_cols=39 Identities=18% Similarity=0.358 Sum_probs=30.6
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG 125 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G 125 (400)
+|++|+|-|+ - |.||||++.-|++-| |.+ +..++||.-.
T Consensus 256 ~~~fIv~EGi----d----------GsGKTTlik~L~e~l----g~~-Vi~t~EP~~~ 294 (580)
T PHA03132 256 PACFLFLEGV----M----------GVGKTTLLNHMRGIL----GDN-VLVFPEPMRY 294 (580)
T ss_pred ceEEEEEECC----C----------CCCHHHHHHHHHHHh----CCc-eEEEeCCCCc
Confidence 3888888887 3 999999998888766 555 5689999754
No 309
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=43.10 E-value=21 Score=35.33 Aligned_cols=24 Identities=33% Similarity=0.314 Sum_probs=19.7
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+..++|+|||. . |+||||++.-|.
T Consensus 4 ~~~~~i~i~G~----~----------GsGKtt~~~~l~ 27 (288)
T PRK05416 4 APMRLVIVTGL----S----------GAGKSVALRALE 27 (288)
T ss_pred CCceEEEEECC----C----------CCcHHHHHHHHH
Confidence 44679999997 4 999999988774
No 310
>PRK09183 transposase/IS protein; Provisional
Probab=43.09 E-value=27 Score=33.53 Aligned_cols=35 Identities=23% Similarity=0.166 Sum_probs=26.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.|.-|+++| |- |.|||+++.+|+..+. ..|+++.
T Consensus 100 ~~~~~v~l~G----p~----------GtGKThLa~al~~~a~-~~G~~v~ 134 (259)
T PRK09183 100 ERNENIVLLG----PS----------GVGKTHLAIALGYEAV-RAGIKVR 134 (259)
T ss_pred hcCCeEEEEe----CC----------CCCHHHHHHHHHHHHH-HcCCeEE
Confidence 3466677776 45 9999999999988874 5676653
No 311
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=42.68 E-value=20 Score=35.09 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=21.1
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
|.||||+..-|+..| .+.| + ++.+--
T Consensus 11 gSGKTTLi~~Li~~L-~~~G-~-V~~IKh 36 (274)
T PRK14493 11 ATGKTTLVERLVDRL-SGRG-R-VGTVKH 36 (274)
T ss_pred CCCHHHHHHHHHHHH-HhCC-C-EEEEEE
Confidence 899999999999999 4778 5 455544
No 312
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=42.57 E-value=13 Score=32.19 Aligned_cols=16 Identities=31% Similarity=0.642 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||.+.-|++.++
T Consensus 9 GsGKst~a~~la~~~~ 24 (183)
T TIGR01359 9 GSGKGTQCAKIVENFG 24 (183)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 8999999999998874
No 313
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=41.88 E-value=25 Score=35.11 Aligned_cols=16 Identities=38% Similarity=0.532 Sum_probs=15.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||.|--|++.|.
T Consensus 11 gsGKTtfakeLak~L~ 26 (261)
T COG4088 11 GSGKTTFAKELAKELR 26 (261)
T ss_pred CCCchHHHHHHHHHHH
Confidence 7999999999999995
No 314
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=41.86 E-value=24 Score=28.50 Aligned_cols=27 Identities=26% Similarity=0.325 Sum_probs=19.3
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+++.++|+|- . |.|||++..-+++.+.
T Consensus 3 ~~~~~~i~G~----~----------G~GKT~~~~~~~~~~~ 29 (131)
T PF13401_consen 3 SQRILVISGP----P----------GSGKTTLIKRLARQLN 29 (131)
T ss_dssp ----EEEEE-----T----------TSSHHHHHHHHHHHHH
T ss_pred CCcccEEEcC----C----------CCCHHHHHHHHHHHhH
Confidence 4667888874 4 9999999999999884
No 315
>PRK02705 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=41.86 E-value=34 Score=34.43 Aligned_cols=34 Identities=24% Similarity=0.246 Sum_probs=28.0
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
+.+.|-|||. -||||||-=|++.| ...|+++..+
T Consensus 108 ~~~~I~VTGT----------------~GKTTTt~ml~~iL-~~~g~~~~~~ 141 (459)
T PRK02705 108 HIPWVGITGT----------------NGKTTVTALLAHIL-QAAGLNAPAC 141 (459)
T ss_pred CCCEEEEeCC----------------CchHHHHHHHHHHH-HHcCCCeEEe
Confidence 4579999986 79999999999999 4788876543
No 316
>PRK12338 hypothetical protein; Provisional
Probab=41.86 E-value=19 Score=36.52 Aligned_cols=25 Identities=36% Similarity=0.616 Sum_probs=20.4
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.+|+|+|. . |.||||++-.|++.|+
T Consensus 5 ~ii~i~G~----s----------GsGKST~a~~la~~l~ 29 (319)
T PRK12338 5 YVILIGSA----S----------GIGKSTIASELARTLN 29 (319)
T ss_pred EEEEEECC----C----------CCCHHHHHHHHHHHCC
Confidence 57788774 3 8999999999998884
No 317
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=41.47 E-value=19 Score=34.90 Aligned_cols=16 Identities=44% Similarity=0.727 Sum_probs=14.8
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||++..|++-|+
T Consensus 18 gSGKTTva~~l~~~~~ 33 (218)
T COG0572 18 GSGKTTVAKELSEQLG 33 (218)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999999884
No 318
>PRK00683 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=41.46 E-value=36 Score=34.23 Aligned_cols=80 Identities=19% Similarity=0.077 Sum_probs=48.8
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCC-CccccccCcCCCCceeeecCc
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG-PTFGIRGGAAGGGYSQVIPMD 146 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G-P~FGiKGGAaGGGysQviPme 146 (400)
+.+.|-|||- -|||||+-=|++.| ...|+.+..+= ..| |.+...+. ..+. |+=+.
T Consensus 101 ~~~~I~ITGT----------------~GKTTTt~ml~~iL-~~~g~~~~~~G---niG~p~l~~~~~---~~~~-V~E~~ 156 (418)
T PRK00683 101 RYPSLGITGS----------------TGKTTTILFLEHLL-KRLGIPAFAMG---NIGIPILDGMQQ---PGVR-VVEIS 156 (418)
T ss_pred CCCEEEEECC----------------CChHHHHHHHHHHH-HHcCCCeEEEC---CcCHHHHHHhhc---CCEE-EEEec
Confidence 3568989886 79999999999999 47887554321 133 44444332 3444 77677
Q ss_pred ccccccchhhhH---HHHHHhHHHHHHH
Q 044054 147 EFNLHLTGDIHA---ITAANNLLAAAID 171 (400)
Q Consensus 147 eiNLHfTGD~HA---ItaA~NLlaA~id 171 (400)
.+.++++=..++ |..=.|+=.+=+|
T Consensus 157 s~~~~~~~~~~~~~~iavitNi~~dHld 184 (418)
T PRK00683 157 SFQLADQEKSYPVLSGGMILNISDNHLD 184 (418)
T ss_pred hhhhCcCcccCCCccEEEEecCChhHhc
Confidence 776655222333 4444566555555
No 319
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=41.36 E-value=28 Score=33.96 Aligned_cols=30 Identities=30% Similarity=0.540 Sum_probs=23.5
Q ss_pred cCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 77 ITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 77 ItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|+| |.|+..+.|---||||||+-+=+.-++
T Consensus 36 i~~-~~~~n~v~QlnMGeGKTsVI~Pmla~~ 65 (229)
T PF12340_consen 36 ISP-PSGKNSVMQLNMGEGKTSVIVPMLALA 65 (229)
T ss_pred hCC-CCCCCeEeeecccCCccchHHHHHHHH
Confidence 345 578888999999999999877666554
No 320
>COG0332 FabH 3-oxoacyl-[acyl-carrier-protein]
Probab=41.17 E-value=12 Score=38.04 Aligned_cols=55 Identities=25% Similarity=0.363 Sum_probs=38.0
Q ss_pred HHccCCCCCHHHHHHHcCCCCcc----hhcccCcee-eecchhhhhh---cCCCCCcEEEEecc
Q 044054 22 IANSVEPLHISEIAQELNLKPNH----YDLYGKYKA-KVLLSVLDEL---EGSADGYYVVVGEI 77 (400)
Q Consensus 22 Ia~~~~~~pI~eiA~~lGL~~de----le~YG~yKA-Kv~l~~l~~~---~~~~~Gk~VlVTaI 77 (400)
+-.++..+-|+.|++++|++++. ++-||+.-| -|.+ .|++. ..-++|-+||+.+.
T Consensus 247 vpHQan~ri~~~i~~~l~~~~~k~~~~~~~yGNtsaAsipl-aL~~~~~~g~ik~Gd~ill~~f 309 (323)
T COG0332 247 VPHQANLRIIEAIAKKLGIPEEKVVVTVDKYGNTSAASIPL-ALDEALREGRIKPGDLVLLEAF 309 (323)
T ss_pred ccccccHHHHHHHHHHcCCCHHHHhhHHHHhcccccchHHH-HHHHHhhhCCCCCCCEEEEEee
Confidence 44556677799999999998775 678999554 4444 33432 22256889999887
No 321
>COG0857 Pta BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]
Probab=41.15 E-value=20 Score=36.81 Aligned_cols=27 Identities=37% Similarity=0.439 Sum_probs=23.5
Q ss_pred CCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 78 TRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 78 tPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
.||.. |+|||.++.||..+|. +.|.+.
T Consensus 8 ~p~~~----------~~G~tsi~lgLl~~l~-~k~~kv 34 (354)
T COG0857 8 IPTET----------GVGKTSISLGLLRALE-QKGLKV 34 (354)
T ss_pred eccCC----------CccHHHHHHHHHHHHH-HcCcee
Confidence 58899 9999999999999994 667764
No 322
>PRK01390 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=41.15 E-value=35 Score=34.56 Aligned_cols=33 Identities=27% Similarity=0.342 Sum_probs=27.5
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+.+.|-|||. -|||||+-=|++.| ...|+++..
T Consensus 113 ~~~vI~VTGT----------------~GKTTTt~ll~~iL-~~~g~~~~~ 145 (460)
T PRK01390 113 DAPFIAITGT----------------NGKSTTTALIAHIL-REAGRDVQM 145 (460)
T ss_pred CCCEEEEeCC----------------CcHHHHHHHHHHHH-HhcCCCeEE
Confidence 4679999987 79999999999999 578887643
No 323
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=41.12 E-value=39 Score=34.32 Aligned_cols=41 Identities=32% Similarity=0.279 Sum_probs=34.2
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
..=.+|.|--| |== |.|||.+++-|++.| ...|.+..+.-|
T Consensus 54 ~pvPVIsVGNi--tvG----------GTGKTP~v~~La~~l-~~~G~~~~IlSR 94 (338)
T PRK01906 54 LGVPVVVVGNV--TVG----------GTGKTPTVIALVDAL-RAAGFTPGVVSR 94 (338)
T ss_pred CCCCEEEECCc--cCC----------CCChHHHHHHHHHHH-HHcCCceEEEec
Confidence 34458888888 666 999999999999999 477999888777
No 324
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=41.06 E-value=48 Score=33.53 Aligned_cols=37 Identities=16% Similarity=0.309 Sum_probs=28.6
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.-||++ ..-++|.+++|+|- - |.||||.+.-++..+
T Consensus 182 ~~~LD~~~~G~~~G~l~vi~g~----p----------g~GKT~~~l~~a~~~ 219 (434)
T TIGR00665 182 FTDLDKLTSGLQPSDLIILAAR----P----------SMGKTAFALNIAENA 219 (434)
T ss_pred chhhHhhcCCCCCCeEEEEEeC----C----------CCChHHHHHHHHHHH
Confidence 4556664 34577999999996 2 899999999988766
No 325
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=41.04 E-value=26 Score=28.46 Aligned_cols=16 Identities=31% Similarity=0.555 Sum_probs=14.5
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++..++..+.
T Consensus 9 G~GKT~l~~~i~~~~~ 24 (165)
T cd01120 9 GSGKTTLALQLALNIA 24 (165)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 8999999999998884
No 326
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=40.94 E-value=31 Score=30.68 Aligned_cols=47 Identities=28% Similarity=0.364 Sum_probs=32.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFG 129 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FG 129 (400)
+++|+++| |. |.||+|+.--|.+.....+..-...+-|.|--|=+.|
T Consensus 2 ~r~ivl~G----ps----------g~GK~tl~~~L~~~~~~~~~~~~~~TtR~~r~~e~~g 48 (184)
T smart00072 2 RRPIVLSG----PS----------GVGKGTLLAELIQEIPDAFERVVSHTTRPPRPGEVNG 48 (184)
T ss_pred CcEEEEEC----CC----------CCCHHHHHHHHHhcCCcceEeeeeecCCCCCCCCcCC
Confidence 67788887 56 9999998888877752235555555667777664444
No 327
>cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK). Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space.
Probab=40.63 E-value=16 Score=33.58 Aligned_cols=16 Identities=31% Similarity=0.505 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||.+..|++-|+
T Consensus 9 GsGKSTl~~~L~~~l~ 24 (219)
T cd02030 9 ASGKGKLAKELAEKLG 24 (219)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999998884
No 328
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=40.61 E-value=31 Score=29.99 Aligned_cols=27 Identities=30% Similarity=0.433 Sum_probs=22.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.|.+++++|- . |.||||.+.-|+-++
T Consensus 30 ~~g~l~~i~g~----~----------g~GKT~~~~~l~~~~ 56 (193)
T PF13481_consen 30 PRGELTLIAGP----P----------GSGKTTLALQLAAAL 56 (193)
T ss_dssp -TTSEEEEEEC----S----------TSSHHHHHHHHHHHH
T ss_pred cCCeEEEEEeC----C----------CCCHHHHHHHHHHHH
Confidence 46889999884 5 999999999999888
No 329
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=40.45 E-value=24 Score=32.15 Aligned_cols=46 Identities=20% Similarity=0.338 Sum_probs=26.8
Q ss_pred chhcccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 44 HYDLYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 44 ele~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+++-|+.|+..-.++. ....+|..+.+.|- - |+||||+.-.|+-+|
T Consensus 7 ~l~nf~~y~~~~~i~~----~~~~~~~~~~i~G~----N----------GsGKSTll~~i~~~l 52 (213)
T cd03279 7 ELKNFGPFREEQVIDF----TGLDNNGLFLICGP----T----------GAGKSTILDAITYAL 52 (213)
T ss_pred EEECCcCcCCceEEeC----CCCCccCEEEEECC----C----------CCCHHHHHHHheeeE
Confidence 4566666665433331 11123667777764 3 999999876664333
No 330
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=40.29 E-value=21 Score=35.16 Aligned_cols=33 Identities=33% Similarity=0.452 Sum_probs=21.8
Q ss_pred CCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 85 GEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 85 ~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.|.+---|||||.++ +|+-++++..|+.+-++
T Consensus 92 G~laEm~TGEGKTli~-~l~a~~~AL~G~~V~vv 124 (266)
T PF07517_consen 92 GRLAEMKTGEGKTLIA-ALPAALNALQGKGVHVV 124 (266)
T ss_dssp TSEEEESTTSHHHHHH-HHHHHHHHTTSS-EEEE
T ss_pred ceeEEecCCCCcHHHH-HHHHHHHHHhcCCcEEE
Confidence 4444444499999887 46667767788877654
No 331
>PRK05973 replicative DNA helicase; Provisional
Probab=40.27 E-value=37 Score=32.84 Aligned_cols=72 Identities=19% Similarity=0.134 Sum_probs=43.0
Q ss_pred HHHHHHHcCCCC-cchhcccCceeeecchhhhhhc-CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 31 ISEIAQELNLKP-NHYDLYGKYKAKVLLSVLDELE-GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 31 I~eiA~~lGL~~-dele~YG~yKAKv~l~~l~~~~-~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
..+||.+-|... .++..- +.+--. .+++- .=++|.++||+|- - |.||||.+.=++....
T Consensus 29 ~~~~a~~~g~~~w~~~~~~--~~~~~p---~~~l~GGl~~Gsl~LIaG~----P----------G~GKT~lalqfa~~~a 89 (237)
T PRK05973 29 LDRIAAEEGFSSWSLLAAK--AAATTP---AEELFSQLKPGDLVLLGAR----P----------GHGKTLLGLELAVEAM 89 (237)
T ss_pred HHHHHHHhccchHHHHHHh--ccCCCC---HHHhcCCCCCCCEEEEEeC----C----------CCCHHHHHHHHHHHHH
Confidence 567787777643 122211 111111 23332 3478999999985 3 8999999998877663
Q ss_pred hhcCCcE-EEEecCC
Q 044054 109 AFLDKKV-VTCLRQP 122 (400)
Q Consensus 109 ~~lgk~~-~~~lRqP 122 (400)
.-|+++ +..+=++
T Consensus 90 -~~Ge~vlyfSlEes 103 (237)
T PRK05973 90 -KSGRTGVFFTLEYT 103 (237)
T ss_pred -hcCCeEEEEEEeCC
Confidence 447765 4455443
No 332
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=40.21 E-value=35 Score=37.75 Aligned_cols=30 Identities=23% Similarity=0.223 Sum_probs=24.9
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLD 112 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lg 112 (400)
..++++||| +. |.||||+...+.+++. ..|
T Consensus 337 ~~~~~iitG----gp----------GTGKTt~l~~i~~~~~-~~~ 366 (720)
T TIGR01448 337 QHKVVILTG----GP----------GTGKTTITRAIIELAE-ELG 366 (720)
T ss_pred hCCeEEEEC----CC----------CCCHHHHHHHHHHHHH-HcC
Confidence 356889987 46 9999999999999994 666
No 333
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=40.16 E-value=25 Score=30.56 Aligned_cols=22 Identities=36% Similarity=0.330 Sum_probs=17.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
|.||||++.-|++.+. ..|.++
T Consensus 9 GsGKSTla~~L~~~l~-~~g~~~ 30 (149)
T cd02027 9 GSGKSTIARALEEKLF-QRGRPV 30 (149)
T ss_pred CCCHHHHHHHHHHHHH-HcCCCE
Confidence 8999999999999993 445443
No 334
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=40.11 E-value=25 Score=32.17 Aligned_cols=25 Identities=24% Similarity=0.428 Sum_probs=19.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
...++|+| |. |.||||+..-++..+
T Consensus 43 ~~~~~l~G----~~----------G~GKTtl~~~l~~~l 67 (269)
T TIGR03015 43 EGFILITG----EV----------GAGKTTLIRNLLKRL 67 (269)
T ss_pred CCEEEEEc----CC----------CCCHHHHHHHHHHhc
Confidence 44667776 45 999999999998777
No 335
>PRK07952 DNA replication protein DnaC; Validated
Probab=40.09 E-value=26 Score=33.79 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=19.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.|||+++.+++..|. ..|+.++
T Consensus 109 GtGKThLa~aia~~l~-~~g~~v~ 131 (244)
T PRK07952 109 GTGKNHLAAAICNELL-LRGKSVL 131 (244)
T ss_pred CCCHHHHHHHHHHHHH-hcCCeEE
Confidence 9999999999999994 5676654
No 336
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=39.31 E-value=44 Score=31.19 Aligned_cols=45 Identities=18% Similarity=0.188 Sum_probs=28.7
Q ss_pred HHHHHHHhcCCHHHHHHHhcCcEEeecC--------CCCceeccccCcchhHH
Q 044054 279 EIMAVLALTTSLADTRERVGKMVIGNSK--------AGDPITADDLGVGGALT 323 (400)
Q Consensus 279 EiMAIL~La~dl~Dlr~Rlg~ivva~~~--------~g~PVta~DL~~~GAmt 323 (400)
+-..+-..++.|..|-.+++=.||+.+- .++..+-.||.-.|++.
T Consensus 151 ~~~~~~~i~~~Lk~lA~~~~i~vi~~sQlnr~~~~~~~~~p~l~dl~~sg~Ie 203 (259)
T PF03796_consen 151 RRQEIGEISRELKALAKELNIPVIALSQLNREAEDREDKRPSLSDLRESGAIE 203 (259)
T ss_dssp CHHHHHHHHHHHHHHHHHHTSEEEEEEEBSGGGGGSSSCS--HHHHCSTSSHH
T ss_pred HHHHHHHHHHHHHHHHHHcCCeEEEccccChhhhcccccccchhhhhhhHHHH
Confidence 3445556677888999999888887432 23344556777777754
No 337
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=39.09 E-value=19 Score=29.98 Aligned_cols=16 Identities=50% Similarity=0.665 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.|+
T Consensus 9 GsGKstla~~la~~l~ 24 (154)
T cd00464 9 GAGKTTVGRLLAKALG 24 (154)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999988874
No 338
>PRK05595 replicative DNA helicase; Provisional
Probab=38.92 E-value=47 Score=34.17 Aligned_cols=45 Identities=20% Similarity=0.262 Sum_probs=30.8
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
+..||++ ..-.+|.+|+|+|-+ |-||||++.-++..+..+-|+++
T Consensus 188 ~~~ld~~~~G~~~g~liviaarp--------------g~GKT~~al~ia~~~a~~~g~~v 233 (444)
T PRK05595 188 FRELDAKTSGFQKGDMILIAARP--------------SMGKTTFALNIAEYAALREGKSV 233 (444)
T ss_pred hHHHHHhcCCCCCCcEEEEEecC--------------CCChHHHHHHHHHHHHHHcCCcE
Confidence 3445553 334679999999972 79999999999876532335443
No 339
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=38.86 E-value=25 Score=37.58 Aligned_cols=33 Identities=30% Similarity=0.321 Sum_probs=27.4
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
-+|+..+. - |.|||||+-=|+.-|. +-|+++.+
T Consensus 101 ~vImmvGL----Q----------GsGKTTt~~KLA~~lk-k~~~kvll 133 (451)
T COG0541 101 TVILMVGL----Q----------GSGKTTTAGKLAKYLK-KKGKKVLL 133 (451)
T ss_pred eEEEEEec----c----------CCChHhHHHHHHHHHH-HcCCceEE
Confidence 46777777 3 9999999999999994 68888765
No 340
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=38.78 E-value=21 Score=33.61 Aligned_cols=19 Identities=26% Similarity=0.330 Sum_probs=16.4
Q ss_pred CCccchhHHHHHHHHhhhcC
Q 044054 93 GEGKSTTTVGLCQALGAFLD 112 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lg 112 (400)
|.||||++..++..|. .+|
T Consensus 52 GtGKTtlA~~ia~~l~-~~~ 70 (261)
T TIGR02881 52 GTGKTTVARILGKLFK-EMN 70 (261)
T ss_pred CCCHHHHHHHHHHHHH-hcC
Confidence 9999999999999883 454
No 341
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=38.41 E-value=44 Score=29.96 Aligned_cols=28 Identities=18% Similarity=0.218 Sum_probs=23.3
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
-+.|+++.++| |. |.|||+++.-++...
T Consensus 16 ~~~g~v~~I~G----~~----------GsGKT~l~~~ia~~~ 43 (226)
T cd01393 16 IPTGRITEIFG----EF----------GSGKTQLCLQLAVEA 43 (226)
T ss_pred CcCCcEEEEeC----CC----------CCChhHHHHHHHHHh
Confidence 47799999999 45 999999998877665
No 342
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=38.27 E-value=43 Score=37.93 Aligned_cols=32 Identities=28% Similarity=0.165 Sum_probs=23.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk 113 (400)
.|++|.+-|- - |.|||||..-|+-.+-...|+
T Consensus 184 ~g~Vi~lVGp----n----------GvGKTTTiaKLA~~~~~~~G~ 215 (767)
T PRK14723 184 QGGVLALVGP----T----------GVGKTTTTAKLAARCVAREGA 215 (767)
T ss_pred CCeEEEEECC----C----------CCcHHHHHHHHHhhHHHHcCC
Confidence 4677777663 3 999999999999777323454
No 343
>PRK00141 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=38.21 E-value=44 Score=34.54 Aligned_cols=31 Identities=23% Similarity=0.144 Sum_probs=26.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.+.|-|||. -|||||+-=|++.| ...|+++.
T Consensus 121 ~~vIaVTGT----------------nGKTTTt~ml~~iL-~~~g~~~~ 151 (473)
T PRK00141 121 RTWLAVTGT----------------NGKTTTTAMLAAMM-QEGGFAAQ 151 (473)
T ss_pred CCEEEEeCC----------------CcHHHHHHHHHHHH-HhcCCcEE
Confidence 378999986 79999999999999 47888764
No 344
>PRK07261 topology modulation protein; Provisional
Probab=37.96 E-value=19 Score=32.10 Aligned_cols=15 Identities=47% Similarity=0.523 Sum_probs=13.4
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||.+.-|++.+
T Consensus 10 GsGKSTla~~l~~~~ 24 (171)
T PRK07261 10 GSGKSTLARKLSQHY 24 (171)
T ss_pred CCCHHHHHHHHHHHh
Confidence 999999998888776
No 345
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=37.80 E-value=39 Score=35.05 Aligned_cols=43 Identities=16% Similarity=0.259 Sum_probs=29.7
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH-HHhhhcCCcE-EEEecCC
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ-ALGAFLDKKV-VTCLRQP 122 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~-aL~~~lgk~~-~~~lRqP 122 (400)
.-|.|.++||+| +- |.||||.+.=++. ++ .+-|.++ +..+-||
T Consensus 27 G~p~Gs~~li~G----~p----------GsGKT~l~~qf~~~~~-~~~ge~~lyis~ee~ 71 (509)
T PRK09302 27 GLPKGRPTLVSG----TA----------GTGKTLFALQFLVNGI-KRFDEPGVFVTFEES 71 (509)
T ss_pred CCCCCcEEEEEe----CC----------CCCHHHHHHHHHHHHH-HhcCCCEEEEEccCC
Confidence 457899999999 45 8999999887664 44 2336664 4445443
No 346
>PRK02472 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=37.36 E-value=45 Score=33.40 Aligned_cols=31 Identities=19% Similarity=0.153 Sum_probs=26.0
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.+.|-|||. -|||||+-=|++.| ...|+.+.
T Consensus 108 ~~~I~VTGT----------------~GKTTTt~ll~~iL-~~~g~~~~ 138 (447)
T PRK02472 108 APIIGITGS----------------NGKTTTTTLIGEML-KAGGQHAL 138 (447)
T ss_pred CCEEEEeCC----------------CchHHHHHHHHHHH-HHCCCCeE
Confidence 468999886 79999999999999 47787764
No 347
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=37.34 E-value=26 Score=35.68 Aligned_cols=23 Identities=30% Similarity=0.192 Sum_probs=18.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
|.||||+...|++.|....|.++
T Consensus 9 GaGKST~~~~l~~~l~~~~g~~v 31 (340)
T TIGR03575 9 AAGKSTLARSLSATLRRERGWAV 31 (340)
T ss_pred CCCHHHHHHHHHHHHHhccCCeE
Confidence 99999999999999953456653
No 348
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=37.00 E-value=28 Score=32.95 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=15.0
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++..+++.+.
T Consensus 46 GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 46 GSGKTAAVRALARELY 61 (337)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 9999999999999984
No 349
>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=36.79 E-value=45 Score=31.02 Aligned_cols=34 Identities=26% Similarity=0.319 Sum_probs=18.8
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
+|.+.+.|+- |=||||-++||+--.. =.|.++..
T Consensus 3 ~G~i~vytG~---------------GKGKTTAAlGlalRA~-G~G~rV~i 36 (172)
T PF02572_consen 3 RGLIQVYTGD---------------GKGKTTAALGLALRAA-GHGMRVLI 36 (172)
T ss_dssp ---EEEEESS---------------SS-HHHHHHHHHHHHH-CTT--EEE
T ss_pred CcEEEEEeCC---------------CCCchHHHHHHHHHHH-hCCCEEEE
Confidence 4667777765 8899999888875431 24666543
No 350
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=36.54 E-value=28 Score=31.53 Aligned_cols=34 Identities=21% Similarity=0.285 Sum_probs=23.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+++=++++| |. |.|||.++.+++..+. .-|+.+.
T Consensus 46 ~~~~l~l~G----~~----------G~GKThLa~ai~~~~~-~~g~~v~ 79 (178)
T PF01695_consen 46 NGENLILYG----PP----------GTGKTHLAVAIANEAI-RKGYSVL 79 (178)
T ss_dssp C--EEEEEE----ST----------TSSHHHHHHHHHHHHH-HTT--EE
T ss_pred cCeEEEEEh----hH----------hHHHHHHHHHHHHHhc-cCCccee
Confidence 345577777 35 9999999999999884 5676653
No 351
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=36.49 E-value=57 Score=33.40 Aligned_cols=46 Identities=28% Similarity=0.364 Sum_probs=33.3
Q ss_pred chhhhhhc--CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 57 LSVLDELE--GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 57 l~~l~~~~--~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
..-||++= .-+.|.+++|+| |- |.||||+..-++..+. .-|.+++-
T Consensus 68 i~eLD~vLgGGi~~GslvLI~G----~p----------G~GKStLllq~a~~~a-~~g~~VlY 115 (372)
T cd01121 68 IEELDRVLGGGLVPGSVILIGG----DP----------GIGKSTLLLQVAARLA-KRGGKVLY 115 (372)
T ss_pred CHHHHHhhcCCccCCeEEEEEe----CC----------CCCHHHHHHHHHHHHH-hcCCeEEE
Confidence 34566532 236799999999 34 8999999999998884 55666543
No 352
>PRK10536 hypothetical protein; Provisional
Probab=36.46 E-value=66 Score=32.10 Aligned_cols=40 Identities=20% Similarity=0.177 Sum_probs=26.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH-HHhhhcCCcEEEEecCCCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ-ALGAFLDKKVVTCLRQPLQ 124 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~-aL~~~lgk~~~~~lRqPS~ 124 (400)
..+|++|| |+ |.|||++++.++. ++-+. ..+.+...| |.+
T Consensus 74 ~~lV~i~G----~a----------GTGKT~La~a~a~~~l~~~-~~~kIiI~R-P~v 114 (262)
T PRK10536 74 KQLIFATG----EA----------GCGKTWISAAKAAEALIHK-DVDRIIVTR-PVL 114 (262)
T ss_pred CCeEEEEC----CC----------CCCHHHHHHHHHHHHHhcC-CeeEEEEeC-CCC
Confidence 45888887 67 9999999999888 44111 234444444 444
No 353
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=36.39 E-value=40 Score=34.97 Aligned_cols=31 Identities=39% Similarity=0.629 Sum_probs=23.2
Q ss_pred hhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH
Q 044054 58 SVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL 103 (400)
Q Consensus 58 ~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL 103 (400)
.+|+.+.-.++|=+|+|-+. |+|||||--.+
T Consensus 117 evlk~la~~kRGLviiVGaT---------------GSGKSTtmAaM 147 (375)
T COG5008 117 EVLKDLALAKRGLVIIVGAT---------------GSGKSTTMAAM 147 (375)
T ss_pred HHHHHhhcccCceEEEECCC---------------CCCchhhHHHH
Confidence 45666666688989999766 99999985443
No 354
>PRK12377 putative replication protein; Provisional
Probab=36.35 E-value=28 Score=33.67 Aligned_cols=22 Identities=23% Similarity=0.293 Sum_probs=18.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
|.|||+++.+++..|. .-|+.+
T Consensus 111 GtGKThLa~AIa~~l~-~~g~~v 132 (248)
T PRK12377 111 GTGKNHLAAAIGNRLL-AKGRSV 132 (248)
T ss_pred CCCHHHHHHHHHHHHH-HcCCCe
Confidence 9999999999999994 557664
No 355
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=36.07 E-value=31 Score=37.62 Aligned_cols=34 Identities=26% Similarity=0.344 Sum_probs=26.0
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
.+++|.| |. |.|||||.+.+...+ -..|+++.+|
T Consensus 174 ~~~lI~G----pP----------GTGKT~t~~~ii~~~-~~~g~~VLv~ 207 (637)
T TIGR00376 174 DLFLIHG----PP----------GTGKTRTLVELIRQL-VKRGLRVLVT 207 (637)
T ss_pred CeEEEEc----CC----------CCCHHHHHHHHHHHH-HHcCCCEEEE
Confidence 4677776 45 999999999998877 3568876655
No 356
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=35.72 E-value=43 Score=35.06 Aligned_cols=44 Identities=32% Similarity=0.363 Sum_probs=32.8
Q ss_pred chhhhhhc--CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 57 LSVLDELE--GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 57 l~~l~~~~--~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
..-||++- .-+.|.+++|+|- - |.||||+..-++..+ .+-|.++
T Consensus 80 i~~LD~vLgGGi~~GsvilI~G~----p----------GsGKTTL~lq~a~~~-a~~g~kv 125 (454)
T TIGR00416 80 FGELDRVLGGGIVPGSLILIGGD----P----------GIGKSTLLLQVACQL-AKNQMKV 125 (454)
T ss_pred cHHHHHHhcCCccCCeEEEEEcC----C----------CCCHHHHHHHHHHHH-HhcCCcE
Confidence 34566642 3478999999985 3 999999999988877 3556665
No 357
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=35.67 E-value=33 Score=28.62 Aligned_cols=23 Identities=30% Similarity=0.421 Sum_probs=17.9
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEe
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCL 119 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~l 119 (400)
|.|||-++..++..+. . +++...
T Consensus 35 GsGKT~~~~~~~~~l~-~---~~l~~~ 57 (184)
T PF04851_consen 35 GSGKTIIALALILELA-R---KVLIVA 57 (184)
T ss_dssp TSSHHHHHHHHHHHHH-C---EEEEEE
T ss_pred CCCcChhhhhhhhccc-c---ceeEec
Confidence 9999999999888884 3 555544
No 358
>COG2403 Predicted GTPase [General function prediction only]
Probab=35.63 E-value=32 Score=36.69 Aligned_cols=36 Identities=28% Similarity=0.302 Sum_probs=28.1
Q ss_pred eccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 75 GEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 75 TaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
-+|+-|-- |.|||++|.=+||-|+ ..|.+.++ +|-|
T Consensus 129 iaV~atrt----------g~GKsaVS~~v~r~l~-ergyrv~v-VrhP 164 (449)
T COG2403 129 IAVTATRT----------GVGKSAVSRYVARLLR-ERGYRVCV-VRHP 164 (449)
T ss_pred EEEEEecc----------ccchhHHHHHHHHHHH-HcCCceEE-EecC
Confidence 34555777 9999999999999994 77998654 5554
No 359
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=35.21 E-value=22 Score=30.90 Aligned_cols=16 Identities=38% Similarity=0.613 Sum_probs=14.1
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.++
T Consensus 9 GsGKst~a~~La~~~~ 24 (194)
T cd01428 9 GSGKGTQAERLAKKYG 24 (194)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 8999999999998763
No 360
>PRK00635 excinuclease ABC subunit A; Provisional
Probab=34.96 E-value=24 Score=43.36 Aligned_cols=28 Identities=39% Similarity=0.539 Sum_probs=20.5
Q ss_pred HHHHHHHHHhcCCCCCC-CCCCHHHhhhh
Q 044054 202 NIMFRRLRKLGISKTKP-EDLTPEEINRF 229 (400)
Q Consensus 202 ~~~~~rl~klgi~~~~p-~~lt~ee~~~~ 229 (400)
..+....++.|++-..| .+||+|++..+
T Consensus 313 ~~~~~~~~~~~~d~~~P~~~l~~~~~~~l 341 (1809)
T PRK00635 313 TIYQSLADSLGFSLSTPWKDLSPEIQNIF 341 (1809)
T ss_pred HHHHHHHHHcCCCCCCChHhCCHHHHHHH
Confidence 44556677889976664 68899988877
No 361
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=34.95 E-value=39 Score=28.38 Aligned_cols=33 Identities=24% Similarity=0.235 Sum_probs=20.6
Q ss_pred hhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 58 SVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 58 ~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.+.+.+..++..-|++.| |. |.||||+..-|+
T Consensus 3 ~~~~~~~~~~~~~~v~i~G----~~----------g~GKStLl~~l~ 35 (173)
T cd04155 3 SLLRKLRKSSEEPRILILG----LD----------NAGKTTILKQLA 35 (173)
T ss_pred hHHHHhhccCCccEEEEEc----cC----------CCCHHHHHHHHh
Confidence 4455554434444466666 55 999999866554
No 362
>PLN02199 shikimate kinase
Probab=34.92 E-value=31 Score=35.06 Aligned_cols=28 Identities=25% Similarity=0.388 Sum_probs=23.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
..|+-|+++|+. |.||||+..=|++.|+
T Consensus 100 l~~~~I~LIG~~--------------GSGKSTVgr~LA~~Lg 127 (303)
T PLN02199 100 LNGRSMYLVGMM--------------GSGKTTVGKLMSKVLG 127 (303)
T ss_pred cCCCEEEEECCC--------------CCCHHHHHHHHHHHhC
Confidence 457888888872 8999999999988873
No 363
>KOG1207 consensus Diacetyl reductase/L-xylulose reductase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=34.82 E-value=48 Score=32.58 Aligned_cols=36 Identities=28% Similarity=0.354 Sum_probs=29.4
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
.|+.|+||+ +-+ |-|| +++++| +.-|..+++.-|.|
T Consensus 6 aG~~vlvTg---aga----------GIG~-----~~v~~L-a~aGA~ViAvaR~~ 41 (245)
T KOG1207|consen 6 AGVIVLVTG---AGA----------GIGK-----EIVLSL-AKAGAQVIAVARNE 41 (245)
T ss_pred cceEEEeec---ccc----------cccH-----HHHHHH-HhcCCEEEEEecCH
Confidence 599999998 455 6665 788999 68999999988864
No 364
>PRK11823 DNA repair protein RadA; Provisional
Probab=34.55 E-value=48 Score=34.56 Aligned_cols=45 Identities=31% Similarity=0.385 Sum_probs=32.8
Q ss_pred hhhhhh-c-CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 58 SVLDEL-E-GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 58 ~~l~~~-~-~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
.-||++ . .-+.|.+++|+| |- |.||||++.-++..+. .-|.+++-
T Consensus 67 ~~LD~~LgGGi~~Gs~~lI~G----~p----------G~GKTtL~lq~a~~~a-~~g~~vlY 113 (446)
T PRK11823 67 GELDRVLGGGLVPGSVVLIGG----DP----------GIGKSTLLLQVAARLA-AAGGKVLY 113 (446)
T ss_pred HHHHHHhcCCccCCEEEEEEC----CC----------CCCHHHHHHHHHHHHH-hcCCeEEE
Confidence 456664 2 346799999998 44 8999999999988873 45766543
No 365
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=34.54 E-value=27 Score=33.82 Aligned_cols=20 Identities=35% Similarity=0.473 Sum_probs=17.5
Q ss_pred CCccchhHHHHHHHHhhhcCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk 113 (400)
|.||||++..+++.+. .+|.
T Consensus 68 GTGKT~lA~~ia~~l~-~~g~ 87 (284)
T TIGR02880 68 GTGKTTVALRMAQILH-RLGY 87 (284)
T ss_pred CCCHHHHHHHHHHHHH-HcCC
Confidence 9999999999999994 6664
No 366
>PRK04690 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=34.51 E-value=46 Score=34.37 Aligned_cols=64 Identities=20% Similarity=0.108 Sum_probs=38.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCC-CccccccCcCCCCceeeecCcc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG-PTFGIRGGAAGGGYSQVIPMDE 147 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G-P~FGiKGGAaGGGysQviPmee 147 (400)
.++|-|||. -||||||-=|++.| ...|+++..+= ..| |.+..-.. .+..--=|+=+++
T Consensus 115 ~~~IaITGT----------------nGKTTTt~ll~~iL-~~~g~~~~~~G---niG~p~~~~~~~-~~~~~~~VlE~ss 173 (468)
T PRK04690 115 PGTVCVTGT----------------KGKSTTTALLAHLL-RAAGHRTALVG---NIGVPLLEVLAP-QPAPEYWAIELSS 173 (468)
T ss_pred CCEEEEeCC----------------CCHHHHHHHHHHHH-HhcCCcEEEcC---CCCcchHHHhcc-CCCCcEEEEEecC
Confidence 478999986 69999999999999 47787654321 233 33322111 1111223666667
Q ss_pred cccccc
Q 044054 148 FNLHLT 153 (400)
Q Consensus 148 iNLHfT 153 (400)
+.++++
T Consensus 174 ~q~~~~ 179 (468)
T PRK04690 174 YQTGDV 179 (468)
T ss_pred Cccccc
Confidence 666443
No 367
>PRK03806 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=34.46 E-value=53 Score=32.99 Aligned_cols=31 Identities=26% Similarity=0.096 Sum_probs=25.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.+.|-|||. -||||||-=|++.| ...|+++.
T Consensus 105 ~~~I~VTGT----------------nGKTTTt~ll~~iL-~~~g~~~~ 135 (438)
T PRK03806 105 APIVAITGS----------------NGKSTVTTLVGEMA-KAAGWKVG 135 (438)
T ss_pred CCEEEEeCC----------------CCHHHHHHHHHHHH-HHcCCCEE
Confidence 468889887 69999999999999 47788754
No 368
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=34.23 E-value=49 Score=32.72 Aligned_cols=35 Identities=23% Similarity=0.263 Sum_probs=26.1
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH--hhhcCCcEEEEe
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL--GAFLDKKVVTCL 119 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL--~~~lgk~~~~~l 119 (400)
++|+|+|. + |.|||.++.-|+.-| . ..+.++....
T Consensus 2 ~v~~I~G~----a----------GTGKTvla~~l~~~l~~~-~~~~~~~~l~ 38 (352)
T PF09848_consen 2 QVILITGG----A----------GTGKTVLALNLAKELQNS-EEGKKVLYLC 38 (352)
T ss_pred eEEEEEec----C----------CcCHHHHHHHHHHHhhcc-ccCCceEEEE
Confidence 47889886 5 999999999999988 4 3355544433
No 369
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=34.14 E-value=20 Score=33.20 Aligned_cols=15 Identities=33% Similarity=0.310 Sum_probs=13.1
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|+||||++..|++.+
T Consensus 9 gsGKTtla~~l~~~~ 23 (187)
T cd02024 9 NSGKTTLAKLLQRIL 23 (187)
T ss_pred CCCHHHHHHHHHHHc
Confidence 899999998888765
No 370
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=34.07 E-value=22 Score=31.65 Aligned_cols=15 Identities=53% Similarity=0.609 Sum_probs=13.5
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||++.-|++.+
T Consensus 14 GaGKStl~~~La~~l 28 (172)
T PRK05057 14 GAGKSTIGRQLAQQL 28 (172)
T ss_pred CcCHHHHHHHHHHHc
Confidence 899999999888877
No 371
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=33.17 E-value=39 Score=30.41 Aligned_cols=24 Identities=33% Similarity=0.457 Sum_probs=15.3
Q ss_pred HHHHhcCC---CCCCCCCCHHHhhhhc
Q 044054 207 RLRKLGIS---KTKPEDLTPEEINRFA 230 (400)
Q Consensus 207 rl~klgi~---~~~p~~lt~ee~~~~~ 230 (400)
-++++|++ +..|.+|+.-|++++.
T Consensus 115 ~l~~~~l~~~~~~~~~~LS~G~~qrv~ 141 (214)
T cd03297 115 LLDLLGLDHLLNRYPAQLSGGEKQRVA 141 (214)
T ss_pred HHHHcCCHhHhhcCcccCCHHHHHHHH
Confidence 34555664 3567888877777653
No 372
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=33.08 E-value=38 Score=32.21 Aligned_cols=27 Identities=30% Similarity=0.503 Sum_probs=21.3
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
.|+=|+++| |. |.|||+++..|++.++
T Consensus 20 ~g~~vLL~G----~~----------GtGKT~lA~~la~~lg 46 (262)
T TIGR02640 20 SGYPVHLRG----PA----------GTGKTTLAMHVARKRD 46 (262)
T ss_pred cCCeEEEEc----CC----------CCCHHHHHHHHHHHhC
Confidence 356677776 56 9999999999988663
No 373
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=33.06 E-value=25 Score=33.04 Aligned_cols=16 Identities=44% Similarity=0.723 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|+..|+
T Consensus 12 GsGKst~~~~la~~~~ 27 (217)
T TIGR00017 12 GAGKSTVAKAVAEKLG 27 (217)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999988773
No 374
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=32.84 E-value=34 Score=32.91 Aligned_cols=23 Identities=22% Similarity=0.270 Sum_probs=19.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.|||.++++++..|. +-|..+.
T Consensus 115 G~GKThLa~Ai~~~l~-~~g~sv~ 137 (254)
T COG1484 115 GVGKTHLAIAIGNELL-KAGISVL 137 (254)
T ss_pred CCcHHHHHHHHHHHHH-HcCCeEE
Confidence 9999999999999995 6566643
No 375
>PRK01710 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=32.75 E-value=52 Score=33.64 Aligned_cols=31 Identities=26% Similarity=0.107 Sum_probs=26.3
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
.|.|-|||. -|||||+-=|++.| ...|+++.
T Consensus 117 ~~vIaITGT----------------nGKTTT~~ll~~iL-~~~g~~~~ 147 (458)
T PRK01710 117 AKVFGVTGS----------------DGKTTTTTLIYEML-KEEGYKTW 147 (458)
T ss_pred CCEEEEECC----------------CCHHHHHHHHHHHH-HhCCCCEE
Confidence 579999986 79999999999999 46787764
No 376
>PRK02496 adk adenylate kinase; Provisional
Probab=32.42 E-value=27 Score=30.64 Aligned_cols=16 Identities=44% Similarity=0.584 Sum_probs=14.2
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++.++
T Consensus 11 GsGKst~a~~la~~~~ 26 (184)
T PRK02496 11 GAGKGTQAVVLAEHLH 26 (184)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999988773
No 377
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=32.37 E-value=55 Score=30.36 Aligned_cols=29 Identities=24% Similarity=0.217 Sum_probs=23.4
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPL 123 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS 123 (400)
|.||||+..-|...|. ..|.++ +.+....
T Consensus 16 gsGKTTLi~~li~~l~-~~g~~v-g~Ik~~~ 44 (173)
T PRK10751 16 GTGKTTLLKKLIPALC-ARGIRP-GLIKHTH 44 (173)
T ss_pred CChHHHHHHHHHHHHh-hcCCeE-EEEEEcC
Confidence 9999999999999994 568765 7777533
No 378
>PF12846 AAA_10: AAA-like domain
Probab=32.22 E-value=38 Score=30.73 Aligned_cols=25 Identities=32% Similarity=0.349 Sum_probs=20.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
|.||||+..-|.+.+ ...|...++-
T Consensus 11 GsGKT~~~~~l~~~~-~~~g~~~~i~ 35 (304)
T PF12846_consen 11 GSGKTTLLKNLLEQL-IRRGPRVVIF 35 (304)
T ss_pred CCcHHHHHHHHHHHH-HHcCCCEEEE
Confidence 999999999999888 4678666554
No 379
>TIGR01085 murE UDP-N-acetylmuramyl-tripeptide synthetase. A close homolog, scoring just below the trusted cutoff, is found (with introns) in Arabidopsis thaliana. Its role is unknown.
Probab=32.15 E-value=54 Score=33.36 Aligned_cols=31 Identities=35% Similarity=0.305 Sum_probs=26.6
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
+.+.|-|||. -|||||+-=|.+.|. ..|+++
T Consensus 84 ~~~vI~ITGT----------------nGKTTT~~ml~~iL~-~~g~~~ 114 (464)
T TIGR01085 84 KLKVIGVTGT----------------NGKTTTTSLIAQLLR-LLGKKT 114 (464)
T ss_pred ccEEEEEECC----------------CCcHhHHHHHHHHHH-HcCCCE
Confidence 5689999986 799999999999994 778765
No 380
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=32.04 E-value=32 Score=36.28 Aligned_cols=61 Identities=21% Similarity=0.428 Sum_probs=36.4
Q ss_pred hHhhhhc------CCCCCcCCcchhH---HHHHHHH-HhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccc
Q 044054 183 KALFNRL------CPPNKEGERSFSN---IMFRRLR-KLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFL 252 (400)
Q Consensus 183 ~~l~~rl------~p~~~~g~r~f~~---~~~~rl~-klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~L 252 (400)
+.||.|| +|+.++=+.-..+ ..++++. ++|.+ +-.++++-+..+.. -.|+. |-|.|
T Consensus 361 ~dL~~rL~~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~---~~~ls~~a~~~L~~-------y~WPG----NvreL 426 (520)
T PRK10820 361 EDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVP---RPKLAADLNTVLTR-------YGWPG----NVRQL 426 (520)
T ss_pred HHHHhhcCeeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCC---CCCcCHHHHHHHhc-------CCCCC----HHHHH
Confidence 4588887 7877765543333 3344432 33432 23699999888864 44665 67777
Q ss_pred cceee
Q 044054 253 RKITI 257 (400)
Q Consensus 253 R~I~i 257 (400)
+++.-
T Consensus 427 ~nvl~ 431 (520)
T PRK10820 427 KNAIY 431 (520)
T ss_pred HHHHH
Confidence 76543
No 381
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=31.86 E-value=34 Score=34.43 Aligned_cols=22 Identities=32% Similarity=0.471 Sum_probs=17.0
Q ss_pred cchhcccC------chHHHHHHHHHhcC
Q 044054 350 FANIAHGN------SSIVADKIALKLVG 371 (400)
Q Consensus 350 FANIAhG~------nSiiA~~~aLklag 371 (400)
...||.|| |-.+|.++|-.|..
T Consensus 242 ~ltIaiGCTGG~HRSV~iae~La~~L~~ 269 (284)
T PF03668_consen 242 YLTIAIGCTGGQHRSVAIAERLAERLRE 269 (284)
T ss_pred eEEEEEEcCCCcCcHHHHHHHHHHHHHh
Confidence 45788998 46788888888874
No 382
>PRK11144 modC molybdate transporter ATP-binding protein; Provisional
Probab=31.84 E-value=50 Score=32.94 Aligned_cols=37 Identities=16% Similarity=0.151 Sum_probs=23.7
Q ss_pred cccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 47 LYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 47 ~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
.||.....+++++ +.|.++.+.| |- |+||||+..-|+
T Consensus 9 ~~~~~~~~vsl~i-------~~Ge~~~l~G----~n----------GsGKSTLl~~ia 45 (352)
T PRK11144 9 QLGDLCLTVNLTL-------PAQGITAIFG----RS----------GAGKTSLINAIS 45 (352)
T ss_pred EeCCEEEEEEEEE-------cCCCEEEEEC----CC----------CCCHHHHHHHHh
Confidence 4665333445443 4588888887 55 999999655443
No 383
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=31.71 E-value=25 Score=27.44 Aligned_cols=37 Identities=30% Similarity=0.400 Sum_probs=29.2
Q ss_pred HHHccCCCCCHHHHHHHcCCCCcchhcc-------cCceeeecc
Q 044054 21 DIANSVEPLHISEIAQELNLKPNHYDLY-------GKYKAKVLL 57 (400)
Q Consensus 21 eIa~~~~~~pI~eiA~~lGL~~dele~Y-------G~yKAKv~l 57 (400)
.+++.-.--++++||+.++++.+++|.+ |.-+||||.
T Consensus 53 ~l~~~y~~i~~~~ia~~l~~~~~~vE~~l~~~I~~~~i~~~ID~ 96 (105)
T PF01399_consen 53 QLSKPYSSISISEIAKALQLSEEEVESILIDLISNGLIKAKIDQ 96 (105)
T ss_dssp HHHHC-SEEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEEEEET
T ss_pred HHHHHhcccchHHHHHHhccchHHHHHHHHHHHHCCCEEEEEEC
Confidence 3455556678999999999999998875 888888874
No 384
>PRK10773 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed
Probab=31.70 E-value=49 Score=33.85 Aligned_cols=33 Identities=12% Similarity=0.043 Sum_probs=26.5
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
.++..+.|-|||- -|||||+-=|++.| ...|+.
T Consensus 96 ~~~~~~vI~VTGS----------------nGKTTT~~ml~~iL-~~~g~~ 128 (453)
T PRK10773 96 QQVPARVVALTGS----------------SGKTSVKEMTAAIL-RQCGNT 128 (453)
T ss_pred hcCCCCEEEEcCC----------------CchHHHHHHHHHHH-HhcCcc
Confidence 3455789999986 79999999999999 466763
No 385
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=31.62 E-value=41 Score=32.41 Aligned_cols=27 Identities=19% Similarity=0.145 Sum_probs=22.7
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.|++++|+| |. |.||||.+.-++-..
T Consensus 93 ~~g~i~ei~G----~~----------g~GKT~l~~~~~~~~ 119 (310)
T TIGR02236 93 ETQAITEVFG----EF----------GSGKTQICHQLAVNV 119 (310)
T ss_pred CCCeEEEEEC----CC----------CCCHHHHHHHHHHHh
Confidence 6799999998 66 999999998886554
No 386
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=31.50 E-value=43 Score=30.15 Aligned_cols=27 Identities=30% Similarity=0.389 Sum_probs=21.6
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
|.||||+...|.+.|. ..|.++ +.++.
T Consensus 11 gsGKTTli~~L~~~l~-~~g~~V-~~iK~ 37 (159)
T cd03116 11 GSGKTTLLEKLIPALS-ARGLRV-AVIKH 37 (159)
T ss_pred CCCHHHHHHHHHHHHH-HcCCcE-EEEEe
Confidence 8999999999999994 668764 55553
No 387
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=31.32 E-value=61 Score=33.71 Aligned_cols=37 Identities=16% Similarity=0.220 Sum_probs=28.5
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
=+.|..++|++ |. |.|||+.+.-++... ...|.+++.
T Consensus 270 ~~~g~~~li~G----~~----------G~GKT~l~~~~~~~~-~~~g~~~~y 306 (509)
T PRK09302 270 FFRGSIILVSG----AT----------GTGKTLLASKFAEAA-CRRGERCLL 306 (509)
T ss_pred CCCCcEEEEEc----CC----------CCCHHHHHHHHHHHH-HhCCCcEEE
Confidence 47799999986 45 899999999887655 356777654
No 388
>PRK14532 adenylate kinase; Provisional
Probab=31.17 E-value=27 Score=30.71 Aligned_cols=16 Identities=31% Similarity=0.443 Sum_probs=14.0
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||.+.-|++.++
T Consensus 10 GsGKsT~a~~la~~~g 25 (188)
T PRK14532 10 AAGKGTQAKRLVEERG 25 (188)
T ss_pred CCCHHHHHHHHHHHcC
Confidence 8999999999988773
No 389
>PRK08727 hypothetical protein; Validated
Probab=31.07 E-value=40 Score=31.48 Aligned_cols=31 Identities=23% Similarity=0.460 Sum_probs=23.8
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
..|+++| |. |.|||+++.+++..+. .-|+++
T Consensus 42 ~~l~l~G----~~----------G~GKThL~~a~~~~~~-~~~~~~ 72 (233)
T PRK08727 42 DWLYLSG----PA----------GTGKTHLALALCAAAE-QAGRSS 72 (233)
T ss_pred CeEEEEC----CC----------CCCHHHHHHHHHHHHH-HcCCcE
Confidence 4577776 35 9999999999999984 446654
No 390
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=31.02 E-value=53 Score=33.22 Aligned_cols=26 Identities=27% Similarity=0.291 Sum_probs=21.3
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQ 121 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRq 121 (400)
|+||||+-..|..-. -|++..+-+-|
T Consensus 11 GsGKTTlL~~lL~~~---~g~kiAVIVNE 36 (323)
T COG0523 11 GSGKTTLLNHLLANR---DGKKIAVIVNE 36 (323)
T ss_pred CCCHHHHHHHHHhcc---CCCcEEEEEec
Confidence 999999988887765 38888777776
No 391
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=30.82 E-value=45 Score=28.68 Aligned_cols=23 Identities=22% Similarity=0.144 Sum_probs=17.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
|.|||+++.-++... .+-|++++
T Consensus 9 G~GKT~l~~~~~~~~-~~~g~~v~ 31 (187)
T cd01124 9 GTGKTTFALQFLYAG-LARGEPGL 31 (187)
T ss_pred CCCHHHHHHHHHHHH-HHCCCcEE
Confidence 899999998877766 35566653
No 392
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=30.75 E-value=68 Score=29.46 Aligned_cols=33 Identities=21% Similarity=0.040 Sum_probs=22.8
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH--HHHHhhhcCCcE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL--CQALGAFLDKKV 115 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL--~~aL~~~lgk~~ 115 (400)
.|+++++||= - |.||||+..-+ ..-+ ++.|...
T Consensus 24 ~g~~~~ltGp----N----------g~GKSTllr~i~~~~~l-~~~G~~v 58 (199)
T cd03283 24 KKNGILITGS----N----------MSGKSTFLRTIGVNVIL-AQAGAPV 58 (199)
T ss_pred CCcEEEEECC----C----------CCChHHHHHHHHHHHHH-HHcCCEE
Confidence 3789999984 4 99999975444 4444 3667654
No 393
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=30.74 E-value=46 Score=32.10 Aligned_cols=19 Identities=37% Similarity=0.491 Sum_probs=15.5
Q ss_pred hhccCCCCCCceeeecccc
Q 044054 228 RFARLDIDPASITWRRVMD 246 (400)
Q Consensus 228 ~~~~L~IDp~~I~w~Rv~D 246 (400)
.|.-|--||+.|.|||.-|
T Consensus 112 ~ivllEaDp~~Il~RR~~D 130 (189)
T COG2019 112 VIVLLEADPEEILERRLRD 130 (189)
T ss_pred EEEEEeCCHHHHHHHHhcc
Confidence 3455677999999999888
No 394
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=30.73 E-value=44 Score=30.20 Aligned_cols=15 Identities=27% Similarity=0.191 Sum_probs=13.0
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|+||||.+.-|++.+
T Consensus 11 ~sGKS~~a~~l~~~~ 25 (170)
T PRK05800 11 RSGKSRFAERLAAQS 25 (170)
T ss_pred CccHHHHHHHHHHHc
Confidence 799999998887765
No 395
>COG0334 GdhA Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]
Probab=30.65 E-value=75 Score=33.75 Aligned_cols=91 Identities=24% Similarity=0.301 Sum_probs=68.9
Q ss_pred HHHHHhcCcEEeecCCC--CceeccccCcchhHHHHhhhccCCCcce----eecCceeEEeccccchhcccCchHHHHHH
Q 044054 292 DTRERVGKMVIGNSKAG--DPITADDLGVGGALTVLMKDAINPTLMQ----TLEGTPVLVHAGPFANIAHGNSSIVADKI 365 (400)
Q Consensus 292 Dlr~Rlg~ivva~~~~g--~PVta~DL~~~GAmt~LLkdAikPnLvQ----TlEgtP~~VH~GPFANIAhG~nSiiA~~~ 365 (400)
.|-+++++=+ +..-| +-|+|.|+|+.+..+++|.|.-+...=+ -+-|.|+-.=|..-=+.|-|-.-++..+.
T Consensus 119 rl~raf~~~i--~~~iGp~~dIpApDvgt~~~~m~wm~dey~~i~g~~~~gv~TGKp~~~GGS~~r~~aTg~Gv~~~~~~ 196 (411)
T COG0334 119 RLSRAFGRAI--YRLIGPDTDIPAPDVGTNPQDMAWMMDEYSKIVGNSAPGVFTGKPLELGGSLGRSEATGYGVFYAIRE 196 (411)
T ss_pred HHHHHHHHHH--HHhcCCCcEecccccCCCHHHHHHHHHhhhhhcCCCCcceecCCcccccCCCCCCcccceehHHHHHH
Confidence 4555555433 12234 7899999999999999999998766522 34588888888777788989999999999
Q ss_pred HHHhcCC--CCeEEeeccccc
Q 044054 366 ALKLVGP--GGIVVTEAGFGA 384 (400)
Q Consensus 366 aLklag~--~dyvVTEAGFGa 384 (400)
|++..|. ++--|.=-|||.
T Consensus 197 a~~~~g~~l~G~rVaVQG~GN 217 (411)
T COG0334 197 ALKALGDDLEGARVAVQGFGN 217 (411)
T ss_pred HHHHcCCCcCCCEEEEECccH
Confidence 9998876 566677778874
No 396
>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=30.59 E-value=35 Score=33.14 Aligned_cols=15 Identities=40% Similarity=0.359 Sum_probs=13.6
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|+||||++..|+..|
T Consensus 9 GsGKSTl~~~L~~ll 23 (273)
T cd02026 9 GCGKSTFLRRLTSLF 23 (273)
T ss_pred CCCHHHHHHHHHHhh
Confidence 999999999988777
No 397
>PHA02542 41 41 helicase; Provisional
Probab=30.52 E-value=63 Score=34.20 Aligned_cols=45 Identities=13% Similarity=0.124 Sum_probs=30.4
Q ss_pred HHHHHHHhcCCHHHHHHHhcCcEEeecC---C---CCceeccccCcchhHH
Q 044054 279 EIMAVLALTTSLADTRERVGKMVIGNSK---A---GDPITADDLGVGGALT 323 (400)
Q Consensus 279 EiMAIL~La~dl~Dlr~Rlg~ivva~~~---~---g~PVta~DL~~~GAmt 323 (400)
.--+|=.+|++|..|-+.++=-||+.+- + .+..+..||.=.|++-
T Consensus 325 r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~dP~lsDLreSG~IE 375 (473)
T PHA02542 325 SYTYVKAIAEELRGLAVEHDVVVWTAAQTTRSGWDSSDVDMSDTAESAGLP 375 (473)
T ss_pred hHHHHHHHHHHHHHHHHHhCCeEEEEEeeCccccccCCCcchhcccccchH
Confidence 3345667788899999999988877642 1 1224556888888754
No 398
>PF05155 Phage_X: Phage X family ; InterPro: IPR022688 The sequences matched by this entry represent a family of phage and plasmid replication proteins. In bacteriophage IKe and related phage, the full-length protein is designated gene II protein. A much shorter protein of unknown function, translated from a conserved in-frame alternative initiator, is designated gene X protein. Members of this family also include plasmid replication proteins. ; GO: 0006260 DNA replication
Probab=30.44 E-value=21 Score=30.00 Aligned_cols=34 Identities=24% Similarity=0.328 Sum_probs=24.3
Q ss_pred HHHHHHHhcCCCCCCCCCCHHHhh---hhccCCCCCC
Q 044054 204 MFRRLRKLGISKTKPEDLTPEEIN---RFARLDIDPA 237 (400)
Q Consensus 204 ~~~rl~klgi~~~~p~~lt~ee~~---~~~~L~IDp~ 237 (400)
..+||.++||++..|.+|+..+.. ....+.++|.
T Consensus 42 hr~~L~~~GIdia~~~nl~~~~~~vvp~~r~ie~~~~ 78 (92)
T PF05155_consen 42 HRARLLKIGIDIAQLQNLSKFSPNVVPLVRVIEVKPL 78 (92)
T ss_pred HHHHHHHcCCCHHHhcccccCCCCcCceeEEEecCCC
Confidence 357899999999999888766553 3444556655
No 399
>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein. This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.
Probab=30.19 E-value=54 Score=32.62 Aligned_cols=36 Identities=14% Similarity=0.135 Sum_probs=22.8
Q ss_pred cccCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH
Q 044054 47 LYGKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL 103 (400)
Q Consensus 47 ~YG~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL 103 (400)
.||.....|++++ +.|.++.+.| |- |.||||+..-|
T Consensus 8 ~~~~~~~~isl~i-------~~Gei~~l~G----~n----------GsGKSTLl~~i 43 (354)
T TIGR02142 8 RLGDFSLDADFTL-------PGQGVTAIFG----RS----------GSGKTTLIRLI 43 (354)
T ss_pred EECCEEEEEEEEE-------CCCCEEEEEC----CC----------CCCHHHHHHHH
Confidence 3665433444442 4588888887 44 99999965444
No 400
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=30.18 E-value=50 Score=35.29 Aligned_cols=28 Identities=29% Similarity=0.599 Sum_probs=24.4
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
--||-||+.+ |- |.|||-.++|++|-||
T Consensus 63 ~aGrgiLi~G----pp----------gTGKTAlA~gIa~eLG 90 (450)
T COG1224 63 MAGRGILIVG----PP----------GTGKTALAMGIARELG 90 (450)
T ss_pred ccccEEEEEC----CC----------CCcHHHHHHHHHHHhC
Confidence 4599999986 56 9999999999999985
No 401
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=30.17 E-value=61 Score=38.16 Aligned_cols=36 Identities=22% Similarity=0.114 Sum_probs=30.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
..++++|+|- + |.||||+...+.+++ ...|.+++.+
T Consensus 396 ~~r~~~v~G~----A----------GTGKTt~l~~~~~~~-e~~G~~V~g~ 431 (1102)
T PRK13826 396 PARIAAVVGR----A----------GAGKTTMMKAAREAW-EAAGYRVVGG 431 (1102)
T ss_pred cCCeEEEEeC----C----------CCCHHHHHHHHHHHH-HHcCCeEEEE
Confidence 3679999984 7 999999999999999 4678887764
No 402
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=29.90 E-value=75 Score=33.21 Aligned_cols=40 Identities=8% Similarity=0.133 Sum_probs=30.4
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE-EecC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT-CLRQ 121 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~-~lRq 121 (400)
+.|..+||++ |. |.||||++.=.+.+. ++-|.+++- ..-|
T Consensus 261 ~~gs~~li~G----~~----------G~GKt~l~~~f~~~~-~~~ge~~~y~s~eE 301 (484)
T TIGR02655 261 FKDSIILATG----AT----------GTGKTLLVSKFLENA-CANKERAILFAYEE 301 (484)
T ss_pred cCCcEEEEEC----CC----------CCCHHHHHHHHHHHH-HHCCCeEEEEEeeC
Confidence 7899999998 45 999999988888777 456877554 3433
No 403
>PRK06893 DNA replication initiation factor; Validated
Probab=29.72 E-value=44 Score=31.11 Aligned_cols=22 Identities=14% Similarity=0.134 Sum_probs=18.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
|.|||+++.++|..+. .-|+++
T Consensus 49 G~GKThL~~ai~~~~~-~~~~~~ 70 (229)
T PRK06893 49 SSGKSHLLKAVSNHYL-LNQRTA 70 (229)
T ss_pred CCCHHHHHHHHHHHHH-HcCCCe
Confidence 9999999999999884 446554
No 404
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=29.67 E-value=80 Score=31.94 Aligned_cols=37 Identities=30% Similarity=0.517 Sum_probs=28.1
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.-||++ ..-..|.+|+|+|- - |-|||+.+.-++..+
T Consensus 181 ~~~LD~~~~G~~~g~liviag~----p----------g~GKT~~al~ia~~~ 218 (421)
T TIGR03600 181 LPKLDRLTNGLVKGDLIVIGAR----P----------SMGKTTLALNIAENV 218 (421)
T ss_pred ChhHHHHhcCCCCCceEEEEeC----C----------CCCHHHHHHHHHHHH
Confidence 4556654 34467999999996 2 799999999988666
No 405
>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.
Probab=29.63 E-value=57 Score=29.90 Aligned_cols=15 Identities=47% Similarity=0.527 Sum_probs=13.3
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||+.-.|+-++
T Consensus 32 GsGKTTLl~ai~~~l 46 (204)
T cd03240 32 GAGKTTIIEALKYAL 46 (204)
T ss_pred CCCHHHHHHHHHHHH
Confidence 999999998887776
No 406
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=29.37 E-value=48 Score=34.34 Aligned_cols=16 Identities=44% Similarity=0.615 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.|||||+.-|+..+.
T Consensus 184 GvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 184 GVGKTTTIAKLAAIYG 199 (388)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 9999999999998773
No 407
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=29.12 E-value=38 Score=30.08 Aligned_cols=13 Identities=46% Similarity=0.481 Sum_probs=11.7
Q ss_pred CCccchhHHHHHH
Q 044054 93 GEGKSTTTVGLCQ 105 (400)
Q Consensus 93 GEGKTTttiGL~~ 105 (400)
|.||||++.-|++
T Consensus 9 gsGKst~~~~l~~ 21 (179)
T cd02022 9 GSGKSTVAKLLKE 21 (179)
T ss_pred CCCHHHHHHHHHH
Confidence 8999999988876
No 408
>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru
Probab=29.02 E-value=60 Score=29.27 Aligned_cols=26 Identities=23% Similarity=0.173 Sum_probs=20.1
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.|+.++|||= - |.||||+-.-++...
T Consensus 28 ~~~~~~l~G~----N----------g~GKStll~~i~~~~ 53 (202)
T cd03243 28 SGRLLLITGP----N----------MGGKSTYLRSIGLAV 53 (202)
T ss_pred CCeEEEEECC----C----------CCccHHHHHHHHHHH
Confidence 3678999984 4 999999877777544
No 409
>KOG2702 consensus Predicted panthothenate kinase/uridine kinase-related protein [Nucleotide transport and metabolism; Coenzyme transport and metabolism]
Probab=28.95 E-value=30 Score=35.15 Aligned_cols=37 Identities=30% Similarity=0.512 Sum_probs=25.6
Q ss_pred CCccchhHHHHHHHHhhh---cCCcEEEEecCCCCCCccccccCcCCCCceeeecCccccc
Q 044054 93 GEGKSTTTVGLCQALGAF---LDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNL 150 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~---lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNL 150 (400)
|.||||..-.+..+-..+ ++..++ + .+||+|||-|-|
T Consensus 129 Gtgkst~~a~v~~aWp~~~~~f~~e~i--------------~-------iaiivPMDGFHl 168 (323)
T KOG2702|consen 129 GTGKSTRIAAVDNAWPVNVNKFAQESI--------------N-------IAIIVPMDGFHL 168 (323)
T ss_pred CCcchhHHHHHHhhcchhhhhhhhhhc--------------c-------eeEEecccchhh
Confidence 899999988888765322 233222 1 579999998765
No 410
>PRK07004 replicative DNA helicase; Provisional
Probab=28.89 E-value=86 Score=32.84 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=31.2
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
+.-||++ ..-++|.+|+|+|- | |-|||+.+.-++..+..+.|+.+
T Consensus 200 ~~~LD~~t~G~~~g~liviaar---p-----------g~GKT~~al~ia~~~a~~~~~~v 245 (460)
T PRK07004 200 FVDLDRMTSGMHGGELIIVAGR---P-----------SMGKTAFSMNIGEYVAVEYGLPV 245 (460)
T ss_pred cHHhcccccCCCCCceEEEEeC---C-----------CCCccHHHHHHHHHHHHHcCCeE
Confidence 3455654 34578999999997 2 79999999988876632235443
No 411
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=28.86 E-value=67 Score=28.99 Aligned_cols=29 Identities=24% Similarity=0.172 Sum_probs=19.9
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHH--HHHHHHhhhcCC
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTV--GLCQALGAFLDK 113 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTtti--GL~~aL~~~lgk 113 (400)
|.+++||= - |.||||.-. ++.+.+ ++.|-
T Consensus 29 ~~~~ltG~----N----------g~GKStll~~i~~~~~~-~~~G~ 59 (200)
T cd03280 29 RVLVITGP----N----------AGGKTVTLKTLGLLTLM-AQSGL 59 (200)
T ss_pred eEEEEECC----C----------CCChHHHHHHHHHHHHH-HHcCC
Confidence 78999984 4 999999654 444545 35553
No 412
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.78 E-value=33 Score=34.26 Aligned_cols=16 Identities=38% Similarity=0.493 Sum_probs=15.1
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-+++.|+
T Consensus 48 G~GKTtla~~la~~l~ 63 (363)
T PRK14961 48 GVGKTTIARLLAKSLN 63 (363)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 9999999999999994
No 413
>PLN03025 replication factor C subunit; Provisional
Probab=28.77 E-value=34 Score=33.23 Aligned_cols=98 Identities=9% Similarity=0.069 Sum_probs=50.0
Q ss_pred HHHHHHHHHhcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccceeecc-----CCCCCCcceecc---ee
Q 044054 202 NIMFRRLRKLGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRKITIGQ-----GPEEKGMVRETG---FD 273 (400)
Q Consensus 202 ~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~I~iG~-----g~~~~G~~re~g---Fd 273 (400)
+....|...+-+.+-+.+++...-.+.+..-++.-..-.....++..++.||.+.--+ |.. -++.+.= ++
T Consensus 144 ~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~Lq~~~~~~~--~i~~~~v~~~~~ 221 (319)
T PLN03025 144 EPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFG--FVNQENVFKVCD 221 (319)
T ss_pred hhHHHhhhcccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--CCCHHHHHHHcC
Confidence 3345565554444444444433333333333433333345677788888888664221 110 1222111 12
Q ss_pred eeehhHHHHHH--HhcCCHHHHHHHhcCcE
Q 044054 274 ISVASEIMAVL--ALTTSLADTRERVGKMV 301 (400)
Q Consensus 274 ItvASEiMAIL--~La~dl~Dlr~Rlg~iv 301 (400)
......+.+++ +..+|+++-+..+-+++
T Consensus 222 ~~~~~~i~~~i~~~~~~~~~~a~~~l~~ll 251 (319)
T PLN03025 222 QPHPLHVKNIVRNCLKGKFDDACDGLKQLY 251 (319)
T ss_pred CCCHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 23344555555 46788888888888886
No 414
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=28.68 E-value=40 Score=33.62 Aligned_cols=63 Identities=21% Similarity=0.324 Sum_probs=35.9
Q ss_pred hHhhhhc------CCCCCcCCcchhHHHHHHHHHhcCC-CCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccce
Q 044054 183 KALFNRL------CPPNKEGERSFSNIMFRRLRKLGIS-KTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRKI 255 (400)
Q Consensus 183 ~~l~~rl------~p~~~~g~r~f~~~~~~rl~klgi~-~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~I 255 (400)
..||.|| +|+.++=+.-....--.-|+++.-. ...+-.+|++-++.+... .|+ =|-|.||++
T Consensus 296 ~~L~~~l~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~-------~wp----gNvreL~~~ 364 (445)
T TIGR02915 296 EDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKRKTKGFTDDALRALEAH-------AWP----GNVRELENK 364 (445)
T ss_pred HHHHHHhccceecCCCchhchhhHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHhC-------CCC----ChHHHHHHH
Confidence 3477777 5877654443332222223333222 123457899999988754 465 377888876
Q ss_pred e
Q 044054 256 T 256 (400)
Q Consensus 256 ~ 256 (400)
.
T Consensus 365 i 365 (445)
T TIGR02915 365 V 365 (445)
T ss_pred H
Confidence 5
No 415
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=28.67 E-value=50 Score=32.21 Aligned_cols=27 Identities=15% Similarity=0.123 Sum_probs=22.5
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
|.|++++|+| |. |.|||+++.-++-..
T Consensus 100 ~~g~vtei~G----~~----------GsGKT~l~~~~~~~~ 126 (317)
T PRK04301 100 ETQSITEFYG----EF----------GSGKTQICHQLAVNV 126 (317)
T ss_pred cCCcEEEEEC----CC----------CCCHhHHHHHHHHHh
Confidence 6799999998 66 999999988887543
No 416
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=28.63 E-value=54 Score=29.93 Aligned_cols=23 Identities=30% Similarity=0.193 Sum_probs=17.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL 103 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL 103 (400)
..|..+.++|- - |+||||+..-|
T Consensus 23 ~~Ge~~~l~G~----n----------GsGKSTLl~~l 45 (232)
T PRK10771 23 ERGERVAILGP----S----------GAGKSTLLNLI 45 (232)
T ss_pred cCCCEEEEECC----C----------CCCHHHHHHHH
Confidence 35888888874 4 99999965433
No 417
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=28.57 E-value=52 Score=38.04 Aligned_cols=33 Identities=33% Similarity=0.415 Sum_probs=24.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchh-HHHHHHHHhhhcCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTT-TVGLCQALGAFLDK 113 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTt-tiGL~~aL~~~lgk 113 (400)
|-|+++.||+. . |+||||+ .--|..++.+++++
T Consensus 625 PLg~~t~VTGV----S----------GSGKSTLIn~tL~~a~~~~l~~ 658 (935)
T COG0178 625 PLGVFTCVTGV----S----------GSGKSTLINDTLVPALARHLNG 658 (935)
T ss_pred ccccEEEEEec----C----------CCCHHHhHHHHHHHHHHHHhcc
Confidence 78999999999 4 9999994 34566666555554
No 418
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=28.38 E-value=32 Score=36.74 Aligned_cols=16 Identities=31% Similarity=0.490 Sum_probs=15.3
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-++.+|+
T Consensus 53 G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 53 GVGKTTSARIIAKAVN 68 (507)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 9999999999999995
No 419
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=28.38 E-value=39 Score=28.06 Aligned_cols=15 Identities=40% Similarity=0.532 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.|||+++.-|++.+
T Consensus 9 G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 9 GTGKTTLARELAALL 23 (139)
T ss_dssp SSSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHh
Confidence 999999999999988
No 420
>PRK14531 adenylate kinase; Provisional
Probab=28.37 E-value=35 Score=30.33 Aligned_cols=16 Identities=50% Similarity=0.862 Sum_probs=14.0
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||.+.-|++.++
T Consensus 12 GsGKsT~~~~la~~~g 27 (183)
T PRK14531 12 GAGKGTQAARLCAAHG 27 (183)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999988888774
No 421
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=28.29 E-value=41 Score=31.10 Aligned_cols=21 Identities=43% Similarity=0.556 Sum_probs=16.9
Q ss_pred cCCCccchhHHHHHHHHhhhcCC
Q 044054 91 PLGEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 91 ~~GEGKTTttiGL~~aL~~~lgk 113 (400)
|-|.||||++.-|+-++. .|.
T Consensus 9 ~~G~GKS~lal~la~~va--~G~ 29 (239)
T cd01125 9 PGGTGKSSLLLVLALAMA--LGK 29 (239)
T ss_pred CCCCCHHHHHHHHHHHHh--cCc
Confidence 349999999999988883 455
No 422
>PRK05748 replicative DNA helicase; Provisional
Probab=28.27 E-value=90 Score=32.07 Aligned_cols=45 Identities=22% Similarity=0.351 Sum_probs=30.6
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
+.-||++ ..-++|.+|+|+|- - |-||||.+.-++.....+.|+++
T Consensus 190 ~~~LD~~~~G~~~G~livIaar----p----------g~GKT~~al~ia~~~a~~~g~~v 235 (448)
T PRK05748 190 FTDLDKMTSGLQPNDLIIVAAR----P----------SVGKTAFALNIAQNVATKTDKNV 235 (448)
T ss_pred hHHHHHhcCCCCCCceEEEEeC----C----------CCCchHHHHHHHHHHHHhCCCeE
Confidence 3455554 33467999999996 2 79999999988876522335443
No 423
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=28.16 E-value=38 Score=39.08 Aligned_cols=22 Identities=27% Similarity=0.407 Sum_probs=18.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVG 102 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiG 102 (400)
|+.|+||+|++ . |+|||+++-.
T Consensus 24 Pr~klvV~TGl----S----------GSGKSSLAFd 45 (935)
T COG0178 24 PRNKLVVITGL----S----------GSGKSSLAFD 45 (935)
T ss_pred cCCcEEEEecC----C----------CCCchhhhhh
Confidence 88999999998 4 9999997643
No 424
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=28.09 E-value=55 Score=33.22 Aligned_cols=31 Identities=35% Similarity=0.493 Sum_probs=24.6
Q ss_pred cCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 91 PLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 91 ~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
|-|+||||-.-|..|-|+ ++|+++.+.==.|
T Consensus 10 PPgSGKsTYc~g~~~fls-~~gr~~~vVNLDP 40 (290)
T KOG1533|consen 10 PPGSGKSTYCNGMSQFLS-AIGRPVAVVNLDP 40 (290)
T ss_pred CCCCCccchhhhHHHHHH-HhCCceEEEecCC
Confidence 449999999999999995 8999876543333
No 425
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=27.97 E-value=52 Score=30.15 Aligned_cols=15 Identities=40% Similarity=0.286 Sum_probs=12.3
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|+||||++-=|.+.+
T Consensus 11 gsGKst~~~~l~~~~ 25 (195)
T PRK14730 11 ASGKSTVGNYLAQQK 25 (195)
T ss_pred CCCHHHHHHHHHHhh
Confidence 999999988777654
No 426
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=27.96 E-value=90 Score=31.30 Aligned_cols=35 Identities=31% Similarity=0.376 Sum_probs=27.6
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
..|..+.||| |+ |.|||++.--|.+.+. .-++.++
T Consensus 20 ~~~~~~fv~G----~~----------GtGKs~l~~~i~~~~~-~~~~~~~ 54 (364)
T PF05970_consen 20 EEGLNFFVTG----PA----------GTGKSFLIKAIIDYLR-SRGKKVL 54 (364)
T ss_pred cCCcEEEEEc----CC----------CCChhHHHHHHHHHhc-cccceEE
Confidence 4678999997 57 9999999999999983 4455544
No 427
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=27.75 E-value=35 Score=36.88 Aligned_cols=18 Identities=44% Similarity=0.560 Sum_probs=16.6
Q ss_pred cCCCccchhHHHHHHHHh
Q 044054 91 PLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 91 ~~GEGKTTttiGL~~aL~ 108 (400)
|+|.||||++.=++.+||
T Consensus 46 ~RGvGKTt~Ari~AkalN 63 (515)
T COG2812 46 PRGVGKTTIARILAKALN 63 (515)
T ss_pred CCCcCchhHHHHHHHHhc
Confidence 569999999999999995
No 428
>PRK00023 cmk cytidylate kinase; Provisional
Probab=27.74 E-value=35 Score=31.98 Aligned_cols=16 Identities=44% Similarity=0.628 Sum_probs=14.3
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|++-|+
T Consensus 14 gsGksti~~~la~~~~ 29 (225)
T PRK00023 14 GSGKGTVAKILAKKLG 29 (225)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 8999999999988874
No 429
>KOG3877 consensus NADH:ubiquinone oxidoreductase, NDUFA10/42kDa subunit [Energy production and conversion]
Probab=27.62 E-value=56 Score=34.05 Aligned_cols=53 Identities=21% Similarity=0.317 Sum_probs=33.8
Q ss_pred CCCcchhcc-----cCceeeecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 40 LKPNHYDLY-----GKYKAKVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 40 L~~dele~Y-----G~yKAKv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
|+++.=+|| +.|.+-+.-+.-+|+. .+.|+|+|-+ |- |.|||+.+.-|++-|+
T Consensus 39 ~ps~~p~p~~~k~y~~~~~~l~Dktskrf~--enSkvI~VeG----nI----------~sGK~klAKelAe~Lg 96 (393)
T KOG3877|consen 39 LPSEHPEPWDYKHYFNYIDGLKDKTSKRFH--ENSKVIVVEG----NI----------GSGKTKLAKELAEQLG 96 (393)
T ss_pred CCccCCCCcccccccchhhhhcchhhhhhc--ccceEEEEeC----Cc----------ccCchhHHHHHHHHhC
Confidence 667766665 3333222111122332 5799999975 44 9999999999998884
No 430
>PF00488 MutS_V: MutS domain V C-terminus.; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....
Probab=27.57 E-value=66 Score=30.57 Aligned_cols=32 Identities=28% Similarity=0.302 Sum_probs=25.0
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccch--hHHHHHHHHhhhcCCcE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKST--TTVGLCQALGAFLDKKV 115 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTT--ttiGL~~aL~~~lgk~~ 115 (400)
.+.++|||-| ..|||| -+||+++-| +++|--+
T Consensus 43 ~~~~iiTGpN--------------~sGKSt~lk~i~~~~il-aq~G~~V 76 (235)
T PF00488_consen 43 SRIIIITGPN--------------MSGKSTFLKQIGLIVIL-AQIGCFV 76 (235)
T ss_dssp SSEEEEESST--------------TSSHHHHHHHHHHHHHH-HTTT--B
T ss_pred eeEEEEeCCC--------------ccchhhHHHHHHHHhhh-hhcCcee
Confidence 4799999854 689999 689999999 6888654
No 431
>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=27.54 E-value=53 Score=30.39 Aligned_cols=25 Identities=24% Similarity=0.308 Sum_probs=19.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ 105 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~ 105 (400)
+.|..+.|++- . |.||||+..++..
T Consensus 19 ~~Ge~~~l~G~----s----------GsGKSTL~~~~i~ 43 (226)
T cd03270 19 PRNKLVVITGV----S----------GSGKSSLAFDTIY 43 (226)
T ss_pred CCCcEEEEEcC----C----------CCCHHHHHHHHHH
Confidence 56999999985 4 9999999755543
No 432
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase. Alternate name: murein tripeptide ligase
Probab=27.44 E-value=54 Score=33.29 Aligned_cols=29 Identities=28% Similarity=0.239 Sum_probs=24.6
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKV 115 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~ 115 (400)
|.|-|||. -||||||-=|++.|. ..|.++
T Consensus 103 ~~I~ITGT----------------~GKTTTt~li~~iL~-~~g~~~ 131 (448)
T TIGR01081 103 WVLAVAGT----------------HGKTTTASMLAWVLE-QCGLKP 131 (448)
T ss_pred CEEEEECC----------------CcHHHHHHHHHHHHH-hcCCCC
Confidence 38889886 799999999999994 778765
No 433
>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=27.31 E-value=62 Score=28.95 Aligned_cols=23 Identities=30% Similarity=0.231 Sum_probs=17.2
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL 103 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL 103 (400)
..|..+.++|- - |+||||+.--|
T Consensus 22 ~~Ge~~~l~G~----n----------GsGKSTLl~~l 44 (211)
T cd03298 22 AQGEITAIVGP----S----------GSGKSTLLNLI 44 (211)
T ss_pred cCCCEEEEECC----C----------CCCHHHHHHHH
Confidence 45888888874 4 99999965444
No 434
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=27.30 E-value=43 Score=28.85 Aligned_cols=14 Identities=29% Similarity=0.347 Sum_probs=10.8
Q ss_pred CCccchhHHHHHHH
Q 044054 93 GEGKSTTTVGLCQA 106 (400)
Q Consensus 93 GEGKTTttiGL~~a 106 (400)
|.||||++--|+..
T Consensus 9 stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 9 STGKTTLIEALAAR 22 (163)
T ss_dssp TSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHc
Confidence 59999988776644
No 435
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=27.16 E-value=80 Score=30.30 Aligned_cols=24 Identities=29% Similarity=0.275 Sum_probs=19.8
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEE
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVT 117 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~ 117 (400)
|.||||...=+++.|. .-|.++..
T Consensus 15 GvGKtTl~~ki~e~L~-~~g~kvgG 38 (179)
T COG1618 15 GVGKTTLVLKIAEKLR-EKGYKVGG 38 (179)
T ss_pred CccHHHHHHHHHHHHH-hcCceeee
Confidence 8999999999999994 56666544
No 436
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=27.12 E-value=88 Score=24.40 Aligned_cols=34 Identities=21% Similarity=0.332 Sum_probs=26.0
Q ss_pred HccCCCCCHHHHHHHcCCCCcchhcc-------cCceeeec
Q 044054 23 ANSVEPLHISEIAQELNLKPNHYDLY-------GKYKAKVL 56 (400)
Q Consensus 23 a~~~~~~pI~eiA~~lGL~~dele~Y-------G~yKAKv~ 56 (400)
++.-+--++++||+.++++.+++|.+ |.-.||||
T Consensus 19 ~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID 59 (88)
T smart00088 19 SEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKID 59 (88)
T ss_pred hHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEc
Confidence 34445568999999999999988876 66667766
No 437
>smart00753 PAM PCI/PINT associated module.
Probab=27.12 E-value=88 Score=24.40 Aligned_cols=34 Identities=21% Similarity=0.332 Sum_probs=26.0
Q ss_pred HccCCCCCHHHHHHHcCCCCcchhcc-------cCceeeec
Q 044054 23 ANSVEPLHISEIAQELNLKPNHYDLY-------GKYKAKVL 56 (400)
Q Consensus 23 a~~~~~~pI~eiA~~lGL~~dele~Y-------G~yKAKv~ 56 (400)
++.-+--++++||+.++++.+++|.+ |.-.||||
T Consensus 19 ~~~y~~i~~~~i~~~~~l~~~~vE~~i~~~i~~~~l~~~ID 59 (88)
T smart00753 19 SEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKID 59 (88)
T ss_pred hHHhceeeHHHHHHHhCcCHHHHHHHHHHHHHCCCeEEEEc
Confidence 34445568999999999999988876 66667766
No 438
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=27.06 E-value=36 Score=32.58 Aligned_cols=66 Identities=24% Similarity=0.309 Sum_probs=35.5
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCcc-c--cccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHH
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTF-G--IRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAA 168 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~F-G--iKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA 168 (400)
|.|||.|...|+.+| |+..++-==.|++...+ + +||-|..|-+. =+||||-- |.+.+++--..+.+
T Consensus 42 gtGKtetik~La~~l----G~~~~vfnc~~~~~~~~l~ril~G~~~~GaW~---cfdefnrl---~~~vLS~i~~~i~~ 110 (231)
T PF12774_consen 42 GTGKTETIKDLARAL----GRFVVVFNCSEQMDYQSLSRILKGLAQSGAWL---CFDEFNRL---SEEVLSVISQQIQS 110 (231)
T ss_dssp TSSHHHHHHHHHHCT----T--EEEEETTSSS-HHHHHHHHHHHHHHT-EE---EEETCCCS---SHHHHHHHHHHHHH
T ss_pred CCCchhHHHHHHHHh----CCeEEEecccccccHHHHHHHHHHHhhcCchh---hhhhhhhh---hHHHHHHHHHHHHH
Confidence 999999999999877 55655533344443321 0 35555555443 35677742 34444444444444
No 439
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=27.03 E-value=43 Score=27.47 Aligned_cols=25 Identities=32% Similarity=0.268 Sum_probs=18.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQ 105 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~ 105 (400)
+.|..+.|+|- - |.||||+-.-|+.
T Consensus 9 ~~g~~~~i~G~----n----------GsGKStLl~~l~g 33 (137)
T PF00005_consen 9 KPGEIVAIVGP----N----------GSGKSTLLKALAG 33 (137)
T ss_dssp ETTSEEEEEES----T----------TSSHHHHHHHHTT
T ss_pred cCCCEEEEEcc----C----------CCccccceeeecc
Confidence 35888888885 4 9999997654443
No 440
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=26.73 E-value=41 Score=34.15 Aligned_cols=58 Identities=19% Similarity=0.327 Sum_probs=37.2
Q ss_pred HhcCCHHHHHHHhcCcEEeecCCCCceeccccCcchh-----HHHHhhhccCCCcceeecCceeEEeccc
Q 044054 285 ALTTSLADTRERVGKMVIGNSKAGDPITADDLGVGGA-----LTVLMKDAINPTLMQTLEGTPVLVHAGP 349 (400)
Q Consensus 285 ~La~dl~Dlr~Rlg~ivva~~~~g~PVta~DL~~~GA-----mt~LLkdAikPnLvQTlEgtP~~VH~GP 349 (400)
|=-+-++.-+.++|+|+-+.+..|.|+.-..|++.=. ++++.|.|-.= ...++|-+=|
T Consensus 111 CP~~AI~~~~~~~G~i~~~k~~~g~~li~g~l~vGe~~s~~lV~~~kk~a~E~-------~~~~IIDsaa 173 (284)
T COG1149 111 CPEPAIEEEPVVIGKIYESKTDYGFPLISGRLNVGEEESGKLVTALKKHAKEL-------ADLLIIDSAA 173 (284)
T ss_pred CCCcccccccceeeEEEEEEcCCCceeEEeeccCCccccchHHHHHHHhhhhh-------cceeEEecCC
Confidence 3334456677889999999998887888888877544 44444444321 3555555544
No 441
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=26.69 E-value=60 Score=33.54 Aligned_cols=32 Identities=22% Similarity=0.237 Sum_probs=26.5
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
+.+.+.|-|||- -|||||+-=|++.|. ..|+.
T Consensus 105 ~~~~~vIgVTGS----------------~GKTTT~~ml~~iL~-~~g~~ 136 (479)
T PRK14093 105 RLEAKVIAVTGS----------------VGKTSTKEALRGVLG-AQGET 136 (479)
T ss_pred hcCCCEEEEcCC----------------CCccHHHHHHHHHHH-hcCCc
Confidence 356889999986 799999999999994 66764
No 442
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=26.52 E-value=35 Score=36.44 Aligned_cols=16 Identities=31% Similarity=0.383 Sum_probs=15.3
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|+++|+
T Consensus 45 G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 45 GVGKTTCARIISLCLN 60 (491)
T ss_pred CccHHHHHHHHHHHHc
Confidence 9999999999999995
No 443
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=26.49 E-value=32 Score=29.84 Aligned_cols=27 Identities=19% Similarity=0.294 Sum_probs=18.8
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
...++|+|+| |. |.|||++..-+.+.+
T Consensus 18 ~~~~~~~l~G----~r----------g~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 18 GPSQHILLYG----PR----------GSGKTSLLKEFINEL 44 (234)
T ss_dssp --SSEEEEEE----ST----------TSSHHHHHHHHHHHC
T ss_pred hcCcEEEEEc----CC----------cCCHHHHHHHHHHHh
Confidence 3467888887 45 999999866555555
No 444
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=26.33 E-value=44 Score=32.68 Aligned_cols=26 Identities=19% Similarity=0.291 Sum_probs=21.5
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
.|+-|+|+|= - |.||||+...|++.+
T Consensus 143 ~~~~ili~G~----t----------GsGKTTll~al~~~~ 168 (308)
T TIGR02788 143 SRKNIIISGG----T----------GSGKTTFLKSLVDEI 168 (308)
T ss_pred CCCEEEEECC----C----------CCCHHHHHHHHHccC
Confidence 5788888884 3 999999998888777
No 445
>TIGR01082 murC UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081.
Probab=26.32 E-value=72 Score=32.40 Aligned_cols=28 Identities=25% Similarity=0.167 Sum_probs=24.3
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCC
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk 113 (400)
.+.|-|||. -||||||-=|++.| ...|+
T Consensus 99 ~~~IaITGT----------------nGKTTTt~ll~~iL-~~~g~ 126 (448)
T TIGR01082 99 RHSIAVAGT----------------HGKTTTTAMIAVIL-KEAGL 126 (448)
T ss_pred CcEEEEECC----------------CChHHHHHHHHHHH-HHcCC
Confidence 479999987 69999999999999 57887
No 446
>TIGR01143 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ.
Probab=26.25 E-value=65 Score=32.42 Aligned_cols=32 Identities=25% Similarity=0.197 Sum_probs=26.3
Q ss_pred CCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCC
Q 044054 65 GSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 65 ~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk 113 (400)
.+++.+.|-|||. -|||||+-=|.+.|. ..|+
T Consensus 70 ~~~~~~vI~VTGT----------------nGKTTt~~ll~~iL~-~~g~ 101 (417)
T TIGR01143 70 AKFSGKVIGITGS----------------SGKTTTKEMLAAILS-HKYK 101 (417)
T ss_pred hhCCCCEEEEcCC----------------CchhHHHHHHHHHHh-ccCc
Confidence 3466789999986 699999999999994 6676
No 447
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=26.15 E-value=37 Score=33.50 Aligned_cols=63 Identities=17% Similarity=0.222 Sum_probs=36.0
Q ss_pred hHhhhhc------CCCCCcCCcchhHHHHHHHHHhcCC--CCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccccc
Q 044054 183 KALFNRL------CPPNKEGERSFSNIMFRRLRKLGIS--KTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFLRK 254 (400)
Q Consensus 183 ~~l~~rl------~p~~~~g~r~f~~~~~~rl~klgi~--~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR~ 254 (400)
..||.|| +|+.++=+.-....--.-|+++.-+ +.-+..++++-.+.+... .|+- |-|.|++
T Consensus 163 ~dL~~~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~~L~~y-------~WPG----NvrEL~~ 231 (326)
T PRK11608 163 ADLLDRLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNY-------RWPG----NIRELKN 231 (326)
T ss_pred HHHHHhcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHhC-------CCCc----HHHHHHH
Confidence 4688888 7877654443333222223333211 111246889988888654 4764 7777776
Q ss_pred ee
Q 044054 255 IT 256 (400)
Q Consensus 255 I~ 256 (400)
++
T Consensus 232 vl 233 (326)
T PRK11608 232 VV 233 (326)
T ss_pred HH
Confidence 54
No 448
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=26.08 E-value=67 Score=33.63 Aligned_cols=59 Identities=24% Similarity=0.493 Sum_probs=34.7
Q ss_pred hHhhhhc------CCCCCcCCc---chhHHHHHHHHH-hcCCCCCCCCCCHHHhhhhccCCCCCCceeeecccccCcccc
Q 044054 183 KALFNRL------CPPNKEGER---SFSNIMFRRLRK-LGISKTKPEDLTPEEINRFARLDIDPASITWRRVMDVNDRFL 252 (400)
Q Consensus 183 ~~l~~rl------~p~~~~g~r---~f~~~~~~rl~k-lgi~~~~p~~lt~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~L 252 (400)
..||.|| +|+.++=+. .+....++++.+ .| + |-.+|++-++.+... .|+- |-|.|
T Consensus 353 ~~L~~rl~~~~i~lPpLreR~eDi~~L~~~~l~~~~~~~~--~--~~~~s~~a~~~L~~~-------~WPG----NvrEL 417 (534)
T TIGR01817 353 ADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENG--R--PLTITPSAIRVLMSC-------KWPG----NVREL 417 (534)
T ss_pred HHHHHHhcCCeeeCCCcccccccHHHHHHHHHHHHHHHcC--C--CCCCCHHHHHHHHhC-------CCCC----hHHHH
Confidence 3577777 777764433 333444444432 22 2 247999999988754 3543 66777
Q ss_pred ccee
Q 044054 253 RKIT 256 (400)
Q Consensus 253 R~I~ 256 (400)
|+++
T Consensus 418 ~~v~ 421 (534)
T TIGR01817 418 ENCL 421 (534)
T ss_pred HHHH
Confidence 7654
No 449
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=26.02 E-value=77 Score=36.86 Aligned_cols=34 Identities=24% Similarity=0.020 Sum_probs=26.9
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
++++|||- + |.||||+...+.+++ ...|.++++|
T Consensus 363 ~v~vv~G~----A----------GTGKTT~l~~~~~~~-e~~G~~V~~~ 396 (988)
T PRK13889 363 DLGVVVGY----A----------GTGKSAMLGVAREAW-EAAGYEVRGA 396 (988)
T ss_pred CeEEEEeC----C----------CCCHHHHHHHHHHHH-HHcCCeEEEe
Confidence 47888884 7 999999988888888 4568877764
No 450
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.85 E-value=36 Score=36.50 Aligned_cols=27 Identities=30% Similarity=0.269 Sum_probs=21.6
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
-+..+|++| |- |.||||++.-|+++|+
T Consensus 39 i~ha~Lf~G----P~----------GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 39 IGHAYIFFG----PR----------GVGKTTIARILAKRLN 65 (484)
T ss_pred CCeEEEEEC----CC----------CCCHHHHHHHHHHhcC
Confidence 355566666 45 9999999999999995
No 451
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=25.79 E-value=60 Score=29.67 Aligned_cols=24 Identities=29% Similarity=0.252 Sum_probs=18.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.++|- - |+||||+..-|+
T Consensus 33 ~~Ge~~~l~G~----n----------GsGKSTLl~~l~ 56 (233)
T PRK11629 33 GEGEMMAIVGS----S----------GSGKSTLLHLLG 56 (233)
T ss_pred cCCcEEEEECC----C----------CCCHHHHHHHHh
Confidence 46888888874 4 999999665554
No 452
>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional
Probab=25.63 E-value=56 Score=35.54 Aligned_cols=16 Identities=38% Similarity=0.628 Sum_probs=14.9
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++..|++.|+
T Consensus 452 ~~gks~~~~~l~~~~~ 467 (661)
T PRK11860 452 ASGKGTVAARVAEALG 467 (661)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999999884
No 453
>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Probab=25.57 E-value=1.3e+02 Score=30.26 Aligned_cols=39 Identities=18% Similarity=0.187 Sum_probs=28.7
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQP 122 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqP 122 (400)
++|-.|-|+|- . |.||||+...|...|..+ -.++.+++-
T Consensus 3 ~~~~~i~i~G~----~----------gsGKTTl~~~l~~~l~~~---~~V~~ik~~ 41 (369)
T PRK14490 3 FHPFEIAFCGY----S----------GSGKTTLITALVRRLSER---FSVGYYKHG 41 (369)
T ss_pred CCCEEEEEEeC----C----------CCCHHHHHHHHHHHHhhC---ceEEEEEeC
Confidence 45666777764 4 899999999999999533 456667763
No 454
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=25.55 E-value=62 Score=29.02 Aligned_cols=24 Identities=33% Similarity=0.297 Sum_probs=18.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.+.|- - |.||||+..-|+
T Consensus 28 ~~G~~~~l~G~----n----------GsGKSTLl~~i~ 51 (218)
T cd03255 28 EKGEFVAIVGP----S----------GSGKSTLLNILG 51 (218)
T ss_pred cCCCEEEEEcC----C----------CCCHHHHHHHHh
Confidence 46888888884 4 999999655443
No 455
>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=25.52 E-value=65 Score=28.78 Aligned_cols=22 Identities=27% Similarity=0.359 Sum_probs=17.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVG 102 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiG 102 (400)
+.|..+.+++- - |+||||+..-
T Consensus 29 ~~G~~~~i~G~----n----------G~GKSTLl~~ 50 (204)
T cd03250 29 PKGELVAIVGP----V----------GSGKSSLLSA 50 (204)
T ss_pred CCCCEEEEECC----C----------CCCHHHHHHH
Confidence 56999999984 4 9999995443
No 456
>COG2866 Predicted carboxypeptidase [Amino acid transport and metabolism]
Probab=25.51 E-value=33 Score=35.34 Aligned_cols=94 Identities=18% Similarity=0.090 Sum_probs=60.4
Q ss_pred CccccccCcCCCCceeeecCcccccccchhhhH------HHHHHhHHHHHHHhhhhcccccChhHhhhhcCCCCCcCCcc
Q 044054 126 PTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHA------ITAANNLLAAAIDTRIFHEASQSDKALFNRLCPPNKEGERS 199 (400)
Q Consensus 126 P~FGiKGGAaGGGysQviPmeeiNLHfTGD~HA------ItaA~NLlaA~idn~i~~~~~~~~~~l~~rl~p~~~~g~r~ 199 (400)
+-+..+.++.+. ..+++|+|..|| ...+-|||.+.+|+ =++..+.-|.. ...+||.
T Consensus 135 ~~~i~~~~~~~~---------~~~i~~~~~~H~~g~~~~~~~~~~li~r~~~~-~~~~~~lld~~-~~~vvp~------- 196 (374)
T COG2866 135 DPLITFPESNPE---------HKTILITAGQHARGEKMVEWFLYNLILRYLDP-DVQVRKLLDRA-DLHVVPN------- 196 (374)
T ss_pred cceeeecCCCCc---------cceeeEecccccCccHHHHHHHHHHHHHhcCc-cchhhhhhccc-cEEEecc-------
Confidence 555566555443 788999999996 77889999999998 11111111111 1235662
Q ss_pred hhHHHHHHHHHhcCCCCCCCCCC------HHHhhhhccCCCCCCceeeecccccCccccc
Q 044054 200 FSNIMFRRLRKLGISKTKPEDLT------PEEINRFARLDIDPASITWRRVMDVNDRFLR 253 (400)
Q Consensus 200 f~~~~~~rl~klgi~~~~p~~lt------~ee~~~~~~L~IDp~~I~w~Rv~D~NDR~LR 253 (400)
.|||..- ..+...++|.-|+|.-..|+=++-+||+++.
T Consensus 197 ----------------~NpDG~~~~~lr~na~~~dLnr~~~~~~~~~~~~~~~~~~~~~~ 240 (374)
T COG2866 197 ----------------VNPDGSDLGNLRTNANGVDLNRNFIAPNEEEGKEVYRWNDAALE 240 (374)
T ss_pred ----------------cCCchhhhcccccccCccchhhhccCCCcccchHHHhhhhhhcc
Confidence 2333321 1234445566699999999999999999988
No 457
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=25.47 E-value=44 Score=31.96 Aligned_cols=59 Identities=25% Similarity=0.339 Sum_probs=35.0
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCccccccCcCCCCceeeecCcccccccchhhhHHHHHHhHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPTFGIRGGAAGGGYSQVIPMDEFNLHLTGDIHAITAANNLLAAAIDT 172 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~FGiKGGAaGGGysQviPmeeiNLHfTGD~HAItaA~NLlaA~idn 172 (400)
|+||||++.=|+.-+ |-+.+ |-|-+|-- +- .|.++-| =+|+.++--|+=+--.||.
T Consensus 10 GsG~TTva~~lAe~~----gl~~v------saG~iFR~-----------~A--~e~gmsl-~ef~~~AE~~p~iD~~iD~ 65 (179)
T COG1102 10 GSGKTTVARELAEHL----GLKLV------SAGTIFRE-----------MA--RERGMSL-EEFSRYAEEDPEIDKEIDR 65 (179)
T ss_pred CCChhHHHHHHHHHh----CCcee------eccHHHHH-----------HH--HHcCCCH-HHHHHHHhcCchhhHHHHH
Confidence 999999999888665 55544 44444421 00 1222222 3666677667767777776
Q ss_pred hhh
Q 044054 173 RIF 175 (400)
Q Consensus 173 ~i~ 175 (400)
+..
T Consensus 66 rq~ 68 (179)
T COG1102 66 RQK 68 (179)
T ss_pred HHH
Confidence 643
No 458
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=25.45 E-value=70 Score=27.21 Aligned_cols=26 Identities=35% Similarity=0.262 Sum_probs=21.6
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhh
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGA 109 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~ 109 (400)
.+.+++|- - |.||||+.-.|.-+|+.
T Consensus 20 g~~vi~G~----N----------g~GKStil~ai~~~L~~ 45 (202)
T PF13476_consen 20 GLNVIYGP----N----------GSGKSTILEAIRYALGG 45 (202)
T ss_dssp EEEEEEES----T----------TSSHHHHHHHHHHHHHS
T ss_pred CcEEEECC----C----------CCCHHHHHHHHHHHHcC
Confidence 48888884 3 89999999999888853
No 459
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=25.32 E-value=65 Score=28.27 Aligned_cols=23 Identities=26% Similarity=0.291 Sum_probs=17.4
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL 103 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL 103 (400)
++|..+.|++- - |+||||+..-|
T Consensus 25 ~~Ge~~~i~G~----n----------GsGKSTLl~~l 47 (166)
T cd03223 25 KPGDRLLITGP----S----------GTGKSSLFRAL 47 (166)
T ss_pred CCCCEEEEECC----C----------CCCHHHHHHHH
Confidence 46888888884 4 99999965444
No 460
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=25.30 E-value=62 Score=34.51 Aligned_cols=16 Identities=25% Similarity=0.422 Sum_probs=14.9
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||+..-|++.|+
T Consensus 16 GaGKttvg~~LA~~L~ 31 (542)
T PRK14021 16 GAGKTRVGKEVAQMMR 31 (542)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999999984
No 461
>PRK08506 replicative DNA helicase; Provisional
Probab=25.21 E-value=1.1e+02 Score=32.12 Aligned_cols=41 Identities=20% Similarity=0.221 Sum_probs=28.8
Q ss_pred HHHhcCCHHHHHHHhcCcEEeec--------CCCCceeccccCcchhHH
Q 044054 283 VLALTTSLADTRERVGKMVIGNS--------KAGDPITADDLGVGGALT 323 (400)
Q Consensus 283 IL~La~dl~Dlr~Rlg~ivva~~--------~~g~PVta~DL~~~GAmt 323 (400)
|-.+|+.|+.|-.+++=-||+.+ +.++...-.||.=+|++.
T Consensus 327 v~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~Ie 375 (472)
T PRK08506 327 ISEISRGLKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIE 375 (472)
T ss_pred HHHHHHHHHHHHHHhCCcEEEEeecCcchhhccCCCCChHHhhcchhhh
Confidence 44567888999888988777664 233444577898888854
No 462
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=25.14 E-value=64 Score=28.91 Aligned_cols=24 Identities=21% Similarity=0.194 Sum_probs=18.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.++|- - |.||||+.--|+
T Consensus 24 ~~Ge~~~i~G~----n----------GsGKSTLl~~l~ 47 (213)
T cd03259 24 EPGEFLALLGP----S----------GCGKTTLLRLIA 47 (213)
T ss_pred cCCcEEEEECC----C----------CCCHHHHHHHHh
Confidence 46888988884 4 999999655444
No 463
>PRK00421 murC UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=25.08 E-value=92 Score=31.78 Aligned_cols=29 Identities=31% Similarity=0.235 Sum_probs=24.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
.|.|-|||. -||||||-=|++.| ...|++
T Consensus 107 ~~~I~ITGT----------------nGKTTTt~ll~~iL-~~~g~~ 135 (461)
T PRK00421 107 RTSIAVAGT----------------HGKTTTTSLLAHVL-AEAGLD 135 (461)
T ss_pred CcEEEEECC----------------CCHHHHHHHHHHHH-HhcCCC
Confidence 379999987 69999999999999 578854
No 464
>PRK14528 adenylate kinase; Provisional
Probab=25.06 E-value=43 Score=30.14 Aligned_cols=15 Identities=47% Similarity=0.762 Sum_probs=13.5
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||++.-|++.+
T Consensus 11 GsGKtt~a~~la~~~ 25 (186)
T PRK14528 11 GAGKGTQAKILCERL 25 (186)
T ss_pred CCCHHHHHHHHHHHh
Confidence 899999998888777
No 465
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=24.84 E-value=62 Score=29.39 Aligned_cols=32 Identities=13% Similarity=0.198 Sum_probs=23.2
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCc
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKK 114 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~ 114 (400)
.+.-|+++| |. |.|||+.+..++..+. ..|..
T Consensus 41 ~~~~~~l~G----~~----------G~GKT~La~ai~~~~~-~~~~~ 72 (227)
T PRK08903 41 ADRFFYLWG----EA----------GSGRSHLLQALVADAS-YGGRN 72 (227)
T ss_pred CCCeEEEEC----CC----------CCCHHHHHHHHHHHHH-hCCCc
Confidence 345677776 45 9999999999998873 34544
No 466
>PHA02624 large T antigen; Provisional
Probab=24.77 E-value=67 Score=35.95 Aligned_cols=31 Identities=26% Similarity=0.401 Sum_probs=26.2
Q ss_pred cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 64 EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 64 ~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
+..|+.+++|..| |. |.||||.+.+|++.|+
T Consensus 426 ~giPKk~~il~~G----Pp----------nTGKTtf~~sLl~~L~ 456 (647)
T PHA02624 426 ENVPKRRYWLFKG----PV----------NSGKTTLAAALLDLCG 456 (647)
T ss_pred hcCCCCeEEEEEC----CC----------CCCHHHHHHHHHHHcC
Confidence 4557778999987 67 9999999999999994
No 467
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=24.75 E-value=65 Score=28.80 Aligned_cols=24 Identities=25% Similarity=0.296 Sum_probs=17.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.++|- - |.||||+..-|+
T Consensus 26 ~~G~~~~l~G~----n----------GsGKSTLl~~i~ 49 (214)
T TIGR02673 26 RKGEFLFLTGP----S----------GAGKTTLLKLLY 49 (214)
T ss_pred cCCCEEEEECC----C----------CCCHHHHHHHHh
Confidence 46888888874 4 999999665443
No 468
>CHL00181 cbbX CbbX; Provisional
Probab=24.59 E-value=51 Score=32.25 Aligned_cols=20 Identities=30% Similarity=0.396 Sum_probs=16.9
Q ss_pred CCccchhHHHHHHHHhhhcCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDK 113 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk 113 (400)
|.||||++..+++.+. .+|.
T Consensus 69 GtGKT~lAr~la~~~~-~~g~ 88 (287)
T CHL00181 69 GTGKTTVALKMADILY-KLGY 88 (287)
T ss_pred CCCHHHHHHHHHHHHH-HcCC
Confidence 9999999999999983 4554
No 469
>PRK06749 replicative DNA helicase; Provisional
Probab=24.51 E-value=1.2e+02 Score=31.49 Aligned_cols=37 Identities=24% Similarity=0.461 Sum_probs=28.6
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.-|+++ ..-.+|.+|+|.|- | |-|||+.+.-++...
T Consensus 173 ~~~LD~~t~Gl~~G~LiiIaar---P-----------gmGKTafal~ia~~~ 210 (428)
T PRK06749 173 YTSLNKMTCGLQEGDFVVLGAR---P-----------SMGKTAFALNVGLHA 210 (428)
T ss_pred cHHHHHHhCCCCCCcEEEEEeC---C-----------CCCchHHHHHHHHHH
Confidence 4456654 34567999999997 3 699999999998777
No 470
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=24.49 E-value=60 Score=38.12 Aligned_cols=34 Identities=38% Similarity=0.501 Sum_probs=29.3
Q ss_pred cEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEE
Q 044054 70 YYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTC 118 (400)
Q Consensus 70 k~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~ 118 (400)
-|-|+=|| | |.|||||-.-|.+.| ..+||++..+
T Consensus 686 dy~LI~GM---P-----------GTGKTTtI~~LIkiL-~~~gkkVLLt 719 (1100)
T KOG1805|consen 686 DYALILGM---P-----------GTGKTTTISLLIKIL-VALGKKVLLT 719 (1100)
T ss_pred chheeecC---C-----------CCCchhhHHHHHHHH-HHcCCeEEEE
Confidence 38888888 2 899999999999999 5899998865
No 471
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.
Probab=24.45 E-value=63 Score=32.18 Aligned_cols=26 Identities=23% Similarity=0.051 Sum_probs=19.9
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHh
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALG 108 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~ 108 (400)
++.|+++|. . |+||||++--|++.++
T Consensus 162 ~~~~~~~G~----~----------~~gkstl~~~l~~~~~ 187 (325)
T TIGR01526 162 VKTVAILGG----E----------STGKSTLVNKLAAVFN 187 (325)
T ss_pred CcEEEEECC----C----------CCCHHHHHHHHHHhhC
Confidence 567777764 3 8999999988887663
No 472
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=24.43 E-value=44 Score=31.56 Aligned_cols=16 Identities=31% Similarity=0.497 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.|||+++..++..++
T Consensus 40 G~GKT~la~~ia~~~~ 55 (305)
T TIGR00635 40 GLGKTTLAHIIANEMG 55 (305)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 9999999999988874
No 473
>PRK08181 transposase; Validated
Probab=24.39 E-value=59 Score=31.87 Aligned_cols=33 Identities=27% Similarity=0.242 Sum_probs=25.1
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
++-|++.| |. |.|||..+.+++..+. +-|++++
T Consensus 106 ~~nlll~G----p~----------GtGKTHLa~Aia~~a~-~~g~~v~ 138 (269)
T PRK08181 106 GANLLLFG----PP----------GGGKSHLAAAIGLALI-ENGWRVL 138 (269)
T ss_pred CceEEEEe----cC----------CCcHHHHHHHHHHHHH-HcCCcee
Confidence 45577766 45 9999999999999884 5576653
No 474
>PRK00139 murE UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase; Provisional
Probab=24.39 E-value=1e+02 Score=31.63 Aligned_cols=32 Identities=31% Similarity=0.283 Sum_probs=26.4
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.+.|=|||. -|||||+-=|++.|. ..|+++.
T Consensus 94 ~~~vI~ITGT----------------nGKTTT~~~l~~iL~-~~g~~~~ 125 (460)
T PRK00139 94 KLKLIGVTGT----------------NGKTTTAYLLAQILR-LLGEKTA 125 (460)
T ss_pred ccEEEEEECC----------------CCchhHHHHHHHHHH-HcCCCEE
Confidence 5688999886 799999999999994 6786654
No 475
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=24.06 E-value=48 Score=30.34 Aligned_cols=27 Identities=26% Similarity=0.217 Sum_probs=16.7
Q ss_pred CCccchhHHHHHHHH-hhh-cCCcEEEEe
Q 044054 93 GEGKSTTTVGLCQAL-GAF-LDKKVVTCL 119 (400)
Q Consensus 93 GEGKTTttiGL~~aL-~~~-lgk~~~~~l 119 (400)
|.|||||.+...--| ... ...+-++||
T Consensus 23 GSGKT~~l~~ri~~ll~~~~~~~~~Il~l 51 (315)
T PF00580_consen 23 GSGKTTTLLERIAYLLYEGGVPPERILVL 51 (315)
T ss_dssp TSSHHHHHHHHHHHHHHTSSSTGGGEEEE
T ss_pred CCCchHHHHHHHHHhhccccCChHHheec
Confidence 999999887765444 211 234455554
No 476
>PRK13695 putative NTPase; Provisional
Probab=23.98 E-value=81 Score=27.60 Aligned_cols=26 Identities=27% Similarity=0.224 Sum_probs=18.8
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEe
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCL 119 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~l 119 (400)
|.||||+..-+++.+. ..|.+....+
T Consensus 10 G~GKTTll~~i~~~l~-~~G~~~~g~~ 35 (174)
T PRK13695 10 GVGKTTLVLKIAELLK-EEGYKVGGFY 35 (174)
T ss_pred CCCHHHHHHHHHHHHH-HCCCeEEEEE
Confidence 8999999998888774 3566544333
No 477
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.96 E-value=42 Score=35.66 Aligned_cols=16 Identities=38% Similarity=0.497 Sum_probs=15.3
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|+++|+
T Consensus 48 G~GKTt~A~~lAk~l~ 63 (509)
T PRK14958 48 GVGKTTISRILAKCLN 63 (509)
T ss_pred CCCHHHHHHHHHHHhc
Confidence 9999999999999995
No 478
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.80 E-value=1.2e+02 Score=31.94 Aligned_cols=15 Identities=47% Similarity=0.556 Sum_probs=12.6
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.|||||..-|+--+
T Consensus 201 G~GKTTtlakLA~~~ 215 (420)
T PRK14721 201 GVGKTTTTAKLAARA 215 (420)
T ss_pred CCCHHHHHHHHHHHH
Confidence 999999998888543
No 479
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=23.77 E-value=48 Score=30.92 Aligned_cols=16 Identities=38% Similarity=0.576 Sum_probs=15.0
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||++.-|+..|.
T Consensus 34 G~Gktt~a~~lA~~l~ 49 (325)
T COG0470 34 GVGKTTAALALAKELL 49 (325)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 9999999999999994
No 480
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=23.70 E-value=46 Score=34.60 Aligned_cols=61 Identities=25% Similarity=0.256 Sum_probs=36.4
Q ss_pred CCCCCCceeeecccccCcccccceeeccCCCCCCcceecceeee--ehhHHHH------------HHHhcCCHHHHHHHh
Q 044054 232 LDIDPASITWRRVMDVNDRFLRKITIGQGPEEKGMVRETGFDIS--VASEIMA------------VLALTTSLADTRERV 297 (400)
Q Consensus 232 L~IDp~~I~w~Rv~D~NDR~LR~I~iG~g~~~~G~~re~gFdIt--vASEiMA------------IL~La~dl~Dlr~Rl 297 (400)
++|| .=..++++...|-.||.-+.=|-.-..+-. -|| ..-|.|+ =+|+|.|...+.+|+
T Consensus 206 v~~d--~~al~~I~~~S~GdLR~Ait~Lqsls~~gk-----~It~~~~~e~~~GvVp~~~l~~lle~a~S~d~~~~v~~~ 278 (346)
T KOG0989|consen 206 VDID--DDALKLIAKISDGDLRRAITTLQSLSLLGK-----RITTSLVNEELAGVVPDEKLLDLLELALSADTPNTVKRV 278 (346)
T ss_pred CCCC--HHHHHHHHHHcCCcHHHHHHHHHHhhccCc-----ccchHHHHHHHhccCCHHHHHHHHHHHHccChHHHHHHH
Confidence 4444 445688999999999975554322222112 254 3445565 257777777776665
Q ss_pred cC
Q 044054 298 GK 299 (400)
Q Consensus 298 g~ 299 (400)
-.
T Consensus 279 Re 280 (346)
T KOG0989|consen 279 RE 280 (346)
T ss_pred HH
Confidence 43
No 481
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=23.68 E-value=73 Score=27.98 Aligned_cols=23 Identities=30% Similarity=0.211 Sum_probs=17.0
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGL 103 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL 103 (400)
+.|+.+.+++- - |+||||+..-|
T Consensus 26 ~~Ge~~~i~G~----n----------GsGKStLl~~l 48 (178)
T cd03247 26 KQGEKIALLGR----S----------GSGKSTLLQLL 48 (178)
T ss_pred cCCCEEEEECC----C----------CCCHHHHHHHH
Confidence 46888988874 4 99999954433
No 482
>PRK06904 replicative DNA helicase; Validated
Probab=23.67 E-value=1.2e+02 Score=31.98 Aligned_cols=37 Identities=27% Similarity=0.480 Sum_probs=27.5
Q ss_pred chhhhhh-cCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 57 LSVLDEL-EGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 57 l~~l~~~-~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.-||++ ..-.+|.+|+|+|- | |-|||+.+.-++.-.
T Consensus 208 ~~~LD~~t~Gl~~G~LiiIaar---P-----------g~GKTafalnia~~~ 245 (472)
T PRK06904 208 FTDLDKKTAGLQPSDLIIVAAR---P-----------SMGKTTFAMNLCENA 245 (472)
T ss_pred hHHHHHHHhccCCCcEEEEEeC---C-----------CCChHHHHHHHHHHH
Confidence 3455554 34467999999997 2 699999998887755
No 483
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=23.59 E-value=45 Score=30.34 Aligned_cols=38 Identities=26% Similarity=0.316 Sum_probs=24.0
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEec
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLR 120 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lR 120 (400)
|+=||++| |. |.||||++..|.+.=...++-+.+..-|
T Consensus 14 g~gvLi~G----~s----------G~GKStlal~L~~~g~~lvaDD~v~v~~ 51 (149)
T cd01918 14 GIGVLITG----PS----------GIGKSELALELIKRGHRLVADDRVVVKR 51 (149)
T ss_pred CEEEEEEc----CC----------CCCHHHHHHHHHHcCCeEEECCEEEEEE
Confidence 66677776 46 9999999987776511233444444433
No 484
>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]
Probab=23.57 E-value=1.1e+02 Score=32.57 Aligned_cols=86 Identities=27% Similarity=0.269 Sum_probs=50.6
Q ss_pred CCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEE---EecCCCCCCccccccCcCCCCceee
Q 044054 66 SADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVT---CLRQPLQGPTFGIRGGAAGGGYSQV 142 (400)
Q Consensus 66 ~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~---~lRqPS~GP~FGiKGGAaGGGysQv 142 (400)
.+.|++.+|-.. ..||||.|.=|+--+. ..|.+... -+=||+.||===|-=+-...=..-+
T Consensus 71 ~~~~~vmvvG~v---------------DSGKSTLt~~LaN~~l-~rG~~v~iiDaDvGQ~ei~pPg~ISL~~~~s~~~~L 134 (398)
T COG1341 71 GKVGVVMVVGPV---------------DSGKSTLTTYLANKLL-ARGRKVAIIDADVGQSEIGPPGFISLAFPESPVISL 134 (398)
T ss_pred cCCcEEEEECCc---------------CcCHHHHHHHHHHHHh-hcCceEEEEeCCCCCcccCCCceEEeecccCCCCCH
Confidence 467888888655 8999999999988775 34765432 5679999874111100000000002
Q ss_pred ecCcccccccchhh-------hHHHHHHhHHH
Q 044054 143 IPMDEFNLHLTGDI-------HAITAANNLLA 167 (400)
Q Consensus 143 iPmeeiNLHfTGD~-------HAItaA~NLla 167 (400)
--|+-++.-|-|+| |.|+++--|..
T Consensus 135 ~~l~~~~~~FvG~isP~~~~~~~i~~v~rL~~ 166 (398)
T COG1341 135 SELEPFTLYFVGSISPQGFPGRYIAGVARLVD 166 (398)
T ss_pred HHcCccceEEEeccCCCCChHHHHHHHHHHHH
Confidence 22445667788887 45555555443
No 485
>PRK05636 replicative DNA helicase; Provisional
Probab=23.54 E-value=1.1e+02 Score=32.84 Aligned_cols=45 Identities=20% Similarity=0.155 Sum_probs=29.4
Q ss_pred hHHHHHHHhcCCHHHHHHHhcCcEEeecCCCC--------ceeccccCcchhH
Q 044054 278 SEIMAVLALTTSLADTRERVGKMVIGNSKAGD--------PITADDLGVGGAL 322 (400)
Q Consensus 278 SEiMAIL~La~dl~Dlr~Rlg~ivva~~~~g~--------PVta~DL~~~GAm 322 (400)
++-.+|--.+++|+.|-+.++=-||+.+-=.+ ...-.||.=.|++
T Consensus 395 ~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~dkrP~lsDLreSG~I 447 (505)
T PRK05636 395 SRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSL 447 (505)
T ss_pred cHHHHHHHHHHHHHHHHHHhCCeEEEEeecCccccccCCCCCcHHHHhhcccc
Confidence 45556777788899999999888887654222 2333456655553
No 486
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=23.51 E-value=72 Score=28.90 Aligned_cols=24 Identities=29% Similarity=0.210 Sum_probs=18.2
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.++|- - |.||||+.--|+
T Consensus 34 ~~Ge~~~i~G~----n----------GsGKSTLl~~i~ 57 (228)
T PRK10584 34 KRGETIALIGE----S----------GSGKSTLLAILA 57 (228)
T ss_pred cCCCEEEEECC----C----------CCCHHHHHHHHH
Confidence 46899999884 4 999999655444
No 487
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=23.49 E-value=1e+02 Score=28.02 Aligned_cols=16 Identities=38% Similarity=0.462 Sum_probs=14.4
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|.||||+..-|.+.+.
T Consensus 32 gsGKTTli~~l~~~~~ 47 (207)
T TIGR00073 32 GSGKTTLIEKLIDNLK 47 (207)
T ss_pred CCCHHHHHHHHHHHHh
Confidence 9999999999998874
No 488
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=23.40 E-value=74 Score=28.46 Aligned_cols=24 Identities=42% Similarity=0.434 Sum_probs=18.1
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.+.|- - |.||||+..-|+
T Consensus 24 ~~Ge~~~l~G~----n----------GsGKSTLl~~l~ 47 (213)
T cd03301 24 ADGEFVVLLGP----S----------GCGKTTTLRMIA 47 (213)
T ss_pred cCCcEEEEECC----C----------CCCHHHHHHHHh
Confidence 46889988885 4 999999655444
No 489
>PRK08356 hypothetical protein; Provisional
Probab=23.32 E-value=74 Score=28.60 Aligned_cols=22 Identities=23% Similarity=0.102 Sum_probs=16.5
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
..+|+++| |- |+||||++--|.
T Consensus 5 ~~~i~~~G----~~----------gsGK~t~a~~l~ 26 (195)
T PRK08356 5 KMIVGVVG----KI----------AAGKTTVAKFFE 26 (195)
T ss_pred cEEEEEEC----CC----------CCCHHHHHHHHH
Confidence 35677776 34 899999998773
No 490
>PLN02796 D-glycerate 3-kinase
Probab=23.31 E-value=61 Score=33.45 Aligned_cols=15 Identities=33% Similarity=0.441 Sum_probs=13.5
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|+||||++.-|+..|
T Consensus 110 GSGKSTLa~~L~~lL 124 (347)
T PLN02796 110 GCGKTTLVFALVYLF 124 (347)
T ss_pred CCcHHHHHHHHHHHh
Confidence 999999998888777
No 491
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=23.24 E-value=93 Score=26.58 Aligned_cols=37 Identities=19% Similarity=0.291 Sum_probs=23.5
Q ss_pred CcCCcchhHHHHHHHHHhcCCCCCCCCCCHHHhhhhccC
Q 044054 194 KEGERSFSNIMFRRLRKLGISKTKPEDLTPEEINRFARL 232 (400)
Q Consensus 194 ~~g~r~f~~~~~~rl~klgi~~~~p~~lt~ee~~~~~~L 232 (400)
.+|-|.|++..+.||+.+-.=+ --.+|.+|++.+..+
T Consensus 33 ~~gyR~Y~~~~l~~l~~I~~lr--~~G~sL~eI~~~l~~ 69 (127)
T cd04784 33 ANNYRLYDEEHLERLLFIRRCR--SLDMSLDEIRTLLQL 69 (127)
T ss_pred CCCCeecCHHHHHHHHHHHHHH--HcCCCHHHHHHHHHh
Confidence 5899999999887665531100 112677777777544
No 492
>PRK14022 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional
Probab=23.23 E-value=94 Score=32.04 Aligned_cols=32 Identities=19% Similarity=0.118 Sum_probs=25.7
Q ss_pred CCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEE
Q 044054 68 DGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVV 116 (400)
Q Consensus 68 ~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~ 116 (400)
+.|+|-|||. -|||||+-=|++.|. ..|+.+.
T Consensus 109 ~~~vIgITGT----------------nGKTTT~~~l~~iL~-~~g~~~~ 140 (481)
T PRK14022 109 KLKLLAFTGT----------------KGKTTAAYFAYHILK-QLHKPAM 140 (481)
T ss_pred ccEEEEEeCC----------------CcHHHHHHHHHHHHH-HCCCCEE
Confidence 4678889886 799999999999994 6676543
No 493
>PRK04841 transcriptional regulator MalT; Provisional
Probab=23.23 E-value=57 Score=35.21 Aligned_cols=51 Identities=27% Similarity=0.255 Sum_probs=34.0
Q ss_pred hhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhhcCCcEEEEecCCCCCCc
Q 044054 59 VLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQGPT 127 (400)
Q Consensus 59 ~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~GP~ 127 (400)
+++++......++++|+| |+ |-||||+.. +-+ ...+.-++..|++.+.-|.
T Consensus 22 l~~~l~~~~~~~~~~v~a----pa----------G~GKTtl~~---~~~-~~~~~~~w~~l~~~d~~~~ 72 (903)
T PRK04841 22 LLAKLSGANNYRLVLVTS----PA----------GYGKTTLIS---QWA-AGKNNLGWYSLDESDNQPE 72 (903)
T ss_pred HHHHHhcccCCCeEEEEC----CC----------CCCHHHHHH---HHH-HhCCCeEEEecCcccCCHH
Confidence 444454445678999997 78 999999864 444 2345455667877766663
No 494
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=23.21 E-value=1.7e+02 Score=31.29 Aligned_cols=44 Identities=14% Similarity=0.099 Sum_probs=25.2
Q ss_pred CCccchhHHHHHHHHhhhcCCcEEEEecCCCCC------CccccccCcCCCC
Q 044054 93 GEGKSTTTVGLCQALGAFLDKKVVTCLRQPLQG------PTFGIRGGAAGGG 138 (400)
Q Consensus 93 GEGKTTttiGL~~aL~~~lgk~~~~~lRqPS~G------P~FGiKGGAaGGG 138 (400)
|.||++++..+-+... + ....++.+-=.++- -.||-..|+..+|
T Consensus 358 GtGK~~~A~~ih~~s~-r-~~~pfv~vnc~~~~~~~~~~elfg~~~~~~~~~ 407 (638)
T PRK11388 358 GVGKALLAQAIHNESE-R-AAGPYIAVNCQLYPDEALAEEFLGSDRTDSENG 407 (638)
T ss_pred CcCHHHHHHHHHHhCC-c-cCCCeEEEECCCCChHHHHHHhcCCCCcCccCC
Confidence 9999999988877762 3 33445544322221 2577553333333
No 495
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=23.11 E-value=1.2e+02 Score=26.51 Aligned_cols=25 Identities=32% Similarity=0.493 Sum_probs=18.7
Q ss_pred CcEEEEeccCCCCCCCCCCCcCcCCCccchh--HHHHHHHH
Q 044054 69 GYYVVVGEITRTPLGEGEITQYPLGEGKSTT--TVGLCQAL 107 (400)
Q Consensus 69 Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTt--tiGL~~aL 107 (400)
++.+++||-| |+||||. +++++..+
T Consensus 21 ~~~~~i~G~N--------------gsGKS~~l~~i~~~~~~ 47 (162)
T cd03227 21 GSLTIITGPN--------------GSGKSTILDAIGLALGG 47 (162)
T ss_pred CCEEEEECCC--------------CCCHHHHHHHHHHHHHh
Confidence 5788999854 8999995 56666665
No 496
>TIGR00618 sbcc exonuclease SbcC. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.08 E-value=65 Score=36.72 Aligned_cols=41 Identities=27% Similarity=0.433 Sum_probs=28.8
Q ss_pred hhcccCcee--eecchhhhhhcCCCCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHH
Q 044054 45 YDLYGKYKA--KVLLSVLDELEGSADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQAL 107 (400)
Q Consensus 45 le~YG~yKA--Kv~l~~l~~~~~~~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL 107 (400)
+.-||.|+. .||++.+ +.+.+++| |- |.||||+--++|=||
T Consensus 8 l~nf~s~~~~~~idF~~~--------~gl~~I~G----~n----------GaGKSTildAI~~aL 50 (1042)
T TIGR00618 8 LKNFGSYKGTHTIDFTAL--------GPIFLICG----KT----------GAGKTTLLDAITYAL 50 (1042)
T ss_pred EeCeeccCCCceeeecCC--------CCeEEEEC----CC----------CCCHHHHHHHHHHHh
Confidence 445666653 4565421 26888888 44 999999999999998
No 497
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=23.07 E-value=73 Score=28.61 Aligned_cols=24 Identities=29% Similarity=0.203 Sum_probs=17.9
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHH
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLC 104 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~ 104 (400)
+.|..+.++|- - |.||||+..-|+
T Consensus 27 ~~Ge~~~i~G~----n----------GsGKSTLl~~l~ 50 (216)
T TIGR00960 27 TKGEMVFLVGH----S----------GAGKSTFLKLIL 50 (216)
T ss_pred cCCCEEEEECC----C----------CCCHHHHHHHHh
Confidence 46888888874 4 999999655444
No 498
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=23.04 E-value=43 Score=30.37 Aligned_cols=15 Identities=27% Similarity=0.490 Sum_probs=13.5
Q ss_pred CCccchhHHHHHHHH
Q 044054 93 GEGKSTTTVGLCQAL 107 (400)
Q Consensus 93 GEGKTTttiGL~~aL 107 (400)
|.||||.+.-|++.+
T Consensus 9 GsGKsT~a~~La~~~ 23 (210)
T TIGR01351 9 GSGKGTQAKRIAEKY 23 (210)
T ss_pred CCCHHHHHHHHHHHc
Confidence 899999999998876
No 499
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=22.97 E-value=55 Score=27.87 Aligned_cols=16 Identities=38% Similarity=0.613 Sum_probs=14.5
Q ss_pred CCccchhHHHHHHHHh
Q 044054 93 GEGKSTTTVGLCQALG 108 (400)
Q Consensus 93 GEGKTTttiGL~~aL~ 108 (400)
|+||||.+.-|++.++
T Consensus 6 gsGK~t~~~~la~~~~ 21 (151)
T PF00406_consen 6 GSGKGTQAKRLAKRYG 21 (151)
T ss_dssp TSSHHHHHHHHHHHHT
T ss_pred CCChHHHHHHHHHhcC
Confidence 8999999999999874
No 500
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=22.77 E-value=99 Score=29.94 Aligned_cols=46 Identities=13% Similarity=0.157 Sum_probs=28.4
Q ss_pred CCCcEEEEeccCCCCCCCCCCCcCcCCCccchhHHHHHHHHhhh-cCCcEEEE-ecCCCCCC
Q 044054 67 ADGYYVVVGEITRTPLGEGEITQYPLGEGKSTTTVGLCQALGAF-LDKKVVTC-LRQPLQGP 126 (400)
Q Consensus 67 ~~Gk~VlVTaItPTP~~~~~~~~~~~GEGKTTttiGL~~aL~~~-lgk~~~~~-lRqPS~GP 126 (400)
.+|..++++| |. |.||||+..-++..+... .+...+++ +.+|...+
T Consensus 14 ~~Gqr~~I~G----~~----------G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev 61 (249)
T cd01128 14 GKGQRGLIVA----PP----------KAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEV 61 (249)
T ss_pred CCCCEEEEEC----CC----------CCCHHHHHHHHHhccccccCCeEEEEEEccCCCccH
Confidence 3566777776 35 999999776666665321 13355666 77765543
Done!