Query 025835
Match_columns 247
No_of_seqs 195 out of 1756
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 10:05:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025835.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025835hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 99.9 3.1E-25 6.7E-30 173.3 15.3 140 37-193 1-142 (142)
2 cd01989 STK_N The N-terminal d 99.9 1.9E-24 4.1E-29 169.3 16.7 142 40-194 1-145 (146)
3 PRK15005 universal stress prot 99.9 2E-24 4.2E-29 168.7 16.2 142 37-193 1-144 (144)
4 PRK09982 universal stress prot 99.9 2.9E-24 6.3E-29 168.1 13.8 141 36-196 1-141 (142)
5 PRK15118 universal stress glob 99.9 4.7E-24 1E-28 166.8 14.3 141 36-197 1-142 (144)
6 PRK10116 universal stress prot 99.9 6.5E-23 1.4E-27 159.8 13.6 140 36-196 1-141 (142)
7 PF00582 Usp: Universal stress 99.9 2.4E-22 5.3E-27 153.6 15.5 140 37-193 1-140 (140)
8 cd01988 Na_H_Antiporter_C The 99.9 2E-21 4.3E-26 148.9 15.8 132 40-193 1-132 (132)
9 PRK11175 universal stress prot 99.9 2.3E-21 4.9E-26 169.6 15.2 148 36-196 1-148 (305)
10 cd01987 USP_OKCHK USP domain i 99.9 6.5E-21 1.4E-25 145.1 12.9 123 40-193 1-124 (124)
11 PRK11175 universal stress prot 99.9 1.1E-20 2.3E-25 165.4 13.9 163 15-195 130-301 (305)
12 COG0589 UspA Universal stress 99.8 9.5E-18 2.1E-22 131.1 16.7 149 36-195 3-153 (154)
13 cd00293 USP_Like Usp: Universa 99.8 1.4E-17 3E-22 125.9 15.1 130 40-192 1-130 (130)
14 PRK12652 putative monovalent c 99.5 5.1E-13 1.1E-17 118.9 16.5 136 35-189 2-146 (357)
15 PRK10490 sensor protein KdpD; 99.3 7.6E-11 1.7E-15 117.1 16.0 130 34-196 246-376 (895)
16 COG2205 KdpD Osmosensitive K+ 99.1 1E-09 2.2E-14 104.5 14.3 134 34-198 244-378 (890)
17 cd01984 AANH_like Adenine nucl 98.6 3.8E-07 8.2E-12 64.7 7.6 84 41-191 1-85 (86)
18 PLN03159 cation/H(+) antiporte 97.2 0.0051 1.1E-07 61.3 13.0 149 36-194 456-615 (832)
19 PLN03159 cation/H(+) antiporte 96.8 0.044 9.5E-07 54.7 15.0 151 37-196 629-796 (832)
20 TIGR02432 lysidine_TilS_N tRNA 96.6 0.037 8.1E-07 44.8 11.2 99 40-168 1-115 (189)
21 PF01171 ATP_bind_3: PP-loop f 96.0 0.14 3.1E-06 41.2 11.4 100 40-169 1-113 (182)
22 cd01992 PP-ATPase N-terminal d 95.5 0.25 5.5E-06 39.6 10.9 97 40-166 1-110 (185)
23 PRK13982 bifunctional SbtC-lik 95.4 0.23 5E-06 46.3 11.6 123 35-198 67-192 (475)
24 PRK12342 hypothetical protein; 95.1 0.54 1.2E-05 40.3 12.1 84 44-163 30-120 (254)
25 PRK03359 putative electron tra 94.7 0.6 1.3E-05 40.0 11.3 103 45-189 32-142 (256)
26 PRK07313 phosphopantothenoylcy 94.5 0.29 6.2E-06 39.8 8.6 118 38-194 1-121 (182)
27 PRK06029 3-octaprenyl-4-hydrox 94.5 0.32 7E-06 39.6 8.7 120 38-194 1-123 (185)
28 cd01993 Alpha_ANH_like_II This 93.7 1.5 3.2E-05 34.9 11.3 36 40-75 1-38 (185)
29 PRK05579 bifunctional phosphop 93.5 0.8 1.7E-05 41.9 10.2 120 35-195 3-125 (399)
30 TIGR02113 coaC_strep phosphopa 93.5 0.66 1.4E-05 37.5 8.7 117 39-194 1-120 (177)
31 COG2086 FixA Electron transfer 92.8 1.7 3.7E-05 37.4 10.5 104 45-192 33-144 (260)
32 TIGR00521 coaBC_dfp phosphopan 91.9 1.9 4.2E-05 39.3 10.4 119 37-195 2-121 (390)
33 PF01012 ETF: Electron transfe 91.7 1.9 4.1E-05 34.0 9.1 88 40-162 1-100 (164)
34 PF02441 Flavoprotein: Flavopr 91.6 0.21 4.5E-06 38.0 3.3 114 39-195 1-119 (129)
35 COG0041 PurE Phosphoribosylcar 91.6 1.4 3E-05 34.6 7.7 60 127-197 29-91 (162)
36 COG0037 MesJ tRNA(Ile)-lysidin 91.5 2 4.4E-05 37.1 9.9 37 38-76 21-57 (298)
37 PRK10696 tRNA 2-thiocytidine b 90.5 6.1 0.00013 33.7 11.7 39 37-75 28-68 (258)
38 PF00448 SRP54: SRP54-type pro 89.8 2.8 6E-05 34.4 8.6 93 41-169 5-100 (196)
39 TIGR02852 spore_dpaB dipicolin 89.6 6.2 0.00013 32.2 10.4 47 151-197 78-127 (187)
40 PLN02496 probable phosphopanto 88.8 3.7 8E-05 34.1 8.6 122 36-194 17-140 (209)
41 PLN00200 argininosuccinate syn 88.7 5.7 0.00012 36.4 10.6 111 36-163 3-124 (404)
42 PRK08305 spoVFB dipicolinate s 88.3 6.8 0.00015 32.2 9.8 46 151-196 83-131 (196)
43 TIGR00421 ubiX_pad polyprenyl 88.1 5.9 0.00013 32.1 9.3 44 151-194 74-120 (181)
44 PF00731 AIRC: AIR carboxylase 87.8 2.3 4.9E-05 33.5 6.5 60 127-197 27-89 (150)
45 PRK05253 sulfate adenylyltrans 87.8 10 0.00023 33.3 11.3 38 38-75 27-64 (301)
46 TIGR01162 purE phosphoribosyla 87.1 2.5 5.4E-05 33.4 6.3 60 127-197 25-87 (156)
47 PRK05920 aromatic acid decarbo 86.9 6.5 0.00014 32.5 9.0 36 37-73 2-37 (204)
48 cd01985 ETF The electron trans 86.1 12 0.00026 29.9 10.2 34 40-74 1-43 (181)
49 TIGR00268 conserved hypothetic 85.8 12 0.00026 31.8 10.5 35 37-75 11-45 (252)
50 PRK13820 argininosuccinate syn 84.0 24 0.00053 32.2 12.1 36 37-75 1-37 (394)
51 PF00875 DNA_photolyase: DNA p 83.7 8.9 0.00019 30.1 8.3 119 46-195 8-126 (165)
52 TIGR00591 phr2 photolyase PhrI 83.5 9.1 0.0002 35.5 9.4 91 46-161 32-122 (454)
53 COG0552 FtsY Signal recognitio 82.3 21 0.00046 31.8 10.5 96 38-169 140-238 (340)
54 COG0452 Dfp Phosphopantothenoy 82.0 6.1 0.00013 36.1 7.4 119 38-197 4-124 (392)
55 TIGR02699 archaeo_AfpA archaeo 81.0 16 0.00034 29.5 8.7 46 153-198 79-127 (174)
56 TIGR02039 CysD sulfate adenyly 80.8 36 0.00077 29.9 11.5 38 38-75 19-56 (294)
57 PF05677 DUF818: Chlamydia CHL 78.9 23 0.0005 31.8 9.7 139 38-197 136-301 (365)
58 PRK00509 argininosuccinate syn 78.5 12 0.00026 34.3 8.1 36 37-75 1-36 (399)
59 PRK10660 tilS tRNA(Ile)-lysidi 78.4 9.6 0.00021 35.3 7.6 39 37-75 14-53 (436)
60 PRK14665 mnmA tRNA-specific 2- 77.9 54 0.0012 29.6 12.1 35 37-75 4-38 (360)
61 cd01714 ETF_beta The electron 76.2 32 0.00068 28.2 9.4 32 43-74 29-60 (202)
62 cd01994 Alpha_ANH_like_IV This 75.0 23 0.0005 28.9 8.2 33 40-76 1-33 (194)
63 TIGR02765 crypto_DASH cryptoch 74.7 20 0.00044 32.9 8.7 96 46-161 10-105 (429)
64 cd01713 PAPS_reductase This do 74.7 36 0.00078 26.0 11.0 35 40-75 1-35 (173)
65 PRK12563 sulfate adenylyltrans 73.6 52 0.0011 29.1 10.5 39 37-75 36-74 (312)
66 PRK10867 signal recognition pa 73.4 40 0.00086 31.3 10.2 93 40-167 103-198 (433)
67 KOG1467 Translation initiation 72.7 41 0.00088 31.6 9.8 64 125-197 408-472 (556)
68 cd01712 ThiI ThiI is required 72.3 46 0.001 26.3 11.2 33 40-76 1-33 (177)
69 PF02844 GARS_N: Phosphoribosy 71.5 3.5 7.7E-05 30.0 2.3 23 139-161 49-71 (100)
70 cd01990 Alpha_ANH_like_I This 71.3 53 0.0011 26.5 10.3 32 41-75 1-32 (202)
71 COG0541 Ffh Signal recognition 70.8 37 0.0008 31.5 9.1 94 40-169 103-199 (451)
72 TIGR03556 photolyase_8HDF deox 70.5 40 0.00086 31.5 9.7 90 46-161 10-99 (471)
73 KOG1552 Predicted alpha/beta h 68.9 7.7 0.00017 33.2 4.1 69 127-199 127-205 (258)
74 TIGR00959 ffh signal recogniti 68.7 56 0.0012 30.3 10.0 94 39-167 101-197 (428)
75 PRK05370 argininosuccinate syn 68.5 25 0.00055 32.6 7.6 115 36-165 9-135 (447)
76 PRK04527 argininosuccinate syn 68.0 41 0.00088 30.9 8.8 34 38-75 2-35 (400)
77 COG1066 Sms Predicted ATP-depe 67.5 1.1E+02 0.0023 28.5 11.5 118 38-196 93-220 (456)
78 PF02601 Exonuc_VII_L: Exonucl 67.2 17 0.00037 31.9 6.2 61 133-196 49-117 (319)
79 cd01995 ExsB ExsB is a transcr 66.8 59 0.0013 25.4 11.1 32 40-75 1-32 (169)
80 PLN02948 phosphoribosylaminoim 66.3 1E+02 0.0023 29.7 11.7 60 127-197 437-499 (577)
81 COG0299 PurN Folate-dependent 66.0 74 0.0016 26.2 9.8 83 39-160 1-87 (200)
82 PRK00766 hypothetical protein; 65.8 15 0.00033 30.1 5.2 63 127-196 42-110 (194)
83 PRK00109 Holliday junction res 63.7 10 0.00022 29.3 3.6 52 140-195 42-98 (138)
84 COG1184 GCD2 Translation initi 63.4 1E+02 0.0022 27.1 10.1 61 127-196 170-231 (301)
85 TIGR00045 glycerate kinase. Th 63.3 1.2E+02 0.0025 27.7 10.8 58 134-196 264-325 (375)
86 cd03364 TOPRIM_DnaG_primases T 62.0 23 0.0005 24.0 4.9 35 38-72 43-77 (79)
87 PRK10342 glycerate kinase I; P 61.8 99 0.0021 28.2 10.0 58 134-196 265-326 (381)
88 TIGR00342 thiazole biosynthesi 60.3 1.3E+02 0.0029 27.1 12.5 37 35-75 169-205 (371)
89 TIGR01425 SRP54_euk signal rec 59.7 87 0.0019 29.1 9.5 93 41-169 104-199 (429)
90 COG0137 ArgG Argininosuccinate 59.5 1.4E+02 0.0031 27.3 10.6 117 36-165 2-125 (403)
91 cd01986 Alpha_ANH_like Adenine 59.5 61 0.0013 23.0 8.3 32 41-76 1-32 (103)
92 KOG1650 Predicted K+/H+-antipo 58.6 45 0.00097 33.4 7.9 43 37-79 613-655 (769)
93 PRK08185 hypothetical protein; 58.0 19 0.0004 31.4 4.6 65 126-193 11-75 (283)
94 TIGR00032 argG argininosuccina 57.9 1.5E+02 0.0033 27.1 11.1 32 40-75 1-32 (394)
95 PF13662 Toprim_4: Toprim doma 57.5 19 0.00041 24.6 3.8 35 38-72 46-80 (81)
96 PRK09932 glycerate kinase II; 56.4 1.4E+02 0.0031 27.2 10.1 59 133-196 264-326 (381)
97 PRK05720 mtnA methylthioribose 56.2 23 0.0005 31.8 5.0 67 123-196 202-269 (344)
98 PRK10674 deoxyribodipyrimidine 55.9 1.4E+02 0.0031 27.9 10.5 94 46-161 11-105 (472)
99 PRK06371 translation initiatio 55.7 27 0.00059 31.1 5.3 65 123-194 192-257 (329)
100 PRK00143 mnmA tRNA-specific 2- 55.5 1.2E+02 0.0026 27.1 9.6 34 39-76 1-34 (346)
101 PRK08334 translation initiatio 55.1 29 0.00064 31.3 5.5 64 124-194 216-280 (356)
102 TIGR02700 flavo_MJ0208 archaeo 54.2 17 0.00038 30.5 3.8 34 40-73 1-36 (234)
103 TIGR00250 RNAse_H_YqgF RNAse H 54.1 32 0.00069 26.2 4.9 53 139-195 35-92 (130)
104 TIGR00524 eIF-2B_rel eIF-2B al 53.9 18 0.00039 31.8 3.9 65 123-194 174-239 (303)
105 TIGR00512 salvage_mtnA S-methy 52.5 27 0.00058 31.2 4.8 63 125-194 204-267 (331)
106 PRK05772 translation initiatio 52.2 37 0.00079 30.7 5.6 64 125-195 225-289 (363)
107 PRK14025 multifunctional 3-iso 51.3 37 0.0008 30.3 5.5 27 48-74 139-170 (330)
108 PRK08997 isocitrate dehydrogen 50.7 43 0.00094 29.9 5.8 27 48-74 146-173 (334)
109 PRK11889 flhF flagellar biosyn 50.0 1.4E+02 0.0031 27.7 9.0 94 40-169 244-337 (436)
110 PRK00286 xseA exodeoxyribonucl 49.7 50 0.0011 30.5 6.3 60 134-197 171-235 (438)
111 TIGR01769 GGGP geranylgeranylg 49.3 34 0.00073 28.3 4.6 49 144-197 16-64 (205)
112 PRK08335 translation initiatio 49.2 1.3E+02 0.0028 26.1 8.4 61 125-194 158-219 (275)
113 PRK00772 3-isopropylmalate deh 49.1 43 0.00093 30.2 5.6 27 48-74 165-191 (358)
114 PRK12857 fructose-1,6-bisphosp 48.9 31 0.00067 30.1 4.5 68 127-196 17-84 (284)
115 TIGR00169 leuB 3-isopropylmala 48.6 41 0.00088 30.3 5.3 27 48-74 162-188 (349)
116 PRK08194 tartrate dehydrogenas 48.1 38 0.00082 30.5 5.1 27 48-74 160-186 (352)
117 KOG0781 Signal recognition par 47.9 2.2E+02 0.0048 27.1 9.9 127 36-192 377-503 (587)
118 PRK08384 thiamine biosynthesis 47.8 1.8E+02 0.0038 26.6 9.4 37 35-75 177-213 (381)
119 TIGR00237 xseA exodeoxyribonuc 47.7 57 0.0012 30.2 6.3 60 134-197 165-230 (432)
120 COG1927 Mtd Coenzyme F420-depe 47.6 1.7E+02 0.0036 24.5 8.4 47 141-194 49-95 (277)
121 TIGR02089 TTC tartrate dehydro 47.0 46 0.001 30.0 5.5 27 48-74 163-189 (352)
122 PRK06372 translation initiatio 46.9 45 0.00098 28.6 5.1 65 124-197 131-196 (253)
123 PRK06801 hypothetical protein; 46.7 40 0.00087 29.4 4.9 67 127-195 17-83 (286)
124 PF02887 PK_C: Pyruvate kinase 46.6 46 0.001 24.5 4.7 43 140-194 4-47 (117)
125 TIGR02766 crypt_chrom_pln cryp 46.6 1.3E+02 0.0028 28.1 8.7 90 46-161 7-96 (475)
126 cd01715 ETF_alpha The electron 46.4 1.4E+02 0.0031 23.3 8.8 24 140-163 71-94 (168)
127 PRK08576 hypothetical protein; 46.1 2.5E+02 0.0055 26.1 11.2 31 40-74 236-266 (438)
128 PRK00994 F420-dependent methyl 45.8 1.9E+02 0.0042 24.7 8.5 48 140-194 48-95 (277)
129 PRK06806 fructose-bisphosphate 45.8 42 0.0009 29.2 4.9 68 126-195 16-83 (281)
130 COG0415 PhrB Deoxyribodipyrimi 45.7 1.3E+02 0.0027 28.3 8.2 89 46-161 11-99 (461)
131 cd01125 repA Hexameric Replica 45.6 1.8E+02 0.0038 24.2 9.3 61 140-200 99-163 (239)
132 PF02878 PGM_PMM_I: Phosphoglu 45.5 29 0.00062 26.3 3.5 42 37-78 39-80 (137)
133 PRK14664 tRNA-specific 2-thiou 45.5 2.3E+02 0.0051 25.6 11.3 35 37-75 4-38 (362)
134 PLN00118 isocitrate dehydrogen 45.5 49 0.0011 30.1 5.4 27 48-74 183-210 (372)
135 PRK12737 gatY tagatose-bisphos 45.5 37 0.00081 29.6 4.5 68 127-196 17-84 (284)
136 PF03746 LamB_YcsF: LamB/YcsF 45.4 1.8E+02 0.0039 24.8 8.4 130 39-197 28-167 (242)
137 PF02568 ThiI: Thiamine biosyn 44.4 1.4E+02 0.0031 24.5 7.6 37 38-78 3-39 (197)
138 PRK13010 purU formyltetrahydro 44.4 2.2E+02 0.0047 24.9 9.7 85 37-162 92-179 (289)
139 TIGR00175 mito_nad_idh isocitr 44.3 51 0.0011 29.4 5.3 27 48-74 144-171 (333)
140 TIGR01858 tag_bisphos_ald clas 44.2 44 0.00095 29.1 4.7 68 127-196 15-82 (282)
141 PRK12738 kbaY tagatose-bisphos 43.1 46 0.001 29.0 4.7 68 127-196 17-84 (286)
142 PRK08535 translation initiatio 43.0 2.2E+02 0.0047 25.1 9.0 61 125-194 169-230 (310)
143 cd02067 B12-binding B12 bindin 42.7 73 0.0016 23.2 5.2 38 127-166 27-64 (119)
144 cd01029 TOPRIM_primases TOPRIM 42.3 73 0.0016 21.2 4.8 34 38-71 43-76 (79)
145 TIGR00655 PurU formyltetrahydr 42.3 2.3E+02 0.005 24.6 9.8 84 37-161 83-169 (280)
146 COG1646 Predicted phosphate-bi 42.2 74 0.0016 27.0 5.5 55 139-198 28-82 (240)
147 PRK11070 ssDNA exonuclease Rec 42.0 2.9E+02 0.0062 26.7 10.3 92 37-162 68-161 (575)
148 TIGR00511 ribulose_e2b2 ribose 42.0 1.5E+02 0.0032 26.0 7.8 61 125-194 164-225 (301)
149 TIGR02088 LEU3_arch isopropylm 41.2 83 0.0018 28.0 6.1 27 48-74 140-166 (322)
150 PF01008 IF-2B: Initiation fac 41.1 24 0.00051 30.4 2.6 61 127-195 158-219 (282)
151 PRK05703 flhF flagellar biosyn 40.8 2.7E+02 0.0058 25.7 9.6 34 41-74 225-259 (424)
152 TIGR00289 conserved hypothetic 40.7 2.2E+02 0.0047 23.9 10.3 91 40-161 2-94 (222)
153 PRK09197 fructose-bisphosphate 40.6 62 0.0013 29.1 5.2 68 127-196 20-102 (350)
154 COG1929 Glycerate kinase [Carb 40.0 2.9E+02 0.0063 25.1 10.1 59 132-195 263-325 (378)
155 PRK13337 putative lipid kinase 40.0 92 0.002 27.0 6.2 62 126-196 31-93 (304)
156 TIGR00884 guaA_Cterm GMP synth 39.9 2.6E+02 0.0057 24.6 11.5 34 39-75 17-50 (311)
157 PRK13054 lipid kinase; Reviewe 39.9 1.6E+02 0.0035 25.5 7.7 62 126-196 30-94 (300)
158 cd03557 L-arabinose_isomerase 39.8 1.4E+02 0.003 28.2 7.6 60 128-196 38-101 (484)
159 TIGR02764 spore_ybaN_pdaB poly 39.5 1.9E+02 0.0042 22.9 10.6 64 127-194 95-159 (191)
160 PF07355 GRDB: Glycine/sarcosi 38.8 33 0.00072 30.7 3.2 53 140-195 68-120 (349)
161 PRK09222 isocitrate dehydrogen 38.6 58 0.0013 30.6 4.9 27 48-74 148-175 (482)
162 COG1606 ATP-utilizing enzymes 38.5 2.6E+02 0.0056 24.1 11.1 104 37-161 16-122 (269)
163 cd00947 TBP_aldolase_IIB Tagat 38.5 56 0.0012 28.3 4.5 69 126-196 11-79 (276)
164 PRK14974 cell division protein 38.4 2.8E+02 0.006 24.8 9.0 92 40-167 143-237 (336)
165 PF03652 UPF0081: Uncharacteri 37.9 30 0.00066 26.5 2.5 58 138-196 37-97 (135)
166 TIGR00930 2a30 K-Cl cotranspor 37.9 4.8E+02 0.01 27.0 12.6 127 39-196 576-711 (953)
167 COG2876 AroA 3-deoxy-D-arabino 37.6 91 0.002 27.0 5.5 123 40-194 46-188 (286)
168 PF02310 B12-binding: B12 bind 37.4 1.6E+02 0.0034 21.2 6.7 60 127-193 28-87 (121)
169 cd00946 FBP_aldolase_IIA Class 37.3 74 0.0016 28.6 5.2 70 127-196 15-97 (345)
170 TIGR02855 spore_yabG sporulati 36.8 93 0.002 27.0 5.5 36 127-162 128-163 (283)
171 COG0420 SbcD DNA repair exonuc 36.1 50 0.0011 29.8 4.1 21 140-160 28-48 (390)
172 cd02072 Glm_B12_BD B12 binding 36.1 95 0.0021 23.6 4.9 29 139-167 37-65 (128)
173 TIGR00420 trmU tRNA (5-methyla 36.0 3.2E+02 0.007 24.5 10.1 33 39-75 1-33 (352)
174 PF13362 Toprim_3: Toprim doma 35.9 92 0.002 21.8 4.7 38 36-73 39-78 (96)
175 PLN00123 isocitrate dehydrogen 35.9 75 0.0016 28.7 5.0 27 48-74 167-194 (360)
176 PHA02031 putative DnaG-like pr 35.7 59 0.0013 28.1 4.1 37 38-74 206-242 (266)
177 cd02071 MM_CoA_mut_B12_BD meth 35.6 1.8E+02 0.0039 21.4 7.6 36 40-75 1-36 (122)
178 PRK11914 diacylglycerol kinase 35.4 1.4E+02 0.003 25.9 6.6 60 127-196 39-98 (306)
179 PF14582 Metallophos_3: Metall 35.4 80 0.0017 26.8 4.7 60 139-198 19-101 (255)
180 PF05582 Peptidase_U57: YabG p 35.3 91 0.002 27.2 5.2 36 127-162 129-164 (287)
181 PRK06395 phosphoribosylamine-- 35.3 2E+02 0.0044 26.5 8.0 23 37-61 1-23 (435)
182 PRK13398 3-deoxy-7-phosphohept 34.9 3E+02 0.0064 23.7 11.6 29 48-77 37-65 (266)
183 PRK09195 gatY tagatose-bisphos 34.7 63 0.0014 28.2 4.2 67 127-195 17-83 (284)
184 PLN02329 3-isopropylmalate deh 34.6 63 0.0014 29.8 4.3 26 49-74 211-236 (409)
185 TIGR00646 MG010 DNA primase-re 34.3 91 0.002 26.1 4.9 36 38-73 154-189 (218)
186 PRK00074 guaA GMP synthase; Re 34.1 4.1E+02 0.009 25.2 11.0 35 38-75 215-249 (511)
187 cd08189 Fe-ADH5 Iron-containin 33.9 1.7E+02 0.0037 26.3 7.1 13 185-197 125-137 (374)
188 PRK07998 gatY putative fructos 33.9 64 0.0014 28.1 4.1 66 127-194 17-82 (283)
189 COG1058 CinA Predicted nucleot 33.9 1.4E+02 0.003 25.7 6.1 62 123-192 30-93 (255)
190 TIGR00167 cbbA ketose-bisphosp 33.8 81 0.0018 27.5 4.8 66 127-194 17-85 (288)
191 PRK02929 L-arabinose isomerase 33.7 1.7E+02 0.0038 27.7 7.3 58 128-194 44-105 (499)
192 cd08550 GlyDH-like Glycerol_de 33.6 3.4E+02 0.0074 24.0 9.9 59 127-196 49-111 (349)
193 TIGR01859 fruc_bis_ald_ fructo 33.4 78 0.0017 27.5 4.6 66 127-194 15-82 (282)
194 PF14639 YqgF: Holliday-juncti 33.4 41 0.00089 26.3 2.6 24 140-163 51-74 (150)
195 cd01999 Argininosuccinate_Synt 33.0 3.1E+02 0.0067 25.1 8.6 32 41-75 1-32 (385)
196 PF02595 Gly_kinase: Glycerate 32.8 55 0.0012 29.8 3.7 61 132-197 263-327 (377)
197 PRK06036 translation initiatio 32.8 1.1E+02 0.0023 27.5 5.5 64 124-195 204-268 (339)
198 COG0301 ThiI Thiamine biosynth 32.4 2.5E+02 0.0055 25.6 7.8 39 36-78 173-211 (383)
199 PRK08745 ribulose-phosphate 3- 32.4 93 0.002 26.1 4.8 33 127-161 169-201 (223)
200 cd07187 YvcK_like family of mo 32.1 2.4E+02 0.0052 24.9 7.5 60 139-202 164-223 (308)
201 PRK00771 signal recognition pa 32.0 4.2E+02 0.0092 24.6 9.9 34 40-74 98-131 (437)
202 cd00532 MGS-like MGS-like doma 31.8 1.5E+02 0.0033 21.5 5.4 62 127-191 42-104 (112)
203 TIGR01826 CofD_related conserv 31.7 1.3E+02 0.0028 26.7 5.7 54 140-199 162-217 (310)
204 COG1597 LCB5 Sphingosine kinas 31.6 1.3E+02 0.0028 26.3 5.8 63 125-196 31-93 (301)
205 TIGR01520 FruBisAldo_II_A fruc 31.5 1.2E+02 0.0025 27.5 5.4 70 127-196 26-109 (357)
206 PRK00919 GMP synthase subunit 31.1 3.7E+02 0.008 23.7 11.2 34 39-75 22-55 (307)
207 PRK13399 fructose-1,6-bisphosp 31.0 87 0.0019 28.2 4.6 66 127-194 17-83 (347)
208 KOG0780 Signal recognition par 30.9 2.4E+02 0.0051 26.1 7.2 91 42-168 106-199 (483)
209 TIGR00127 nadp_idh_euk isocitr 30.8 79 0.0017 29.1 4.3 27 48-74 185-211 (409)
210 PRK12723 flagellar biosynthesi 30.8 3.2E+02 0.0069 25.0 8.3 35 40-74 177-214 (388)
211 PRK06027 purU formyltetrahydro 30.7 3.6E+02 0.0078 23.4 10.1 85 37-162 88-175 (286)
212 PF01884 PcrB: PcrB family; I 30.6 1E+02 0.0022 26.0 4.7 56 137-199 17-72 (230)
213 PRK03437 3-isopropylmalate deh 29.9 71 0.0015 28.7 3.9 27 48-74 159-186 (344)
214 cd02071 MM_CoA_mut_B12_BD meth 29.8 1.2E+02 0.0027 22.4 4.7 36 127-164 27-62 (122)
215 PRK08091 ribulose-phosphate 3- 29.8 1.1E+02 0.0024 25.8 4.8 33 127-161 177-209 (228)
216 PRK04148 hypothetical protein; 29.7 2.4E+02 0.0053 21.6 6.3 42 127-168 77-118 (134)
217 COG1570 XseA Exonuclease VII, 29.7 1.4E+02 0.0031 27.8 5.8 59 134-196 171-235 (440)
218 PRK08299 isocitrate dehydrogen 29.6 78 0.0017 29.1 4.1 26 49-74 185-210 (402)
219 cd01971 Nitrogenase_VnfN_like 29.4 90 0.002 28.7 4.6 54 140-197 74-127 (427)
220 COG2379 GckA Putative glycerat 29.3 3.9E+02 0.0085 24.6 8.3 58 139-197 258-318 (422)
221 cd00453 FTBP_aldolase_II Fruct 29.2 83 0.0018 28.2 4.1 71 127-197 12-96 (340)
222 PRK09722 allulose-6-phosphate 29.2 1.5E+02 0.0032 25.0 5.4 33 127-161 167-199 (229)
223 TIGR01283 nifE nitrogenase mol 28.8 92 0.002 28.9 4.6 55 140-197 109-163 (456)
224 TIGR01521 FruBisAldo_II_B fruc 28.7 1.1E+02 0.0023 27.6 4.8 67 127-195 15-82 (347)
225 cd07044 CofD_YvcK Family of Co 28.7 1.3E+02 0.0028 26.6 5.2 54 139-196 163-216 (309)
226 cd01998 tRNA_Me_trans tRNA met 28.6 4.3E+02 0.0092 23.6 11.1 32 40-75 1-32 (349)
227 TIGR02924 ICDH_alpha isocitrat 28.5 75 0.0016 29.8 3.8 27 48-74 144-171 (473)
228 PRK07315 fructose-bisphosphate 28.0 1.1E+02 0.0023 26.9 4.6 65 127-193 17-84 (293)
229 PF00764 Arginosuc_synth: Argi 27.6 2.7E+02 0.0058 25.5 7.1 26 140-165 93-118 (388)
230 COG1504 Uncharacterized conser 27.4 1.3E+02 0.0029 22.4 4.2 45 145-195 54-98 (121)
231 PF00072 Response_reg: Respons 27.2 1.8E+02 0.0038 20.1 5.0 50 141-197 32-82 (112)
232 COG0434 SgcQ Predicted TIM-bar 27.1 3.6E+02 0.0079 23.1 7.3 52 139-196 164-215 (263)
233 PRK10550 tRNA-dihydrouridine s 27.1 4.3E+02 0.0094 23.2 10.3 61 128-194 134-202 (312)
234 TIGR03573 WbuX N-acetyl sugar 26.9 4.5E+02 0.0098 23.3 10.4 33 40-75 61-93 (343)
235 TIGR00640 acid_CoA_mut_C methy 26.8 1.5E+02 0.0032 22.5 4.7 59 127-192 30-89 (132)
236 PRK08349 hypothetical protein; 26.8 3.4E+02 0.0073 21.8 12.4 33 39-75 1-33 (198)
237 smart00493 TOPRIM topoisomeras 26.7 1.1E+02 0.0023 20.1 3.6 26 39-64 48-73 (76)
238 cd01967 Nitrogenase_MoFe_alpha 26.6 1.3E+02 0.0029 27.2 5.2 53 140-195 75-127 (406)
239 PRK05835 fructose-bisphosphate 26.6 1.1E+02 0.0024 27.0 4.4 68 127-196 16-84 (307)
240 smart00851 MGS MGS-like domain 26.1 1.6E+02 0.0034 20.3 4.5 61 126-190 29-89 (90)
241 cd02801 DUS_like_FMN Dihydrour 26.1 3.6E+02 0.0078 21.9 8.9 52 140-193 139-190 (231)
242 PRK14057 epimerase; Provisiona 26.0 1.6E+02 0.0034 25.3 5.1 34 127-162 191-224 (254)
243 COG0036 Rpe Pentose-5-phosphat 25.9 1.7E+02 0.0037 24.5 5.1 23 139-161 177-199 (220)
244 cd01968 Nitrogenase_NifE_I Nit 25.9 1.4E+02 0.0031 27.2 5.2 55 140-197 74-128 (410)
245 PRK08610 fructose-bisphosphate 25.8 1.3E+02 0.0027 26.4 4.6 65 127-193 17-84 (286)
246 TIGR01917 gly_red_sel_B glycin 25.7 74 0.0016 29.4 3.2 54 140-196 64-117 (431)
247 TIGR01918 various_sel_PB selen 25.7 75 0.0016 29.4 3.2 54 140-196 64-117 (431)
248 PF01116 F_bP_aldolase: Fructo 25.7 36 0.00078 29.7 1.2 64 127-192 16-79 (287)
249 COG0151 PurD Phosphoribosylami 25.4 63 0.0014 29.8 2.7 23 140-162 51-73 (428)
250 COG2201 CheB Chemotaxis respon 25.3 3.2E+02 0.007 24.6 7.1 51 140-197 35-85 (350)
251 TIGR03702 lip_kinase_YegS lipi 25.2 3.5E+02 0.0076 23.2 7.4 61 127-196 27-90 (293)
252 TIGR01501 MthylAspMutase methy 25.1 1.7E+02 0.0036 22.5 4.6 61 127-194 29-90 (134)
253 PF07302 AroM: AroM protein; 25.0 4.1E+02 0.009 22.3 7.5 57 127-193 149-209 (221)
254 PF13607 Succ_CoA_lig: Succiny 24.9 97 0.0021 23.8 3.4 69 126-201 24-96 (138)
255 cd01972 Nitrogenase_VnfE_like 24.7 1.1E+02 0.0023 28.2 4.2 56 140-198 77-132 (426)
256 PRK07709 fructose-bisphosphate 24.7 1.5E+02 0.0032 25.9 4.8 65 127-193 17-84 (285)
257 TIGR00064 ftsY signal recognit 24.7 4.5E+02 0.0097 22.5 9.1 32 42-74 77-108 (272)
258 PRK10481 hypothetical protein; 24.0 2.6E+02 0.0057 23.4 6.0 56 127-192 153-212 (224)
259 cd00951 KDGDH 5-dehydro-4-deox 23.9 4.5E+02 0.0097 22.6 7.8 62 127-193 69-132 (289)
260 PRK14722 flhF flagellar biosyn 23.9 4.9E+02 0.011 23.7 8.1 91 41-169 141-232 (374)
261 TIGR01862 N2-ase-Ialpha nitrog 23.5 4.5E+02 0.0097 24.3 8.1 89 37-169 316-404 (443)
262 PRK07084 fructose-bisphosphate 23.5 1.3E+02 0.0029 26.7 4.3 67 127-195 23-94 (321)
263 PTZ00435 isocitrate dehydrogen 23.1 1.1E+02 0.0024 28.2 3.8 27 48-74 187-213 (413)
264 PRK09196 fructose-1,6-bisphosp 23.0 1.4E+02 0.003 27.0 4.3 67 127-195 17-84 (347)
265 PF01949 DUF99: Protein of unk 22.9 46 0.001 27.1 1.3 64 127-197 36-102 (187)
266 KOG1466 Translation initiation 22.8 5.1E+02 0.011 22.5 9.7 56 127-194 181-240 (313)
267 PF13167 GTP-bdg_N: GTP-bindin 22.7 3E+02 0.0064 19.8 6.7 23 139-161 44-66 (95)
268 TIGR01304 IMP_DH_rel_2 IMP deh 22.7 3.8E+02 0.0083 24.3 7.2 67 122-191 127-193 (369)
269 COG0191 Fba Fructose/tagatose 22.6 1.5E+02 0.0033 25.9 4.4 68 127-196 17-85 (286)
270 COG0036 Rpe Pentose-5-phosphat 22.6 4.7E+02 0.01 22.0 7.2 50 127-182 109-158 (220)
271 PRK08591 acetyl-CoA carboxylas 22.5 5.5E+02 0.012 23.5 8.5 34 37-75 1-34 (451)
272 PRK12858 tagatose 1,6-diphosph 22.3 5.7E+02 0.012 22.9 9.4 37 39-75 84-128 (340)
273 CHL00076 chlB photochlorophyll 22.3 1.3E+02 0.0027 28.6 4.2 55 140-197 73-127 (513)
274 PF02142 MGS: MGS-like domain 22.1 45 0.00098 23.5 1.0 44 143-190 51-94 (95)
275 TIGR00715 precor6x_red precorr 22.0 2.5E+02 0.0054 24.0 5.6 44 145-197 190-234 (256)
276 PRK07178 pyruvate carboxylase 22.0 6.1E+02 0.013 23.5 8.8 75 37-159 1-80 (472)
277 cd01997 GMP_synthase_C The C-t 21.8 5.4E+02 0.012 22.5 10.6 33 40-75 1-33 (295)
278 CHL00073 chlN photochlorophyll 21.8 1.4E+02 0.0031 27.9 4.4 26 49-74 18-43 (457)
279 cd02070 corrinoid_protein_B12- 21.7 1.9E+02 0.0042 23.4 4.8 49 139-192 120-171 (201)
280 PRK00211 sulfur relay protein 21.7 2.7E+02 0.0059 20.6 5.2 37 38-75 1-41 (119)
281 TIGR02260 benz_CoA_red_B benzo 21.7 1.6E+02 0.0035 27.1 4.7 54 140-196 338-391 (413)
282 smart00732 YqgFc Likely ribonu 21.6 1.8E+02 0.0038 20.1 4.1 52 140-194 39-92 (99)
283 PF05582 Peptidase_U57: YabG p 21.6 2.1E+02 0.0046 24.9 5.1 117 36-194 103-243 (287)
284 PRK01565 thiamine biosynthesis 21.5 6.2E+02 0.013 23.0 12.3 37 35-75 173-209 (394)
285 COG1628 Endonuclease V homolog 21.5 3E+02 0.0066 22.4 5.7 63 127-196 41-106 (185)
286 PRK14478 nitrogenase molybdenu 21.4 1.5E+02 0.0033 27.7 4.6 54 140-196 107-160 (475)
287 PRK02261 methylaspartate mutas 21.3 2.6E+02 0.0056 21.3 5.1 59 127-192 31-91 (137)
288 PRK13011 formyltetrahydrofolat 21.3 5.5E+02 0.012 22.3 9.9 83 38-161 89-174 (286)
289 PHA02546 47 endonuclease subun 21.3 2.2E+02 0.0048 25.3 5.4 20 141-160 28-47 (340)
290 cd00950 DHDPS Dihydrodipicolin 21.3 1.4E+02 0.0031 25.5 4.1 53 141-196 84-136 (284)
291 PLN00096 isocitrate dehydrogen 21.1 3.6E+02 0.0077 24.8 6.6 35 40-74 166-201 (393)
292 COG0816 Predicted endonuclease 21.0 1.6E+02 0.0034 22.9 3.8 55 140-194 41-96 (141)
293 PF01993 MTD: methylene-5,6,7, 20.9 1.7E+02 0.0038 25.0 4.2 46 142-194 49-94 (276)
294 COG0615 TagD Cytidylyltransfer 20.9 2.6E+02 0.0055 21.7 4.9 60 127-196 62-121 (140)
295 PF10808 DUF2542: Protein of u 20.8 83 0.0018 21.6 1.9 23 175-197 29-51 (79)
296 cd04731 HisF The cyclase subun 20.6 2.4E+02 0.0052 23.5 5.3 51 141-194 151-201 (243)
297 PRK13055 putative lipid kinase 20.6 5.8E+02 0.013 22.4 8.0 60 127-195 33-94 (334)
298 TIGR00737 nifR3_yhdG putative 20.6 5.7E+02 0.012 22.3 10.5 66 127-194 131-200 (319)
299 PRK08057 cobalt-precorrin-6x r 20.5 1.7E+02 0.0036 25.0 4.2 44 145-197 183-226 (248)
300 PRK12726 flagellar biosynthesi 20.4 5.6E+02 0.012 23.7 7.7 35 39-74 206-242 (407)
301 KOG2310 DNA repair exonuclease 20.4 85 0.0018 30.0 2.6 22 140-161 40-61 (646)
302 PF00532 Peripla_BP_1: Peripla 20.3 5.4E+02 0.012 21.8 7.8 59 127-196 31-89 (279)
303 PRK12569 hypothetical protein; 20.3 3.3E+02 0.0071 23.3 5.9 102 45-162 39-150 (245)
304 COG2069 CdhD CO dehydrogenase/ 20.2 5E+02 0.011 23.1 7.0 29 50-78 148-176 (403)
305 PRK10415 tRNA-dihydrouridine s 20.1 6E+02 0.013 22.3 9.9 65 127-194 133-202 (321)
306 cd02812 PcrB_like PcrB_like pr 20.0 2.1E+02 0.0047 23.9 4.7 53 141-199 14-67 (219)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.93 E-value=3.1e-25 Score=173.35 Aligned_cols=140 Identities=24% Similarity=0.263 Sum_probs=101.8
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHH
Q 025835 37 AHRKIGIAVDLSD--ESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTT 114 (247)
Q Consensus 37 ~~k~ILVavD~S~--~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 114 (247)
||++||||+|+|+ .+..|+++|..+|+.. ++|+++||++....... .... ...+...+..++..++.++
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~l~----- 71 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLSL--HRFA-ADVRRFEEHLQHEAEERLQ----- 71 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCcccccc--cccc-cchhhHHHHHHHHHHHHHH-----
Confidence 5899999999994 8999999999999874 69999999976432111 0000 0001111122222222222
Q ss_pred hhhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 115 KANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 115 ~~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
.+.+.+...++++++++..| ++.+.|+++++++++||||||+||++ +.++ |+||++++|+++++|||||||
T Consensus 72 ---~~~~~~~~~~~~v~~~v~~G-~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~---llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 72 ---TMVSHFTIDPSRIKQHVRFG-SVRDEVNELAEELGADVVVIGSRNPS-ISTH---LLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred ---HHHHHhCCCCcceEEEEcCC-ChHHHHHHHHhhcCCCEEEEcCCCCC-ccce---ecCccHHHHHHcCCCCEEEeC
Confidence 22222223467888888888 79999999999999999999999986 7788 999999999999999999996
No 2
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=99.93 E-value=1.9e-24 Score=169.25 Aligned_cols=142 Identities=18% Similarity=0.294 Sum_probs=105.6
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+||||+|+|+.+..|++||+.++...+++|+++||.++........+.. .......+...+..+.+ ++.+
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~----l~~~ 70 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKL------EVASAYKQEEDKEAKEL----LLPY 70 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccch------HHHHHHHHHHHHHHHHH----HHHH
Confidence 5999999999999999999999999999999999987643221111100 00011111111111111 2222
Q ss_pred hhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCC-CHHHHHhhcCC--ccEEEEec
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLG-SVSDYCVHHCV--CPVIVVRF 194 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lG-Svs~~vl~~a~--~PVlvV~~ 194 (247)
...+...++.++.+++.|+++.+.|++++++.++||||||++|++++.++ ++| |++.+|+++++ ||||||+.
T Consensus 71 ~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~---~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 71 RCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMK---FKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred HHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeec---ccCCchhHHHHhcCCCCceEEEEeC
Confidence 22333458889999988878999999999999999999999999999998 887 69999999999 99999985
No 3
>PRK15005 universal stress protein F; Provisional
Probab=99.93 E-value=2e-24 Score=168.71 Aligned_cols=142 Identities=18% Similarity=0.293 Sum_probs=102.6
Q ss_pred CCCeEEEeecCChH--HHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHH
Q 025835 37 AHRKIGIAVDLSDE--SAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTT 114 (247)
Q Consensus 37 ~~k~ILVavD~S~~--s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 114 (247)
||++||||+|+|+. +..|++||+.+|+..+++|+++||++....+.. .+...... ....+..++...+.++
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~l~----- 73 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYAS-LGLAYSAE-LPAMDDLKAEAKSQLE----- 73 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCccccc-cccccccc-chHHHHHHHHHHHHHH-----
Confidence 57999999999998 579999999999999999999999975332211 10000000 0001111122222222
Q ss_pred hhhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 115 KANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 115 ~~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
.+.+.+...+++++.++..| ++.+.|+++++++++||||||+++ +++.++ ++||++.+|+++++|||||||
T Consensus 74 ---~~~~~~~~~~~~~~~~v~~G-~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~~~---llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 74 ---EIIKKFKLPTDRVHVHVEEG-SPKDRILELAKKIPADMIIIASHR-PDITTY---LLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred ---HHHHHhCCCCCceEEEEeCC-CHHHHHHHHHHHcCCCEEEEeCCC-CCchhe---eecchHHHHHHhCCCCEEEeC
Confidence 22222233467788888888 799999999999999999999984 568888 999999999999999999996
No 4
>PRK09982 universal stress protein UspD; Provisional
Probab=99.92 E-value=2.9e-24 Score=168.12 Aligned_cols=141 Identities=16% Similarity=0.169 Sum_probs=101.3
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
|+|++||||+|+|+.|..|+++|+.+|+.++++|+++||++........ ... .. .+...+.+.+..+....
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~--~~~-~~----~~~~~~~~~~~~~~~l~-- 71 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYPG--IYF-PA----TEDILQLLKNKSDNKLY-- 71 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhchh--hhc-cc----hHHHHHHHHHHHHHHHH--
Confidence 5789999999999999999999999999999999999998653221100 000 00 01111222222222221
Q ss_pred hhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 116 ANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
.+...+. ...+++++..| ++.+.|+++|++.++||||||+| ++++.++ + | ++++|+++++|||||||..
T Consensus 72 --~~~~~~~--~~~~~~~v~~G-~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~---~-~-va~~V~~~s~~pVLvv~~~ 140 (142)
T PRK09982 72 --KLTKNIQ--WPKTKLRIERG-EMPETLLEIMQKEQCDLLVCGHH-HSFINRL---M-P-AYRGMINKMSADLLIVPFI 140 (142)
T ss_pred --HHHHhcC--CCcceEEEEec-CHHHHHHHHHHHcCCCEEEEeCC-hhHHHHH---H-H-HHHHHHhcCCCCEEEecCC
Confidence 1111221 23467777777 79999999999999999999987 8888887 6 5 9999999999999999975
Q ss_pred C
Q 025835 196 D 196 (247)
Q Consensus 196 ~ 196 (247)
+
T Consensus 141 ~ 141 (142)
T PRK09982 141 D 141 (142)
T ss_pred C
Confidence 4
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.92 E-value=4.7e-24 Score=166.84 Aligned_cols=141 Identities=21% Similarity=0.226 Sum_probs=96.3
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
++|++||||+|+|+.+..|+++|+.+|+.++++|++|||....... +....... .....+...+....+...
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~---~~~~~~~~----~~~~~~~~~~~~~~~l~~- 72 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDL---YTGLIDVN----LGDMQKRISEETHHALTE- 72 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhh---hhhhhhcc----hHHHHHHHHHHHHHHHHH-
Confidence 5789999999999999999999999999999999999994322111 00000000 011111111111111111
Q ss_pred hhhhhhhhhhCCCceEEEEE-ecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 116 ANDLAQPLVEAQIPFKIHIV-KDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~-~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
+. ...++.+...++ .| ++.+.|+++++++++||||||+|+ +.+ +. +||++.+|+++++||||+||.
T Consensus 73 ---~~---~~~~~~~~~~~~~~G-~p~~~I~~~a~~~~~DLIV~Gs~~-~~~-~~----lgSva~~v~~~a~~pVLvv~~ 139 (144)
T PRK15118 73 ---LS---TNAGYPITETLSGSG-DLGQVLVDAIKKYDMDLVVCGHHQ-DFW-SK----LMSSARQLINTVHVDMLIVPL 139 (144)
T ss_pred ---HH---HhCCCCceEEEEEec-CHHHHHHHHHHHhCCCEEEEeCcc-cHH-HH----HHHHHHHHHhhCCCCEEEecC
Confidence 11 223676544444 56 799999999999999999999996 333 33 479999999999999999997
Q ss_pred CCC
Q 025835 195 SDD 197 (247)
Q Consensus 195 ~~~ 197 (247)
+.+
T Consensus 140 ~~~ 142 (144)
T PRK15118 140 RDE 142 (144)
T ss_pred CcC
Confidence 544
No 6
>PRK10116 universal stress protein UspC; Provisional
Probab=99.90 E-value=6.5e-23 Score=159.81 Aligned_cols=140 Identities=14% Similarity=0.201 Sum_probs=101.8
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
|+|++|||++|+|+.+..++++|+.+|+.++++|+++|+++.+..+. ..... ..+...+...+..+.+..+.
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~----~~~~~----~~~~~~~~~~~~~~~~l~~~ 72 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYN----QFAAP----MLEDLRSVMQEETQSFLDKL 72 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccch----hhhHH----HHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999986543221 01111 11122222222222221111
Q ss_pred hhhhhhhhhhCCCceE-EEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 116 ANDLAQPLVEAQIPFK-IHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~-~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
. ...+++.. .++..| ++.+.|++++++.++||||||+++++++.++ + |++.+|+++++|||||||.
T Consensus 73 ----~---~~~~~~~~~~~~~~G-~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~---~--s~a~~v~~~~~~pVLvv~~ 139 (142)
T PRK10116 73 ----I---QDADYPIEKTFIAYG-ELSEHILEVCRKHHFDLVICGNHNHSFFSRA---S--CSAKRVIASSEVDVLLVPL 139 (142)
T ss_pred ----H---HhcCCCeEEEEEecC-CHHHHHHHHHHHhCCCEEEEcCCcchHHHHH---H--HHHHHHHhcCCCCEEEEeC
Confidence 1 12366654 444455 7999999999999999999999999988876 3 8999999999999999996
Q ss_pred CC
Q 025835 195 SD 196 (247)
Q Consensus 195 ~~ 196 (247)
+.
T Consensus 140 ~~ 141 (142)
T PRK10116 140 TG 141 (142)
T ss_pred CC
Confidence 54
No 7
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.90 E-value=2.4e-22 Score=153.63 Aligned_cols=140 Identities=29% Similarity=0.398 Sum_probs=99.5
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
|+||||||+|+++.+..+++||+.++...+++|+++||++....+.... .....................
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~---- 70 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSFSA------AEDEESEEEAEEEEQARQAEA---- 70 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHHH------HHHHHHHHHHHHHHHHHHHHH----
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeecccccccccc------ccccccccccchhhhhhhHHH----
Confidence 5799999999999999999999999999999999999998754321100 000000000000000000000
Q ss_pred hhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 117 NDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
..............+..| ++.+.|+++++++++||||||+++++++.++ ++||++++|+++++|||||||
T Consensus 71 ---~~~~~~~~~~~~~~~~~~-~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~---~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 71 ---EEAEAEGGIVIEVVIESG-DVADAIIEFAEEHNADLIVMGSRGRSGLERL---LFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp ---HHHHHHTTSEEEEEEEES-SHHHHHHHHHHHTTCSEEEEESSSTTSTTTS---SSHHHHHHHHHHTSSEEEEEE
T ss_pred ---HHHhhhccceeEEEEEee-ccchhhhhccccccceeEEEeccCCCCccCC---CcCCHHHHHHHcCCCCEEEeC
Confidence 001112234444444445 8999999999999999999999999999999 999999999999999999997
No 8
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.88 E-value=2e-21 Score=148.90 Aligned_cols=132 Identities=17% Similarity=0.192 Sum_probs=102.5
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+||||+|+++++..++++|..+|...+++|+++|+++.+...... ......+..++. .+.+
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~-------~~~~~~~~~~~~------------~~~~ 61 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSSPS-------QLEVNVQRARKL------------LRQA 61 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCCcc-------hhHHHHHHHHHH------------HHHH
Confidence 699999999999999999999999999999999999764322110 000011111111 1112
Q ss_pred hhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
...+...|++++..+..++++.+.|+++++++++||||||+++++.+.++ ++||++.+|+++++|||++||
T Consensus 62 ~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~---~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 62 ERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDR---LFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred HHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccce---ecCchHHHHHhcCCCCEEEeC
Confidence 22233458888888877668999999999999999999999999998888 999999999999999999986
No 9
>PRK11175 universal stress protein UspE; Provisional
Probab=99.87 E-value=2.3e-21 Score=169.58 Aligned_cols=148 Identities=18% Similarity=0.199 Sum_probs=109.3
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
|+|++|||++|+|+.+..|+++|+.+|+..+++|++|||.+....... +..... .....++.+.+... +.
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~--~~~~~~----~~~~~~~~~~~~~~----~~ 70 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMT--TLLSPD----EREAMRQGVISQRT----AW 70 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhh--cccchh----HHHHHHHHHHHHHH----HH
Confidence 578999999999999999999999999999999999999754321110 000000 01111111111111 11
Q ss_pred hhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 116 ANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
++.+...+...+++++..+..++++.+.|+++++++++||||||+++++++.++ ++||++.+|+++++||||+||..
T Consensus 71 l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~---~~gs~~~~l~~~~~~pvlvv~~~ 147 (305)
T PRK11175 71 IREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESV---IFTPTDWHLLRKCPCPVLMVKDQ 147 (305)
T ss_pred HHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhh---ccChhHHHHHhcCCCCEEEeccc
Confidence 222233333458888888776558999999999999999999999999999999 99999999999999999999975
Q ss_pred C
Q 025835 196 D 196 (247)
Q Consensus 196 ~ 196 (247)
.
T Consensus 148 ~ 148 (305)
T PRK11175 148 D 148 (305)
T ss_pred c
Confidence 3
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.86 E-value=6.5e-21 Score=145.12 Aligned_cols=123 Identities=14% Similarity=0.136 Sum_probs=97.3
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+||||+|+|+.+..+++||+.++...+++|+++||.+.... ...+..++.++...+..
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~--------------~~~~~~~~~l~~~~~~~-------- 58 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLN--------------RLSEAERRRLAEALRLA-------- 58 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCccc--------------cCCHHHHHHHHHHHHHH--------
Confidence 69999999999999999999999999999999999864321 01122233333222211
Q ss_pred hhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC-CccEEEEe
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC-VCPVIVVR 193 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a-~~PVlvV~ 193 (247)
.+.++ ...++.++++.+.|+++++++++|+||||+++++++.++ ++||++++|++++ +|||+|++
T Consensus 59 ----~~~~~--~~~~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~---~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 59 ----EELGA--EVVTLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWREL---FRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred ----HHcCC--EEEEEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHH---hcccHHHHHHHhCCCCeEEEeC
Confidence 11134 345566668999999999999999999999999999999 9999999999999 99999985
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.85 E-value=1.1e-20 Score=165.36 Aligned_cols=163 Identities=15% Similarity=0.124 Sum_probs=112.5
Q ss_pred CCccccCCCCCCCCCCCCCCCCCCCeEEEeecCChH-------HHHHHHHHHHHhCCC-CCEEEEEEEecCCCccCCCcc
Q 025835 15 ATAVIVQPSSPRFPLSSPTTGGAHRKIGIAVDLSDE-------SAFAVKWAVQNYLRP-GDAVILLHVRPTSVLYGADWG 86 (247)
Q Consensus 15 ~~~~~~~~~~p~~~~~~~~~~~~~k~ILVavD~S~~-------s~~al~~A~~la~~~-~a~v~llhV~~~~~~~~~~~~ 86 (247)
...++...++|++.++.. .+..+++||||+|+|+. +..++++|+.++... +++|+|+||++....... .
T Consensus 130 ~~~l~~~~~~pvlvv~~~-~~~~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~--~ 206 (305)
T PRK11175 130 DWHLLRKCPCPVLMVKDQ-DWPEGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIA--I 206 (305)
T ss_pred HHHHHhcCCCCEEEeccc-ccCCCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhcc--c
Confidence 334556677777777643 34568999999999875 368999999999988 999999999864322110 0
Q ss_pred cchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhhCCCce-EEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCc
Q 025835 87 AIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVEAQIPF-KIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGA 165 (247)
Q Consensus 87 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~v~v-~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~ 165 (247)
..+........+..++...+.++.+.. ..+++. ..++..| ++.+.|++++++.++||||||++++++
T Consensus 207 ~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------~~~~~~~~~~v~~G-~~~~~I~~~a~~~~~DLIVmG~~~~~~ 274 (305)
T PRK11175 207 ELPEFDPSVYNDAIRGQHLLAMKALRQ-----------KFGIDEEQTHVEEG-LPEEVIPDLAEHLDAELVILGTVGRTG 274 (305)
T ss_pred cccccchhhHHHHHHHHHHHHHHHHHH-----------HhCCChhheeeccC-CHHHHHHHHHHHhCCCEEEECCCccCC
Confidence 000000011111111112222222211 115554 3455566 799999999999999999999999999
Q ss_pred cccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 166 AKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 166 ~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
+.++ |+||++++|+++++||||+||+.
T Consensus 275 ~~~~---llGS~a~~v~~~~~~pVLvv~~~ 301 (305)
T PRK11175 275 LSAA---FLGNTAEHVIDHLNCDLLAIKPD 301 (305)
T ss_pred Ccce---eecchHHHHHhcCCCCEEEEcCC
Confidence 9999 99999999999999999999854
No 12
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.79 E-value=9.5e-18 Score=131.06 Aligned_cols=149 Identities=26% Similarity=0.258 Sum_probs=106.7
Q ss_pred CCCCeEEEeec-CChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHH
Q 025835 36 GAHRKIGIAVD-LSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTT 114 (247)
Q Consensus 36 ~~~k~ILVavD-~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 114 (247)
.++++|++++| +++.+..++.++..++...+..+.+++|.+.............................+.
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------- 75 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEEL------- 75 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHH-------
Confidence 56899999999 9999999999999999999999999999866443221111100000000001111111111
Q ss_pred hhhhhhhhhhhCCCc-eEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 115 KANDLAQPLVEAQIP-FKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 115 ~~~~~~~~~~~~~v~-v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
...+...+...++. +...+..|....+.|+.++.+.++||||||++|+++++++ ++||++++|+++++|||+++|
T Consensus 76 -~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~---llGsvs~~v~~~~~~pVlvv~ 151 (154)
T COG0589 76 -LAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRL---LLGSVAEKVLRHAPCPVLVVR 151 (154)
T ss_pred -HHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccce---eeehhHHHHHhcCCCCEEEEc
Confidence 11122223344666 4778888853379999999999999999999999999999 999999999999999999998
Q ss_pred cC
Q 025835 194 FS 195 (247)
Q Consensus 194 ~~ 195 (247)
..
T Consensus 152 ~~ 153 (154)
T COG0589 152 SE 153 (154)
T ss_pred cC
Confidence 65
No 13
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.77 E-value=1.4e-17 Score=125.89 Aligned_cols=130 Identities=32% Similarity=0.470 Sum_probs=100.7
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+|||++|+++.+..+++||..+|...+++|+++|+.+....... ..........++.++.+...
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~~-----------~~~~~~~~~~~~~l~~~~~~----- 64 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSAA-----------ELAELLEEEARALLEALREA----- 64 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcch-----------hHHHHHHHHHHHHHHHHHHH-----
Confidence 69999999999999999999999999999999999865322110 01111222222222222211
Q ss_pred hhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
+...+++++..+..| ++.+.|.+++++.++|+||||+++++.+.++ ++|+++.+++++++|||+++
T Consensus 65 ---~~~~~~~~~~~~~~~-~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~---~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 65 ---LAEAGVKVETVVLEG-DPAEAILEAAEELGADLIVMGSRGRSGLRRL---LLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred ---HhcCCCceEEEEecC-CCHHHHHHHHHHcCCCEEEEcCCCCCcccee---eeccHHHHHHhCCCCCEEeC
Confidence 123388888888887 5799999999999999999999999999888 99999999999999999985
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.52 E-value=5.1e-13 Score=118.88 Aligned_cols=136 Identities=15% Similarity=0.083 Sum_probs=88.8
Q ss_pred CCCCCeEEEeecCChHHHHHHHHHHHHhCCC--CCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHH
Q 025835 35 GGAHRKIGIAVDLSDESAFAVKWAVQNYLRP--GDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFT 112 (247)
Q Consensus 35 ~~~~k~ILVavD~S~~s~~al~~A~~la~~~--~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 112 (247)
+++|+|||||+|+|+.|..|+++|+.+|+.. +++|++|||.+...... . ........++.+++..+ ..
T Consensus 2 ~~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~---~------~~~~~~~~eelle~~~~-~~ 71 (357)
T PRK12652 2 MMAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDP---E------GQDELAAAEELLERVEV-WA 71 (357)
T ss_pred CcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCccccc---c------hhHHHHHHHHHHHHHHH-HH
Confidence 5789999999999999999999999999984 69999999987532211 0 01111222222222211 11
Q ss_pred HHhhhhhhhhhhhCCCceEEEEEec-------CChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC
Q 025835 113 TTKANDLAQPLVEAQIPFKIHIVKD-------HDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC 185 (247)
Q Consensus 113 ~~~~~~~~~~~~~~~v~v~~~v~~g-------~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a 185 (247)
.+.+.. ...|++++..++.+ +++++.|+++|+++++||||||..-..+-..- ++.. -+.-+.++
T Consensus 72 ~~~l~~-----~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~---~~~~-~~~~~~~~ 142 (357)
T PRK12652 72 TEDLGD-----DASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAP---MLQP-LERELARA 142 (357)
T ss_pred HHhhhc-----ccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCc---ccch-HHHHHHhc
Confidence 111111 22489999888773 48999999999999999999998754322222 3333 34445556
Q ss_pred CccE
Q 025835 186 VCPV 189 (247)
Q Consensus 186 ~~PV 189 (247)
.|.+
T Consensus 143 ~~~~ 146 (357)
T PRK12652 143 GITY 146 (357)
T ss_pred CCce
Confidence 6655
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.29 E-value=7.6e-11 Score=117.10 Aligned_cols=130 Identities=14% Similarity=0.105 Sum_probs=100.4
Q ss_pred CCCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHH
Q 025835 34 TGGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTT 113 (247)
Q Consensus 34 ~~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 113 (247)
.|....+|||||++++.+..++++|.++|.+.++++++|||..+... ......++.+.+.++ +.+
T Consensus 246 ~~~~~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~--------------~~~~~~~~~l~~~~~-lA~ 310 (895)
T PRK10490 246 VWHTRDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLH--------------RLPEKKRRAILSALR-LAQ 310 (895)
T ss_pred CCCcCCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcC--------------cCCHHHHHHHHHHHH-HHH
Confidence 45677899999999999999999999999999999999999754210 011222233333322 111
Q ss_pred HhhhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEE
Q 025835 114 TKANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVV 192 (247)
Q Consensus 114 ~~~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV 192 (247)
+ .|.+ ++.+.|+|++++|++||++++++.||||.++++++ + +.||+++++++.++ ..|.||
T Consensus 311 ~-----------lGa~--~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~---~~~s~~~~l~r~~~~idi~iv 372 (895)
T PRK10490 311 E-----------LGAE--TATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--W---RRESFADRLARLGPDLDLVIV 372 (895)
T ss_pred H-----------cCCE--EEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--c---cCCCHHHHHHHhCCCCCEEEE
Confidence 1 1554 66778889999999999999999999999988776 6 77899999999997 999999
Q ss_pred ecCC
Q 025835 193 RFSD 196 (247)
Q Consensus 193 ~~~~ 196 (247)
+...
T Consensus 373 ~~~~ 376 (895)
T PRK10490 373 ALDE 376 (895)
T ss_pred eCCc
Confidence 7443
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.13 E-value=1e-09 Score=104.49 Aligned_cols=134 Identities=15% Similarity=0.144 Sum_probs=107.9
Q ss_pred CCCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHH
Q 025835 34 TGGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTT 113 (247)
Q Consensus 34 ~~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 113 (247)
.|....+||||++.+..+...+++|.++|.+.+++++++||..+.... ..+.....+...++-
T Consensus 244 ~~~~~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~--------------~~~~~~~~l~~~~~L--- 306 (890)
T COG2205 244 VWAARERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHR--------------LSEKEARRLHENLRL--- 306 (890)
T ss_pred cccccceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEecccccc--------------ccHHHHHHHHHHHHH---
Confidence 456778999999999999999999999999999999999997553221 112333344433321
Q ss_pred HhhhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEE
Q 025835 114 TKANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVV 192 (247)
Q Consensus 114 ~~~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV 192 (247)
++ ..-.+++.+.|++++++|.+||+.+++..||||.+.++.|+++ |.||..++++++++ ..|.+|
T Consensus 307 ------ae-----~lGae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~---~~~~l~~~L~~~~~~idv~ii 372 (890)
T COG2205 307 ------AE-----ELGAEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRL---FKGSLADRLAREAPGIDVHIV 372 (890)
T ss_pred ------HH-----HhCCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHH---hcccHHHHHHhcCCCceEEEe
Confidence 11 2334677888889999999999999999999999999999999 99999999999987 999999
Q ss_pred ecCCCC
Q 025835 193 RFSDDK 198 (247)
Q Consensus 193 ~~~~~~ 198 (247)
+.+...
T Consensus 373 ~~~~~~ 378 (890)
T COG2205 373 ALDAPP 378 (890)
T ss_pred eCCCCc
Confidence 886665
No 17
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=98.55 E-value=3.8e-07 Score=64.73 Aligned_cols=84 Identities=18% Similarity=0.117 Sum_probs=72.5
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhh
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLA 120 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 120 (247)
|||+++++..|..++.|+.+++ ..+..++++|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence 6899999999999999999987 457788888872
Q ss_pred hhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCC-CHHHHHhhcCCccEEE
Q 025835 121 QPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLG-SVSDYCVHHCVCPVIV 191 (247)
Q Consensus 121 ~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lG-Svs~~vl~~a~~PVlv 191 (247)
.....+.++++++++|+|++|+++.+..... +.| +++.++++.+.|||+.
T Consensus 35 ------------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~---~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 ------------------AFVRILKRLAAEEGADVIILGHNADDVAGRR---LGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred ------------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhc---cCchhhhhhcccccCCceeC
Confidence 2445577888889999999999998888887 777 8999999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.24 E-value=0.0051 Score=61.26 Aligned_cols=149 Identities=11% Similarity=0.108 Sum_probs=85.5
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHh--CCCCCEEEEEEEecCCCccCCCcccchhhh-cch---hhHHHHHHHHHHHH
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNY--LRPGDAVILLHVRPTSVLYGADWGAIEVSL-EMS---ESEESQRKLEDDFD 109 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la--~~~~a~v~llhV~~~~~~~~~~~~~~~~~~-~~~---~~~~~~~~l~~~~~ 109 (247)
...-|||+|+-..++-...+..+-... .+..-.|+++|.++...-.....-...... ... ......+.+-..++
T Consensus 456 ~~elriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~~l~~h~~~~~~~~~~~~~~~~~~~i~~af~ 535 (832)
T PLN03159 456 DAELRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASAMLIVHNTRKSGRPALNRTQAQSDHIINAFE 535 (832)
T ss_pred CCceeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCccceeeeecccccccccccccccccHHHHHHH
Confidence 345689999998888887776654432 234468999999874321110000000000 000 00001123333333
Q ss_pred HHHHHhhhhhhhhhhhCCCceEEEE--EecCChHHHHHHHHHHcCCCEEEEeecCCCcccc-c--cCccCCCHHHHHhhc
Q 025835 110 QFTTTKANDLAQPLVEAQIPFKIHI--VKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKK-S--SKSRLGSVSDYCVHH 184 (247)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~v~v~~~v--~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~-~--~~~~lGSvs~~vl~~ 184 (247)
.+.++. .++.++... ..-.++.+.||..|+++.+++||++-|.+-.... + ....++.+-++|+++
T Consensus 536 ~~~~~~----------~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ 605 (832)
T PLN03159 536 NYEQHA----------GCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLAN 605 (832)
T ss_pred HHHhhc----------CceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHcc
Confidence 332211 146665443 3334799999999999999999999986422111 0 011356788999999
Q ss_pred CCccEEEEec
Q 025835 185 CVCPVIVVRF 194 (247)
Q Consensus 185 a~~PVlvV~~ 194 (247)
++|+|-|+=.
T Consensus 606 ApCsVgIlVD 615 (832)
T PLN03159 606 APCSVGILVD 615 (832)
T ss_pred CCCCEEEEEe
Confidence 9999988743
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=96.79 E-value=0.044 Score=54.70 Aligned_cols=151 Identities=13% Similarity=0.127 Sum_probs=81.6
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccc--hh----hhcchhhHHHHHHHHHHHHH
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAI--EV----SLEMSESEESQRKLEDDFDQ 110 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~--~~----~~~~~~~~~~~~~l~~~~~~ 110 (247)
...+|.+..=+.++.+.||.||.+++...+..++++|............... +. .......+..++.=++.+++
T Consensus 629 ~~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~D~~~~~e 708 (832)
T PLN03159 629 VSHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGEDAAPTASQPASSPSDPRIPTVETDGKKERQLDEEYINE 708 (832)
T ss_pred cceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEcccccccccccccccccccccccccccchhHHHHHHHHHHH
Confidence 3569999998999999999999999999999999999875432111000000 00 00000011111111222222
Q ss_pred HHHHhhhhhhhhhhhCCCceEEEEEecC-ChHHHHHHHHHHcCCCEEEEeecCC--C----ccccccCc-cCCCHHHHHh
Q 025835 111 FTTTKANDLAQPLVEAQIPFKIHIVKDH-DMKERLCLEVERLGLSAVIMGSRGF--G----AAKKSSKS-RLGSVSDYCV 182 (247)
Q Consensus 111 ~~~~~~~~~~~~~~~~~v~v~~~v~~g~-d~~~~I~~~a~~~~~DLIVmGs~g~--~----~~~~~~~~-~lGSvs~~vl 182 (247)
+..+.. .+..+.+.-+++.++ +....|-... .++||+|+|++.. + ++.++..- =+|-+.+.+.
T Consensus 709 f~~~~~-------~~~~v~y~E~~V~~~~e~~~~l~~~~--~~ydL~iVGr~~~~~~~~~~gL~~w~e~pELG~iGD~La 779 (832)
T PLN03159 709 FRARNA-------GNESIVYTEKVVSNGEETVAAIRSMD--SAHDLFIVGRGQGMISPLTAGLTDWSECPELGAIGDLLA 779 (832)
T ss_pred HHHhcC-------CCCceEEEEEecCCHHHHHHHHHHhh--ccCcEEEEecCCCCCcchhccccccccCCccchhhhHHh
Confidence 222211 122455655556443 3334443332 2489999997532 1 22222100 1566666666
Q ss_pred hc---CCccEEEEecCC
Q 025835 183 HH---CVCPVIVVRFSD 196 (247)
Q Consensus 183 ~~---a~~PVlvV~~~~ 196 (247)
.. +...||||....
T Consensus 780 S~d~~~~~SVLVvQQ~~ 796 (832)
T PLN03159 780 SSDFAATVSVLVVQQYV 796 (832)
T ss_pred cCCCCCceeEEEEEeec
Confidence 54 458899998766
No 20
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=96.63 E-value=0.037 Score=44.80 Aligned_cols=99 Identities=16% Similarity=0.147 Sum_probs=63.5
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+|+|++.|...|..++..+..++...+.++.++|+-... . . ......+.+....+
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~-------~--~------~~~~~~~~~~~~~~---------- 55 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGL-------R--P------ESDEEAEFVQQFCK---------- 55 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCC-------C--h------hHHHHHHHHHHHHH----------
Confidence 589999999999999999999877777789999984221 0 0 00111222222211
Q ss_pred hhhhhhCCCceEEEEEecC--------ChH--------HHHHHHHHHcCCCEEEEeecCCCcccc
Q 025835 120 AQPLVEAQIPFKIHIVKDH--------DMK--------ERLCLEVERLGLSAVIMGSRGFGAAKK 168 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~--------d~~--------~~I~~~a~~~~~DLIVmGs~g~~~~~~ 168 (247)
..|+++.+...... ... ..|.+++++++++.|+.|.+.......
T Consensus 56 -----~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D~~e~ 115 (189)
T TIGR02432 56 -----KLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADDQAET 115 (189)
T ss_pred -----HcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHHHHHH
Confidence 11777665544221 122 567889999999999999986544433
No 21
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=96.02 E-value=0.14 Score=41.25 Aligned_cols=100 Identities=22% Similarity=0.175 Sum_probs=59.7
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+|+|++.|...|...+.....+....+.++.++||-..-.. ......+.+.+..+.
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~---------------~s~~~~~~v~~~~~~--------- 56 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLRE---------------ESDEEAEFVEEICEQ--------- 56 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSC---------------CHHHHHHHHHHHHHH---------
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCc---------------ccchhHHHHHHHHHh---------
Confidence 69999999999999999999999988999999999532110 012222333333222
Q ss_pred hhhhhhCCCceEEEEEe-----cCCh--------HHHHHHHHHHcCCCEEEEeecCCCccccc
Q 025835 120 AQPLVEAQIPFKIHIVK-----DHDM--------KERLCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~-----g~d~--------~~~I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
.++++.+.... +... -..|.++|++++++.|++|.+.-...+.+
T Consensus 57 ------~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD~~ET~ 113 (182)
T PF01171_consen 57 ------LGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLDDQAETF 113 (182)
T ss_dssp ------TT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHHHHHHH
T ss_pred ------cCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCCccHHHH
Confidence 17777666554 1111 13567889999999999998855444443
No 22
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=95.50 E-value=0.25 Score=39.60 Aligned_cols=97 Identities=20% Similarity=0.153 Sum_probs=60.7
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+|+|++.|...|.-++.++..+....+.++.++|+-... .. ......+.+.+..+.
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~-------~~--------~~~~~~~~~~~~~~~--------- 56 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGL-------RP--------ESDEEAAFVADLCAK--------- 56 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCC-------Cc--------hHHHHHHHHHHHHHH---------
Confidence 589999999999999999998877667889999984221 00 001122222222111
Q ss_pred hhhhhhCCCceEEEEEe---cCCh----------HHHHHHHHHHcCCCEEEEeecCCCcc
Q 025835 120 AQPLVEAQIPFKIHIVK---DHDM----------KERLCLEVERLGLSAVIMGSRGFGAA 166 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~---g~d~----------~~~I~~~a~~~~~DLIVmGs~g~~~~ 166 (247)
.++++.+.... +... ...+.++|++++++.|+.|.+.....
T Consensus 57 ------~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD~~ 110 (185)
T cd01992 57 ------LGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQA 110 (185)
T ss_pred ------cCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHHHH
Confidence 16666554111 1001 14577889999999999998854433
No 23
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=95.45 E-value=0.23 Score=46.31 Aligned_cols=123 Identities=6% Similarity=-0.021 Sum_probs=75.9
Q ss_pred CCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHH-HHHHHH
Q 025835 35 GGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDD-FDQFTT 113 (247)
Q Consensus 35 ~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~ 113 (247)
....++|+++|-+|-.+..+++++..|.+ .|.+|.++-.- .+.+.+... ++.+.
T Consensus 67 ~l~~k~IllgVtGsIAayka~~lvr~L~k-~G~~V~VvmT~-----------------------sA~~fv~p~~~~~ls- 121 (475)
T PRK13982 67 SLASKRVTLIIGGGIAAYKALDLIRRLKE-RGAHVRCVLTK-----------------------AAQQFVTPLTASALS- 121 (475)
T ss_pred ccCCCEEEEEEccHHHHHHHHHHHHHHHh-CcCEEEEEECc-----------------------CHHHHhhHHHHHHhc-
Confidence 45679999999999999999999888865 57776665431 122222211 11110
Q ss_pred HhhhhhhhhhhhCCCceEEEEEecC--ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEE
Q 025835 114 TKANDLAQPLVEAQIPFKIHIVKDH--DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIV 191 (247)
Q Consensus 114 ~~~~~~~~~~~~~~v~v~~~v~~g~--d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlv 191 (247)
+.++-....... ..... +++++ .+|++|+..-..+.+.+++.|+-......++..+.+||++
T Consensus 122 -------------~~~V~~d~~~~~~~~~~~H-i~la~--~aD~~vVAPATANTIAKiA~GiADnLlt~v~La~~~Pvli 185 (475)
T PRK13982 122 -------------GQRVYTDLFDPESEFDAGH-IRLAR--DCDLIVVAPATADLMAKMANGLADDLASAILLAANRPILL 185 (475)
T ss_pred -------------CCceEecCCCcccccCccc-hhhhh--hcCEEEEeeCCHHHHHHHHccccCcHHHHHHHhcCCCEEE
Confidence 222221111100 00111 23333 3799999998888888886666666667777788999999
Q ss_pred EecCCCC
Q 025835 192 VRFSDDK 198 (247)
Q Consensus 192 V~~~~~~ 198 (247)
+|.-...
T Consensus 186 aPaMN~~ 192 (475)
T PRK13982 186 APAMNPL 192 (475)
T ss_pred EEcCCHH
Confidence 9975554
No 24
>PRK12342 hypothetical protein; Provisional
Probab=95.14 E-value=0.54 Score=40.28 Aligned_cols=84 Identities=15% Similarity=0.157 Sum_probs=55.9
Q ss_pred eecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 025835 44 AVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPL 123 (247)
Q Consensus 44 avD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 123 (247)
..-.++...+|++.|+++- .+|.+|+++++-+... .....+.+.+.
T Consensus 30 ~~~iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a-------------------~~~~l~r~ala-------------- 75 (254)
T PRK12342 30 EAKISQFDLNAIEAASQLA-TDGDEIAALTVGGSLL-------------------QNSKVRKDVLS-------------- 75 (254)
T ss_pred CccCChhhHHHHHHHHHHh-hcCCEEEEEEeCCChH-------------------hHHHHHHHHHH--------------
Confidence 3446889999999999998 6899999999865310 11111122211
Q ss_pred hhCCCceEEEEE----ecCCh---HHHHHHHHHHcCCCEEEEeecCC
Q 025835 124 VEAQIPFKIHIV----KDHDM---KERLCLEVERLGLSAVIMGSRGF 163 (247)
Q Consensus 124 ~~~~v~v~~~v~----~g~d~---~~~I~~~a~~~~~DLIVmGs~g~ 163 (247)
.|..--+++. .|.|+ +..|..+++..++|||+.|...-
T Consensus 76 --mGaD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~ 120 (254)
T PRK12342 76 --RGPHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSG 120 (254)
T ss_pred --cCCCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 1444333332 24455 78899999998999999997654
No 25
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=94.70 E-value=0.6 Score=40.04 Aligned_cols=103 Identities=14% Similarity=0.089 Sum_probs=63.6
Q ss_pred ecCChHHHHHHHHHHHHhCCCC-CEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 025835 45 VDLSDESAFAVKWAVQNYLRPG-DAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPL 123 (247)
Q Consensus 45 vD~S~~s~~al~~A~~la~~~~-a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 123 (247)
.-.+++..+|++.|+++....+ .+|++|++-+... .....+++.+.
T Consensus 32 ~~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a-------------------~~~~~lr~aLA-------------- 78 (256)
T PRK03359 32 AKISQYDLNAIEAACQLKQQAAEAQVTALSVGGKAL-------------------TNAKGRKDVLS-------------- 78 (256)
T ss_pred cccChhhHHHHHHHHHHhhhcCCCEEEEEEECCcch-------------------hhHHHHHHHHH--------------
Confidence 3468899999999999998765 8999999965421 11122222221
Q ss_pred hhCCCceEEEEE----ecCC---hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccE
Q 025835 124 VEAQIPFKIHIV----KDHD---MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPV 189 (247)
Q Consensus 124 ~~~~v~v~~~v~----~g~d---~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PV 189 (247)
.|..--+++. .|.| .+..|..++++.++|||+.|.....+- .|.+.-.+..+..+|.
T Consensus 79 --mGaD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~~-------tgqvg~~lAe~Lg~P~ 142 (256)
T PRK03359 79 --RGPDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDLY-------AQQVGLLVGEILNIPA 142 (256)
T ss_pred --cCCCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccCC-------CCcHHHHHHHHhCCCc
Confidence 1444333332 2223 467788888999999999998754332 2444455555555553
No 26
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=94.55 E-value=0.29 Score=39.79 Aligned_cols=118 Identities=13% Similarity=0.089 Sum_probs=66.9
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHH-HHHHHHHhh
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDD-FDQFTTTKA 116 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~ 116 (247)
+|||++++-+|..+..+.++...|.+ .+.+|.++-. +.+++.+... ++.+.
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~g~~V~vv~T-----------------------~~A~~fi~~~~l~~l~---- 52 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTK-RGYQVTVLMT-----------------------KAATKFITPLTLQVLS---- 52 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHH-CCCEEEEEEC-----------------------hhHHHHcCHHHHHHHh----
Confidence 58999999999999999888887755 5777665442 1222222211 11110
Q ss_pred hhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC--CccEEEEec
Q 025835 117 NDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC--VCPVIVVRF 194 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a--~~PVlvV~~ 194 (247)
+.++........... ......-...+|++|+-.-..+.+.+++.|+-.+....++... .+||+++|.
T Consensus 53 ----------~~~v~~~~~~~~~~~-~~~hi~l~~~aD~~vIaPaTantlakiA~GiaDnllt~~~~a~~~~~pvvi~Pa 121 (182)
T PRK07313 53 ----------KNPVHLDVMDEHDPK-LMNHIELAKRADLFLVAPATANTIAKLAHGIADDLVTSVALALPATTPKLIAPA 121 (182)
T ss_pred ----------CCceEeccccccccC-CccccccccccCEEEEeeCCHhHHHHHHccccCcHHHHHHHHcCCCCCEEEEEC
Confidence 222211111110000 0111111245799999988888888886555445444444455 899999996
No 27
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=94.48 E-value=0.32 Score=39.60 Aligned_cols=120 Identities=8% Similarity=0.088 Sum_probs=67.0
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhh
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAN 117 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 117 (247)
++||++++-+|..+..+++.+..|.+..|.+|.++-. +.+.+.+.... .+......
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~T-----------------------~~A~~fv~~~~-~~~~~~~~ 56 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVGEIETHLVIS-----------------------QAARQTLAHET-DFSLRDVQ 56 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEEC-----------------------HHHHHHHHHHH-CCChhhHH
Confidence 5799999999999999999998887656777655543 22222222110 00000000
Q ss_pred hhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHH---HhhcCCccEEEEec
Q 025835 118 DLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDY---CVHHCVCPVIVVRF 194 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~---vl~~a~~PVlvV~~ 194 (247)
.+. + .+. ...+....|.. . ...+|++|+..-..+.+.+++.|+-...... +.....+|++++|.
T Consensus 57 ~l~------~-~v~----~~~~~~~~i~~-~-s~~aD~~vIaPaTaNtlAKiA~GiaDnLlt~~a~~~L~~~~pvii~P~ 123 (185)
T PRK06029 57 ALA------D-VVH----DVRDIGASIAS-G-SFGTDGMVIAPCSMKTLAKIAHGYSDNLITRAADVMLKERRRLVLCVR 123 (185)
T ss_pred Hhc------C-ccc----ChhhcccChhh-c-CchhCEEEEeeCCHhHHHHHHccccCcHHHHHHHHHHhcCCCEEEEec
Confidence 000 0 000 00010001111 0 1247999999888888888855554444443 44567899999994
No 28
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=93.74 E-value=1.5 Score=34.93 Aligned_cols=36 Identities=19% Similarity=0.086 Sum_probs=30.4
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCC--CCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRP--GDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~--~a~v~llhV~ 75 (247)
+|+|++.+...|..++..+..+.... +.++.++|+-
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d 38 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVD 38 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEE
Confidence 58999999999999999988876654 6688888885
No 29
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=93.48 E-value=0.8 Score=41.88 Aligned_cols=120 Identities=12% Similarity=0.052 Sum_probs=73.2
Q ss_pred CCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHH-HHHHHH
Q 025835 35 GGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDD-FDQFTT 113 (247)
Q Consensus 35 ~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~ 113 (247)
+...++|++++-+|..+..++++...|-+ .|.+|.++-. +.+.+.+... ++.+.
T Consensus 3 ~l~~k~IllgvTGsiaa~k~~~lv~~L~~-~g~~V~vv~T-----------------------~~A~~fi~~~~l~~l~- 57 (399)
T PRK05579 3 MLAGKRIVLGVSGGIAAYKALELVRRLRK-AGADVRVVMT-----------------------EAAKKFVTPLTFQALS- 57 (399)
T ss_pred CCCCCeEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEEC-----------------------HhHHHHHhHHHHHHhh-
Confidence 34568999999999999999998877754 5777665442 2222222211 11110
Q ss_pred HhhhhhhhhhhhCCCceEEEEEec--CChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEE
Q 025835 114 TKANDLAQPLVEAQIPFKIHIVKD--HDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIV 191 (247)
Q Consensus 114 ~~~~~~~~~~~~~~v~v~~~v~~g--~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlv 191 (247)
+.++-...... ...... +..++ .+|++|+..-..+.+.+++.|+-.+....++..+.+||++
T Consensus 58 -------------~~~V~~~~~~~~~~~~~~h-i~l~~--~aD~~vVaPaTaNtlaKiA~GiaDnllt~~~la~~~pvvi 121 (399)
T PRK05579 58 -------------GNPVSTDLWDPAAEAAMGH-IELAK--WADLVLIAPATADLIAKLAHGIADDLLTTTLLATTAPVLV 121 (399)
T ss_pred -------------CCceEccccccccCCCcch-hhccc--ccCEEEEeeCCHHHHHHHHcccCCcHHHHHHHhcCCCEEE
Confidence 11211111000 011111 12222 4899999998888888886666667777788888999999
Q ss_pred EecC
Q 025835 192 VRFS 195 (247)
Q Consensus 192 V~~~ 195 (247)
+|.-
T Consensus 122 ~Pam 125 (399)
T PRK05579 122 APAM 125 (399)
T ss_pred EeCC
Confidence 9943
No 30
>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal. In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.
Probab=93.46 E-value=0.66 Score=37.48 Aligned_cols=117 Identities=13% Similarity=0.087 Sum_probs=63.5
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHH-HHHHHHHhhh
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDD-FDQFTTTKAN 117 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~ 117 (247)
|||+|++-+|..+..++++...|-+ .+.+|.++-. +.+++.+... ++.+.
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~~-~g~~V~vi~T-----------------------~~A~~fi~~~~l~~l~----- 51 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLTK-LGYDVTVLMT-----------------------QAATQFITPLTLQVLS----- 51 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHHH-CCCEEEEEEC-----------------------hHHHhhccHhhHHHHh-----
Confidence 6899999999999999977666644 5777655432 1222222110 11110
Q ss_pred hhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC--CccEEEEec
Q 025835 118 DLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC--VCPVIVVRF 194 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a--~~PVlvV~~ 194 (247)
+.++-..+....+.. .+....-...+|++|+..-..+.+.+++.|+-.+....++... .+||+++|.
T Consensus 52 ---------~~~v~~~~~~~~~~~-~~~hi~l~~~aD~~vVaPaSanTlakiA~GiaDnLlt~~a~a~~~~~pv~i~Pa 120 (177)
T TIGR02113 52 ---------KNPVHLDVMDEHDPK-VINHIELAKKADLFLVAPASANTIAHLAHGFADNIVTSVALALPPETPKLIAPA 120 (177)
T ss_pred ---------CCCeEeeccccccCC-CcccceechhhCEEEEEeCCHHHHHHHHcCcCCcHHHHHHHHcCCCCCEEEEeC
Confidence 222211111111100 0111111235799999988888888875554444444444444 799999994
No 31
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=92.78 E-value=1.7 Score=37.36 Aligned_cols=104 Identities=17% Similarity=0.221 Sum_probs=69.8
Q ss_pred ecCChHHHHHHHHHHHHhC-CCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 025835 45 VDLSDESAFAVKWAVQNYL-RPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPL 123 (247)
Q Consensus 45 vD~S~~s~~al~~A~~la~-~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 123 (247)
...++....|++.|++|.. ..+.+|+++++-++ .+...+...+.
T Consensus 33 ~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~---------------------~a~~~lr~aLA-------------- 77 (260)
T COG2086 33 LSINPFDLNAVEEALRLKEKGYGGEVTVLTMGPP---------------------QAEEALREALA-------------- 77 (260)
T ss_pred cccChhhHHHHHHHHHhhccCCCceEEEEEecch---------------------hhHHHHHHHHh--------------
Confidence 3457889999999999999 69999999998653 22333333211
Q ss_pred hhCCCceEEEEE----ecC---ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE
Q 025835 124 VEAQIPFKIHIV----KDH---DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 124 ~~~~v~v~~~v~----~g~---d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
.|..--+++. .+. ..+..|...++..+.|||++|...-.+ -.|.+...+......|++-.
T Consensus 78 --mGaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D~-------~t~qvg~~lAe~Lg~P~~t~ 144 (260)
T COG2086 78 --MGADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAIDG-------DTGQVGPLLAELLGWPQVTY 144 (260)
T ss_pred --cCCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccccC-------CccchHHHHHHHhCCceeee
Confidence 1555333333 122 356778899999999999999875422 23566667777777776644
No 32
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=91.91 E-value=1.9 Score=39.30 Aligned_cols=119 Identities=9% Similarity=0.040 Sum_probs=70.8
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHH-HHHHHHHh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDD-FDQFTTTK 115 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~ 115 (247)
..++|++++-+|..+..++++...|.+ .+.+|.++-. +.+.+.+... ++.+.
T Consensus 2 ~~k~IllgiTGSiaa~~~~~ll~~L~~-~g~~V~vv~T-----------------------~~A~~fv~~~~l~~~~--- 54 (390)
T TIGR00521 2 ENKKILLGVTGGIAAYKTVELVRELVR-QGAEVKVIMT-----------------------EAAKKFITPLTLEALS--- 54 (390)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEEC-----------------------HhHHHHHHHHHHHHhh---
Confidence 358999999999999999999877754 5777665442 2222222221 11110
Q ss_pred hhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 116 ANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
+.++.......... ..+ ...-...+|++|+..-..+.+.+++.|+-.+....++..+.+||+++|.-
T Consensus 55 -----------~~~v~~~~~~~~~~-~~~-hi~l~~~aD~~vVaPaTanTlaKiA~GiaDnLlt~~~~~~~~plviaPam 121 (390)
T TIGR00521 55 -----------GHKVVTELWGPIEH-NAL-HIDLAKWADLILIAPATANTISKIAHGIADDLVSTTALAASAPIILAPAM 121 (390)
T ss_pred -----------CCceeehhcccccc-ccc-hhhcccccCEEEEecCCHHHHHHHHcccCCcHHHHHHHHhCCCEEEEeCC
Confidence 11111111110000 001 12222357999999888888888866666666667777777999999983
No 33
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=91.69 E-value=1.9 Score=33.98 Aligned_cols=88 Identities=18% Similarity=0.145 Sum_probs=54.9
Q ss_pred eEEEeecC-----ChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHH
Q 025835 40 KIGIAVDL-----SDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTT 114 (247)
Q Consensus 40 ~ILVavD~-----S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 114 (247)
+|||-++- ++.+..++..|.+++...|.+|+++.+-+.. ...+.+.+.+.
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g~~v~av~~G~~~--------------------~~~~~l~~~l~----- 55 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEALGGEVTAVVLGPAE--------------------EAAEALRKALA----- 55 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTTSEEEEEEEETCC--------------------CHHHHHHHHHH-----
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhcCCeEEEEEEecch--------------------hhHHHHhhhhh-----
Confidence 35555553 5889999999999999999999999875311 11122222211
Q ss_pred hhhhhhhhhhhCCCceEEEEEecC-------ChHHHHHHHHHHcCCCEEEEeecC
Q 025835 115 KANDLAQPLVEAQIPFKIHIVKDH-------DMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 115 ~~~~~~~~~~~~~v~v~~~v~~g~-------d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
..|+.--+++-... .....|.+.+++.++|+|++|...
T Consensus 56 ----------~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 56 ----------KYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp ----------STTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred ----------hcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 12555333332221 255689999999999999999753
No 34
>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN []. This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance []. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC [].; GO: 0003824 catalytic activity; PDB: 3QJG_L 1G63_G 1G5Q_L 1P3Y_1 1QZU_A 1E20_A 1MVN_A 1MVL_A 3ZQU_A 2EJB_A ....
Probab=91.56 E-value=0.21 Score=38.03 Aligned_cols=114 Identities=12% Similarity=-0.008 Sum_probs=70.1
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhh
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAND 118 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 118 (247)
|||++++-+|.....+.++...+.+. |.+|.++-- +.+.+.+.... ..
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g~~v~vv~S-----------------------~~A~~~~~~~~-----~~--- 48 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-GWEVRVVLS-----------------------PSAERFVTPEG-----LT--- 48 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-TSEEEEEES-----------------------HHHHHHSHHHG-----HC---
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-CCEEEEEEC-----------------------CcHHHHhhhhc-----cc---
Confidence 68999999999999988888877775 777655432 33333333322 00
Q ss_pred hhhhhhhCCCceEEE--EEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC---CccEEEEe
Q 025835 119 LAQPLVEAQIPFKIH--IVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC---VCPVIVVR 193 (247)
Q Consensus 119 ~~~~~~~~~v~v~~~--v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a---~~PVlvV~ 193 (247)
+-++... .....+.... +...+ .+|++|+..-..+.+.+++-|+-.+....++..+ ..||+++|
T Consensus 49 --------~~~v~~~~~~~~~~~~~~~-~~~~~--~~D~~vVaPaT~NtlaKiA~GiaD~l~~~~~~~~l~~~~pvvi~P 117 (129)
T PF02441_consen 49 --------GEPVYTDWDTWDRGDPAEH-IELSR--WADAMVVAPATANTLAKIANGIADNLLTRVALAALKEGKPVVIAP 117 (129)
T ss_dssp --------CSCEECTHCTCSTTTTTCH-HHHHH--TESEEEEEEEEHHHHHHHHTT--SSHHHHHHHHHHHTTCGEEEEE
T ss_pred --------cchhhhccccCCCCCCcCc-ccccc--cCCEEEEcccCHHHHHHHHhCCcchHHHHHHHHHccCCCCeEEEE
Confidence 1111110 0111123332 23333 3899999998888888886666667888888888 99999998
Q ss_pred cC
Q 025835 194 FS 195 (247)
Q Consensus 194 ~~ 195 (247)
.-
T Consensus 118 ~m 119 (129)
T PF02441_consen 118 AM 119 (129)
T ss_dssp EE
T ss_pred eC
Confidence 63
No 35
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=91.55 E-value=1.4 Score=34.62 Aligned_cols=60 Identities=22% Similarity=0.380 Sum_probs=46.4
Q ss_pred CCceEEEEEecCChHHHHHHHH---HHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEV---ERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a---~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
|++++.+++..+..-+.+.+|+ ++.++..||-|..|...+..+ +...++.||+=||-...
T Consensus 29 gi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPGm-----------vAa~T~lPViGVPv~s~ 91 (162)
T COG0041 29 GVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPGM-----------VAAKTPLPVIGVPVQSK 91 (162)
T ss_pred CCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcchh-----------hhhcCCCCeEeccCccc
Confidence 9999999999998877777776 556788899998775555443 34567899999997744
No 36
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=91.46 E-value=2 Score=37.12 Aligned_cols=37 Identities=24% Similarity=0.083 Sum_probs=32.5
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEec
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRP 76 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~ 76 (247)
..+|+||+.|...|..++.....+... ..+.++||-.
T Consensus 21 ~~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~ 57 (298)
T COG0037 21 EYKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDH 57 (298)
T ss_pred CCeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecC
Confidence 479999999999999999998887776 8899999954
No 37
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=90.54 E-value=6.1 Score=33.72 Aligned_cols=39 Identities=5% Similarity=0.057 Sum_probs=30.7
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCC--CCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRP--GDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~--~a~v~llhV~ 75 (247)
...+|+|++.|...|...+.++..+.... +.+|..+|+-
T Consensus 28 ~~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd 68 (258)
T PRK10696 28 EGDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLD 68 (258)
T ss_pred CCCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEec
Confidence 35799999999999999998887776543 3578888873
No 38
>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=89.77 E-value=2.8 Score=34.40 Aligned_cols=93 Identities=16% Similarity=0.197 Sum_probs=57.9
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhh
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLA 120 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 120 (247)
++|+..|+-....+.+.|..+... +.+|.++.. +.. +-.+.+++....+.+
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~-D~~------------------R~ga~eQL~~~a~~l--------- 55 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISA-DTY------------------RIGAVEQLKTYAEIL--------- 55 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE-STS------------------STHHHHHHHHHHHHH---------
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecC-CCC------------------CccHHHHHHHHHHHh---------
Confidence 567777888899999999999887 899999886 211 123444555444332
Q ss_pred hhhhhCCCceEEEEEecCChHHH---HHHHHHHcCCCEEEEeecCCCccccc
Q 025835 121 QPLVEAQIPFKIHIVKDHDMKER---LCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 121 ~~~~~~~v~v~~~v~~g~d~~~~---I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
++++...- ...++.+. .++..+..++|+|++-+-|++.....
T Consensus 56 ------~vp~~~~~-~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~ 100 (196)
T PF00448_consen 56 ------GVPFYVAR-TESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEE 100 (196)
T ss_dssp ------TEEEEESS-TTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHH
T ss_pred ------ccccchhh-cchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHH
Confidence 55543321 12245444 34555667899999999998876544
No 39
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit. Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.
Probab=89.56 E-value=6.2 Score=32.20 Aligned_cols=47 Identities=13% Similarity=0.108 Sum_probs=30.9
Q ss_pred cCCCEEEEeecCCCccccccCccCCCHHHHHhhc---CCccEEEEecCCC
Q 025835 151 LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH---CVCPVIVVRFSDD 197 (247)
Q Consensus 151 ~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~---a~~PVlvV~~~~~ 197 (247)
..+|++|+..-..+.+.+++.|+-.+.....+.. ..+||+++|.-..
T Consensus 78 ~~~D~mVIaPcTanTLAKiA~GiaDnlv~~aa~a~Lke~rPlvlaPamN~ 127 (187)
T TIGR02852 78 VPLDCMVIAPLTGNSMSKLANAMTDSPVLMAAKATLRNNKPVVLAISTND 127 (187)
T ss_pred hhhCEEEEEeCCHhHHHHHHccccCcHHHHHHHHHhcCCCCEEEEECcCH
Confidence 5578888888777888887544444433333332 3799999987554
No 40
>PLN02496 probable phosphopantothenoylcysteine decarboxylase
Probab=88.84 E-value=3.7 Score=34.13 Aligned_cols=122 Identities=10% Similarity=-0.088 Sum_probs=65.7
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
...++||+++-+|-.+..+.+....|- . +++|.++-.- .+.+.+... .+ ...
T Consensus 17 ~~~k~IllgVtGSIAAyk~~~lvr~L~-~-g~~V~VvmT~-----------------------~A~~FI~p~--~l-~~~ 68 (209)
T PLN02496 17 PRKPRILLAASGSVAAIKFGNLCHCFS-E-WAEVRAVVTK-----------------------ASLHFIDRA--SL-PKD 68 (209)
T ss_pred CCCCEEEEEEeCHHHHHHHHHHHHHhc-C-CCeEEEEECh-----------------------hHhhhcCHH--Hc-CCC
Confidence 457899999999999999988776664 3 6776655431 222222110 00 000
Q ss_pred hhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhc--CCccEEEEe
Q 025835 116 ANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH--CVCPVIVVR 193 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~--a~~PVlvV~ 193 (247)
. .+ +. +.++-......++... =+++++ .+|++|+..-..+.+.+++.|+-.+....++.. ..+||+++|
T Consensus 69 ~-~v---~t--d~~~~~~~~~~~~~~~-HI~La~--wAD~~vVaPaTaNtlaKiA~GiaDnlltt~l~a~~~~~Pv~iaP 139 (209)
T PLN02496 69 V-TL---YT--DEDEWSSWNKIGDSVL-HIELRR--WADVMVIAPLSANTLGKIAGGLCDNLLTCIVRAWDYSKPLFVAP 139 (209)
T ss_pred C-cE---Ee--CcccccccccCCCCcc-hhHhhh--hhCEEEEEeCCHHHHHHHHcccCCcHHHHHHHHcCCCCCEEEEe
Confidence 0 00 00 0000000001111211 233333 379999999888888888555444544444455 379999999
Q ss_pred c
Q 025835 194 F 194 (247)
Q Consensus 194 ~ 194 (247)
.
T Consensus 140 a 140 (209)
T PLN02496 140 A 140 (209)
T ss_pred C
Confidence 6
No 41
>PLN00200 argininosuccinate synthase; Provisional
Probab=88.66 E-value=5.7 Score=36.41 Aligned_cols=111 Identities=17% Similarity=0.212 Sum_probs=62.1
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHH------HH
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDD------FD 109 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~------~~ 109 (247)
+|+++|+|++.+.-.|..++.|+... .+.+|+.+|+..... ....+.+++..... ..
T Consensus 3 ~~~~kVvva~SGGlDSsvla~~L~e~---~G~eViav~id~Gq~--------------~~el~~a~~~A~~lGi~~~~v~ 65 (404)
T PLN00200 3 GKLNKVVLAYSGGLDTSVILKWLREN---YGCEVVCFTADVGQG--------------IEELEGLEAKAKASGAKQLVVK 65 (404)
T ss_pred CCCCeEEEEEeCCHHHHHHHHHHHHh---hCCeEEEEEEECCCC--------------hHHHHHHHHHHHHcCCCEEEEE
Confidence 34689999999999999999998762 367899999842210 00011111111100 00
Q ss_pred HHHHHhhhhhhhhhhhCCCceEEEEEecC-----ChHHHHHHHHHHcCCCEEEEeecCC
Q 025835 110 QFTTTKANDLAQPLVEAQIPFKIHIVKDH-----DMKERLCLEVERLGLSAVIMGSRGF 163 (247)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~v~v~~~v~~g~-----d~~~~I~~~a~~~~~DLIVmGs~g~ 163 (247)
.+..++.+++..++...+..++-...-+. -+...|++.|++.+++.|+=|+.++
T Consensus 66 dl~~ef~~~~i~p~i~~Na~ye~~Y~~~tsl~Rp~i~~~lv~~A~~~G~~~VahG~tgk 124 (404)
T PLN00200 66 DLREEFVRDYIFPCLRANAIYEGKYLLGTSMARPLIAKAMVDIAKEVGADAVAHGATGK 124 (404)
T ss_pred eCHHHHHHhhcCHHHHcCCcccceeccccchhhHHHHHHHHHHHHHcCCCEEEeCCcCC
Confidence 11122222233333333333321111111 2577899999999999999898874
No 42
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=88.30 E-value=6.8 Score=32.22 Aligned_cols=46 Identities=11% Similarity=0.025 Sum_probs=32.0
Q ss_pred cCCCEEEEeecCCCccccccCccCCCHHHHHhhc---CCccEEEEecCC
Q 025835 151 LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH---CVCPVIVVRFSD 196 (247)
Q Consensus 151 ~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~---a~~PVlvV~~~~ 196 (247)
..+|++|+..-..+.+.+++.|+-.+....+... ..+||+++|.-.
T Consensus 83 ~~aD~mvIAPaSanTLAKiA~GiaDnll~~aa~a~lke~~PvvlaPAMN 131 (196)
T PRK08305 83 KLLDCMVIAPCTGNTMAKLANAITDSPVLMAAKATLRNQRPVVLAISTN 131 (196)
T ss_pred cccCEEEEEeCCHhHHHHHHccccCcHHHHHHHHHhcCCCCEEEEECCC
Confidence 4589999988888888888555544444444433 379999999643
No 43
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases. In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.
Probab=88.06 E-value=5.9 Score=32.08 Aligned_cols=44 Identities=2% Similarity=-0.011 Sum_probs=32.1
Q ss_pred cCCCEEEEeecCCCccccccCccCCCHHHH---HhhcCCccEEEEec
Q 025835 151 LGLSAVIMGSRGFGAAKKSSKSRLGSVSDY---CVHHCVCPVIVVRF 194 (247)
Q Consensus 151 ~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~---vl~~a~~PVlvV~~ 194 (247)
..+|++|+..-..+.+.+++.|+-.+.... ++-...+||+++|.
T Consensus 74 ~~aD~~vIaPATantiAkiA~GiaD~Llt~~a~~~L~~~~pv~i~P~ 120 (181)
T TIGR00421 74 FPFDGMVVVPCSMKTLSAIANGYADNLITRAADVCLKERRKLVLVPR 120 (181)
T ss_pred chhCEEEEecCCHhHHHHHHcccCCCHHHHHHHHHHhcCCCEEEEeC
Confidence 347999999888888888855554454444 34557899999995
No 44
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=87.82 E-value=2.3 Score=33.45 Aligned_cols=60 Identities=25% Similarity=0.303 Sum_probs=40.6
Q ss_pred CCceEEEEEecCChHHHHHHHHHHc---CCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERL---GLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~---~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
|++++.++...+...+.+.++++++ +++.+|.+......+ ..-|.-++.+||+-||....
T Consensus 27 gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~L-----------pgvva~~t~~PVIgvP~~~~ 89 (150)
T PF00731_consen 27 GIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAAL-----------PGVVASLTTLPVIGVPVSSG 89 (150)
T ss_dssp T-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--H-----------HHHHHHHSSS-EEEEEE-ST
T ss_pred CCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccc-----------hhhheeccCCCEEEeecCcc
Confidence 8999999999988888888888775 568888777543333 33455667999999997755
No 45
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=87.76 E-value=10 Score=33.28 Aligned_cols=38 Identities=16% Similarity=0.184 Sum_probs=31.4
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+.+|+|++.+...|.-.+..+.+.....+.++.+||+-
T Consensus 27 f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iD 64 (301)
T PRK05253 27 FENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVD 64 (301)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEe
Confidence 57899999999999999999887665445678899984
No 46
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=87.08 E-value=2.5 Score=33.42 Aligned_cols=60 Identities=22% Similarity=0.339 Sum_probs=45.2
Q ss_pred CCceEEEEEecCChHHHHHHHHHH---cCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVER---LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~---~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
|+++++.+...+...+.+.+|+++ .+++.+|.+......+.. -+.-++..||+-||....
T Consensus 25 gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg-----------vva~~t~~PVIgvP~~~~ 87 (156)
T TIGR01162 25 GIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG-----------MVAALTPLPVIGVPVPSK 87 (156)
T ss_pred CCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH-----------HHHhccCCCEEEecCCcc
Confidence 999999999988877777777754 578888888765444433 355667999999998653
No 47
>PRK05920 aromatic acid decarboxylase; Validated
Probab=86.94 E-value=6.5 Score=32.54 Aligned_cols=36 Identities=14% Similarity=0.115 Sum_probs=28.9
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEE
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLH 73 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llh 73 (247)
+.+||++++-+|..+..+++....|.+. |.+|.++-
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~~-g~~V~vi~ 37 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLAA-DYEVHLVI 37 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHHC-CCEEEEEE
Confidence 5699999999999999888887777664 77766554
No 48
>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=86.06 E-value=12 Score=29.85 Aligned_cols=34 Identities=29% Similarity=0.189 Sum_probs=25.3
Q ss_pred eEEEeec---------CChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 40 KIGIAVD---------LSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 40 ~ILVavD---------~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
+|+|.++ ..+.+..++..|.+++. .+..|+++.+
T Consensus 1 ~ilV~~e~~~~~~~~~l~~~~~e~l~~A~~l~~-~~~~v~~v~~ 43 (181)
T cd01985 1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKE-YGGEVTALVI 43 (181)
T ss_pred CEEEEEEEEcCCCccccCHhhHHHHHHHHHHhh-cCCeEEEEEE
Confidence 4666666 67788899999999876 5567776665
No 49
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=85.82 E-value=12 Score=31.77 Aligned_cols=35 Identities=20% Similarity=0.220 Sum_probs=29.2
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.+++++|++.|.-.|..++.++... +.++..+|+.
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~ 45 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVV 45 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEec
Confidence 4688999999999999999888764 6678888884
No 50
>PRK13820 argininosuccinate synthase; Provisional
Probab=84.00 E-value=24 Score=32.25 Aligned_cols=36 Identities=19% Similarity=0.181 Sum_probs=29.6
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCC-EEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGD-AVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a-~v~llhV~ 75 (247)
++++|+|++.+...|..++.|+... .+. +|+.+|+.
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e~---~g~~~Viav~vd 37 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKEK---YGYDEVITVTVD 37 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHHh---cCCCEEEEEEEE
Confidence 3589999999999999999997542 454 89999985
No 51
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=83.72 E-value=8.9 Score=30.09 Aligned_cols=119 Identities=18% Similarity=0.186 Sum_probs=62.0
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||..|+. .+.+|..|+++++...... .....-...+.+.+..+ ...|.+
T Consensus 8 DLRl~DN~aL~~A~~----~~~~v~~vfv~d~~~~~~~-----------~~~~~r~~Fl~~sL~~L--------~~~L~~ 64 (165)
T PF00875_consen 8 DLRLHDNPALHAAAQ----NGDPVLPVFVFDPEEFHPY-----------RIGPRRRRFLLESLADL--------QESLRK 64 (165)
T ss_dssp --SSTT-HHHHHHHH----TTSEEEEEEEE-HHGGTTC-----------SSCHHHHHHHHHHHHHH--------HHHHHH
T ss_pred CCchhhhHHHHHHHH----cCCCeEEEEEecccccccc-----------cCcchHHHHHHHHHHHH--------HHHHHh
Confidence 444445566666643 5778999999865411100 00122223333333332 223333
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
.|++ ..+..| ++.+.|.+++++++++.|+.-.. .+...+- . ---....+....+.+..+...
T Consensus 65 ~g~~--L~v~~g-~~~~~l~~l~~~~~~~~V~~~~~-~~~~~~~---r-d~~v~~~l~~~~i~~~~~~~~ 126 (165)
T PF00875_consen 65 LGIP--LLVLRG-DPEEVLPELAKEYGATAVYFNEE-YTPYERR---R-DERVRKALKKHGIKVHTFDDH 126 (165)
T ss_dssp TTS---EEEEES-SHHHHHHHHHHHHTESEEEEE----SHHHHH---H-HHHHHHHHHHTTSEEEEE--S
T ss_pred cCcc--eEEEec-chHHHHHHHHHhcCcCeeEeccc-cCHHHHH---H-HHHHHHHHHhcceEEEEECCc
Confidence 3554 667778 69999999999999999998865 3443332 1 223334444556788776543
No 52
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=83.51 E-value=9.1 Score=35.50 Aligned_cols=91 Identities=19% Similarity=0.131 Sum_probs=60.0
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||..|+..+...+..|+.|+++++..... ..... .|..+.+.++.+.|.+
T Consensus 32 DLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~--------------~~~r~--------~Fl~esL~~L~~~L~~ 89 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAA--------------TRRHY--------FFMLGGLDEVANECER 89 (454)
T ss_pred chhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccc--------------cHHHH--------HHHHHHHHHHHHHHHH
Confidence 7777888899999887766667899999886532210 01112 2222233333344444
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.|+.+ .+..| ++.+.|.+++++++++.|+.-..
T Consensus 90 ~g~~L--~v~~g-~~~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 90 LIIPF--HLLDG-PPKELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred cCCce--EEeec-ChHHHHHHHHHHcCCCEEEEecc
Confidence 46665 44466 79999999999999999998764
No 53
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=82.33 E-value=21 Score=31.84 Aligned_cols=96 Identities=16% Similarity=0.085 Sum_probs=65.6
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhh
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAN 117 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 117 (247)
+=-.+|+|.++-.....-+.|.++-. .|-.|.|.-. +..+..+.++++.+.++.
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l~~-~g~~VllaA~-------------------DTFRAaAiEQL~~w~er~------ 193 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYLKQ-QGKSVLLAAG-------------------DTFRAAAIEQLEVWGERL------ 193 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHHHH-CCCeEEEEec-------------------chHHHHHHHHHHHHHHHh------
Confidence 34467788998888888887777654 6777766543 122345555555554432
Q ss_pred hhhhhhhhCCCceEEEEEecCChHHHH---HHHHHHcCCCEEEEeecCCCccccc
Q 025835 118 DLAQPLVEAQIPFKIHIVKDHDMKERL---CLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g~d~~~~I---~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
|+++-..- .|.|++..+ +++|+..++|+|++-+-||-..+..
T Consensus 194 ---------gv~vI~~~-~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~n 238 (340)
T COG0552 194 ---------GVPVISGK-EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKN 238 (340)
T ss_pred ---------CCeEEccC-CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchh
Confidence 77766654 788888765 6778889999999999998665554
No 54
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=81.95 E-value=6.1 Score=36.11 Aligned_cols=119 Identities=10% Similarity=0.066 Sum_probs=69.0
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhh
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAN 117 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 117 (247)
.|+|||+|.+|-.+..++..+..|- +.|++|.++-.-....+.. ....+.+..
T Consensus 4 ~k~ill~v~gsiaayk~~~l~r~L~-~~ga~v~vvmt~~a~~fv~---------------p~~~~~~s~----------- 56 (392)
T COG0452 4 GKRILLGVTGSIAAYKSVELVRLLR-RSGAEVRVVMTESARKFIT---------------PLTFQALSG----------- 56 (392)
T ss_pred CceEEEEecCchhhhhHHHHHHHHh-hCCCeeEEEcchhhhhhcC---------------cccHHHhhC-----------
Confidence 4699999999999999988766554 4788888876532211110 000001100
Q ss_pred hhhhhhhhCCCceEEEEEecCChHHHH--HHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 118 DLAQPLVEAQIPFKIHIVKDHDMKERL--CLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g~d~~~~I--~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
+.-+. ..+......+ +++++ .+|++++.......+.+++-++--..+...+..+.||+++.|.-
T Consensus 57 ---------~~v~t---~~~~~~~~~~~HI~l~~--~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~~p~~~aPam 122 (392)
T COG0452 57 ---------NPVYT---LLDEELTGSVEHIELAR--WADLLLVAPATANTIAKLAVGIADNLSTTTLLAAKAPLVLAPAM 122 (392)
T ss_pred ---------CCccc---cccccccccccHhhhhh--ccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhcCcEEEecCc
Confidence 11111 1110111111 22332 68999999888888887644454556666677777899999864
Q ss_pred CC
Q 025835 196 DD 197 (247)
Q Consensus 196 ~~ 197 (247)
..
T Consensus 123 n~ 124 (392)
T COG0452 123 NV 124 (392)
T ss_pred CH
Confidence 43
No 55
>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA. The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.
Probab=81.02 E-value=16 Score=29.49 Aligned_cols=46 Identities=9% Similarity=0.096 Sum_probs=32.7
Q ss_pred CCEEEEeecCCCccccccCccCCCHHHHHhh---cCCccEEEEecCCCC
Q 025835 153 LSAVIMGSRGFGAAKKSSKSRLGSVSDYCVH---HCVCPVIVVRFSDDK 198 (247)
Q Consensus 153 ~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~---~a~~PVlvV~~~~~~ 198 (247)
+|++|+..-..+.+.+++.|+-.+....++- ...+||+++|.-...
T Consensus 79 ~D~~vVaPaTaNtlakiA~GiaD~l~t~~~~~~lk~~~pvvi~P~mn~~ 127 (174)
T TIGR02699 79 YDFLLIAPATANTVAKIAYGIADTLVTNAVIQAAKAKVPVYIMPSDYKE 127 (174)
T ss_pred cCEEEEEeCCHHHHHHHHccccCcHHHHHHHHHhccCCCEEEEECcCCC
Confidence 6899998888888888755554454444443 468999999975544
No 56
>TIGR02039 CysD sulfate adenylyltransferase, small subunit. In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.
Probab=80.84 E-value=36 Score=29.87 Aligned_cols=38 Identities=16% Similarity=0.191 Sum_probs=30.6
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+.++++++.+...|.-+|..+.+.+...+.++.+||+-
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~ID 56 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVD 56 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEe
Confidence 45678889999999999999888765445678999984
No 57
>PF05677 DUF818: Chlamydia CHLPS protein (DUF818); InterPro: IPR008536 This family of unknown function includes several Chlamydia CHLPS proteins and Legionella SidB proteins.
Probab=78.88 E-value=23 Score=31.76 Aligned_cols=139 Identities=14% Similarity=0.182 Sum_probs=78.7
Q ss_pred CCeEEEeecCChHHHHH--H-----HHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHH
Q 025835 38 HRKIGIAVDLSDESAFA--V-----KWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQ 110 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~a--l-----~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 110 (247)
..|.++...++...... + .+-..++...+++|.+..= +- ..+. -|.. . .+.+.+..+..++-
T Consensus 136 ~~RWiL~s~GNg~~~E~~~~~~~~~~~~~~~ak~~~aNvl~fNY-pG-Vg~S--~G~~---s----~~dLv~~~~a~v~y 204 (365)
T PF05677_consen 136 PQRWILVSNGNGECYENRAMLDYKDDWIQRFAKELGANVLVFNY-PG-VGSS--TGPP---S----RKDLVKDYQACVRY 204 (365)
T ss_pred CCcEEEEEcCChHHhhhhhhhccccHHHHHHHHHcCCcEEEECC-Cc-cccC--CCCC---C----HHHHHHHHHHHHHH
Confidence 34555555555444433 2 5788899999999888662 11 1111 1111 0 12222222222221
Q ss_pred HHHHhhhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHc-------CCCEEEEeecCCCccccccCccCCCHH-----
Q 025835 111 FTTTKANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERL-------GLSAVIMGSRGFGAAKKSSKSRLGSVS----- 178 (247)
Q Consensus 111 ~~~~~~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~-------~~DLIVmGs~g~~~~~~~~~~~lGSvs----- 178 (247)
+..+ ..|+..+-.+..|++....+..++-+. ++..+++-.|+.+.+...++.++|...
T Consensus 205 L~d~----------~~G~ka~~Ii~yG~SLGG~Vqa~AL~~~~~~~~dgi~~~~ikDRsfssl~~vas~~~~~~~~~l~~ 274 (365)
T PF05677_consen 205 LRDE----------EQGPKAKNIILYGHSLGGGVQAEALKKEVLKGSDGIRWFLIKDRSFSSLAAVASQFFGPIGKLLIK 274 (365)
T ss_pred HHhc----------ccCCChheEEEeeccccHHHHHHHHHhcccccCCCeeEEEEecCCcchHHHHHHHHHHHHHHHHHH
Confidence 1111 227888888999988888776555222 566788888888777654444444433
Q ss_pred --------HHHhhcCCccEEEEecCCC
Q 025835 179 --------DYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 179 --------~~vl~~a~~PVlvV~~~~~ 197 (247)
.+..+...||=+++...+.
T Consensus 275 l~gWnidS~K~s~~l~cpeIii~~~d~ 301 (365)
T PF05677_consen 275 LLGWNIDSAKNSEKLQCPEIIIYGVDS 301 (365)
T ss_pred HhccCCCchhhhccCCCCeEEEecccc
Confidence 3455667799999977665
No 58
>PRK00509 argininosuccinate synthase; Provisional
Probab=78.52 E-value=12 Score=34.27 Aligned_cols=36 Identities=19% Similarity=0.322 Sum_probs=30.0
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
++.+|+|++.+.-.|.-++.|+... .|.+|+.+|+.
T Consensus 1 ~~~kVvva~SGGlDSsvla~~l~e~---lG~eViavt~d 36 (399)
T PRK00509 1 MKKKVVLAYSGGLDTSVIIKWLKET---YGCEVIAFTAD 36 (399)
T ss_pred CCCeEEEEEcCCHHHHHHHHHHHHh---hCCeEEEEEEe
Confidence 3579999999999999999998763 36789999985
No 59
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=78.36 E-value=9.6 Score=35.31 Aligned_cols=39 Identities=26% Similarity=0.261 Sum_probs=31.9
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHh-CCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNY-LRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la-~~~~a~v~llhV~ 75 (247)
...+|+|++.|...|...+.....+. ...+.+|.++||-
T Consensus 14 ~~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvn 53 (436)
T PRK10660 14 TSRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVH 53 (436)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEe
Confidence 34889999999999999888887765 3357899999994
No 60
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=77.86 E-value=54 Score=29.63 Aligned_cols=35 Identities=14% Similarity=0.229 Sum_probs=28.3
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
..++|+|++.+.-.|.-++..+.+ .+.+|+.+|+.
T Consensus 4 ~~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~ 38 (360)
T PRK14665 4 KNKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFR 38 (360)
T ss_pred CCCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEe
Confidence 347999999999999888877765 36788888875
No 61
>cd01714 ETF_beta The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=76.19 E-value=32 Score=28.23 Aligned_cols=32 Identities=16% Similarity=0.230 Sum_probs=25.1
Q ss_pred EeecCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 43 IAVDLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 43 VavD~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
++.-+++.+..++..+..++...+..++++.+
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~ 60 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSM 60 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEE
Confidence 44556788889999999998877778777776
No 62
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=74.95 E-value=23 Score=28.91 Aligned_cols=33 Identities=21% Similarity=0.280 Sum_probs=26.4
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEec
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRP 76 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~ 76 (247)
+++|++.+-..|..++.++.+ .|.+|..|++..
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~ 33 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLT 33 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEe
Confidence 578999999999999999887 356777777653
No 63
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=74.75 E-value=20 Score=32.89 Aligned_cols=96 Identities=16% Similarity=0.122 Sum_probs=54.3
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||.+|+.. +.+|..|+|+++........+... .........+.+. +.++.+.|.+
T Consensus 10 DLRl~DN~aL~~A~~~----~~~vl~vfi~dp~~~~~~~~~~~~-----~~~~~r~~Fl~es--------L~~L~~~L~~ 72 (429)
T TIGR02765 10 DLRVHDNPALYKASSS----SDTLIPLYCFDPRQFKLTHFFGFP-----KTGPARGKFLLES--------LKDLRTSLRK 72 (429)
T ss_pred CCccccHHHHHHHHhc----CCeEEEEEEECchHhccccccccC-----CCCHHHHHHHHHH--------HHHHHHHHHH
Confidence 5666667788877753 346888888865432110000000 0011122222222 3333334444
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.|++. .+..| ++.+.|.+++++++++.|+.-..
T Consensus 73 ~g~~L--~v~~G-~~~~vl~~L~~~~~~~~V~~~~~ 105 (429)
T TIGR02765 73 LGSDL--LVRSG-KPEDVLPELIKELGVRTVFLHQE 105 (429)
T ss_pred cCCCe--EEEeC-CHHHHHHHHHHHhCCCEEEEecc
Confidence 46665 44567 79999999999999999998854
No 64
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=74.68 E-value=36 Score=26.03 Aligned_cols=35 Identities=9% Similarity=0.162 Sum_probs=27.3
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+|+|++.+...|...+..+....... .++.++|+-
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~d 35 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLD 35 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeC
Confidence 58999999999999998887765532 467788873
No 65
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=73.60 E-value=52 Score=29.11 Aligned_cols=39 Identities=18% Similarity=0.231 Sum_probs=32.0
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.+.++++++.+...|.-.|..+.+.+...+..+-+|||-
T Consensus 36 ~f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VD 74 (312)
T PRK12563 36 ECSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVD 74 (312)
T ss_pred hcCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeC
Confidence 367889999999999999999988765555678899983
No 66
>PRK10867 signal recognition particle protein; Provisional
Probab=73.44 E-value=40 Score=31.29 Aligned_cols=93 Identities=15% Similarity=0.110 Sum_probs=55.1
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
-++++.-++-.+..+...|..+....|..|.++..- + + +..+.+++....+
T Consensus 103 I~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D-~---~---------------R~aa~eQL~~~a~---------- 153 (433)
T PRK10867 103 IMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAAD-V---Y---------------RPAAIEQLKTLGE---------- 153 (433)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEcc-c---c---------------chHHHHHHHHHHh----------
Confidence 345556678889999999998877657788877651 1 0 1222223322211
Q ss_pred hhhhhhCCCceEEEEEecCChHH---HHHHHHHHcCCCEEEEeecCCCccc
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKE---RLCLEVERLGLSAVIMGSRGFGAAK 167 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~---~I~~~a~~~~~DLIVmGs~g~~~~~ 167 (247)
..++++...- .+.++.+ ..+++++..++|+||+-+.|+....
T Consensus 154 -----~~gv~v~~~~-~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d 198 (433)
T PRK10867 154 -----QIGVPVFPSG-DGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHID 198 (433)
T ss_pred -----hcCCeEEecC-CCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccC
Confidence 1155543221 2234433 3445667778999999999986543
No 67
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=72.73 E-value=41 Score=31.57 Aligned_cols=64 Identities=14% Similarity=0.203 Sum_probs=39.3
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCC-HHHHHhhcCCccEEEEecCCC
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGS-VSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGS-vs~~vl~~a~~PVlvV~~~~~ 197 (247)
+.|+++.+..+.+- .|+- ..++.|++|.|..-..+.+.+ ..|. ...-|.++..+|||||-....
T Consensus 408 ~~GinctYv~I~a~-------syim-~evtkvfLGahailsNG~vys-R~GTa~valvAna~nVPVlVCCE~yK 472 (556)
T KOG1467|consen 408 DRGINCTYVLINAA-------SYIM-LEVTKVFLGAHAILSNGAVYS-RVGTACVALVANAFNVPVLVCCEAYK 472 (556)
T ss_pred HcCCCeEEEEehhH-------HHHH-HhcceeeechhhhhcCcchhh-hcchHHHHHHhcccCCCEEEEechhh
Confidence 34999999988772 2332 347999999986422222211 1343 334455666799999976443
No 68
>cd01712 ThiI ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.
Probab=72.35 E-value=46 Score=26.28 Aligned_cols=33 Identities=21% Similarity=0.086 Sum_probs=27.8
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEec
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRP 76 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~ 76 (247)
+|+|++.+...|..++.++.+. |.+++.+|+..
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~~----g~~v~av~~d~ 33 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMKR----GIEVDALHFNS 33 (177)
T ss_pred CEEEEecCChhHHHHHHHHHHc----CCeEEEEEEeC
Confidence 5899999999999999888763 78899999853
No 69
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=71.49 E-value=3.5 Score=30.04 Aligned_cols=23 Identities=17% Similarity=0.179 Sum_probs=20.0
Q ss_pred ChHHHHHHHHHHcCCCEEEEeec
Q 025835 139 DMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.-.+.|+++|+++++||+|+|..
T Consensus 49 ~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 49 TDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp T-HHHHHHHHHHTTESEEEESSH
T ss_pred CCHHHHHHHHHHcCCCEEEECCh
Confidence 45678999999999999999976
No 70
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=71.31 E-value=53 Score=26.51 Aligned_cols=32 Identities=22% Similarity=0.241 Sum_probs=24.8
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
|+|++.|...|..++.++..... .++..+|+.
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~~---~~v~~v~vd 32 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDALG---DRVLAVTAT 32 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHhC---CcEEEEEeC
Confidence 68899999999988888776532 278888874
No 71
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=70.84 E-value=37 Score=31.47 Aligned_cols=94 Identities=18% Similarity=0.142 Sum_probs=63.2
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
-.+|++-+|-....+-+.|..+-+ .+..+.|+..- . .+..+.++++...+..
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD-~------------------~RpAA~eQL~~La~q~-------- 154 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAAD-T------------------YRPAAIEQLKQLAEQV-------- 154 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecc-c------------------CChHHHHHHHHHHHHc--------
Confidence 456778899999999999988888 78888887751 1 1234444554433321
Q ss_pred hhhhhhCCCceEEEEEecCChH---HHHHHHHHHcCCCEEEEeecCCCccccc
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMK---ERLCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~---~~I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
++++--. ..+.+|. ..-+++++...+|+||+-+.||-.+..-
T Consensus 155 -------~v~~f~~-~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~ 199 (451)
T COG0541 155 -------GVPFFGS-GTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEE 199 (451)
T ss_pred -------CCceecC-CCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHH
Confidence 5554333 2233444 5568888999999999999998776643
No 72
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=70.49 E-value=40 Score=31.54 Aligned_cols=90 Identities=19% Similarity=0.161 Sum_probs=53.5
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||..|+. .+..|..|+++++........+ ..-. .|..+.+.++.+.|.+
T Consensus 10 DLRl~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~~-----------~~r~--------~Fl~esL~~L~~~L~~ 66 (471)
T TIGR03556 10 DLRLSDNIGLAAARQ----QSAKVVGLFCLDPNILQADDMA-----------PARV--------AYLIGCLQELQQRYQQ 66 (471)
T ss_pred CCCcchHHHHHHHHh----cCCCEEEEEEEchhhhccccCC-----------HHHH--------HHHHHHHHHHHHHHHH
Confidence 555566778877764 3457899998865321110000 0111 1222233333344444
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.|+++ .+..| ++.+.|.+++++++++.|+.-..
T Consensus 67 ~G~~L--~v~~G-~p~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 67 AGSQL--LILQG-DPVQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred CCCCe--EEEEC-CHHHHHHHHHHHcCCCEEEEecc
Confidence 46665 45567 79999999999999999997654
No 73
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=68.92 E-value=7.7 Score=33.22 Aligned_cols=69 Identities=16% Similarity=0.138 Sum_probs=43.9
Q ss_pred CCceEEEEEecCChHHH-HHHHHHHcCCCEEEEeecCCCccccccCccC-CCHH--------HHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKER-LCLEVERLGLSAVIMGSRGFGAAKKSSKSRL-GSVS--------DYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~-I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~l-GSvs--------~~vl~~a~~PVlvV~~~~ 196 (247)
| +.+-.++.|.++... .++++.+...+.||+-+.=.++++-+ +- .-.. ..=+++..|||||++..+
T Consensus 127 g-~~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S~~rv~---~~~~~~~~~~d~f~~i~kI~~i~~PVLiiHgtd 202 (258)
T KOG1552|consen 127 G-SPERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTSGMRVA---FPDTKTTYCFDAFPNIEKISKITCPVLIIHGTD 202 (258)
T ss_pred C-CCceEEEEEecCCchhhhhHhhcCCcceEEEeccchhhhhhh---ccCcceEEeeccccccCcceeccCCEEEEeccc
Confidence 5 667778888776544 47777777789999887644544332 11 0000 222456779999999877
Q ss_pred CCC
Q 025835 197 DKD 199 (247)
Q Consensus 197 ~~~ 199 (247)
++-
T Consensus 203 Dev 205 (258)
T KOG1552|consen 203 DEV 205 (258)
T ss_pred Cce
Confidence 654
No 74
>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=68.69 E-value=56 Score=30.28 Aligned_cols=94 Identities=17% Similarity=0.105 Sum_probs=55.5
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhh
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAND 118 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 118 (247)
--++++.-++-.+..+...|..+....+..+.++..-. + +..+.+++....+.
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~----~---------------R~~a~~QL~~~a~~-------- 153 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDL----Y---------------RPAAIEQLKVLGQQ-------- 153 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccc----c---------------chHHHHHHHHHHHh--------
Confidence 34556667888899999999987755677887776521 0 11222233222111
Q ss_pred hhhhhhhCCCceEEEEEecCChH---HHHHHHHHHcCCCEEEEeecCCCccc
Q 025835 119 LAQPLVEAQIPFKIHIVKDHDMK---ERLCLEVERLGLSAVIMGSRGFGAAK 167 (247)
Q Consensus 119 ~~~~~~~~~v~v~~~v~~g~d~~---~~I~~~a~~~~~DLIVmGs~g~~~~~ 167 (247)
.++++.... .+.++. ...++++...++|+||+-+.|+....
T Consensus 154 -------~gvp~~~~~-~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d 197 (428)
T TIGR00959 154 -------VGVPVFALG-KGQSPVEIARRALEYAKENGFDVVIVDTAGRLQID 197 (428)
T ss_pred -------cCCceEecC-CCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccC
Confidence 155543322 223443 33455666778999999999976543
No 75
>PRK05370 argininosuccinate synthase; Validated
Probab=68.54 E-value=25 Score=32.58 Aligned_cols=115 Identities=10% Similarity=0.023 Sum_probs=62.8
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHH--HHHHHHHH
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLE--DDFDQFTT 113 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~ 113 (247)
...++|++|+.+.-.+..++.|.... +.+|+.+++---.. .....+...+.+.+.=. -.......
T Consensus 9 ~~~~KVvLAYSGGLDTSv~l~wL~e~----~~eVia~~aDvGQ~---------~~ed~~~i~~kA~~~GA~~~~viDlr~ 75 (447)
T PRK05370 9 PVGQRVGIAFSGGLDTSAALLWMRQK----GAVPYAYTANLGQP---------DEDDYDAIPRRAMEYGAENARLIDCRA 75 (447)
T ss_pred CCCCEEEEEecCCchHHHHHHHHHhc----CCeEEEEEEECCCC---------CccchHHHHHHHHHhCCCEEEEeccHH
Confidence 35689999999999999999998763 78888888842110 00000111111111100 00011112
Q ss_pred HhhhhhhhhhhhCCCce----------EEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCc
Q 025835 114 TKANDLAQPLVEAQIPF----------KIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGA 165 (247)
Q Consensus 114 ~~~~~~~~~~~~~~v~v----------~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~ 165 (247)
++.++.. +....+.-+ .+-+..- =++..|++.|++.+++.|.=|+.|++.
T Consensus 76 eF~e~~i-~aI~anA~Y~~~~e~~Y~l~t~LaRp-lia~~lv~~A~~~ga~aIAHG~TGKGN 135 (447)
T PRK05370 76 QLVAEGI-AAIQCGAFHISTGGVTYFNTTPLGRA-VTGTMLVAAMKEDGVNIWGDGSTYKGN 135 (447)
T ss_pred HHHHHHH-HHHHcCCccccccCccccCCCcchHH-HHHHHHHHHHHHhCCcEEEEcCCCCCC
Confidence 2222222 333333322 1111111 267889999999999999999987754
No 76
>PRK04527 argininosuccinate synthase; Provisional
Probab=68.02 E-value=41 Score=30.89 Aligned_cols=34 Identities=18% Similarity=0.262 Sum_probs=28.4
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.++|+|++.+.-.|.-++.|+.. .|.+|+.+++.
T Consensus 2 ~~kVvVA~SGGvDSSvla~~l~e----~G~~Viavt~d 35 (400)
T PRK04527 2 SKDIVLAFSGGLDTSFCIPYLQE----RGYAVHTVFAD 35 (400)
T ss_pred CCcEEEEEcCChHHHHHHHHHHH----cCCcEEEEEEE
Confidence 47899999999999999999776 26788888874
No 77
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=67.55 E-value=1.1e+02 Score=28.49 Aligned_cols=118 Identities=20% Similarity=0.126 Sum_probs=71.1
Q ss_pred CCeEEEeecC-ChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 38 HRKIGIAVDL-SDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 38 ~k~ILVavD~-S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
..-||++=|. --.|.-.|+.+.++|.+. .+|||.- |+..+++.-..+.+
T Consensus 93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~----~vLYVsG---------------------EES~~QiklRA~RL----- 142 (456)
T COG1066 93 GSVILIGGDPGIGKSTLLLQVAARLAKRG----KVLYVSG---------------------EESLQQIKLRADRL----- 142 (456)
T ss_pred ccEEEEccCCCCCHHHHHHHHHHHHHhcC----cEEEEeC---------------------CcCHHHHHHHHHHh-----
Confidence 4455665553 336888999999999865 6778742 22223333222221
Q ss_pred hhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHH---------HHhhcCCc
Q 025835 117 NDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSD---------YCVHHCVC 187 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~---------~vl~~a~~ 187 (247)
++...-..+-...-.+.|+..+++.++|++|+-+=..=+...+ ..--||+++ ++.+...+
T Consensus 143 ----------~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQT~~s~~~-~SapGsVsQVRe~t~~L~~~AK~~~i 211 (456)
T COG1066 143 ----------GLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEI-TSAPGSVSQVREVAAELMRLAKTKNI 211 (456)
T ss_pred ----------CCCccceEEehhcCHHHHHHHHHhcCCCEEEEeccceeecccc-cCCCCcHHHHHHHHHHHHHHHHHcCC
Confidence 4443333333435678899999999999999998643222221 002477665 45566679
Q ss_pred cEEEEecCC
Q 025835 188 PVIVVRFSD 196 (247)
Q Consensus 188 PVlvV~~~~ 196 (247)
++++|-.=.
T Consensus 212 ~~fiVGHVT 220 (456)
T COG1066 212 AIFIVGHVT 220 (456)
T ss_pred eEEEEEEEc
Confidence 999985533
No 78
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=67.18 E-value=17 Score=31.93 Aligned_cols=61 Identities=11% Similarity=0.153 Sum_probs=36.3
Q ss_pred EEEecCChHHHHHHHHHHc-------CCCEEEEeecCCCccccccCccCC-CHHHHHhhcCCccEEEEecCC
Q 025835 133 HIVKDHDMKERLCLEVERL-------GLSAVIMGSRGFGAAKKSSKSRLG-SVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 133 ~v~~g~d~~~~I~~~a~~~-------~~DLIVmGs~g~~~~~~~~~~~lG-Svs~~vl~~a~~PVlvV~~~~ 196 (247)
..+.|.+....|++..+.. .+|+||+++.| |.+..+. -|. -...+-+..+++||+.==++.
T Consensus 49 ~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGG-Gs~eDL~--~FN~e~varai~~~~~PvisaIGHe 117 (319)
T PF02601_consen 49 ASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGG-GSIEDLW--AFNDEEVARAIAASPIPVISAIGHE 117 (319)
T ss_pred ccccccchHHHHHHHHHHHHhccccccccEEEEecCC-CChHHhc--ccChHHHHHHHHhCCCCEEEecCCC
Confidence 3556766777776655544 48999999765 4445540 122 234455566788887643333
No 79
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=66.85 E-value=59 Score=25.36 Aligned_cols=32 Identities=22% Similarity=0.264 Sum_probs=25.6
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+|+|++.+..+|..++.++... +.++..+|+.
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~~----~~~v~~~~~~ 32 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKKE----GYEVHALSFD 32 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHHc----CCcEEEEEEE
Confidence 5899999999999998887652 4568888884
No 80
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=66.31 E-value=1e+02 Score=29.65 Aligned_cols=60 Identities=25% Similarity=0.383 Sum_probs=43.8
Q ss_pred CCceEEEEEecCChHHHHHHHH---HHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEV---ERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a---~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
|+++++.+...+...+.+.+|+ +..+++.||.+......+.. -|.-++.+||+=||....
T Consensus 437 g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~-----------~~a~~t~~pvi~vp~~~~ 499 (577)
T PLN02948 437 GVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPG-----------MVASMTPLPVIGVPVKTS 499 (577)
T ss_pred CCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchH-----------HHhhccCCCEEEcCCCCC
Confidence 9999999998887766666664 55689988888755444433 345567999999998643
No 81
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=65.98 E-value=74 Score=26.19 Aligned_cols=83 Identities=16% Similarity=0.156 Sum_probs=51.6
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhh
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAND 118 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 118 (247)
+||.|-+.++-....|+--|+. ....+++|.+|-.-.. . .. .++.+.
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~~-~------------------A~---~lerA~---------- 47 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDKA-D------------------AY---ALERAA---------- 47 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCCC-C------------------CH---HHHHHH----------
Confidence 4788888888888888888887 3334666655543211 1 11 111111
Q ss_pred hhhhhhhCCCceEEEEEecCC----hHHHHHHHHHHcCCCEEEEee
Q 025835 119 LAQPLVEAQIPFKIHIVKDHD----MKERLCLEVERLGLSAVIMGS 160 (247)
Q Consensus 119 ~~~~~~~~~v~v~~~v~~g~d----~~~~I~~~a~~~~~DLIVmGs 160 (247)
+.|++..+.-..... ....|++..+.+++|+||+..
T Consensus 48 ------~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAG 87 (200)
T COG0299 48 ------KAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAG 87 (200)
T ss_pred ------HcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcc
Confidence 227776444333322 567899999999999999874
No 82
>PRK00766 hypothetical protein; Provisional
Probab=65.78 E-value=15 Score=30.10 Aligned_cols=63 Identities=19% Similarity=0.171 Sum_probs=47.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHH----cCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE--ecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVER----LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV--RFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~----~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV--~~~~ 196 (247)
|+-+....+.|.|..+.|+++.+. .++.+|++..-..+++.=. -...|-+.+..||++| +.++
T Consensus 42 Gv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNvv-------D~~~l~~~tg~PVI~V~r~~p~ 110 (194)
T PRK00766 42 GVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNVV-------DIEELYRETGLPVIVVMRKKPD 110 (194)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEEe-------cHHHHHHHHCCCEEEEEecCCC
Confidence 677788888999999999999986 3566777766555554322 4567888899999999 4444
No 83
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=63.74 E-value=10 Score=29.29 Aligned_cols=52 Identities=15% Similarity=0.119 Sum_probs=36.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCC-----CccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGF-----GAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~-----~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
....|.+++++++++.||+|-.-. +.... ..-..++.|-.+..+||..+-..
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~----~v~~f~~~L~~~~~~~v~~~DEr 98 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTE----RARKFANRLEGRFGLPVVLVDER 98 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHH----HHHHHHHHHHHHhCCCEEEEcCC
Confidence 478899999999999999994321 11111 22345667777778999998543
No 84
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=63.38 E-value=1e+02 Score=27.14 Aligned_cols=61 Identities=21% Similarity=0.247 Sum_probs=36.8
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCC-CHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLG-SVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lG-Svs~~vl~~a~~PVlvV~~~~ 196 (247)
|+++... .+ .++..+.++ +|.|++|+.+-.....+-. ..| +...-+.++...|++++-...
T Consensus 170 gI~~~~I--~D----sa~~~~~~~--vd~VivGad~I~~nG~lvn-kiGT~~lA~~A~e~~~Pf~v~aesy 231 (301)
T COG1184 170 GIPVTVI--VD----SAVGAFMSR--VDKVLVGADAILANGALVN-KIGTSPLALAARELRVPFYVVAESY 231 (301)
T ss_pred CCceEEE--ec----hHHHHHHHh--CCEEEECccceecCCcEEe-ccchHHHHHHHHHhCCCEEEEeeee
Confidence 7665543 33 124444544 7999999987533222100 135 455677788999999996543
No 85
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=63.28 E-value=1.2e+02 Score=27.69 Aligned_cols=58 Identities=19% Similarity=0.082 Sum_probs=36.4
Q ss_pred EEecCChHHHHHHHHHH-cCCCEEEEeecCCCccccccCccCCCHHHHHhhcC---CccEEEEecCC
Q 025835 134 IVKDHDMKERLCLEVER-LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC---VCPVIVVRFSD 196 (247)
Q Consensus 134 v~~g~d~~~~I~~~a~~-~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a---~~PVlvV~~~~ 196 (247)
+..|.+..-.++.+-+. .++||||.|-- +-.. +. +.|-+...|.+.+ .+||+++-..-
T Consensus 264 l~~G~d~v~~~~~l~~~l~~ADlVITGEG-~~D~-Qt---l~GK~p~~Va~~A~~~~vPviai~G~v 325 (375)
T TIGR00045 264 LKPGIDLVLELLDLEQKIKDADLVITGEG-RLDR-QS---LMGKAPVGVAKRAKKYGVPVIAIAGSL 325 (375)
T ss_pred EccHHHHHHHhhCHHHHhcCCCEEEECCC-cccc-cc---cCCchHHHHHHHHHHhCCeEEEEeccc
Confidence 44444444444444333 47999999954 4333 33 6788888777776 59999996654
No 86
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=61.99 E-value=23 Score=24.03 Aligned_cols=35 Identities=23% Similarity=0.217 Sum_probs=29.3
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEE
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILL 72 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~ll 72 (247)
.++|++++|.+.....+.+.....+...+..+.++
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 48999999999999999988888887777776654
No 87
>PRK10342 glycerate kinase I; Provisional
Probab=61.84 E-value=99 Score=28.22 Aligned_cols=58 Identities=19% Similarity=0.020 Sum_probs=35.3
Q ss_pred EEecCChHHHHHHHHHH-cCCCEEEEeecCCCccccccCccCCCHHHHHhhcC---CccEEEEecCC
Q 025835 134 IVKDHDMKERLCLEVER-LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC---VCPVIVVRFSD 196 (247)
Q Consensus 134 v~~g~d~~~~I~~~a~~-~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a---~~PVlvV~~~~ 196 (247)
+..|.+..-.++.+-+. .++||||.|-. +-.. +. +.|-+...|.+.+ .+||+++-..-
T Consensus 265 l~~G~d~v~~~~~l~~~l~~ADLVITGEG-~~D~-QT---l~GK~p~gVa~~A~~~~vPviai~G~~ 326 (381)
T PRK10342 265 LKSGIEIVTTALNLEEHIHDCTLVITGEG-RIDS-QS---IHGKVPIGVANVAKKYHKPVIGIAGSL 326 (381)
T ss_pred ECCHHHHHHHhcCHHHHhccCCEEEECCC-cCcc-cc---cCCccHHHHHHHHHHhCCCEEEEeccc
Confidence 33444444444444333 47999999954 3333 33 5677777666665 59999997654
No 88
>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI. The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.
Probab=60.27 E-value=1.3e+02 Score=27.12 Aligned_cols=37 Identities=19% Similarity=0.149 Sum_probs=30.6
Q ss_pred CCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 35 GGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 35 ~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.+...++||++.|.-.|.-++.++.+ .|.+|..+|..
T Consensus 169 ~g~~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~ 205 (371)
T TIGR00342 169 VGTQGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFF 205 (371)
T ss_pred cCcCCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEe
Confidence 35678999999999999988877755 37899999985
No 89
>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=59.71 E-value=87 Score=29.07 Aligned_cols=93 Identities=16% Similarity=0.174 Sum_probs=53.0
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhh
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLA 120 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 120 (247)
.+|+.-++-.+..+.+.|..+.. .|.+|.|+..- + | +..+..++....+
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~-~G~kV~lV~~D-~---~---------------R~aA~eQLk~~a~----------- 152 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQR-KGFKPCLVCAD-T---F---------------RAGAFDQLKQNAT----------- 152 (429)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEcCc-c---c---------------chhHHHHHHHHhh-----------
Confidence 45566788888888888887654 47777777541 1 0 1122222222111
Q ss_pred hhhhhCCCceEEEEEecCChHH---HHHHHHHHcCCCEEEEeecCCCccccc
Q 025835 121 QPLVEAQIPFKIHIVKDHDMKE---RLCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 121 ~~~~~~~v~v~~~v~~g~d~~~---~I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
..++++... ..+.++.. .-++.++..++|+|++-+.|+......
T Consensus 153 ----~~~vp~~~~-~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~ 199 (429)
T TIGR01425 153 ----KARIPFYGS-YTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDS 199 (429)
T ss_pred ----ccCCeEEee-cCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHH
Confidence 115665322 22335433 334555666899999999998765443
No 90
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=59.53 E-value=1.4e+02 Score=27.26 Aligned_cols=117 Identities=16% Similarity=0.135 Sum_probs=63.3
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHH--HHHHHHHH
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLE--DDFDQFTT 113 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~~~~ 113 (247)
+..++|+++..+.-...-++.|.... .++.|+-+.+---.. ....+...+.+.+.=. ........
T Consensus 2 ~~~kkvvLAYSGGLDTSv~i~wL~e~---~~~eVia~tadvGQ~----------eed~~~i~eKA~~~Ga~~~~viD~re 68 (403)
T COG0137 2 MKVKKVVLAYSGGLDTSVAIKWLKEK---GGAEVIAVTADVGQP----------EEDLDAIREKALELGAEEAYVIDARE 68 (403)
T ss_pred CCCcEEEEEecCCccHHHHHHHHHHh---cCceEEEEEEeCCCC----------hHHhHHHHHHHHHhCCceEEEeecHH
Confidence 45689999999999999999997763 346666666521110 0000001111111000 00001112
Q ss_pred HhhhhhhhhhhhCCCceEEEEEecCC-----hHHHHHHHHHHcCCCEEEEeecCCCc
Q 025835 114 TKANDLAQPLVEAQIPFKIHIVKDHD-----MKERLCLEVERLGLSAVIMGSRGFGA 165 (247)
Q Consensus 114 ~~~~~~~~~~~~~~v~v~~~v~~g~d-----~~~~I~~~a~~~~~DLIVmGs~g~~~ 165 (247)
++.++.+-+....+..++-.-.-+.. +++.+++.|++.+++.|.=|+.|++.
T Consensus 69 eF~~~yi~~~i~ana~Yeg~YpL~TalaRPLIak~lVe~A~k~ga~avaHGcTGKGN 125 (403)
T COG0137 69 EFVEDYIFPAIKANALYEGVYPLGTALARPLIAKKLVEAAKKEGADAVAHGCTGKGN 125 (403)
T ss_pred HHHHHHHHHHHHhhceeeccccccchhhHHHHHHHHHHHHHHcCCCEEEecCCCCCC
Confidence 22223333333334444442222222 57889999999999999999998865
No 91
>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group..
Probab=59.52 E-value=61 Score=23.03 Aligned_cols=32 Identities=19% Similarity=0.076 Sum_probs=25.1
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEec
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRP 76 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~ 76 (247)
|+|++.+...|...+.++..+. .++.++|+-.
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~~----~~~~~~~~~~ 32 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKLG----YQVIAVTVDH 32 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHhC----CCEEEEEEcC
Confidence 5899999999988888887752 2688888843
No 92
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=58.60 E-value=45 Score=33.38 Aligned_cols=43 Identities=12% Similarity=0.065 Sum_probs=36.4
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCC
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSV 79 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~ 79 (247)
...+|.+-.=+....+.|+.++.+++......+++++-++...
T Consensus 613 ~~~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~ 655 (769)
T KOG1650|consen 613 SSYKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDES 655 (769)
T ss_pred ceeEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccch
Confidence 4557777777888888899999999999999999999987543
No 93
>PRK08185 hypothetical protein; Provisional
Probab=58.04 E-value=19 Score=31.44 Aligned_cols=65 Identities=12% Similarity=-0.025 Sum_probs=48.6
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
.++-+-..-+.......++++.|++.+.-+|+..+.+.-..... -+......+.+++.+||.+-=
T Consensus 11 ~~yaV~AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~---~~~~~~~~~a~~~~vPV~lHL 75 (283)
T PRK08185 11 HQFAVGAFNVADSCFLRAVVEEAEANNAPAIIAIHPNELDFLGD---NFFAYVRERAKRSPVPFVIHL 75 (283)
T ss_pred cCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCcchhhhccH---HHHHHHHHHHHHCCCCEEEEC
Confidence 36666566555657899999999999999999998876332223 356778888899999987653
No 94
>TIGR00032 argG argininosuccinate synthase. argG in bacteria, ARG1 in Saccharomyces cerevisiae. There is a very unusual clustering in the alignment, with a deep split between one cohort of E. coli, H. influenzae, and Streptomyces, and the other cohort of eukaryotes, archaea, and the rest of the eubacteria.
Probab=57.93 E-value=1.5e+02 Score=27.11 Aligned_cols=32 Identities=22% Similarity=0.350 Sum_probs=27.5
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+|+|++.+.-.|..++.|+... |.+|+.+|+.
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id 32 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTAD 32 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEe
Confidence 5899999999999999988763 7789999984
No 95
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=57.46 E-value=19 Score=24.61 Aligned_cols=35 Identities=20% Similarity=0.138 Sum_probs=23.2
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEE
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILL 72 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~ll 72 (247)
.++|++++|.+.....+..+....+...+.+++.+
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~~v 80 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVTRV 80 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG---------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccccC
Confidence 59999999999999999999999776666666543
No 96
>PRK09932 glycerate kinase II; Provisional
Probab=56.35 E-value=1.4e+02 Score=27.22 Aligned_cols=59 Identities=15% Similarity=0.003 Sum_probs=35.4
Q ss_pred EEEecCChHHHHHHHHHH-cCCCEEEEeecCCCccccccCccCCCHHHHHhhcC---CccEEEEecCC
Q 025835 133 HIVKDHDMKERLCLEVER-LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC---VCPVIVVRFSD 196 (247)
Q Consensus 133 ~v~~g~d~~~~I~~~a~~-~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a---~~PVlvV~~~~ 196 (247)
.+..|.+..-.++.+-+. .++||||.|-. +-.. +. +.|-+...|.+.+ .+||+++-..-
T Consensus 264 ~l~~G~d~v~~~~~l~~~l~~ADlVITGEG-~~D~-Qt---~~GK~p~~Va~~A~~~~~Pvi~i~G~~ 326 (381)
T PRK09932 264 DIKPGIEIVLNAVNLEQAVQGAALVITGEG-RIDS-QT---AGGKAPLGVASVAKQFNVPVIGIAGVL 326 (381)
T ss_pred EEccHHHHHHHhcChHHHhccCCEEEECCC-cccc-cc---cCCccHHHHHHHHHHcCCCEEEEeccc
Confidence 344454444444444333 47899999964 3333 33 5676666666655 59999997653
No 97
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=56.22 E-value=23 Score=31.75 Aligned_cols=67 Identities=21% Similarity=0.232 Sum_probs=39.8
Q ss_pred hhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh-hcCCccEEEEecCC
Q 025835 123 LVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV-HHCVCPVIVVRFSD 196 (247)
Q Consensus 123 ~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl-~~a~~PVlvV~~~~ 196 (247)
|.+.|+++.... + +. +-.+..+..+|+||+|..+-........ ..|+..-.++ ++..+||+|+-+..
T Consensus 202 L~~~GI~vtlI~--D-sa---~~~~M~~~~vd~VivGAd~I~~nG~v~N-kiGT~~lAl~Ak~~~vPfyV~a~~~ 269 (344)
T PRK05720 202 LYQAGIDVTVIT--D-NM---AAHLMQTGKIDAVIVGADRIAANGDVAN-KIGTYQLAIAAKYHGVPFYVAAPSS 269 (344)
T ss_pred HHHCCCCEEEEc--c-cH---HHHHhcccCCCEEEEcccEEecCCCEee-hhhHHHHHHHHHHhCCCEEEecccc
Confidence 334588876543 2 12 3333445679999999986533322200 2476555554 67789999986643
No 98
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=55.93 E-value=1.4e+02 Score=27.88 Aligned_cols=94 Identities=18% Similarity=0.174 Sum_probs=53.7
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||..|+..+ +..|..|+|+++........ .......+.+ .+.++.+.|.+
T Consensus 11 DLRl~DN~aL~~A~~~~---~~~vlpvyv~dp~~~~~~~~-----------~~~r~~Fl~e--------sL~~L~~~L~~ 68 (472)
T PRK10674 11 DLRLHDNLALAAACRDP---SARVLALFIATPAQWAAHDM-----------APRQAAFINA--------QLNALQIALAE 68 (472)
T ss_pred CCCcchHHHHHHHHhCC---CCCEEEEEEECchhhccCCC-----------CHHHHHHHHH--------HHHHHHHHHHH
Confidence 66667778888877543 23588999987632111000 0111222222 23333334444
Q ss_pred CCCceEEEEEe-cCChHHHHHHHHHHcCCCEEEEeec
Q 025835 126 AQIPFKIHIVK-DHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 126 ~~v~v~~~v~~-g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.|++.-+.... .+++.+.|.+++++.+++-|+.-..
T Consensus 69 ~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 69 KGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred cCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 46665433321 1379999999999999999988653
No 99
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=55.69 E-value=27 Score=31.12 Aligned_cols=65 Identities=15% Similarity=0.202 Sum_probs=39.0
Q ss_pred hhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh-hcCCccEEEEec
Q 025835 123 LVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV-HHCVCPVIVVRF 194 (247)
Q Consensus 123 ~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl-~~a~~PVlvV~~ 194 (247)
|.+.|+++.... + +. +-.+..+.++|+||+|..+-........ -.|+..-.++ ++..+||+|+-+
T Consensus 192 L~~~GI~vtlI~--D-sa---~~~~M~~~~Vd~VivGAd~I~aNG~v~N-KiGT~~lAl~Ak~~~VPfyV~a~ 257 (329)
T PRK06371 192 LAQEGIDHAIIA--D-NA---AGYFMRKKEIDLVIVGADRIASNGDFAN-KIGTYEKAVLAKVNGIPFYVAAP 257 (329)
T ss_pred HHHCCCCEEEEc--c-cH---HHHHhhhcCCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEecc
Confidence 334488876543 2 12 2333445679999999986533332200 2476555555 667899999854
No 100
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=55.55 E-value=1.2e+02 Score=27.07 Aligned_cols=34 Identities=15% Similarity=0.204 Sum_probs=26.4
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEec
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRP 76 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~ 76 (247)
++|+|++.+...|..++..+.+ .+..|..+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeC
Confidence 4899999999999888766554 366788888853
No 101
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=55.06 E-value=29 Score=31.26 Aligned_cols=64 Identities=19% Similarity=0.241 Sum_probs=38.9
Q ss_pred hhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHH-hhcCCccEEEEec
Q 025835 124 VEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYC-VHHCVCPVIVVRF 194 (247)
Q Consensus 124 ~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~v-l~~a~~PVlvV~~ 194 (247)
.+.|+++.... + +. +-.+..+..+|+||+|..+-........ -.|...-.+ .++..+||+|+-+
T Consensus 216 ~~~GI~vtlI~--D-sa---v~~~M~~~~Vd~VivGAd~I~~nG~v~N-KiGTy~lA~~Ak~~~vPfyV~Ap 280 (356)
T PRK08334 216 HYDGIPLKLIS--D-NM---AGFVMQQGKVDAIIVGADRIVANGDFAN-KIGTYTLAVLAKEHGIPFFTVAP 280 (356)
T ss_pred HHCCCCEEEEe--h-hH---HHHHhhhcCCCEEEECccEEecCCCEee-hhhHHHHHHHHHHhCCCEEEEcc
Confidence 34488877543 2 11 3334455679999999986533332200 247666444 4777899999854
No 102
>TIGR02700 flavo_MJ0208 archaeoflavoprotein, MJ0208 family. This model describes one of two paralogous families of archaealflavoprotein. The other, described by TIGR02699 and typified by the partially characterized AF1518 of Archaeoglobus fulgidus, is a homodimeric FMN-containing flavoprotein that accepts electrons from ferredoxin and can transfer them to various oxidoreductases. The function of this protein family is unknown.
Probab=54.17 E-value=17 Score=30.51 Aligned_cols=34 Identities=9% Similarity=-0.083 Sum_probs=25.3
Q ss_pred eEEEeecCChHH-HHHHHHHHHHhCCC-CCEEEEEE
Q 025835 40 KIGIAVDLSDES-AFAVKWAVQNYLRP-GDAVILLH 73 (247)
Q Consensus 40 ~ILVavD~S~~s-~~al~~A~~la~~~-~a~v~llh 73 (247)
||++++-+|..+ ..+++.+..|-+.+ |.+|.++-
T Consensus 1 ~i~~~itGs~~~~~~~~~l~~~L~~~~~g~~V~vv~ 36 (234)
T TIGR02700 1 RIGWGITGAGHLLVESFQVMKELKREIEELRVSTFV 36 (234)
T ss_pred CeEEEEeCccHhHHHHHHHHHHHHhhcCCCeEEEEE
Confidence 689999996555 68888887776653 67766655
No 103
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=54.14 E-value=32 Score=26.16 Aligned_cols=53 Identities=11% Similarity=0.041 Sum_probs=36.2
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecC-----CCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRG-----FGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g-----~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
.....|.+++++++++.||+|-.- .+.... .....++.+-....+||..+-..
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~----~v~~f~~~L~~~~~~~v~~~DEr 92 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTE----RAQKFANRLEGRFGVPVVLWDER 92 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHH----HHHHHHHHHHHHhCCCEEEEcCC
Confidence 357889999999999999999432 121111 12345666766678999998543
No 104
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=53.86 E-value=18 Score=31.81 Aligned_cols=65 Identities=15% Similarity=0.228 Sum_probs=38.3
Q ss_pred hhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh-hcCCccEEEEec
Q 025835 123 LVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV-HHCVCPVIVVRF 194 (247)
Q Consensus 123 ~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl-~~a~~PVlvV~~ 194 (247)
|.+.|+++.... + .++..+.+...+|+|++|...-.....+.. ..|+..-.++ ++...||+++-+
T Consensus 174 L~~~gI~vtlI~--D----sa~~~~m~~~~vd~VlvGAd~v~~nG~v~n-k~GT~~lA~~Ak~~~vPv~V~a~ 239 (303)
T TIGR00524 174 LMQDGIDVTLIT--D----SMAAYFMQKGEIDAVIVGADRIARNGDVAN-KIGTYQLAVLAKEFRIPFFVAAP 239 (303)
T ss_pred HHHCCCCEEEEC--h----hHHHHHccccCCCEEEEcccEEecCCCEeE-hhhHHHHHHHHHHhCCCEEEecc
Confidence 334477766543 2 123334444579999999986533332200 2466555444 777899999954
No 105
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=52.55 E-value=27 Score=31.18 Aligned_cols=63 Identities=21% Similarity=0.294 Sum_probs=37.3
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh-hcCCccEEEEec
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV-HHCVCPVIVVRF 194 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl-~~a~~PVlvV~~ 194 (247)
+.|+++.... + +. +-.+.++..+|+|++|...-........ -.|+..-.++ ++..+||+|+-+
T Consensus 204 ~~GI~vtlI~--D-sa---v~~~m~~~~vd~VivGAd~v~~nG~v~n-kiGT~~lA~~Ak~~~vPfyV~a~ 267 (331)
T TIGR00512 204 QEGIPATLIT--D-SM---AAHLMKHGEVDAVIVGADRIAANGDTAN-KIGTYQLAVLAKHHGVPFYVAAP 267 (331)
T ss_pred HCCCCEEEEc--c-cH---HHHHhcccCCCEEEEcccEEecCCCEee-hhhHHHHHHHHHHhCCCEEEecc
Confidence 4488876433 3 12 2233335579999999986433222200 2476555555 777899999855
No 106
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=52.19 E-value=37 Score=30.75 Aligned_cols=64 Identities=14% Similarity=0.203 Sum_probs=38.3
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh-hcCCccEEEEecC
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV-HHCVCPVIVVRFS 195 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl-~~a~~PVlvV~~~ 195 (247)
+.|+++.... + +. +--+..+..+|+||+|..+-........ -.|+..-.++ ++..+||+|+-+.
T Consensus 225 ~~GIpvtlI~--D-sa---~~~~m~~~~Vd~VivGAD~I~~NG~v~N-KiGTy~lA~~Ak~~~vPfyV~ap~ 289 (363)
T PRK05772 225 EEGIKVTLIT--D-TA---VGLVMYKDMVNNVMVGADRILRDGHVFN-KIGTFKEAVIAHELGIPFYALAPT 289 (363)
T ss_pred HCCCCEEEEe--h-hH---HHHHHhhcCCCEEEECccEEecCCCEee-hhhhHHHHHHHHHhCCCEEEEccc
Confidence 3488876542 2 12 2233345679999999986533332200 2477665444 7778999999553
No 107
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=51.35 E-value=37 Score=30.31 Aligned_cols=27 Identities=19% Similarity=0.118 Sum_probs=21.6
Q ss_pred ChHHHHHHHHHHHHhCCC----C-CEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRP----G-DAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~----~-a~v~llhV 74 (247)
...+++.+++|+++|+.. + .+|+++|=
T Consensus 139 r~~~~Ri~r~Af~~A~~r~~~~~~k~Vt~v~K 170 (330)
T PRK14025 139 RKASERIFRFAFEMAKRRKKMGKEGKVTCAHK 170 (330)
T ss_pred HHHHHHHHHHHHHHHHhccccCCCCeEEEEEC
Confidence 456899999999999876 3 46999885
No 108
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=50.71 E-value=43 Score=29.92 Aligned_cols=27 Identities=19% Similarity=0.230 Sum_probs=22.0
Q ss_pred ChHHHHHHHHHHHHhCCCC-CEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPG-DAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~-a~v~llhV 74 (247)
...+++.+++|+++|+..+ .+|+++|=
T Consensus 146 r~~~eRi~r~Af~~A~~r~~~~Vt~v~K 173 (334)
T PRK08997 146 RKGAERIVRFAYELARKEGRKKVTAVHK 173 (334)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEeC
Confidence 4568999999999998775 46999884
No 109
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=49.95 E-value=1.4e+02 Score=27.68 Aligned_cols=94 Identities=12% Similarity=0.005 Sum_probs=50.7
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
-.+|+..|+-.+..+...|..+.. .+..|.++..- + + +..+.+++....+.
T Consensus 244 I~LVGptGvGKTTTiaKLA~~L~~-~GkkVglI~aD-t---~---------------RiaAvEQLk~yae~--------- 294 (436)
T PRK11889 244 IALIGPTGVGKTTTLAKMAWQFHG-KKKTVGFITTD-H---S---------------RIGTVQQLQDYVKT--------- 294 (436)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHH-cCCcEEEEecC-C---c---------------chHHHHHHHHHhhh---------
Confidence 346666788888888888887764 46666665431 1 0 11122222222111
Q ss_pred hhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccc
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
.++++.... ...++.+.|-.+.+..++|+|++-+-|++.....
T Consensus 295 ------lgipv~v~~-d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~ 337 (436)
T PRK11889 295 ------IGFEVIAVR-DEAAMTRALTYFKEEARVDYILIDTAGKNYRASE 337 (436)
T ss_pred ------cCCcEEecC-CHHHHHHHHHHHHhccCCCEEEEeCccccCcCHH
Confidence 166654321 2223444444433334789999999998764443
No 110
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=49.68 E-value=50 Score=30.46 Aligned_cols=60 Identities=15% Similarity=0.240 Sum_probs=36.6
Q ss_pred EEecCChHHHHHHHHHHcC---CCEEEEeecCCCccccccCcc-CC-CHHHHHhhcCCccEEEEecCCC
Q 025835 134 IVKDHDMKERLCLEVERLG---LSAVIMGSRGFGAAKKSSKSR-LG-SVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 134 v~~g~d~~~~I~~~a~~~~---~DLIVmGs~g~~~~~~~~~~~-lG-Svs~~vl~~a~~PVlvV~~~~~ 197 (247)
.+.|......|++..+..+ +|+||+++.| |.++.+ + |. -..-+.+..|++||+.==++..
T Consensus 171 ~vQG~~A~~~i~~al~~~~~~~~Dviii~RGG-GS~eDL---~~Fn~e~v~~ai~~~~~Pvis~IGHE~ 235 (438)
T PRK00286 171 LVQGEGAAASIVAAIERANARGEDVLIVARGG-GSLEDL---WAFNDEAVARAIAASRIPVISAVGHET 235 (438)
T ss_pred cCcCccHHHHHHHHHHHhcCCCCCEEEEecCC-CCHHHh---hccCcHHHHHHHHcCCCCEEEeccCCC
Confidence 4456667777776665443 5999999765 445554 2 22 2344556667899876544443
No 111
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=49.27 E-value=34 Score=28.33 Aligned_cols=49 Identities=16% Similarity=0.175 Sum_probs=32.4
Q ss_pred HHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 144 LCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 144 I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
|...+.+.+.|.|++|.+ .+...- -+..+...+=+++.+||++.|....
T Consensus 16 ia~~v~~~gtDaI~VGGS--~gvt~~---~~~~~v~~ik~~~~lPvilfp~~~~ 64 (205)
T TIGR01769 16 IAKNAKDAGTDAIMVGGS--LGIVES---NLDQTVKKIKKITNLPVILFPGNVN 64 (205)
T ss_pred HHHHHHhcCCCEEEEcCc--CCCCHH---HHHHHHHHHHhhcCCCEEEECCCcc
Confidence 566677788999999865 222222 2344555655558899999876554
No 112
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=49.22 E-value=1.3e+02 Score=26.13 Aligned_cols=61 Identities=13% Similarity=0.106 Sum_probs=35.2
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHH-hhcCCccEEEEec
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYC-VHHCVCPVIVVRF 194 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~v-l~~a~~PVlvV~~ 194 (247)
+.|+++.... + +..-.+ .++ +|+||+|...-........ -.|+..-.+ .++..+||+|+-+
T Consensus 158 ~~GI~vtlI~--D-sa~~~~---m~~--vd~VivGAD~I~~nG~v~N-KiGT~~lA~~Ak~~~vPfyV~a~ 219 (275)
T PRK08335 158 FLGIEFEVIT--D-AQLGLF---AKE--ATLALVGADNVTRDGYVVN-KAGTYLLALACHDNGVPFYVAAE 219 (275)
T ss_pred HCCCCEEEEe--c-cHHHHH---HHh--CCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEECc
Confidence 3488876443 3 122222 233 9999999976433222200 247655444 4777899999954
No 113
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=49.08 E-value=43 Score=30.24 Aligned_cols=27 Identities=11% Similarity=-0.005 Sum_probs=22.4
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+..+.+|+++|=
T Consensus 165 r~~~~Ri~r~Af~~A~~r~~~Vt~v~K 191 (358)
T PRK00772 165 REEIERIARVAFELARKRRKKVTSVDK 191 (358)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEEC
Confidence 456889999999999877678999885
No 114
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=48.92 E-value=31 Score=30.09 Aligned_cols=68 Identities=9% Similarity=0.060 Sum_probs=48.5
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++-+-..-+...+...++++.|++.+.-+|+..+.+.-.. .+..++......+.+++.+||.+-=.+.
T Consensus 17 ~yaV~AfNv~n~e~~~avi~AAee~~sPvIlq~~~~~~~~--~g~~~~~~~~~~~A~~~~VPValHLDH~ 84 (284)
T PRK12857 17 GYAVGAFNCNNMEIVQAIVAAAEAEKSPVIIQASQGAIKY--AGIEYISAMVRTAAEKASVPVALHLDHG 84 (284)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHhhh--CCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 5666556555657899999999999999999988764221 1111356677888889999998764433
No 115
>TIGR00169 leuB 3-isopropylmalate dehydrogenase. This model will not find all isopropylmalate dehydrogenases; the enzyme from Sulfolobus sp. strain 7 is more similar to mitochondrial NAD-dependent isocitrate dehydrogenases than to other known isopropylmalate dehydrogenases and was omitted to improve the specificity of the model. It scores below the cutoff and below some enzymes known not to be isopropylmalate dehydrogenase.
Probab=48.63 E-value=41 Score=30.29 Aligned_cols=27 Identities=11% Similarity=-0.033 Sum_probs=22.2
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+..+.+|+++|=
T Consensus 162 r~~~eRI~r~AF~~A~~r~~~Vt~v~K 188 (349)
T TIGR00169 162 KPEIERIARVAFEMARKRRKKVTSVDK 188 (349)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEEC
Confidence 346889999999999877668888884
No 116
>PRK08194 tartrate dehydrogenase; Provisional
Probab=48.08 E-value=38 Score=30.53 Aligned_cols=27 Identities=11% Similarity=0.057 Sum_probs=22.3
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+..+.+|+++|=
T Consensus 160 r~~~eRI~r~Af~~A~~r~~~Vt~v~K 186 (352)
T PRK08194 160 RKGTERAMRYAFELAAKRRKHVTSATK 186 (352)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 346899999999999876667999884
No 117
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.93 E-value=2.2e+02 Score=27.06 Aligned_cols=127 Identities=12% Similarity=0.048 Sum_probs=72.4
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
..|--.+|+|.+--.|....+.|.||.. .+-.|.+.- .++ .+.-+-+++..+.+.+..-+
T Consensus 377 rPYVi~fvGVNGVGKSTNLAKIayWLlq-NkfrVLIAA-CDT------------------FRsGAvEQLrtHv~rl~~l~ 436 (587)
T KOG0781|consen 377 RPYVISFVGVNGVGKSTNLAKIAYWLLQ-NKFRVLIAA-CDT------------------FRSGAVEQLRTHVERLSALH 436 (587)
T ss_pred CCeEEEEEeecCccccchHHHHHHHHHh-CCceEEEEe-ccc------------------hhhhHHHHHHHHHHHHHHhc
Confidence 3455667888888788888888888776 344443322 222 12334445555555442211
Q ss_pred hhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE
Q 025835 116 ANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
-. . -++-+.|+--. .. .++..-++||+..++|.|.|-+-||-.-..- ++++.+.-+--.-+--|+.|
T Consensus 437 ~~-~-v~lfekGYgkd----~a-~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~---lm~~l~k~~~~~~pd~i~~v 503 (587)
T KOG0781|consen 437 GT-M-VELFEKGYGKD----AA-GVAKEAIQEARNQGFDVVLIDTAGRMHNNAP---LMTSLAKLIKVNKPDLILFV 503 (587)
T ss_pred cc-h-hHHHhhhcCCC----hH-HHHHHHHHHHHhcCCCEEEEeccccccCChh---HHHHHHHHHhcCCCceEEEe
Confidence 00 0 01111122111 01 2677789999999999999999988666666 77776554444444445555
No 118
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=47.78 E-value=1.8e+02 Score=26.59 Aligned_cols=37 Identities=22% Similarity=0.196 Sum_probs=30.0
Q ss_pred CCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 35 GGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 35 ~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.+...++|+++.+.-.|.-|+-...+ .|.+|..||+.
T Consensus 177 vGs~gkvlvllSGGiDSpVAa~ll~k----rG~~V~~v~f~ 213 (381)
T PRK08384 177 IGTQGKVVALLSGGIDSPVAAFLMMK----RGVEVIPVHIY 213 (381)
T ss_pred cCCCCcEEEEEeCChHHHHHHHHHHH----cCCeEEEEEEE
Confidence 46679999999999888877655554 59999999985
No 119
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=47.68 E-value=57 Score=30.20 Aligned_cols=60 Identities=13% Similarity=0.208 Sum_probs=36.0
Q ss_pred EEecCChHHHHHHHHHH----cCCCEEEEeecCCCccccccCcc-CC-CHHHHHhhcCCccEEEEecCCC
Q 025835 134 IVKDHDMKERLCLEVER----LGLSAVIMGSRGFGAAKKSSKSR-LG-SVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 134 v~~g~d~~~~I~~~a~~----~~~DLIVmGs~g~~~~~~~~~~~-lG-Svs~~vl~~a~~PVlvV~~~~~ 197 (247)
.+.|......|++..+. .++|+||+|+.| |.++.+ + |. -...+-+..|++||+.-=+++.
T Consensus 165 ~vQG~~a~~~i~~al~~~~~~~~~dviii~RGG-Gs~eDL---~~Fn~e~~~rai~~~~~Pvis~iGHe~ 230 (432)
T TIGR00237 165 LVQGEGAVQSIVESIELANTKNECDVLIVGRGG-GSLEDL---WSFNDEKVARAIFLSKIPIISAVGHET 230 (432)
T ss_pred cccCccHHHHHHHHHHHhhcCCCCCEEEEecCC-CCHHHh---hhcCcHHHHHHHHcCCCCEEEecCcCC
Confidence 45676666666665543 347999999765 445554 2 22 2334555678888876544443
No 120
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=47.60 E-value=1.7e+02 Score=24.53 Aligned_cols=47 Identities=15% Similarity=0.045 Sum_probs=36.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 141 KERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 141 ~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
..+.-+..++.++|.||+++.....- --+-++.++..+..|++|+-.
T Consensus 49 eaav~~~~e~~~pDfvi~isPNpaaP-------GP~kARE~l~~s~~PaiiigD 95 (277)
T COG1927 49 EAAVTEMLEEFNPDFVIYISPNPAAP-------GPKKAREILSDSDVPAIIIGD 95 (277)
T ss_pred HHHHHHHHHhcCCCEEEEeCCCCCCC-------CchHHHHHHhhcCCCEEEecC
Confidence 34566778899999999998754322 135788999999999999954
No 121
>TIGR02089 TTC tartrate dehydrogenase. Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate. These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in TIGR00169 and TIGR02088, respectively.
Probab=47.01 E-value=46 Score=29.96 Aligned_cols=27 Identities=4% Similarity=-0.044 Sum_probs=22.1
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+....+|+++|=
T Consensus 163 r~~~eRi~r~Af~~A~~rr~kVt~v~K 189 (352)
T TIGR02089 163 RKGVERIMRFAFELAQKRRKHLTSATK 189 (352)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeC
Confidence 357889999999999876667999884
No 122
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=46.93 E-value=45 Score=28.57 Aligned_cols=65 Identities=20% Similarity=0.176 Sum_probs=36.8
Q ss_pred hhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh-hcCCccEEEEecCCC
Q 025835 124 VEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV-HHCVCPVIVVRFSDD 197 (247)
Q Consensus 124 ~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl-~~a~~PVlvV~~~~~ 197 (247)
.+.|+++... .+. . +..+.+ .+|.+++|...-........ ..|+..-.++ ++..+||+|+-....
T Consensus 131 ~~~GI~vtli--~Ds-a---~~~~m~--~vd~VlvGAd~V~~nG~v~n-kvGT~~~Al~A~~~~vPv~V~~~s~K 196 (253)
T PRK06372 131 VKSGIDVVLL--TDA-S---MCEAVL--NVDAVIVGSDSVLYDGGLIH-KNGTFPLALCARYLKKPFYSLTISMK 196 (253)
T ss_pred HHCCCCEEEE--ehh-H---HHHHHH--hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEEeeccc
Confidence 3448887533 231 1 222233 39999999986432222200 2466555444 777899999865433
No 123
>PRK06801 hypothetical protein; Provisional
Probab=46.73 E-value=40 Score=29.40 Aligned_cols=67 Identities=10% Similarity=-0.053 Sum_probs=49.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+......+ ..+......+.+++..||.+-=.+
T Consensus 17 ~yaV~Afn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~--~~~~~~~~~~a~~~~vpV~lHlDH 83 (286)
T PRK06801 17 GYALGAFNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISL--ESLVEAVKFEAARHDIPVVLNLDH 83 (286)
T ss_pred CceEEEEeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCH--HHHHHHHHHHHHHCCCCEEEECCC
Confidence 6666566555657899999999999999999998765432221 145778889999999998776433
No 124
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=46.61 E-value=46 Score=24.45 Aligned_cols=43 Identities=16% Similarity=0.179 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC-CccEEEEec
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC-VCPVIVVRF 194 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a-~~PVlvV~~ 194 (247)
++...++.+++.++.+||+-+.. |.++..+.+.- .|||+++-+
T Consensus 4 ia~aa~~~A~~~~ak~Ivv~T~s------------G~ta~~isk~RP~~pIiavt~ 47 (117)
T PF02887_consen 4 IARAAVELAEDLNAKAIVVFTES------------GRTARLISKYRPKVPIIAVTP 47 (117)
T ss_dssp HHHHHHHHHHHHTESEEEEE-SS------------SHHHHHHHHT-TSSEEEEEES
T ss_pred HHHHHHHHHHhcCCCEEEEECCC------------chHHHHHHhhCCCCeEEEEcC
Confidence 45667888888888888887753 44566666664 488888854
No 125
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=46.58 E-value=1.3e+02 Score=28.06 Aligned_cols=90 Identities=19% Similarity=0.111 Sum_probs=49.3
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||..|+. .+ .|..|+|+++....... ...... .|..+.+.++.+.|.+
T Consensus 7 DLRl~DN~aL~~A~~----~~-~vlpvyi~dp~~~~~~~-----------~~~~~~--------~fl~~sL~~L~~~L~~ 62 (475)
T TIGR02766 7 DLRVEDNPALAAAAR----AG-PVIPVFVWAPEEEGQYY-----------PGRVSR--------WWLKQSLAHLDQSLRS 62 (475)
T ss_pred CCCcchHHHHHHHHh----CC-CEEEEEEechHHhcccc-----------ccHHHH--------HHHHHHHHHHHHHHHH
Confidence 455556677766653 23 68888887653211000 001111 1222223333344444
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.|++..+ ..++++.+.|.+.+++++++-|..-..
T Consensus 63 ~G~~L~v--~~~g~~~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 63 LGTCLVT--IRSTDTVAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred cCCceEE--EeCCCHHHHHHHHHHHcCCCEEEEecc
Confidence 4666543 333478999999999999998877654
No 126
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=46.36 E-value=1.4e+02 Score=23.32 Aligned_cols=24 Identities=17% Similarity=0.246 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGF 163 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~ 163 (247)
....|.+.++++++++|++|....
T Consensus 71 ~a~al~~~i~~~~p~~Vl~~~t~~ 94 (168)
T cd01715 71 YAPALVALAKKEKPSHILAGATSF 94 (168)
T ss_pred HHHHHHHHHHhcCCCEEEECCCcc
Confidence 467788888888999999998754
No 127
>PRK08576 hypothetical protein; Provisional
Probab=46.06 E-value=2.5e+02 Score=26.13 Aligned_cols=31 Identities=16% Similarity=0.088 Sum_probs=24.8
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
+|+|++.|...|..++..+.+... .+.++|+
T Consensus 236 rVvVafSGGKDStvLL~La~k~~~----~V~aV~i 266 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKAFG----DVTAVYV 266 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHhCC----CCEEEEe
Confidence 899999999999999987776543 2677776
No 128
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=45.82 E-value=1.9e+02 Score=24.69 Aligned_cols=48 Identities=19% Similarity=0.050 Sum_probs=35.5
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
+.+......+++++|++|+.+.... ... -.-++.++..+.+|++|+-.
T Consensus 48 ~~~~~~~~~~~~~pDf~i~isPN~a-~PG------P~~ARE~l~~~~iP~IvI~D 95 (277)
T PRK00994 48 VEEVVKKMLEEWKPDFVIVISPNPA-APG------PKKAREILKAAGIPCIVIGD 95 (277)
T ss_pred HHHHHHHHHHhhCCCEEEEECCCCC-CCC------chHHHHHHHhcCCCEEEEcC
Confidence 3445566778899999999987532 221 24688999999999999964
No 129
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=45.77 E-value=42 Score=29.20 Aligned_cols=68 Identities=12% Similarity=-0.010 Sum_probs=49.1
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
.++-+-..-+.......++++.|++.+.-+|+..+.+.-....+ .+++.......+.+.+||.+-=.+
T Consensus 16 ~~yaV~Afn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~--~~~~~~~~~~a~~~~vpv~lHlDH 83 (281)
T PRK06806 16 ENYGVGAFSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPL--HLIGPLMVAAAKQAKVPVAVHFDH 83 (281)
T ss_pred CCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCCh--HHHHHHHHHHHHHCCCCEEEECCC
Confidence 36676666666667899999999999999999988754221111 135677788899999998765333
No 130
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=45.73 E-value=1.3e+02 Score=28.30 Aligned_cols=89 Identities=21% Similarity=0.154 Sum_probs=50.0
Q ss_pred cCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 025835 46 DLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPLVE 125 (247)
Q Consensus 46 D~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 125 (247)
|+.-....||.+|+...... +++|.+.++.... .+ .......+ .+.+..+.+.|.+
T Consensus 11 DLR~~DN~aL~~A~~~~~~~---~~~vfi~~~~~~~--~~-----------~~~~~~Fl--------~~sL~~L~~~L~~ 66 (461)
T COG0415 11 DLRLTDNAALAAACQSGQPV---IIAVFILDPEQLG--HA-----------SPRHAAFL--------LQSLQALQQSLAE 66 (461)
T ss_pred ccccCChHHHHHHHhcCCCc---eEEEEEechhhcc--cc-----------CHHHHHHH--------HHHHHHHHHHHHH
Confidence 56666778888888755432 2555555432211 00 01111222 2223333333444
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.|++ ..+..| ++...|.+++++.+++-|+-...
T Consensus 67 ~gi~--L~v~~~-~~~~~l~~~~~~~~~~~v~~n~~ 99 (461)
T COG0415 67 LGIP--LLVREG-DPEQVLPELAKQLAATTVFWNRD 99 (461)
T ss_pred cCCc--eEEEeC-CHHHHHHHHHHHhCcceEEeeee
Confidence 4555 556667 79999999999999887777655
No 131
>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=45.57 E-value=1.8e+02 Score=24.17 Aligned_cols=61 Identities=8% Similarity=-0.006 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCC----ccccccCccCCCHHHHHhhcCCccEEEEecCCCCCc
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFG----AAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDKDA 200 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~----~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~~~ 200 (247)
..+.|++.+...++++||+-+-..- ......-..+-....++.+...|.|+++........
T Consensus 99 ~~~~l~~~~~~~~~~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g~avl~v~H~~K~~~ 163 (239)
T cd01125 99 EFERIIEQLLIRRIDLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTGAAILLVHHVRKGSA 163 (239)
T ss_pred HHHHHHHHHHhcCCCEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhCCEEEEEeccCcccc
Confidence 4566777777789999999954210 000000000112233455667899999987665543
No 132
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=45.53 E-value=29 Score=26.35 Aligned_cols=42 Identities=19% Similarity=0.172 Sum_probs=35.6
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCC
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTS 78 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~ 78 (247)
..++|+|+-|....|....+.++.-+...|.+|..+...++|
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~tP 80 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVPTP 80 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-HH
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccCcH
Confidence 468999999999999999999999999999999999865543
No 133
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=45.52 E-value=2.3e+02 Score=25.59 Aligned_cols=35 Identities=9% Similarity=0.160 Sum_probs=26.7
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
..++|+|++.+.-.|.-++.+... .+.+|+.+|+.
T Consensus 4 ~~~kVlVa~SGGvDSsv~a~lL~~----~G~eV~av~~~ 38 (362)
T PRK14664 4 SKKRVLVGMSGGIDSTATCLMLQE----QGYEIVGVTMR 38 (362)
T ss_pred CCCEEEEEEeCCHHHHHHHHHHHH----cCCcEEEEEec
Confidence 347999999999888887765433 46788888873
No 134
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=45.50 E-value=49 Score=30.05 Aligned_cols=27 Identities=19% Similarity=0.174 Sum_probs=22.0
Q ss_pred ChHHHHHHHHHHHHhCCCCC-EEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGD-AVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a-~v~llhV 74 (247)
...+++.+++|+++|+..+. +|+++|=
T Consensus 183 r~~~eRIar~AF~~A~~r~~k~Vt~v~K 210 (372)
T PLN00118 183 RQASLRVAEYAFHYAKTHGRKRVSAIHK 210 (372)
T ss_pred HHHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 45789999999999987754 5999884
No 135
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=45.49 E-value=37 Score=29.59 Aligned_cols=68 Identities=6% Similarity=0.081 Sum_probs=48.6
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++-+-..-+.......++++.|++.+.-+|+.-+.+.-. ..+..++......+.+++.+||.+-=.+.
T Consensus 17 ~yaV~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~--~~g~~~~~~~~~~~a~~~~VPValHLDH~ 84 (284)
T PRK12737 17 GYAVPAFNIHNLETLQVVVETAAELRSPVILAGTPGTFS--YAGTDYIVAIAEVAARKYNIPLALHLDHH 84 (284)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHh--hCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 666656656665789999999999999999988765422 12111356678889999999988764333
No 136
>PF03746 LamB_YcsF: LamB/YcsF family; InterPro: IPR005501 This entry represents the uncharacterised protein family UPF0271, including LamB. The lam locus of Emericella nidulans (Aspergillus nidulans) consists of two divergently transcribed genes, lamA and lamB, involved in the utilization of lactams such as 2-pyrrolidinone. Both genes are under the control of the positive regulatory gene amdR and are subject to carbon and nitrogen metabolite repression []. The exact molecular function of the proteins in this family is unknown.; PDB: 1V6T_A 1XW8_A 2XU2_A 2DFA_A.
Probab=45.43 E-value=1.8e+02 Score=24.80 Aligned_cols=130 Identities=14% Similarity=0.189 Sum_probs=61.1
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEE-ecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhh
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHV-RPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAN 117 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 117 (247)
...=||..+-......++.++.+|+..|..| ..|. ++.. .+++...+.. ..++....+..++..+ +
T Consensus 28 ~saNIACG~HAGDp~~M~~tv~lA~~~gV~i-GAHPsyPD~--~gFGRr~m~~-----s~~el~~~v~yQigaL-----~ 94 (242)
T PF03746_consen 28 SSANIACGFHAGDPETMRRTVRLAKEHGVAI-GAHPSYPDR--EGFGRRSMDI-----SPEELRDSVLYQIGAL-----Q 94 (242)
T ss_dssp SEEEEE-SSSS--HHHHHHHHHHHHHTT-EE-EEE---S-T--TTTT-S----------HHHHHHHHHHHHHHH-----H
T ss_pred hhHHHhhcccccCHHHHHHHHHHHHHcCCEe-ccCCCCCCC--CCCCCCCCCC-----CHHHHHHHHHHHHHHH-----H
Confidence 3444666677777888889999999877544 3454 2222 1222221111 1233333333332221 1
Q ss_pred hhhhhhhhCCCceEEEEEec---------CChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCcc
Q 025835 118 DLAQPLVEAQIPFKIHIVKD---------HDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCP 188 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g---------~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~P 188 (247)
. -+...|.++..+-..| ...+..|++.++.++.+|.++|..+ |...+..+....+
T Consensus 95 ~---~a~~~g~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~ag-------------s~~~~~A~~~Gl~ 158 (242)
T PF03746_consen 95 A---IAAAEGVPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLAG-------------SELEKAAKELGLP 158 (242)
T ss_dssp H---HHHHTT--EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEETT-------------SHHHHHHHHCT--
T ss_pred H---HHHHcCCeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcCC-------------cHHHHHHHHCCCc
Confidence 1 1123377766554444 2468889999999999999999763 3444555555666
Q ss_pred EEEEecCCC
Q 025835 189 VIVVRFSDD 197 (247)
Q Consensus 189 VlvV~~~~~ 197 (247)
++.==..++
T Consensus 159 ~~~E~FADR 167 (242)
T PF03746_consen 159 VVFEAFADR 167 (242)
T ss_dssp EEEEEETTB
T ss_pred EEEEEEEcc
Confidence 654433333
No 137
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=44.39 E-value=1.4e+02 Score=24.45 Aligned_cols=37 Identities=22% Similarity=0.160 Sum_probs=24.2
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCC
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTS 78 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~ 78 (247)
..++|+.+.+.-+|.-|. ++..+.|.+|..||....+
T Consensus 3 ~gk~l~LlSGGiDSpVAa----~lm~krG~~V~~l~f~~~~ 39 (197)
T PF02568_consen 3 QGKALALLSGGIDSPVAA----WLMMKRGCEVIALHFDSPP 39 (197)
T ss_dssp T-EEEEE-SSCCHHHHHH----HHHHCBT-EEEEEEEE-TT
T ss_pred CceEEEEecCCccHHHHH----HHHHHCCCEEEEEEEECCC
Confidence 468888888877776554 4445579999999987443
No 138
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=44.36 E-value=2.2e+02 Score=24.88 Aligned_cols=85 Identities=14% Similarity=0.067 Sum_probs=52.6
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
..+||+|-+.++..+..++-++.+.-. .+++|.+| +... .... +..+
T Consensus 92 ~~~kiavl~Sg~g~nl~al~~~~~~~~-l~~~i~~v--isn~-------------------~~~~----~~A~------- 138 (289)
T PRK13010 92 QRPKVVIMVSKFDHCLNDLLYRWRMGE-LDMDIVGI--ISNH-------------------PDLQ----PLAV------- 138 (289)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHCCC-CCcEEEEE--EECC-------------------hhHH----HHHH-------
Confidence 456999999999999999988876333 45555444 3221 1111 1111
Q ss_pred hhhhhhhhhCCCceEEEEEecC---ChHHHHHHHHHHcCCCEEEEeecC
Q 025835 117 NDLAQPLVEAQIPFKIHIVKDH---DMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g~---d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
+.|+++...-.... +....+++..+++++|++|+..-.
T Consensus 139 --------~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagym 179 (289)
T PRK13010 139 --------QHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARYM 179 (289)
T ss_pred --------HcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehhh
Confidence 22788664321111 234578899999999999998643
No 139
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1.
Probab=44.34 E-value=51 Score=29.44 Aligned_cols=27 Identities=22% Similarity=0.305 Sum_probs=21.6
Q ss_pred ChHHHHHHHHHHHHhCCCCC-EEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGD-AVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a-~v~llhV 74 (247)
...+++.+++|+++|+..+. +|+++|=
T Consensus 144 r~~~eRi~r~Af~~A~~r~~k~Vt~v~K 171 (333)
T TIGR00175 144 RDKSERIARYAFEYARKNGRKKVTAVHK 171 (333)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 44688899999999987754 5999884
No 140
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=44.17 E-value=44 Score=29.13 Aligned_cols=68 Identities=4% Similarity=0.031 Sum_probs=49.0
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+.-....+ ..+......+.+++.+||.+-=.+.
T Consensus 15 ~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~--~~~~~~~~~~a~~~~VPValHLDHg 82 (282)
T TIGR01858 15 GYAVPAFNIHNLETIQAVVETAAEMRSPVILAGTPGTFKHAGT--EYIVALCSAASTTYNMPLALHLDHH 82 (282)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCH--HHHHHHHHHHHHHCCCCEEEECCCC
Confidence 6666555555657899999999999999999988754221111 1356788889999999998764333
No 141
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=43.10 E-value=46 Score=29.04 Aligned_cols=68 Identities=6% Similarity=0.039 Sum_probs=48.2
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+.- ...+-..+......+.+++.+||.+-=.+.
T Consensus 17 ~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~--~~~~~~~~~~~~~~~a~~~~VPValHLDHg 84 (286)
T PRK12738 17 GYAVPAFNIHNAETIQAILEVCSEMRSPVILAGTPGTF--KHIALEEIYALCSAYSTTYNMPLALHLDHH 84 (286)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcCcchh--hhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 66665555556578999999999999999998776542 211111346778888999999998764333
No 142
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=42.96 E-value=2.2e+02 Score=25.06 Aligned_cols=61 Identities=18% Similarity=0.306 Sum_probs=34.6
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHH-HhhcCCccEEEEec
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDY-CVHHCVCPVIVVRF 194 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~-vl~~a~~PVlvV~~ 194 (247)
+.|+++.... +. . +....++ +|.|++|...-...+.... ..|+..-. +.++...||+|+-+
T Consensus 169 ~~GI~vtlI~--Ds-a---v~~~m~~--vd~VivGAd~v~~nG~v~n-kiGT~~~A~~Ak~~~vPv~V~a~ 230 (310)
T PRK08535 169 EYGIPVTLIV--DS-A---VRYFMKD--VDKVVVGADAITANGAVIN-KIGTSQIALAAHEARVPFMVAAE 230 (310)
T ss_pred HCCCCEEEEe--hh-H---HHHHHHh--CCEEEECccEEecCCCEEe-HHhHHHHHHHHHHhCCCEEEecc
Confidence 3388876543 31 2 2222233 9999999986433222200 24654444 44667899999854
No 143
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=42.66 E-value=73 Score=23.25 Aligned_cols=38 Identities=5% Similarity=-0.160 Sum_probs=27.2
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA 166 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~ 166 (247)
|+++ ......-+.+.+++.+.+.++|+|++.......+
T Consensus 27 G~~V--~~lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~ 64 (119)
T cd02067 27 GFEV--IDLGVDVPPEEIVEAAKEEDADAIGLSGLLTTHM 64 (119)
T ss_pred CCEE--EECCCCCCHHHHHHHHHHcCCCEEEEeccccccH
Confidence 6665 3333335788999999999999999987743333
No 144
>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=42.30 E-value=73 Score=21.22 Aligned_cols=34 Identities=24% Similarity=0.226 Sum_probs=26.2
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEE
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVIL 71 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~l 71 (247)
.++|+++.|.+.....+...+...+...+..+.+
T Consensus 43 ~~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~~i 76 (79)
T cd01029 43 ARTVILAFDNDEAGKKAAARALELLLALGGRVRV 76 (79)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHHCCCEEEE
Confidence 4999999999999888888777777665555443
No 145
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=42.29 E-value=2.3e+02 Score=24.58 Aligned_cols=84 Identities=13% Similarity=0.189 Sum_probs=51.9
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
.++||+|-+.++..+..++-.+..-- ..+++|.++-. .. ..+... .+
T Consensus 83 ~~~ki~vl~Sg~g~nl~~l~~~~~~g-~l~~~i~~vis--n~-------------------~~~~~~----A~------- 129 (280)
T TIGR00655 83 KLKRVAILVSKEDHCLGDLLWRWYSG-ELDAEIALVIS--NH-------------------EDLRSL----VE------- 129 (280)
T ss_pred CCcEEEEEEcCCChhHHHHHHHHHcC-CCCcEEEEEEE--cC-------------------hhHHHH----HH-------
Confidence 45799999999999999998876532 34555554432 21 111111 11
Q ss_pred hhhhhhhhhCCCceEEEEEec---CChHHHHHHHHHHcCCCEEEEeec
Q 025835 117 NDLAQPLVEAQIPFKIHIVKD---HDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g---~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
+.|+++...-... ......+++..+++++|+||+..-
T Consensus 130 --------~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 130 --------RFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred --------HhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 1278775433211 123457888889999999999854
No 146
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=42.24 E-value=74 Score=26.95 Aligned_cols=55 Identities=15% Similarity=0.241 Sum_probs=39.5
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCCC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDK 198 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~ 198 (247)
.....|.+.+.+.+.|.|++|... +...- .+-.+..+|-.....||++.|.....
T Consensus 28 ~~~~ei~~~~~~~GTDaImIGGS~--gvt~~---~~~~~v~~ik~~~~lPvilfP~~~~~ 82 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIGGSD--GVTEE---NVDNVVEAIKERTDLPVILFPGSPSG 82 (240)
T ss_pred cccHHHHHHHHHcCCCEEEECCcc--cccHH---HHHHHHHHHHhhcCCCEEEecCChhc
Confidence 456688999999999999999653 23221 23456667766888999999876543
No 147
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=42.02 E-value=2.9e+02 Score=26.75 Aligned_cols=92 Identities=13% Similarity=0.103 Sum_probs=51.9
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCC--CccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHH
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTS--VLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTT 114 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 114 (247)
..++|+|.-|.+-..-.+.........+.|+.-+..+ ++.. ..|+. ....-+.+.+
T Consensus 68 ~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~-IP~R~~eGYGl-------------~~~~i~~~~~-------- 125 (575)
T PRK11070 68 EGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYL-VPNRFEDGYGL-------------SPEVVDQAHA-------- 125 (575)
T ss_pred CCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEE-eCCCCcCCCCC-------------CHHHHHHHHh--------
Confidence 4689999998876655555445555556665222222 2322 11211 1111111111
Q ss_pred hhhhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecC
Q 025835 115 KANDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 115 ~~~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
.+.+.-+.+-.| .-....+++|++.++|+||+..|.
T Consensus 126 -----------~~~~LiItvD~G-i~~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 126 -----------RGAQLIVTVDNG-ISSHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred -----------cCCCEEEEEcCC-cCCHHHHHHHHHCCCCEEEECCCC
Confidence 155544444445 566778888999999999999884
No 148
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=41.95 E-value=1.5e+02 Score=26.01 Aligned_cols=61 Identities=15% Similarity=0.288 Sum_probs=34.8
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHH-HhhcCCccEEEEec
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDY-CVHHCVCPVIVVRF 194 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~-vl~~a~~PVlvV~~ 194 (247)
+.|+++.... + +..-.+ .++ +|+|++|..+-...+.... ..|+..-. +.++..+||+|+-+
T Consensus 164 ~~gI~vtlI~--D-sa~~~~---m~~--vd~VivGad~v~~nG~v~n-kiGT~~lA~~Ak~~~vPv~V~a~ 225 (301)
T TIGR00511 164 DYGIPVTLIV--D-SAVRYF---MKE--VDHVVVGADAITANGALIN-KIGTSQLALAAREARVPFMVAAE 225 (301)
T ss_pred HCCCCEEEEe--h-hHHHHH---HHh--CCEEEECccEEecCCCEEE-HHhHHHHHHHHHHhCCCEEEEcc
Confidence 3488877543 3 122222 233 9999999986433222200 24654444 44667899999854
No 149
>TIGR02088 LEU3_arch isopropylmalate/isohomocitrate dehydrogenases. This family is closely related to both the LeuB genes found in TIGR00169 and the mitochondrial eukaryotic isocitrate dehydratases found in TIGR00175. All of these are included within the broader subfamily model, pfam00180.
Probab=41.20 E-value=83 Score=27.98 Aligned_cols=27 Identities=15% Similarity=0.111 Sum_probs=22.6
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+..+.+|+++|=
T Consensus 140 r~~~eRi~r~AF~~A~~r~~~Vt~v~K 166 (322)
T TIGR02088 140 REGSERIARFAFNLAKERNRKVTCVHK 166 (322)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 567899999999999877777888874
No 150
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=41.05 E-value=24 Score=30.36 Aligned_cols=61 Identities=20% Similarity=0.285 Sum_probs=30.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHH-HHhhcCCccEEEEecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSD-YCVHHCVCPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~-~vl~~a~~PVlvV~~~ 195 (247)
|+++.... +. ++..+.++ ++|+|++|...-..-+.+.. ..|+..- -+.++..+||+|+-..
T Consensus 158 gi~v~~i~--d~----~~~~~m~~-~vd~VliGad~v~~nG~v~n-k~Gt~~~a~~Ak~~~vPv~v~~~~ 219 (282)
T PF01008_consen 158 GIPVTLIP--DS----AVGYVMPR-DVDKVLIGADAVLANGGVVN-KVGTLQLALAAKEFNVPVYVLAES 219 (282)
T ss_dssp T-EEEEE---GG----GHHHHHHC-TESEEEEE-SEEETTS-EEE-ETTHHHHHHHHHHTT-EEEEE--G
T ss_pred ceeEEEEe--ch----HHHHHHHH-hCCeeEEeeeEEecCCCEee-hhhHHHHHHHHHhhCCCEEEEccc
Confidence 77755443 31 24444444 69999999975422221100 2365443 4556678999999543
No 151
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=40.80 E-value=2.7e+02 Score=25.74 Aligned_cols=34 Identities=15% Similarity=0.048 Sum_probs=24.4
Q ss_pred EEEeecCChHHHHHHHHHHHHh-CCCCCEEEEEEE
Q 025835 41 IGIAVDLSDESAFAVKWAVQNY-LRPGDAVILLHV 74 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la-~~~~a~v~llhV 74 (247)
++++--|+-.+..+...|..++ ...+..|.++..
T Consensus 225 ~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~ 259 (424)
T PRK05703 225 ALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL 259 (424)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 3444457777888889988887 555678888764
No 152
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=40.67 E-value=2.2e+02 Score=23.85 Aligned_cols=91 Identities=15% Similarity=0.106 Sum_probs=51.2
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
++++.+.+...|..|+.++.+. ...+.|+++.+..... . +. ..... ..++...+
T Consensus 2 kv~vl~SGGKDS~lAl~~~~~~----~~V~~L~~~~~~~~~s-~-~~-------h~~~~---~~~~~qA~---------- 55 (222)
T TIGR00289 2 KVAVLYSGGKDSILALYKALEE----HEVISLVGVFSENEES-Y-MF-------HSPNL---HLTDLVAE---------- 55 (222)
T ss_pred eEEEEecCcHHHHHHHHHHHHc----CeeEEEEEEcCCCCCc-c-cc-------ccCCH---HHHHHHHH----------
Confidence 5888999999999999999873 2445555555432110 0 00 00001 11111111
Q ss_pred hhhhhhCCCceEEEEEec--CChHHHHHHHHHHcCCCEEEEeec
Q 025835 120 AQPLVEAQIPFKIHIVKD--HDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g--~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.-|+++......+ .+-.+.+.+..++.+++-||.|.=
T Consensus 56 -----algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI 94 (222)
T TIGR00289 56 -----AVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAI 94 (222)
T ss_pred -----HcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCEEEECcc
Confidence 1177765444443 235556667777778999998875
No 153
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=40.64 E-value=62 Score=29.12 Aligned_cols=68 Identities=16% Similarity=-0.005 Sum_probs=47.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-cc--ccCcc------------CCCHHHHHhhcCCccEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KK--SSKSR------------LGSVSDYCVHHCVCPVIV 191 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~--~~~~~------------lGSvs~~vl~~a~~PVlv 191 (247)
++-+-..-+.......+|++.|++.+..+|+..+.+.-.. .. + + . +......+.+++.+||.+
T Consensus 20 ~yAV~AfNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~-~-~~~~~~~~~~~~~~~~~v~~~A~~~~VPVal 97 (350)
T PRK09197 20 GFALPAVNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGV-K-DDGQGAAVLGAIAGAKHVHEVAEHYGVPVIL 97 (350)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccc-c-ccchhhhhhhHHHHHHHHHHHHHHCCCCEEE
Confidence 6666566555657899999999999999999988764221 10 1 0 1 345677888999999877
Q ss_pred EecCC
Q 025835 192 VRFSD 196 (247)
Q Consensus 192 V~~~~ 196 (247)
-=.+.
T Consensus 98 HLDHg 102 (350)
T PRK09197 98 HTDHC 102 (350)
T ss_pred ECCCC
Confidence 64433
No 154
>COG1929 Glycerate kinase [Carbohydrate transport and metabolism]
Probab=40.00 E-value=2.9e+02 Score=25.09 Aligned_cols=59 Identities=15% Similarity=0.024 Sum_probs=36.4
Q ss_pred EEEEecCChHHHHHHHHHH-cCCCEEEEeecCCCccccccCccCCCHHHHHhhcC---CccEEEEecC
Q 025835 132 IHIVKDHDMKERLCLEVER-LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC---VCPVIVVRFS 195 (247)
Q Consensus 132 ~~v~~g~d~~~~I~~~a~~-~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a---~~PVlvV~~~ 195 (247)
.++..|.+....++.+.+. .++||||.|-. +-.. +. +.|-+.-.|.+-+ ..||+.+-..
T Consensus 263 a~l~~Gi~iV~~~~~le~~v~daDLVITGEG-r~D~-Qs---~~GK~pigVA~~Akk~~vPvIaiaGs 325 (378)
T COG1929 263 AELKSGIEIVLEATNLEDAVKDADLVITGEG-RIDS-QS---LHGKTPIGVAKLAKKYGVPVIAIAGS 325 (378)
T ss_pred CcccccHHHHHHHhCHHHhhccCCEEEeCCC-cccc-cc---cCCccchHHHHhhhhhCCCEEEEecc
Confidence 3444555544444444433 48999999954 4333 33 5677766666555 4999999764
No 155
>PRK13337 putative lipid kinase; Reviewed
Probab=39.96 E-value=92 Score=27.05 Aligned_cols=62 Identities=10% Similarity=-0.003 Sum_probs=36.3
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhc-CCccEEEEecCC
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH-CVCPVIVVRFSD 196 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~-a~~PVlvV~~~~ 196 (247)
.+++++++......-+..+.+.+.+.++|+||+.. |-+.+... ...++.. ...|+-++|...
T Consensus 31 ~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~G-GDGTl~~v--------v~gl~~~~~~~~lgiiP~GT 93 (304)
T PRK13337 31 AGYETSAHATTGPGDATLAAERAVERKFDLVIAAG-GDGTLNEV--------VNGIAEKENRPKLGIIPVGT 93 (304)
T ss_pred cCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEEc-CCCHHHHH--------HHHHhhCCCCCcEEEECCcC
Confidence 37777777666444555566666566788877664 33444443 3333322 346888888543
No 156
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=39.91 E-value=2.6e+02 Score=24.59 Aligned_cols=34 Identities=26% Similarity=0.231 Sum_probs=27.5
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
++++|++.|.-.|.-++.++... .|.+++.+|+-
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~---~G~~v~av~vd 50 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA---IGDRLTCVFVD 50 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH---hCCCEEEEEEe
Confidence 78999999999998888777553 35689999985
No 157
>PRK13054 lipid kinase; Reviewed
Probab=39.87 E-value=1.6e+02 Score=25.48 Aligned_cols=62 Identities=15% Similarity=0.209 Sum_probs=36.4
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhc---CCccEEEEecCC
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH---CVCPVIVVRFSD 196 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~---a~~PVlvV~~~~ 196 (247)
.++++++.......-+..+.+.+...++|.||+.. |-+.+... ...++.. ..+|+-++|...
T Consensus 30 ~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~G-GDGTl~ev--------v~~l~~~~~~~~~~lgiiP~GT 94 (300)
T PRK13054 30 EGHTLHVRVTWEKGDAARYVEEALALGVATVIAGG-GDGTINEV--------ATALAQLEGDARPALGILPLGT 94 (300)
T ss_pred cCCEEEEEEecCCCcHHHHHHHHHHcCCCEEEEEC-CccHHHHH--------HHHHHhhccCCCCcEEEEeCCc
Confidence 37777765554323355566666566788887664 33444443 4444432 358899998644
No 158
>cd03557 L-arabinose_isomerase L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=39.75 E-value=1.4e+02 Score=28.22 Aligned_cols=60 Identities=15% Similarity=0.087 Sum_probs=39.5
Q ss_pred CceEEEEEecCChHHHHHHHHHHc----CCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 128 IPFKIHIVKDHDMKERLCLEVERL----GLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 128 v~v~~~v~~g~d~~~~I~~~a~~~----~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
+++++....=-+-.+.|.+..++. ++|.||+-.+.++.-+ ..-.+++...+|||+.....
T Consensus 38 ~~~~v~~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~---------~~i~~~~~l~~PvL~~~~q~ 101 (484)
T cd03557 38 LPVKIVFKPVLTTPDEILAVCREANADDNCAGVITWMHTFSPAK---------MWIAGLTALQKPLLHLHTQF 101 (484)
T ss_pred CCeEEEEccccCCHHHHHHHHHHccccCCccEEEEccCCCchHH---------HHHHHHHHcCCCEEEEccCC
Confidence 555554433223445566666664 5999999988765543 33455888899999997764
No 159
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=39.53 E-value=1.9e+02 Score=22.93 Aligned_cols=64 Identities=16% Similarity=0.095 Sum_probs=36.7
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~ 194 (247)
|....+....++.....+.+.+++.++..+ +.+.....+... --....++++.+.. -.|++++.
T Consensus 95 g~~~~~fr~P~G~~~~~~~~~l~~~G~~~v-~w~~~~~D~~~~---~~~~i~~~~~~~~~~g~Iil~Hd 159 (191)
T TIGR02764 95 GKKPTLFRPPSGAFNKAVLKAAESLGYTVV-HWSVDSRDWKNP---GVESIVDRVVKNTKPGDIILLHA 159 (191)
T ss_pred CCCCCEEECCCcCCCHHHHHHHHHcCCeEE-EecCCCCccCCC---CHHHHHHHHHhcCCCCCEEEEeC
Confidence 555555555555788889999999888743 333322222221 11234455666654 67888885
No 160
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=38.75 E-value=33 Score=30.74 Aligned_cols=53 Identities=21% Similarity=0.293 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
+...|+.+++..++|++|.|.- +.. .|+|. --|.++..|-....+|++.-=..
T Consensus 68 a~~~i~~mv~~~~pD~viaGPa-Fna-grYG~-acg~v~~aV~e~~~IP~vtaM~~ 120 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPA-FNA-GRYGV-ACGEVAKAVQEKLGIPVVTAMYE 120 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCC-cCC-chHHH-HHHHHHHHHHHhhCCCEEEEecc
Confidence 5677999999999999999975 322 23211 24778888999999999865433
No 161
>PRK09222 isocitrate dehydrogenase; Validated
Probab=38.57 E-value=58 Score=30.64 Aligned_cols=27 Identities=19% Similarity=0.155 Sum_probs=22.4
Q ss_pred ChHHHHHHHHHHHHhCCCCC-EEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGD-AVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a-~v~llhV 74 (247)
...+++.++||+++|+..+. +|+++|=
T Consensus 148 r~~~eRI~r~AFe~A~~r~rkkVt~v~K 175 (482)
T PRK09222 148 RPGSEKIIRYAFEYARANGRKKVTCLTK 175 (482)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 45799999999999988764 6999884
No 162
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=38.54 E-value=2.6e+02 Score=24.13 Aligned_cols=104 Identities=19% Similarity=0.245 Sum_probs=53.8
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh-
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK- 115 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~- 115 (247)
...+++|++.+.-.|...+..|... .|.++..+.|..+. . +.. ..+.+.....+ +.-++
T Consensus 16 ~~~kv~vAfSGGvDSslLa~la~~~---lG~~v~AvTv~sP~-~--------p~~----e~e~A~~~A~~----iGi~H~ 75 (269)
T COG1606 16 EKKKVVVAFSGGVDSSLLAKLAKEA---LGDNVVAVTVDSPY-I--------PRR----EIEEAKNIAKE----IGIRHE 75 (269)
T ss_pred hcCeEEEEecCCccHHHHHHHHHHH---hccceEEEEEecCC-C--------Chh----hhhHHHHHHHH----hCCcce
Confidence 3459999999988887777666553 34667777765421 1 110 11111111111 10000
Q ss_pred -hh-hhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 116 -AN-DLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 116 -~~-~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.+ ....+-...+..-.+.+..- .+.+.|.+.+++.++|.|+=|+.
T Consensus 76 ~i~~~~~~~~~~~n~~~rCY~CK~-~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 76 FIKMNRMDPEFKENPENRCYLCKR-AVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred eeehhhcchhhccCCCCcchHHHH-HHHHHHHHHHHHcCCCEEEeCCc
Confidence 00 00000000011222333333 46789999999999999999986
No 163
>cd00947 TBP_aldolase_IIB Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1,6-bisphosphate. There is an absolute requirement for a divalent metal ion, usually zinc, and in addition the enzymes are activated by monovalent cations such as Na+. The type A and type B Class II FBPA's differ in the presence and absence of distinct indels in the sequence that result in differing loop lengths in the structures.
Probab=38.50 E-value=56 Score=28.35 Aligned_cols=69 Identities=9% Similarity=-0.010 Sum_probs=48.8
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
.++-+-..-+...+...++++.|++.+..+|+.-+.+.-....+ ..+......+.+.+.+||.+-=.+.
T Consensus 11 ~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~--~~~~~~~~~~a~~~~VPV~lHLDH~ 79 (276)
T cd00947 11 GGYAVGAFNINNLETLKAILEAAEETRSPVILQISEGAIKYAGL--ELLVAMVKAAAERASVPVALHLDHG 79 (276)
T ss_pred CCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCH--HHHHHHHHHHHHHCCCCEEEECCCC
Confidence 36666556555557899999999999999999887754221111 1356677888889999998864443
No 164
>PRK14974 cell division protein FtsY; Provisional
Probab=38.37 E-value=2.8e+02 Score=24.81 Aligned_cols=92 Identities=13% Similarity=0.116 Sum_probs=50.1
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
-++++..++-.+..+...|..+. ..+..|.++.. ++ + +..+..++....+.
T Consensus 143 i~~~G~~GvGKTTtiakLA~~l~-~~g~~V~li~~-Dt---~---------------R~~a~eqL~~~a~~--------- 193 (336)
T PRK14974 143 IVFVGVNGTGKTTTIAKLAYYLK-KNGFSVVIAAG-DT---F---------------RAGAIEQLEEHAER--------- 193 (336)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEecC-Cc---C---------------cHHHHHHHHHHHHH---------
Confidence 34556667777777777776554 34566666442 11 0 12222333322221
Q ss_pred hhhhhhCCCceEEEEEecCChHHH---HHHHHHHcCCCEEEEeecCCCccc
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKER---LCLEVERLGLSAVIMGSRGFGAAK 167 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~---I~~~a~~~~~DLIVmGs~g~~~~~ 167 (247)
.++++.. ...+.++... .+++++..++|+|++-+.|+....
T Consensus 194 ------lgv~v~~-~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~ 237 (336)
T PRK14974 194 ------LGVKVIK-HKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMHTD 237 (336)
T ss_pred ------cCCceec-ccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccCCc
Confidence 1555542 2234455543 345666778999999999886543
No 165
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=37.89 E-value=30 Score=26.47 Aligned_cols=58 Identities=16% Similarity=0.138 Sum_probs=39.0
Q ss_pred CChHHHHHHHHHHcCCCEEEEeecCCC-c-cccccCccCCCHHHHHhhcC-CccEEEEecCC
Q 025835 138 HDMKERLCLEVERLGLSAVIMGSRGFG-A-AKKSSKSRLGSVSDYCVHHC-VCPVIVVRFSD 196 (247)
Q Consensus 138 ~d~~~~I~~~a~~~~~DLIVmGs~g~~-~-~~~~~~~~lGSvs~~vl~~a-~~PVlvV~~~~ 196 (247)
....+.|.+++++++++.||+|-.-.. + ....++ ..-..++.+-... .+||..+-...
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~-~v~~f~~~L~~~~~~ipV~~~DEr~ 97 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQAR-RVRKFAEELKKRFPGIPVILVDERL 97 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHH-HHHHHHHHHHHHH-TSEEEEEECSC
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHH-HHHHHHHHHHHhcCCCcEEEECCCh
Confidence 358899999999999999999986321 1 111000 1234556777776 89999996544
No 166
>TIGR00930 2a30 K-Cl cotransporter.
Probab=37.87 E-value=4.8e+02 Score=27.00 Aligned_cols=127 Identities=14% Similarity=0.112 Sum_probs=73.8
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhh
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAND 118 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 118 (247)
-+|||.+.........++++-.+.+ ...-+++.||...+.. ...++.+ ...+....+.+
T Consensus 576 PqiLvl~~~p~~~~~Ll~f~~~l~~-~~gl~i~~~v~~~~~~--------------~~~~~~~-~~~~~~~~~~~----- 634 (953)
T TIGR00930 576 PQCLVLTGPPVCRPALLDFASQFTK-GKGLMICGSVIQGPRL--------------ECVKEAQ-AAEAKIQTWLE----- 634 (953)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHhcc-CCcEEEEEEEecCchh--------------hhHHHHH-HHHHHHHHHHH-----
Confidence 5789999888788889999888884 3456777788754210 0011111 11122222221
Q ss_pred hhhhhhhCCCceEEEEEecCChHHHHHHHHHHc-----CCCEEEEeecCCCcccccc----CccCCCHHHHHhhcCCccE
Q 025835 119 LAQPLVEAQIPFKIHIVKDHDMKERLCLEVERL-----GLSAVIMGSRGFGAAKKSS----KSRLGSVSDYCVHHCVCPV 189 (247)
Q Consensus 119 ~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~-----~~DLIVmGs~g~~~~~~~~----~~~lGSvs~~vl~~a~~PV 189 (247)
..+++.-..++.+.++.+.+....+.. +++.|+||-... +++-. +.++ .+... ......-|
T Consensus 635 ------~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~~--w~~~~~~~~~~y~-~~i~~-a~~~~~~v 704 (953)
T TIGR00930 635 ------KNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKKD--WRQAEPRAWETYI-GIIHD-AFDAHLAV 704 (953)
T ss_pred ------HhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCccc--hhhccchhHHHHH-HHHHH-HHHcCCcE
Confidence 125665566777778888888888775 588999997632 11100 0011 12222 23567889
Q ss_pred EEEecCC
Q 025835 190 IVVRFSD 196 (247)
Q Consensus 190 lvV~~~~ 196 (247)
+|+|..+
T Consensus 705 ~i~r~~~ 711 (953)
T TIGR00930 705 VVVRNSE 711 (953)
T ss_pred EEEcccc
Confidence 9998743
No 167
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=37.59 E-value=91 Score=26.99 Aligned_cols=123 Identities=19% Similarity=0.169 Sum_probs=73.3
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCC-ccCC-CcccchhhhcchhhHHHHHHHHHHHHHHHHHhhh
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSV-LYGA-DWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAN 117 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 117 (247)
.++++=-.|-++..-+..++...+..|+.+.-.-++.+.. .|.+ +++ ++..+.+.+..+
T Consensus 46 ~~viAGPCsvEs~E~i~~~A~~vk~~Ga~~lRGgafKPRTSPYsFQGlg-----------e~gL~~l~~a~~-------- 106 (286)
T COG2876 46 LRVIAGPCSVESEEQVRETAESVKAAGAKALRGGAFKPRTSPYSFQGLG-----------EEGLKLLKRAAD-------- 106 (286)
T ss_pred eEEEecCcccCCHHHHHHHHHHHHHcchhhccCCcCCCCCCcccccccC-----------HHHHHHHHHHHH--------
Confidence 4566656688888888888888888888888777775432 2221 122 344444444433
Q ss_pred hhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccc---ccc---Cc-----cCC-------CHHH
Q 025835 118 DLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAK---KSS---KS-----RLG-------SVSD 179 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~---~~~---~~-----~lG-------Svs~ 179 (247)
+.|..+.+.+..-. - ++.+.++ +|+|=+|.|.+..+. ..| |. -++ .-++
T Consensus 107 -------~~Gl~vvtEvm~~~-~----~e~~~~y-~DilqvGARNMQNF~LLke~G~~~kPvLLKRg~~aTieEwL~AAE 173 (286)
T COG2876 107 -------ETGLPVVTEVMDVR-D----VEAAAEY-ADILQVGARNMQNFALLKEVGRQNKPVLLKRGLSATIEEWLNAAE 173 (286)
T ss_pred -------HcCCeeEEEecCHH-H----HHHHHhh-hhHHHhcccchhhhHHHHHhcccCCCeEEecCccccHHHHHHHHH
Confidence 23888888876553 2 2333333 688889988764432 111 00 012 2467
Q ss_pred HHhhcCCccEEEEec
Q 025835 180 YCVHHCVCPVIVVRF 194 (247)
Q Consensus 180 ~vl~~a~~PVlvV~~ 194 (247)
||+.+..--|+++-+
T Consensus 174 YI~s~GN~~vILCER 188 (286)
T COG2876 174 YILSHGNGNVILCER 188 (286)
T ss_pred HHHhCCCCcEEEEec
Confidence 888888777777744
No 168
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=37.35 E-value=1.6e+02 Score=21.23 Aligned_cols=60 Identities=12% Similarity=-0.051 Sum_probs=35.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
|.++. +.......+.+.+.+++.++|+|.+...-...+... -...+.+=+..+...+++-
T Consensus 28 G~~v~--~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~-----~~l~~~~k~~~p~~~iv~G 87 (121)
T PF02310_consen 28 GHEVD--ILDANVPPEELVEALRAERPDVVGISVSMTPNLPEA-----KRLARAIKERNPNIPIVVG 87 (121)
T ss_dssp TBEEE--EEESSB-HHHHHHHHHHTTCSEEEEEESSSTHHHHH-----HHHHHHHHTTCTTSEEEEE
T ss_pred CCeEE--EECCCCCHHHHHHHHhcCCCcEEEEEccCcCcHHHH-----HHHHHHHHhcCCCCEEEEE
Confidence 66544 444433468899999999999999988533333332 3455554444454444443
No 169
>cd00946 FBP_aldolase_IIA Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is homodimeric and used in gluconeogenesis and glycolysis. The type A and type B Class II FBPA's differ in the presence and absence of distinct indels in the sequence that result in differing loop lengths in the structures.
Probab=37.26 E-value=74 Score=28.58 Aligned_cols=70 Identities=10% Similarity=-0.047 Sum_probs=46.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-cccc------------CccCCCHHHHHhhcCCccEEEEe
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KKSS------------KSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~------------~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
++-+-..-+.......++++.|++.+..+|+.-+.+.... ...+ ...++.....+.+++.+||.+-=
T Consensus 15 ~yAV~AfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPValHL 94 (345)
T cd00946 15 GFAIPAVNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEHYGVPVVLHT 94 (345)
T ss_pred CceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEEEC
Confidence 5555555555556899999999999999999998763211 1100 00134566788889999987764
Q ss_pred cCC
Q 025835 194 FSD 196 (247)
Q Consensus 194 ~~~ 196 (247)
.+.
T Consensus 95 DHg 97 (345)
T cd00946 95 DHC 97 (345)
T ss_pred CCC
Confidence 333
No 170
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=36.83 E-value=93 Score=27.00 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=29.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
++++.-..+.-....+.|..+.+++.+|+||+..|.
T Consensus 128 ~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 128 GVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred CCceEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 777776666555688999999999999999998764
No 171
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=36.12 E-value=50 Score=29.80 Aligned_cols=21 Identities=10% Similarity=0.058 Sum_probs=12.2
Q ss_pred hHHHHHHHHHHcCCCEEEEee
Q 025835 140 MKERLCLEVERLGLSAVIMGS 160 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs 160 (247)
....+++.|++.++|+||++.
T Consensus 28 ~f~~~l~~a~~~~vD~vliAG 48 (390)
T COG0420 28 AFDELLEIAKEEKVDFVLIAG 48 (390)
T ss_pred HHHHHHHHHHHccCCEEEEcc
Confidence 344456666666666666664
No 172
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=36.11 E-value=95 Score=23.65 Aligned_cols=29 Identities=10% Similarity=-0.061 Sum_probs=23.2
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccc
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAK 167 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~ 167 (247)
-+.+.+++.|.++++|+|.+.+--.+.+.
T Consensus 37 v~~e~~v~aa~~~~adiVglS~L~t~~~~ 65 (128)
T cd02072 37 SPQEEFIDAAIETDADAILVSSLYGHGEI 65 (128)
T ss_pred CCHHHHHHHHHHcCCCEEEEeccccCCHH
Confidence 37799999999999999999876444443
No 173
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=36.01 E-value=3.2e+02 Score=24.48 Aligned_cols=33 Identities=15% Similarity=0.199 Sum_probs=26.8
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
++|+|++.+...|.-++.++.+ .+.+|+.+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEE
Confidence 4799999999999888877666 35688888884
No 174
>PF13362 Toprim_3: Toprim domain
Probab=35.93 E-value=92 Score=21.77 Aligned_cols=38 Identities=24% Similarity=0.209 Sum_probs=29.2
Q ss_pred CCCCeEEEeecCChH--HHHHHHHHHHHhCCCCCEEEEEE
Q 025835 36 GAHRKIGIAVDLSDE--SAFAVKWAVQNYLRPGDAVILLH 73 (247)
Q Consensus 36 ~~~k~ILVavD~S~~--s~~al~~A~~la~~~~a~v~llh 73 (247)
...++|+|+.|.... ...+...+.+.+...+..+.++-
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~ 78 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVE 78 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEEC
Confidence 367999999998887 77777777777777777666654
No 175
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=35.91 E-value=75 Score=28.73 Aligned_cols=27 Identities=19% Similarity=0.050 Sum_probs=21.6
Q ss_pred ChHHHHHHHHHHHHhCCCC-CEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPG-DAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~-a~v~llhV 74 (247)
...+++.+++|+++|+..+ -+|+++|=
T Consensus 167 r~~~eRIar~AF~~A~~r~rkkVt~v~K 194 (360)
T PLN00123 167 KFCSERIAKYAFEYAYLNNRKKVTAVHK 194 (360)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcEEEEEC
Confidence 5679999999999997653 46999884
No 176
>PHA02031 putative DnaG-like primase
Probab=35.67 E-value=59 Score=28.06 Aligned_cols=37 Identities=8% Similarity=-0.147 Sum_probs=31.6
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
.++|+++.|++.....|...|+.++...+..+.++..
T Consensus 206 ~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~l 242 (266)
T PHA02031 206 CPRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIIT 242 (266)
T ss_pred CCCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEEC
Confidence 4899999999999999999999998877777666554
No 177
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=35.61 E-value=1.8e+02 Score=21.44 Aligned_cols=36 Identities=22% Similarity=0.112 Sum_probs=24.9
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
||++++=.++...-.+..+..+++..|-+++.+-..
T Consensus 1 ~vv~~~~~gd~H~lG~~~~~~~l~~~G~~vi~lG~~ 36 (122)
T cd02071 1 RILVAKPGLDGHDRGAKVIARALRDAGFEVIYTGLR 36 (122)
T ss_pred CEEEEecCCChhHHHHHHHHHHHHHCCCEEEECCCC
Confidence 456666666666667777777777778877776654
No 178
>PRK11914 diacylglycerol kinase; Reviewed
Probab=35.35 E-value=1.4e+02 Score=25.93 Aligned_cols=60 Identities=12% Similarity=0.083 Sum_probs=33.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++.+..+......-+..+.+.+...++|+||+.. |-+.+... ...+. ....|+-++|...
T Consensus 39 g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~G-GDGTi~ev--------v~~l~-~~~~~lgiiP~GT 98 (306)
T PRK11914 39 GVDVVEIVGTDAHDARHLVAAALAKGTDALVVVG-GDGVISNA--------LQVLA-GTDIPLGIIPAGT 98 (306)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEEC-CchHHHHH--------hHHhc-cCCCcEEEEeCCC
Confidence 6666655544433455566666666788777664 33444443 22222 4567888887543
No 179
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=35.35 E-value=80 Score=26.84 Aligned_cols=60 Identities=20% Similarity=0.135 Sum_probs=31.9
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCc---cccccCc-cCC-------------------CHHHHHhhcCCccEEEEecC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGA---AKKSSKS-RLG-------------------SVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~---~~~~~~~-~lG-------------------Svs~~vl~~a~~PVlvV~~~ 195 (247)
+..+.+++.+.+.++|+||+-..-... -..+.+. +-+ -.-=+.+....||+++||.+
T Consensus 19 e~l~~l~~~~~e~~~D~~v~~G~~~~~~a~~~e~~~a~~~~r~p~k~~i~~e~~~~~e~~~~ff~~L~~~~~p~~~vPG~ 98 (255)
T PF14582_consen 19 ELLERLVEVIPEKGPDAVVFVGDLLKAEARSDEYERAQEEQREPDKSEINEEECYDSEALDKFFRILGELGVPVFVVPGN 98 (255)
T ss_dssp HHHHHHHHHHHHHT-SEEEEES-SS-TCHHHHHHHHHHHTT----THHHHHHHHHHHHHHHHHHHHHHCC-SEEEEE--T
T ss_pred HHHHHHHhhccccCCCEEEEeccccccchhhhHHHHHhhhccCcchhhhhhhhhhhHHHHHHHHHHHHhcCCcEEEecCC
Confidence 467778888888999998876432111 0111000 000 02235678899999999998
Q ss_pred CCC
Q 025835 196 DDK 198 (247)
Q Consensus 196 ~~~ 198 (247)
.+.
T Consensus 99 ~Da 101 (255)
T PF14582_consen 99 MDA 101 (255)
T ss_dssp TS-
T ss_pred CCc
Confidence 876
No 180
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=35.34 E-value=91 Score=27.18 Aligned_cols=36 Identities=14% Similarity=0.170 Sum_probs=29.7
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
++++.-..+.-....+.|.++.+++.+|.||+-.|.
T Consensus 129 ~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 164 (287)
T PF05582_consen 129 GIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGHD 164 (287)
T ss_pred CCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCch
Confidence 777776666555688999999999999999998764
No 181
>PRK06395 phosphoribosylamine--glycine ligase; Provisional
Probab=35.31 E-value=2e+02 Score=26.53 Aligned_cols=23 Identities=17% Similarity=0.049 Sum_probs=16.2
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHH
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQN 61 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~l 61 (247)
|.++||| =++-....++.|+++.
T Consensus 1 ~~~kVLv--lG~G~re~al~~~l~~ 23 (435)
T PRK06395 1 MTMKVML--VGSGGREDAIARAIKR 23 (435)
T ss_pred CceEEEE--ECCcHHHHHHHHHHHh
Confidence 3468888 2556678888888854
No 182
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=34.91 E-value=3e+02 Score=23.70 Aligned_cols=29 Identities=14% Similarity=-0.109 Sum_probs=20.9
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEEecC
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHVRPT 77 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV~~~ 77 (247)
.+....++++|..+.. .+..+...+.+.+
T Consensus 37 ie~~~~~~~~A~~lk~-~g~~~~r~~~~kp 65 (266)
T PRK13398 37 VESEEQMVKVAEKLKE-LGVHMLRGGAFKP 65 (266)
T ss_pred CCCHHHHHHHHHHHHH-cCCCEEEEeeecC
Confidence 4456677788777766 6788888887764
No 183
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=34.68 E-value=63 Score=28.17 Aligned_cols=67 Identities=9% Similarity=0.058 Sum_probs=47.6
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
++-+-..-+.......++++.|++.+.-+|+.-+.+.- +..+..++......+.+++.+||.+-=.+
T Consensus 17 ~yaV~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~--~~~g~~~~~~~~~~~A~~~~VPV~lHLDH 83 (284)
T PRK09195 17 GYAVPAFNIHNLETMQVVVETAAELHSPVIIAGTPGTF--SYAGTEYLLAIVSAAAKQYHHPLALHLDH 83 (284)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcChhHH--hhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 55555555555578999999999999999999877542 21211134667888999999998775433
No 184
>PLN02329 3-isopropylmalate dehydrogenase
Probab=34.57 E-value=63 Score=29.76 Aligned_cols=26 Identities=8% Similarity=-0.023 Sum_probs=21.8
Q ss_pred hHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 49 DESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 49 ~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
..+++.+++|+++|+..+.+|+++|=
T Consensus 211 ~~~eRI~r~AFe~A~~r~~kVT~v~K 236 (409)
T PLN02329 211 HEIDRIARVAFETARKRRGKLCSVDK 236 (409)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEEEC
Confidence 56999999999999877668888884
No 185
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=34.35 E-value=91 Score=26.11 Aligned_cols=36 Identities=17% Similarity=-0.009 Sum_probs=30.9
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEE
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLH 73 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llh 73 (247)
.++|++|.|++.....|...+..++...|..+.++.
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~ 189 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIE 189 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEe
Confidence 479999999999999999999999987787766654
No 186
>PRK00074 guaA GMP synthase; Reviewed
Probab=34.08 E-value=4.1e+02 Score=25.16 Aligned_cols=35 Identities=17% Similarity=0.218 Sum_probs=28.0
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.++|+|++.+...|.-++..+.+.. +.++..+|+-
T Consensus 215 ~~~vlva~SGGvDS~vll~ll~~~l---g~~v~av~vd 249 (511)
T PRK00074 215 DKKVILGLSGGVDSSVAAVLLHKAI---GDQLTCVFVD 249 (511)
T ss_pred CCcEEEEeCCCccHHHHHHHHHHHh---CCceEEEEEe
Confidence 4899999999999988887776532 5678899984
No 187
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=33.93 E-value=1.7e+02 Score=26.32 Aligned_cols=13 Identities=8% Similarity=0.191 Sum_probs=9.7
Q ss_pred CCccEEEEecCCC
Q 025835 185 CVCPVIVVRFSDD 197 (247)
Q Consensus 185 a~~PVlvV~~~~~ 197 (247)
..+|++.||-..-
T Consensus 125 ~~~p~i~VPTtag 137 (374)
T cd08189 125 PLPPLFAIPTTAG 137 (374)
T ss_pred CCCCEEEEECCCc
Confidence 3479999997653
No 188
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=33.90 E-value=64 Score=28.15 Aligned_cols=66 Identities=12% Similarity=0.026 Sum_probs=46.5
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
++-+-..-+..-....++++.|++.+.-+|+..+.+.- ...+...+......+.+++.+||.+-=.
T Consensus 17 ~yaV~AfN~~n~e~~~avi~AAe~~~sPvIl~~~~~~~--~~~g~~~~~~~~~~~A~~~~vPV~lHLD 82 (283)
T PRK07998 17 HVLAGAFNTTNLETTISILNAIERSGLPNFIQIAPTNA--QLSGYDYIYEIVKRHADKMDVPVSLHLD 82 (283)
T ss_pred CCEEEEEeeCCHHHHHHHHHHHHHhCCCEEEECcHhHH--hhCCHHHHHHHHHHHHHHCCCCEEEECc
Confidence 66665555556568899999999999999999877542 2111113456777888899999877543
No 189
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=33.89 E-value=1.4e+02 Score=25.69 Aligned_cols=62 Identities=13% Similarity=0.152 Sum_probs=36.9
Q ss_pred hhhCCCceEEEEEecCChHH--HHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE
Q 025835 123 LVEAQIPFKIHIVKDHDMKE--RLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 123 ~~~~~v~v~~~v~~g~d~~~--~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
|...|+++..+.+.|+++.+ ..++.+.+. +|+||+.. |-|.... -=+.+.+.+....|+.+-
T Consensus 30 L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~r-~D~vI~tG-GLGPT~D------DiT~e~vAka~g~~lv~~ 93 (255)
T COG1058 30 LTELGVDLARITTVGDNPDRIVEALREASER-ADVVITTG-GLGPTHD------DLTAEAVAKALGRPLVLD 93 (255)
T ss_pred HHhcCceEEEEEecCCCHHHHHHHHHHHHhC-CCEEEECC-CcCCCcc------HhHHHHHHHHhCCCcccC
Confidence 33449999999998854432 234555555 99998863 3333222 125556666666666554
No 190
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=33.83 E-value=81 Score=27.54 Aligned_cols=66 Identities=8% Similarity=-0.025 Sum_probs=46.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-ccccCccCCCHHHHHhhcC--CccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KKSSKSRLGSVSDYCVHHC--VCPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~~~~lGSvs~~vl~~a--~~PVlvV~~ 194 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+.-.. ..+ ..+......+..++ .+||.+-=.
T Consensus 17 ~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~--~~~~~~~~~~a~~~~~~VPV~lHLD 85 (288)
T TIGR00167 17 GYAIPAFNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGL--GAISAMVKAMSEAYPYGVPVALHLD 85 (288)
T ss_pred CceEEEEEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCH--HHHHHHHHHHHHhccCCCcEEEECC
Confidence 6666666666667899999999999999999987764221 111 13466777888888 889877533
No 191
>PRK02929 L-arabinose isomerase; Provisional
Probab=33.71 E-value=1.7e+02 Score=27.69 Aligned_cols=58 Identities=16% Similarity=0.134 Sum_probs=37.8
Q ss_pred CceEEEEEecCChHHHHHHHHHHcC----CCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 128 IPFKIHIVKDHDMKERLCLEVERLG----LSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 128 v~v~~~v~~g~d~~~~I~~~a~~~~----~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
+++++....=-+-.+.|.+.+++.+ +|.||+-.+.++.-+ ..-.+++...+|||+...
T Consensus 44 ~~~~vv~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~---------~~i~~~~~l~~PvL~~~~ 105 (499)
T PRK02929 44 LPVKIVLKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPAK---------MWIRGLSALQKPLLHLHT 105 (499)
T ss_pred CCeEEEEcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchHH---------HHHHHHHHcCCCEEEEec
Confidence 4555542221233455556666655 999999988765543 344568888999999977
No 192
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=33.55 E-value=3.4e+02 Score=24.03 Aligned_cols=59 Identities=10% Similarity=0.128 Sum_probs=34.7
Q ss_pred CCceEEEEEecC---ChHHHHHHHHHHcCCCEEE-EeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDH---DMKERLCLEVERLGLSAVI-MGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~---d~~~~I~~~a~~~~~DLIV-mGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++.+.+.+..+. +..+.+.+.+++.++|+|| +|.. +.+ .++..+.....+|++.||-..
T Consensus 49 ~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGG--s~~---------D~aK~ia~~~~~p~i~VPTta 111 (349)
T cd08550 49 IIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGG--KTL---------DTAKAVADRLDKPIVIVPTIA 111 (349)
T ss_pred CCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCc--HHH---------HHHHHHHHHcCCCEEEeCCcc
Confidence 565555444443 2455678888888999877 5532 211 123333333468999999754
No 193
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=33.42 E-value=78 Score=27.51 Aligned_cols=66 Identities=9% Similarity=-0.031 Sum_probs=45.7
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-ccccCccCCCHHHHHhhcCC-ccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KKSSKSRLGSVSDYCVHHCV-CPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~~~~lGSvs~~vl~~a~-~PVlvV~~ 194 (247)
++-+-..-+.......++++.|++.+..+|+.-+.+.-.. ..+ ..+......+.+++. +||.+--.
T Consensus 15 ~yav~Afn~~n~e~~~avi~aAe~~~~PvIl~~~~~~~~~~~~~--~~~~~~~~~~a~~~~~vpv~lhlD 82 (282)
T TIGR01859 15 GYAVGAFNFNNLEWTQAILEAAEEENSPVIIQVSEGAIKYMGGY--KMAVAMVKTLIERMSIVPVALHLD 82 (282)
T ss_pred CceEEEEEECCHHHHHHHHHHHHHhCCCEEEEcCcchhhccCcH--HHHHHHHHHHHHHCCCCeEEEECC
Confidence 5666556555657899999999999999999887754221 101 034566777888888 88776643
No 194
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=33.40 E-value=41 Score=26.31 Aligned_cols=24 Identities=21% Similarity=0.171 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGF 163 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~ 163 (247)
-.+.|.++++++++++|++|..+.
T Consensus 51 ~~~~l~~~i~~~kP~vI~v~g~~~ 74 (150)
T PF14639_consen 51 DMERLKKFIEKHKPDVIAVGGNSR 74 (150)
T ss_dssp HHHHHHHHHHHH--SEEEE--SST
T ss_pred HHHHHHHHHHHcCCeEEEEcCCCh
Confidence 445677888889999999965443
No 195
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=32.99 E-value=3.1e+02 Score=25.05 Aligned_cols=32 Identities=19% Similarity=0.309 Sum_probs=25.8
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
|+|++.+.-.|..++.|+.+. .+.+|+.+|+-
T Consensus 1 Vvva~SGGlDSsvll~~l~e~---~~~eV~av~~d 32 (385)
T cd01999 1 VVLAYSGGLDTSVILKWLKEK---GGYEVIAVTAD 32 (385)
T ss_pred CEEEecCCHHHHHHHHHHHHh---CCCeEEEEEEE
Confidence 578999999999999998764 34588999885
No 196
>PF02595 Gly_kinase: Glycerate kinase family; InterPro: IPR004381 This family includes glycerate kinase 2 (2.7.1.31 from EC), which catalyses the phosphorylation of (R)-glycerate to 3-phospho-(R)-glycerate in the presence of ATP. These proteins consist of two different alpha/beta domains: domain 1 has a flavodoxin-like fold, while domain 2 has a restriction enzyme-like fold (domain 2 is inserted into domain 1).; GO: 0008887 glycerate kinase activity, 0031388 organic acid phosphorylation; PDB: 3CWC_B 1TO6_A.
Probab=32.84 E-value=55 Score=29.81 Aligned_cols=61 Identities=30% Similarity=0.213 Sum_probs=36.7
Q ss_pred EEEEecCChHHHHHHHHHHc-CCCEEEEeecCCCccccccCccCCCHHHHHhhcCC---ccEEEEecCCC
Q 025835 132 IHIVKDHDMKERLCLEVERL-GLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV---CPVIVVRFSDD 197 (247)
Q Consensus 132 ~~v~~g~d~~~~I~~~a~~~-~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~---~PVlvV~~~~~ 197 (247)
..+..|.+..-.++.+-+.. ++||||.|-- +-.. +. +.|.+...|.+.+. +||++|-..-.
T Consensus 263 A~l~sG~~~v~~~~~l~~~l~~aDlVITGEG-~~D~-Qt---l~GK~p~~Va~~A~~~~vPviav~G~~~ 327 (377)
T PF02595_consen 263 AELVSGIDLVLELLGLEERLEDADLVITGEG-RLDA-QT---LAGKVPGGVARLAKKHGVPVIAVAGSVD 327 (377)
T ss_dssp -EEEEHHHHHHHHTTHHHHCCC-SEEEE--C-ECST-TT---TTTCHHHHHHCCHCCTT--EEEEECEC-
T ss_pred CEECchHHHHHHhcCHHHHhcCCCEEEECcc-cccc-cc---CCCcHHHHHHHHHHHcCCcEEEEeCCCC
Confidence 45666666555555555554 7999999964 4333 34 67999999988664 99999976543
No 197
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Probab=32.83 E-value=1.1e+02 Score=27.52 Aligned_cols=64 Identities=14% Similarity=0.201 Sum_probs=38.9
Q ss_pred hhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHH-hhcCCccEEEEecC
Q 025835 124 VEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYC-VHHCVCPVIVVRFS 195 (247)
Q Consensus 124 ~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~v-l~~a~~PVlvV~~~ 195 (247)
.+.|+++.... + .++-.+.++..+|+||+|..+-... .... -.|+..-.+ .++..+||+++-+.
T Consensus 204 ~~~GI~vtlI~--D----sa~~~~M~~~~Vd~VivGAd~I~an-Gv~N-KiGT~~lA~~Ak~~~vPfyV~ap~ 268 (339)
T PRK06036 204 MQDNIPVTLIT--D----SMAGIVMRQGMVDKVIVGADRITRD-AVFN-KIGTYTHSVLAKEHEIPFYVAAPL 268 (339)
T ss_pred HHcCCCEEEEe--h----hHHHHHhccCCCCEEEECccchhhc-Ceeh-hhhHHHHHHHHHHhCCCEEEEeec
Confidence 34488877543 2 1233444556799999999864332 1200 247666444 47778999998653
No 198
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=32.39 E-value=2.5e+02 Score=25.65 Aligned_cols=39 Identities=21% Similarity=0.234 Sum_probs=25.9
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCC
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTS 78 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~ 78 (247)
+...+.|+-+.+.-+|-- |.+++.+.|.+|..||-...+
T Consensus 173 Gt~Gk~l~LlSGGIDSPV----A~~l~mkRG~~v~~v~f~~~p 211 (383)
T COG0301 173 GTQGKVLLLLSGGIDSPV----AAWLMMKRGVEVIPVHFGNPP 211 (383)
T ss_pred ccCCcEEEEEeCCCChHH----HHHHHHhcCCEEEEEEEcCCC
Confidence 445666666666555543 455666789999999985443
No 199
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=32.39 E-value=93 Score=26.06 Aligned_cols=33 Identities=15% Similarity=0.302 Sum_probs=22.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
+..+.+. +.| .+...-+..+.+.++|.+|+|+.
T Consensus 169 ~~~~~Ie-VDG-GI~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 169 GKPIRLE-IDG-GVKADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred CCCeeEE-EEC-CCCHHHHHHHHHcCCCEEEEChh
Confidence 4444433 344 36666677777889999999975
No 200
>cd07187 YvcK_like family of mostly uncharacterized proteins similar to B.subtilis YvcK. One member of this protein family, YvcK from Bacillus subtilis, has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and the pentose phosphate pathway. In general, this family of mostly uncharacterized proteins is related to the CofD-like protein family. CofD has been characterized as a 2-phospho-L-lactate transferase involved in F420 biosynthesis. This family appears to have the same conserved phosphate binding site as the other family in this hierarchy, but a different substrate binding site.
Probab=32.13 E-value=2.4e+02 Score=24.93 Aligned_cols=60 Identities=7% Similarity=0.023 Sum_probs=36.9
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCCCCcCC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDKDAAD 202 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~~~~~ 202 (247)
.+....++..++ +|+||+|.... +.....-++=.-....++.++||++.|.+--...++.
T Consensus 164 ~~~~~a~~AI~~--AD~Iv~gPGSl--yTSI~P~Llv~gI~eAi~~s~a~kV~v~N~~~~~get 223 (308)
T cd07187 164 KANPEALEAIEE--ADLIVYGPGSL--YTSILPNLLVKGIAEAIRASKAPKVYICNLMTQPGET 223 (308)
T ss_pred CCCHHHHHHHHh--CCEEEECCCcc--HHHhhhhcCchhHHHHHHhCCCCEEEEecCCCCCCCC
Confidence 356677777755 79999997643 3322111333334455577889999998755444433
No 201
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=32.02 E-value=4.2e+02 Score=24.62 Aligned_cols=34 Identities=21% Similarity=0.035 Sum_probs=23.5
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
-++++.-++-.+..+...|..+.. .+..+.++..
T Consensus 98 I~lvG~~GsGKTTtaakLA~~L~~-~g~kV~lV~~ 131 (437)
T PRK00771 98 IMLVGLQGSGKTTTAAKLARYFKK-KGLKVGLVAA 131 (437)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEecC
Confidence 345556677788888888877664 5667777654
No 202
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=31.76 E-value=1.5e+02 Score=21.52 Aligned_cols=62 Identities=13% Similarity=0.018 Sum_probs=38.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHH-cCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVER-LGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIV 191 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~-~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlv 191 (247)
|++++........-...|.+..++ .++||||--..+....... --|...++......+|++.
T Consensus 42 Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~---~dg~~iRR~A~~~~Ip~~T 104 (112)
T cd00532 42 GIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDPRRDRCTD---EDGTALLRLARLYKIPVTT 104 (112)
T ss_pred CCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCCCcccccC---CChHHHHHHHHHcCCCEEE
Confidence 888776543211122558888888 8999999876544311111 2355666666666888875
No 203
>TIGR01826 CofD_related conserved hypothetical protein, cofD-related. This model represents a subfamily of conserved hypothetical proteins that forms a sister group to the family of CofD, (TIGR01819), LPPG:Fo 2-phospho-L-lactate transferase, an enzyme of cytochrome F420 biosynthesis. Both this family and TIGR01819 are within the scope of the pfam model pfam01933.
Probab=31.73 E-value=1.3e+02 Score=26.68 Aligned_cols=54 Identities=7% Similarity=0.110 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCC--CccccccCccCCCHHHHHhhcCCccEEEEecCCCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGF--GAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDKD 199 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~--~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~~ 199 (247)
+....++..++ +|+||+|..+. |-+..+ ++..+.+. ++.++||++.|.+--...
T Consensus 162 a~~~al~AI~~--ADlIvlgPGSlyTSIiPnL---lv~gI~eA-I~~s~a~kV~v~N~~tq~ 217 (310)
T TIGR01826 162 ALREAVEAIRE--ADLIILGPGSLYTSIIPNL---LVPEIAEA-LRESKAPKVYVCNLMTQP 217 (310)
T ss_pred CCHHHHHHHHh--CCEEEECCCcCHHHhchhc---CchhHHHH-HHhCCCCEEEEeCCCCCC
Confidence 55667777765 89999997643 223333 34445544 567889999998764333
No 204
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=31.60 E-value=1.3e+02 Score=26.31 Aligned_cols=63 Identities=14% Similarity=0.115 Sum_probs=41.3
Q ss_pred hCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 125 EAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 125 ~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
..+..+..+.....+-+..+++.+...++|+||.+.. -+.+. .++.-+..+-.-|+-++|...
T Consensus 31 ~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GG-DGTv~--------evingl~~~~~~~LgilP~GT 93 (301)
T COG1597 31 EAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGG-DGTVN--------EVANGLAGTDDPPLGILPGGT 93 (301)
T ss_pred hcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecC-cchHH--------HHHHHHhcCCCCceEEecCCc
Confidence 4488888888877546677888877779999999854 23333 344444444444477777543
No 205
>TIGR01520 FruBisAldo_II_A fructose-bisphosphate aldolase, class II, yeast/E. coli subtype. This model represents one of two deeply split, architecturally distinct clades of the family that includes class II fructose-bisphosphate aldolases, tagatose-bisphosphate aldolases, and related uncharacterized proteins. This family is well-conserved and includes characterized FBA from Saccharomyces cerevisiae, Escherichia coli, and Corynebacterium glutamicum. Proteins outside the scope of this model may also be designated as class II fructose-bisphosphate aldolases, but are well separated in an alignment-based phylogenetic tree.
Probab=31.49 E-value=1.2e+02 Score=27.49 Aligned_cols=70 Identities=10% Similarity=-0.060 Sum_probs=47.2
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-cc--c-----------cCccCCCHHHHHhhcCCccEEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KK--S-----------SKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~--~-----------~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
++-+-..-+.......++++.|++.+..+|+..+.+.-.. .. + +...+......+..++.+||.+-
T Consensus 26 ~yAVgAfNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~v~~~Ae~a~VPValH 105 (357)
T TIGR01520 26 NFAIPAINCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGAHHVHSIAEHYGVPVVLH 105 (357)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEEE
Confidence 5655555555557899999999999999999998764211 11 0 00003456778888999999876
Q ss_pred ecCC
Q 025835 193 RFSD 196 (247)
Q Consensus 193 ~~~~ 196 (247)
=.+.
T Consensus 106 LDHg 109 (357)
T TIGR01520 106 TDHC 109 (357)
T ss_pred CCCC
Confidence 4433
No 206
>PRK00919 GMP synthase subunit B; Validated
Probab=31.11 E-value=3.7e+02 Score=23.69 Aligned_cols=34 Identities=26% Similarity=0.178 Sum_probs=28.5
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
++++|++.|.-.|..++.++.+ ..|.+++.+|+-
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~---~lG~~v~aV~vD 55 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR---AIGDRLTPVFVD 55 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH---HhCCeEEEEEEE
Confidence 7999999999999998887766 246789999985
No 207
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=30.96 E-value=87 Score=28.18 Aligned_cols=66 Identities=11% Similarity=0.025 Sum_probs=47.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~ 194 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+.-.... ..++......+..++. +||.+-=.
T Consensus 17 ~yaV~AfN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g--~~~~~~~v~~~ae~~~~VPVaLHLD 83 (347)
T PRK13399 17 GYGVPAFNVNNMEQILAIMEAAEATDSPVILQASRGARKYAG--DAMLRHMVLAAAEMYPDIPICLHQD 83 (347)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCC--HHHHHHHHHHHHHhcCCCcEEEECC
Confidence 666666655565789999999999999999999876432211 1145667778888885 89877543
No 208
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.92 E-value=2.4e+02 Score=26.14 Aligned_cols=91 Identities=14% Similarity=0.179 Sum_probs=50.8
Q ss_pred EEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhh
Q 025835 42 GIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQ 121 (247)
Q Consensus 42 LVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 121 (247)
+|.+.++-.....-++|..+ ++.|-.+.|++.-. + +..+-.++.+...
T Consensus 106 fVGLqG~GKTTtc~KlA~y~-kkkG~K~~LvcaDT----F---------------RagAfDQLkqnA~------------ 153 (483)
T KOG0780|consen 106 FVGLQGSGKTTTCTKLAYYY-KKKGYKVALVCADT----F---------------RAGAFDQLKQNAT------------ 153 (483)
T ss_pred EEeccCCCcceeHHHHHHHH-HhcCCceeEEeecc----c---------------ccchHHHHHHHhH------------
Confidence 45667777666666666654 44688888888621 1 1122223332211
Q ss_pred hhhhCCCceEEEEEecCChHH---HHHHHHHHcCCCEEEEeecCCCcccc
Q 025835 122 PLVEAQIPFKIHIVKDHDMKE---RLCLEVERLGLSAVIMGSRGFGAAKK 168 (247)
Q Consensus 122 ~~~~~~v~v~~~v~~g~d~~~---~I~~~a~~~~~DLIVmGs~g~~~~~~ 168 (247)
..++++-..-.+. +++. .=++..++.++|+||+-+.|+.....
T Consensus 154 ---k~~iP~ygsyte~-dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~ 199 (483)
T KOG0780|consen 154 ---KARVPFYGSYTEA-DPVKIASEGVDRFKKENFDVIIVDTSGRHKQEA 199 (483)
T ss_pred ---hhCCeeEeccccc-chHHHHHHHHHHHHhcCCcEEEEeCCCchhhhH
Confidence 1156655443333 3443 33455566789999999888765443
No 209
>TIGR00127 nadp_idh_euk isocitrate dehydrogenase, NADP-dependent, eukaryotic type. This model does not discriminate cytosolic, mitochondrial, and chloroplast proteins. However, the model starts very near the amino end of the cytosolic form; the finding of additional amino-terminal sequence may indicate a transit peptide.
Probab=30.83 E-value=79 Score=29.11 Aligned_cols=27 Identities=11% Similarity=-0.133 Sum_probs=22.8
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+..+.+|+++|=
T Consensus 185 ~~~~eRIar~AF~~A~~~~~~Vt~v~K 211 (409)
T TIGR00127 185 DESIEGFAHSSFQLALEKKWPLYLSTK 211 (409)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEcC
Confidence 367999999999999887778888884
No 210
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=30.75 E-value=3.2e+02 Score=25.00 Aligned_cols=35 Identities=9% Similarity=-0.008 Sum_probs=24.9
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCC---CCCEEEEEEE
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLR---PGDAVILLHV 74 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~---~~a~v~llhV 74 (247)
-++|+.-|+-.+..+.+.|..+... .+..|.+++.
T Consensus 177 i~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~ 214 (388)
T PRK12723 177 FILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITI 214 (388)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEec
Confidence 3455556777888888888776643 4678888886
No 211
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=30.73 E-value=3.6e+02 Score=23.41 Aligned_cols=85 Identities=13% Similarity=0.163 Sum_probs=51.3
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
..+||+|.+.++-....+|-.+...- ..+++|.+|-. .. ...... .+
T Consensus 88 ~~~ri~vl~Sg~gsnl~al~~~~~~~-~~~~~i~~vis--n~-------------------~~~~~l----A~------- 134 (286)
T PRK06027 88 ERKRVVILVSKEDHCLGDLLWRWRSG-ELPVEIAAVIS--NH-------------------DDLRSL----VE------- 134 (286)
T ss_pred cCcEEEEEEcCCCCCHHHHHHHHHcC-CCCcEEEEEEE--cC-------------------hhHHHH----HH-------
Confidence 45789999988888888887765532 24566555443 21 111111 11
Q ss_pred hhhhhhhhhCCCceEEEEEe---cCChHHHHHHHHHHcCCCEEEEeecC
Q 025835 117 NDLAQPLVEAQIPFKIHIVK---DHDMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~---g~d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
+.|+++...-.. -.+....+.+..+++++|+||+..-.
T Consensus 135 --------~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 135 --------RFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred --------HhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence 227887553221 11245578888999999999998654
No 212
>PF01884 PcrB: PcrB family; InterPro: IPR008205 This entry represents geranylgeranylglyceryl phosphate (GGGP) synthase, which is a prenyltransferase that catalyses the transfer of the geranylgeranyl moiety of geranylgeranyl diphosphate (GGPP) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P). This reaction is the first ether-bond-formation step in the biosynthesis of archaeal membrane lipids. This entry also matches putative glycerol-1-phosphate prenyltransferases that may catalyse the transfer of a prenyl moiety to sn-glycerol-1-phosphate (G1P) []. Some of the prokaryotic proteins in this family are related to pcrB. The Staphylococcus aureus chromosomal gene pcrA encodes a protein with significant similarity (40% identity) to two Escherichia coli helicases: the helicase II encoded by the uvrD gene and the Rep helicase. PcrB gene seems to belong to an operon containing at least one other gene, pcrBA, downstream from pcrB []. The PcrB proteins often contain an FMN binding site although the function of these proteins is still unknown.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 1VIZ_A 2F6X_B 2F6U_B 3VKD_A 3VKA_A 3VK5_B 3VKC_B 3VKB_B.
Probab=30.57 E-value=1e+02 Score=26.03 Aligned_cols=56 Identities=21% Similarity=0.161 Sum_probs=34.8
Q ss_pred cCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCCCC
Q 025835 137 DHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDKD 199 (247)
Q Consensus 137 g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~~ 199 (247)
.....+.+++.+.+.+.|.|++|... ... -+-.+...+-+....||++.|.....-
T Consensus 17 dK~~~~~~~~~~~~~gtDai~VGGS~----~~~---~~d~vv~~ik~~~~lPvilfPg~~~~v 72 (230)
T PF01884_consen 17 DKPNPEEALEAACESGTDAIIVGGSD----TGV---TLDNVVALIKRVTDLPVILFPGSPSQV 72 (230)
T ss_dssp TSS-HHHHHHHHHCTT-SEEEEE-ST----HCH---HHHHHHHHHHHHSSS-EEEETSTCCG-
T ss_pred CCCCcHHHHHHHHhcCCCEEEECCCC----Ccc---chHHHHHHHHhcCCCCEEEeCCChhhc
Confidence 33456667777788899999999875 122 223455566666899999998665543
No 213
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=29.92 E-value=71 Score=28.70 Aligned_cols=27 Identities=15% Similarity=0.058 Sum_probs=21.8
Q ss_pred ChHHHHHHHHHHHHhCCCC-CEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPG-DAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~-a~v~llhV 74 (247)
...+++.+++|+++|+..+ .+|+++|=
T Consensus 159 r~~~~RIa~~AF~~A~~r~~k~Vt~v~K 186 (344)
T PRK03437 159 AFGVERVVRDAFERAQKRPRKHLTLVHK 186 (344)
T ss_pred HHHHHHHHHHHHHHHHhCCCCeEEEEEC
Confidence 4568999999999998764 46999884
No 214
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=29.84 E-value=1.2e+02 Score=22.35 Aligned_cols=36 Identities=8% Similarity=-0.015 Sum_probs=27.1
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFG 164 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~ 164 (247)
|+++ .......+.+.+++.+.+.++|.|++......
T Consensus 27 G~~v--i~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~~ 62 (122)
T cd02071 27 GFEV--IYTGLRQTPEEIVEAAIQEDVDVIGLSSLSGG 62 (122)
T ss_pred CCEE--EECCCCCCHHHHHHHHHHcCCCEEEEcccchh
Confidence 5553 34444458889999999999999999887543
No 215
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=29.77 E-value=1.1e+02 Score=25.77 Aligned_cols=33 Identities=18% Similarity=0.234 Sum_probs=22.5
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
+..+.+. +.| .+...-+..+.+.++|.+|+|+.
T Consensus 177 ~~~~~Ie-VDG-GI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 177 RVEKLIS-IDG-SMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred CCCceEE-EEC-CCCHHHHHHHHHCCCCEEEEChh
Confidence 5554433 345 36666666777889999999965
No 216
>PRK04148 hypothetical protein; Provisional
Probab=29.73 E-value=2.4e+02 Score=21.59 Aligned_cols=42 Identities=12% Similarity=0.132 Sum_probs=29.7
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcccc
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKK 168 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~ 168 (247)
+..+-..+....++-.-|++.|++.++||+|.--.+-.....
T Consensus 77 ~a~liysirpp~el~~~~~~la~~~~~~~~i~~l~~e~~~~~ 118 (134)
T PRK04148 77 NAKLIYSIRPPRDLQPFILELAKKINVPLIIKPLSGEEPIKE 118 (134)
T ss_pred cCCEEEEeCCCHHHHHHHHHHHHHcCCCEEEEcCCCCCCCcc
Confidence 445555555555677889999999999999987766544433
No 217
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=29.69 E-value=1.4e+02 Score=27.76 Aligned_cols=59 Identities=17% Similarity=0.266 Sum_probs=37.0
Q ss_pred EEecCChHHHHHHHHHH---c-CCCEEEEeecCCCccccccCcc--CCCHHHHHhhcCCccEEEEecCC
Q 025835 134 IVKDHDMKERLCLEVER---L-GLSAVIMGSRGFGAAKKSSKSR--LGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 134 v~~g~d~~~~I~~~a~~---~-~~DLIVmGs~g~~~~~~~~~~~--lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
.+.|......|++..+. . .+|+||+|..| |.++.+ + ---...+-+..|.+||+--=++.
T Consensus 171 ~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGG-GSiEDL---W~FNdE~vaRAi~~s~iPvISAVGHE 235 (440)
T COG1570 171 LVQGEGAAEEIVEAIERANQRGDVDVLIVARGG-GSIEDL---WAFNDEIVARAIAASRIPVISAVGHE 235 (440)
T ss_pred cccCCCcHHHHHHHHHHhhccCCCCEEEEecCc-chHHHH---hccChHHHHHHHHhCCCCeEeecccC
Confidence 45676677777665533 3 49999999654 666665 3 12234466677889997543333
No 218
>PRK08299 isocitrate dehydrogenase; Validated
Probab=29.60 E-value=78 Score=29.09 Aligned_cols=26 Identities=12% Similarity=-0.110 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 49 DESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 49 ~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
..+++..++|+++|+..+.+|+++|=
T Consensus 185 ~~~eRIa~~AF~~A~~r~~kVt~v~K 210 (402)
T PRK08299 185 ESIRDFARASFNYGLDRKYPVYLSTK 210 (402)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEECC
Confidence 37999999999999887778888874
No 219
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=29.38 E-value=90 Score=28.69 Aligned_cols=54 Identities=7% Similarity=0.103 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
+.++|.+..+++++++|++-+..-+.+-.- =+.++.+.+ +...+||+.|..+.-
T Consensus 74 L~~~I~~~~~~~~p~~I~V~ttC~~~~IGd---Di~~v~~~~-~~~~~~vi~v~t~gf 127 (427)
T cd01971 74 LRELIKSTLSIIDADLFVVLTGCIAEIIGD---DVGAVVSEF-QEGGAPIVYLETGGF 127 (427)
T ss_pred HHHHHHHHHHhCCCCEEEEEcCCcHHHhhc---CHHHHHHHh-hhcCCCEEEEECCCc
Confidence 556666666666677776666554332221 122333333 344567777655443
No 220
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=29.34 E-value=3.9e+02 Score=24.58 Aligned_cols=58 Identities=22% Similarity=0.245 Sum_probs=45.2
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC---CccEEEEecCCC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC---VCPVIVVRFSDD 197 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a---~~PVlvV~~~~~ 197 (247)
...+++..++.+.++..+|+|+.-.+-.+..| .++.+..+.+.++- ..|++++-....
T Consensus 258 ~sleaaa~~~~~~G~~a~Il~d~ieGEArevg-~v~asiarev~~~g~Pf~~P~~llsGGET 318 (422)
T COG2379 258 LSLEAAASEARALGFKAVILGDTIEGEAREVG-RVHASIAREVARRGRPFKKPVVLLSGGET 318 (422)
T ss_pred HHHHHHHHHHHhcCCeeEEeeccccccHHHHH-HHHHHHHHHHHHcCCCCCCCEEEEECCce
Confidence 57888999999999999999997555544431 14688899999887 699999876544
No 221
>cd00453 FTBP_aldolase_II Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to yield fructose-1,6-bisphosphate. TBP-aldolase is tetrameric and produces tagarose-1,6-bisphosphate. There is an absolute requirement for a divalent metal ion, usually zinc, and in addition the enzymes are activated by monovalent cations such as Na+. Although structurally similar, the class I aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=29.22 E-value=83 Score=28.20 Aligned_cols=71 Identities=10% Similarity=-0.006 Sum_probs=47.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecC-CCcccccc-------------CccCCCHHHHHhhcCCccEEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRG-FGAAKKSS-------------KSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g-~~~~~~~~-------------~~~lGSvs~~vl~~a~~PVlvV 192 (247)
++-+-..-+.......++++.|++.+..+|+..+.+ .-.....+ -..+......+.+++.+||.+-
T Consensus 12 ~yAV~AfN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~VPV~lH 91 (340)
T cd00453 12 NFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVPVILH 91 (340)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHHHHHHHHHHHCCCCEEEE
Confidence 666656666665788999999999999999998873 21111100 0024556777888899999876
Q ss_pred ecCCC
Q 025835 193 RFSDD 197 (247)
Q Consensus 193 ~~~~~ 197 (247)
=.+..
T Consensus 92 LDH~~ 96 (340)
T cd00453 92 TDHCA 96 (340)
T ss_pred cCCCC
Confidence 44443
No 222
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=29.19 E-value=1.5e+02 Score=25.02 Aligned_cols=33 Identities=12% Similarity=0.329 Sum_probs=22.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
+.++.+.+ .| .+...-+..+.+.++|.+|+|+.
T Consensus 167 ~~~~~IeV-DG-GI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 167 GLEYLIEV-DG-SCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred CCCeEEEE-EC-CCCHHHHHHHHHcCCCEEEEChH
Confidence 55544433 44 36666666777789999999964
No 223
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=28.78 E-value=92 Score=28.93 Aligned_cols=55 Identities=22% Similarity=0.088 Sum_probs=34.8
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
+.++|.+..+++++++|++-+..-..+-.- =+.++...+-....+||+.|..+.-
T Consensus 109 L~~~I~e~~~~~~P~~I~V~ttC~~~lIGd---Di~~v~~e~~~~~~~~vi~v~t~gf 163 (456)
T TIGR01283 109 LFHAIREIVERYHPPAVFVYSTCVPGLIGD---DLEAVCKAAAEKTGIPVIPVDSEGF 163 (456)
T ss_pred HHHHHHHHHHhCCCCEEEEECCChHHHhcC---CHHHHHHHHHHHhCCCEEEEECCCC
Confidence 677788888888888888887765443222 2334444443345688888876553
No 224
>TIGR01521 FruBisAldo_II_B fructose-bisphosphate aldolase, class II, Calvin cycle subtype. Members of this family are class II examples of the enzyme fructose-bisphosphate aldolase, an enzyme both of glycolysis and (in the opposite direction) of the Calvin cycle of CO2 fixation. A deep split separates the tightly conserved yeast/E. coli/Mycobacterium subtype (all species lacking the Calvin cycle) represented by model TIGR01520 from a broader group of aldolases that includes both tagatose- and fructose-bisphosphate aldolases. This model represents a distinct, elongated, very well conserved subtype within the latter group. Most species with this aldolase subtype have the Calvin cycle.
Probab=28.72 E-value=1.1e+02 Score=27.59 Aligned_cols=67 Identities=10% Similarity=0.089 Sum_probs=47.6
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~~ 195 (247)
++-+-..-+.......+|++.|++.+.-+|+..+.+.-..-. ..++......+..++. +||.+-=.+
T Consensus 15 ~yAV~AfN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g--~~~~~~~~~~~ae~~~~VPValHLDH 82 (347)
T TIGR01521 15 GYGVPAFNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAG--APFLRHLILAAIEEYPHIPVVMHQDH 82 (347)
T ss_pred CceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCC--HHHHHHHHHHHHHhCCCCcEEEECCC
Confidence 666656655665789999999999999999999886422111 1145667778888885 898875433
No 225
>cd07044 CofD_YvcK Family of CofD-like proteins and proteins related to YvcK. CofD is a 2-phospho-L-lactate transferase that catalyzes the last step in the biosynthesis of coenzyme F(420)-0 (F(420) without polyglutamate) by transferring the lactyl phosphate moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0). F420 is a hydride carrier, important for energy metabolism of methanogenic archaea, as well as for the biosynthesis of other natural products, like tetracycline in Streptomyces. F420 and some of its precursors are also utilized as cofactors for enzymes, like DNA photolyase in Mycobacterium tuberculosis. YvcK from Bacillus subtilis is a member of a family of mostly uncharacterized proteins and has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and pentose phosphate pathway. Both families appear to have a conserved phosphate binding site, but ha
Probab=28.66 E-value=1.3e+02 Score=26.65 Aligned_cols=54 Identities=6% Similarity=0.022 Sum_probs=34.2
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
.+....++..++ +|+||+|..+. +.....-|+=.-....++.++||++.|.+--
T Consensus 163 ~~~~~~l~AI~~--ADlIvlgPGSl--yTSI~P~Llv~gi~eAi~~s~a~kV~V~ni~ 216 (309)
T cd07044 163 SPSREVLEAIEK--ADNIVIGPGSL--YTSILPNISVPGIREALKKTXAKKVYVSNIX 216 (309)
T ss_pred CCCHHHHHHHHh--CCEEEECCCcC--HHHhhhhcCcHhHHHHHHhcCCCeEEECCCC
Confidence 356667777766 79999997643 3222111333334455566899999998764
No 226
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=28.59 E-value=4.3e+02 Score=23.60 Aligned_cols=32 Identities=22% Similarity=0.237 Sum_probs=24.6
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+|+|++.+--.|..++..+.+ .+.+|+.+|+.
T Consensus 1 kVlValSGGvDSsvla~lL~~----~g~~v~~v~i~ 32 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE----QGYEVIGVFMK 32 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEe
Confidence 589999998888888766554 36678888874
No 227
>TIGR02924 ICDH_alpha isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear.
Probab=28.49 E-value=75 Score=29.83 Aligned_cols=27 Identities=15% Similarity=0.103 Sum_probs=22.3
Q ss_pred ChHHHHHHHHHHHHhCCCC-CEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPG-DAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~-a~v~llhV 74 (247)
...+++.+++|+++|+..+ .+|+++|=
T Consensus 144 r~g~eRI~r~AFe~A~~r~rkkVT~v~K 171 (473)
T TIGR02924 144 RSGSEKICRYAFEYARKHNRKKVTCLTK 171 (473)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence 4578999999999998776 46999884
No 228
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=27.99 E-value=1.1e+02 Score=26.87 Aligned_cols=65 Identities=11% Similarity=0.017 Sum_probs=44.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-ccccCccCCCHHHHHhhcC--CccEEEEe
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KKSSKSRLGSVSDYCVHHC--VCPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~~~~lGSvs~~vl~~a--~~PVlvV~ 193 (247)
++-+-..-+.......++++.|++.+..+|+..+.+.-.. ..+ ..+......+...+ ..||.+-=
T Consensus 17 ~yav~AfN~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~--~~~~~~~~~~a~~~~~~vPV~lHL 84 (293)
T PRK07315 17 GYAVGGFNTNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGY--KVCKNLIENLVESMGITVPVAIHL 84 (293)
T ss_pred CceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcH--HHHHHHHHHHHHHcCCCCcEEEEC
Confidence 5555556555657899999999999999999988764221 101 03455677788877 56877653
No 229
>PF00764 Arginosuc_synth: Arginosuccinate synthase; InterPro: IPR001518 Argininosuccinate synthase (6.3.4.5 from EC) (AS) is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate [, ]. In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterised by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity.; GO: 0004055 argininosuccinate synthase activity, 0005524 ATP binding, 0006526 arginine biosynthetic process; PDB: 1K97_A 1KP2_A 1K92_A 1KP3_A 2NZ2_A 1VL2_A 1J1Z_D 1KOR_C 1J20_D 1KH2_C ....
Probab=27.58 E-value=2.7e+02 Score=25.54 Aligned_cols=26 Identities=27% Similarity=0.374 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCc
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGA 165 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~ 165 (247)
+++.+++.|++.+++.|.=|+.|++.
T Consensus 93 Ia~~~v~~A~~~ga~~vaHG~TgkGN 118 (388)
T PF00764_consen 93 IAKKLVEVAREEGADAVAHGCTGKGN 118 (388)
T ss_dssp HHHHHHHHHHHHT-SEEE----TTSS
T ss_pred HHHHHHHHHHHcCCeEEeccCCcCCC
Confidence 57889999999999999999988765
No 230
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=27.37 E-value=1.3e+02 Score=22.36 Aligned_cols=45 Identities=18% Similarity=0.206 Sum_probs=33.2
Q ss_pred HHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 145 CLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 145 ~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
+++.-+.+++.||+|+...+.+ -++.-+...++.-.|-|++.|.+
T Consensus 54 le~~lee~~E~ivvGTG~~G~l------~l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 54 LEELLEEGPEVIVVGTGQSGML------ELSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred HHHHHhcCCcEEEEecCceeEE------EeCHHHHHHHHhcCCeEEEeCCH
Confidence 3333346899999998654443 34678889999999999998854
No 231
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=27.15 E-value=1.8e+02 Score=20.09 Aligned_cols=50 Identities=16% Similarity=0.074 Sum_probs=33.0
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcC-CccEEEEecCCC
Q 025835 141 KERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHC-VCPVIVVRFSDD 197 (247)
Q Consensus 141 ~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a-~~PVlvV~~~~~ 197 (247)
....+.+.+.+.+|+|+|...-.+ .... .+.+.+-+.. .+|++++-....
T Consensus 32 ~~~~~~~~~~~~~d~iiid~~~~~-~~~~------~~~~~i~~~~~~~~ii~~t~~~~ 82 (112)
T PF00072_consen 32 GEEALELLKKHPPDLIIIDLELPD-GDGL------ELLEQIRQINPSIPIIVVTDEDD 82 (112)
T ss_dssp HHHHHHHHHHSTESEEEEESSSSS-SBHH------HHHHHHHHHTTTSEEEEEESSTS
T ss_pred HHHHHHHhcccCceEEEEEeeecc-cccc------ccccccccccccccEEEecCCCC
Confidence 455667778889999999976432 2222 4566665555 589998874443
No 232
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=27.12 E-value=3.6e+02 Score=23.08 Aligned_cols=52 Identities=21% Similarity=0.125 Sum_probs=34.1
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++.+.+.+.+++..+|.||+..+..+.--.. .-...+-+.++.|||+=..-.
T Consensus 164 ~~~~~v~dtver~~aDaVI~tG~~TG~~~d~------~el~~a~~~~~~pvlvGSGv~ 215 (263)
T COG0434 164 SLEEAVKDTVERGLADAVIVTGSRTGSPPDL------EELKLAKEAVDTPVLVGSGVN 215 (263)
T ss_pred CHHHHHHHHHHccCCCEEEEecccCCCCCCH------HHHHHHHhccCCCEEEecCCC
Confidence 6778888889999999999876654432222 233455556678888754433
No 233
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=27.12 E-value=4.3e+02 Score=23.20 Aligned_cols=61 Identities=13% Similarity=0.143 Sum_probs=39.0
Q ss_pred CceEEEEEecC---ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCC-----HHHHHhhcCCccEEEEec
Q 025835 128 IPFKIHIVKDH---DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGS-----VSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 128 v~v~~~v~~g~---d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGS-----vs~~vl~~a~~PVlvV~~ 194 (247)
+++.+++..|. +....+++.+++.++|+|.+..+.+. .. +.|. ....|-++..+||+..-.
T Consensus 134 ~pVsvKiR~g~~~~~~~~~~a~~l~~~Gvd~i~Vh~Rt~~--~~----y~g~~~~~~~i~~ik~~~~iPVi~nGd 202 (312)
T PRK10550 134 LPVTVKVRLGWDSGERKFEIADAVQQAGATELVVHGRTKE--DG----YRAEHINWQAIGEIRQRLTIPVIANGE 202 (312)
T ss_pred cceEEEEECCCCCchHHHHHHHHHHhcCCCEEEECCCCCc--cC----CCCCcccHHHHHHHHhhcCCcEEEeCC
Confidence 55555554443 23557888888999999999765432 22 3332 366777777888877643
No 234
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=26.87 E-value=4.5e+02 Score=23.34 Aligned_cols=33 Identities=18% Similarity=0.177 Sum_probs=24.1
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.++|++.|...|..++..+... .+..+.++|+-
T Consensus 61 D~iV~lSGGkDSs~la~ll~~~---~gl~~l~vt~~ 93 (343)
T TIGR03573 61 DCIIGVSGGKDSTYQAHVLKKK---LGLNPLLVTVD 93 (343)
T ss_pred CEEEECCCCHHHHHHHHHHHHH---hCCceEEEEEC
Confidence 5999999999999887666442 35566667763
No 235
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=26.80 E-value=1.5e+02 Score=22.50 Aligned_cols=59 Identities=10% Similarity=-0.018 Sum_probs=36.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVV 192 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV 192 (247)
|+++ .-.......+.+++.+.+.++|.|+|.+...+.... +..+.+.+-.... ...+++
T Consensus 30 GfeV--i~lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~-----~~~~~~~L~~~g~~~i~viv 89 (132)
T TIGR00640 30 GFDV--DVGPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTL-----VPALRKELDKLGRPDILVVV 89 (132)
T ss_pred CcEE--EECCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHH-----HHHHHHHHHhcCCCCCEEEE
Confidence 5553 333333467889999999999999998875444332 3556666655332 333444
No 236
>PRK08349 hypothetical protein; Validated
Probab=26.77 E-value=3.4e+02 Score=21.82 Aligned_cols=33 Identities=21% Similarity=0.190 Sum_probs=26.4
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.++|+++.|...|..++.++.. .|.+|..+|+.
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d 33 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFR 33 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH----cCCeEEEEEEe
Confidence 3689999999999888866554 47899999984
No 237
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=26.70 E-value=1.1e+02 Score=20.11 Aligned_cols=26 Identities=12% Similarity=-0.011 Sum_probs=20.3
Q ss_pred CeEEEeecCChHHHHHHHHHHHHhCC
Q 025835 39 RKIGIAVDLSDESAFAVKWAVQNYLR 64 (247)
Q Consensus 39 k~ILVavD~S~~s~~al~~A~~la~~ 64 (247)
++|++++|.+.....+..+..+.+..
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhh
Confidence 57999999988888888777766553
No 238
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=26.58 E-value=1.3e+02 Score=27.17 Aligned_cols=53 Identities=19% Similarity=0.134 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFS 195 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~ 195 (247)
+.++|.+..+++++++|++-+..-+.+-.- =+.++...+-.+..+||+.|+-+
T Consensus 75 L~~~i~~~~~~~~P~~i~v~~tC~~~~iGd---Di~~v~~~~~~~~~~~vi~v~t~ 127 (406)
T cd01967 75 LKKAIKEAYERFPPKAIFVYSTCPTGLIGD---DIEAVAKEASKELGIPVIPVNCE 127 (406)
T ss_pred HHHHHHHHHHhCCCCEEEEECCCchhhhcc---CHHHHHHHHHHhhCCCEEEEeCC
Confidence 444555555555555555555443322221 12233333333334555555543
No 239
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=26.57 E-value=1.1e+02 Score=27.03 Aligned_cols=68 Identities=10% Similarity=-0.035 Sum_probs=48.1
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~~~ 196 (247)
++-+-..-+..-....++++.|++.+.-+|+..+.+. ++..+..++......+..++. +||.+-=.+.
T Consensus 16 ~yaV~AfN~~n~e~~~avi~AAe~~~sPvIlq~s~~~--~~~~g~~~~~~~~~~~a~~~~~VPValHLDHg 84 (307)
T PRK05835 16 GYGVGAFNFVNFEMLNAIFEAGNEENSPLFIQASEGA--IKYMGIDMAVGMVKIMCERYPHIPVALHLDHG 84 (307)
T ss_pred CceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccH--HhhCChHHHHHHHHHHHHhcCCCeEEEECCCC
Confidence 6666666666667899999999999999999988764 222211134567777888886 8998764333
No 240
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=26.09 E-value=1.6e+02 Score=20.35 Aligned_cols=61 Identities=18% Similarity=0.058 Sum_probs=34.2
Q ss_pred CCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEE
Q 025835 126 AQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVI 190 (247)
Q Consensus 126 ~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVl 190 (247)
.|++++..+..-++-...+.+..+...+|+||--....+... . --|-..++..-...+|++
T Consensus 29 ~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~-~---~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 29 AGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLYPLGAQP-H---EDGKALRRAAENIDIPGA 89 (90)
T ss_pred CCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCCcCccee-c---cCcHHHHHHHHHcCCCee
Confidence 388776433211112245889999999999998665322211 1 124455666666666653
No 241
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=26.06 E-value=3.6e+02 Score=21.91 Aligned_cols=52 Identities=19% Similarity=0.054 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
-...+++..++.++|.|.+-.+.... .......-.....+.+...+||+..-
T Consensus 139 ~~~~~~~~l~~~Gvd~i~v~~~~~~~--~~~~~~~~~~~~~i~~~~~ipvi~~G 190 (231)
T cd02801 139 ETLELAKALEDAGASALTVHGRTREQ--RYSGPADWDYIAEIKEAVSIPVIANG 190 (231)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCHHH--cCCCCCCHHHHHHHHhCCCCeEEEeC
Confidence 34567777788899999886543211 11000111234566677789988864
No 242
>PRK14057 epimerase; Provisional
Probab=25.98 E-value=1.6e+02 Score=25.29 Aligned_cols=34 Identities=15% Similarity=0.122 Sum_probs=22.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
+..+.+. +.| .+...-+..+.+.++|.+|+|+.-
T Consensus 191 ~~~~~Ie-VDG-GI~~~ti~~l~~aGad~~V~GSal 224 (254)
T PRK14057 191 REGKIIV-IDG-SLTQDQLPSLIAQGIDRVVSGSAL 224 (254)
T ss_pred CCCceEE-EEC-CCCHHHHHHHHHCCCCEEEEChHh
Confidence 5444433 344 366666777778899999999653
No 243
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=25.94 E-value=1.7e+02 Score=24.55 Aligned_cols=23 Identities=13% Similarity=0.218 Sum_probs=19.8
Q ss_pred ChHHHHHHHHHHcCCCEEEEeec
Q 025835 139 DMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.+...-+..+..-++|.+|+||-
T Consensus 177 GI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 177 GINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred CcCHHHHHHHHHcCCCEEEEEEE
Confidence 47788888888899999999984
No 244
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=25.90 E-value=1.4e+02 Score=27.18 Aligned_cols=55 Identities=20% Similarity=0.100 Sum_probs=30.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
+.++|.+..+++++++|++-+..-+.+-.- =+.++++.+-.+..+||+.|+.+.-
T Consensus 74 L~~~i~~~~~~~~P~~i~v~~tC~~~~iGd---Di~~v~~~~~~~~~~~vi~v~t~gf 128 (410)
T cd01968 74 LYKAILEIIERYHPKAVFVYSTCVVALIGD---DIDAVCKTASEKFGIPVIPVHSPGF 128 (410)
T ss_pred HHHHHHHHHHhCCCCEEEEECCCchhhhcc---CHHHHHHHHHHhhCCCEEEEECCCc
Confidence 666677777777777777776654332211 1223333333234677777765443
No 245
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=25.80 E-value=1.3e+02 Score=26.36 Aligned_cols=65 Identities=8% Similarity=0.013 Sum_probs=45.5
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-ccccCccCCCHHHHHhhcCC--ccEEEEe
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KKSSKSRLGSVSDYCVHHCV--CPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~~~~lGSvs~~vl~~a~--~PVlvV~ 193 (247)
++-+-..-+.......++++.|++.+.-+|+.-+.+.-.. ..+ ..+......+.+++. .||.+-=
T Consensus 17 ~yAV~AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~vPV~lHL 84 (286)
T PRK08610 17 GYAVGQYNLNNLEFTQAILEASQEENAPVILGVSEGAARYMSGF--YTVVKMVEGLMHDLNITIPVAIHL 84 (286)
T ss_pred CceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcH--HHHHHHHHHHHHHcCCCCCEEEEC
Confidence 5555555555557889999999999999999988764322 111 034667777887877 6877653
No 246
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=25.74 E-value=74 Score=29.38 Aligned_cols=54 Identities=11% Similarity=0.175 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
+...|+++++..++|++|.|.- +.. .|+|. --|.++..|-.+..+|++.-=...
T Consensus 64 a~~~i~~mv~k~~pDv~iaGPa-FNa-grYG~-acg~va~aV~e~~~IP~vtaMy~E 117 (431)
T TIGR01917 64 AKAKVLEMIKGANPDIFIAGPA-FNA-GRYGM-AAGAITKAVQDELGIKAFTAMYEE 117 (431)
T ss_pred HHHHHHHHHHhcCCCEEEEcCc-cCC-ccHHH-HHHHHHHHHHHhhCCCeEEEeccc
Confidence 3467999999999999999975 322 22210 246788888888999998765433
No 247
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=25.68 E-value=75 Score=29.37 Aligned_cols=54 Identities=13% Similarity=0.193 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
+...|+++++..++|++|.|.- +.. .|+|. --|.++..|-.+..+|++.-=...
T Consensus 64 a~~~i~~mv~k~~pDv~iaGPa-FNa-grYG~-acg~va~aV~e~~~IP~vt~My~E 117 (431)
T TIGR01918 64 AVARVLEMLKDKEPDIFIAGPA-FNA-GRYGV-ACGEICKVVQDKLNVPAVTSMYVE 117 (431)
T ss_pred HHHHHHHHHHhcCCCEEEEcCc-cCC-ccHHH-HHHHHHHHHHHhhCCCeEEEeccc
Confidence 3467999999999999999975 322 22210 246778888888999998765333
No 248
>PF01116 F_bP_aldolase: Fructose-bisphosphate aldolase class-II; InterPro: IPR000771 Fructose-bisphosphate aldolase [, ] is a glycolytic enzyme that catalyses the reversible aldol cleavage or condensation of fructose-1,6-bisphosphate into dihydroxyacetone-phosphate and glyceraldehyde 3-phosphate. There are two classes of fructose-bisphosphate aldolases with different catalytic mechanisms. Class-II aldolases [], mainly found in prokaryotes and fungi, are homodimeric enzymes, which require a divalent metal ion, generally zinc, for their activity. This family also includes the Escherichia coli galactitol operon protein, gatY, which catalyses the transformation of tagatose 1,6-bisphosphate into glycerone phosphate and D-glyceraldehyde 3-phosphate; and E. coli N-acetyl galactosamine operon protein, agaY, which catalyses the same reaction. There are two histidine residues in the first half of the sequence of these enzymes that have been shown to be involved in binding a zinc ion [].; GO: 0008270 zinc ion binding, 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3Q94_A 1RVG_B 1RV8_C 3C4U_A 3C56_B 3C52_A 2FJK_A 3N9R_P 3N9S_A 1GVF_B ....
Probab=25.67 E-value=36 Score=29.70 Aligned_cols=64 Identities=11% Similarity=0.022 Sum_probs=46.0
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
++-+=..-+.+.....++++.|++.+.-+|+.-+.+.-.... ...++.....+.+++.+||.+-
T Consensus 16 ~yAV~AfN~~n~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~--~~~~~~~~~~~a~~~~vPValH 79 (287)
T PF01116_consen 16 GYAVPAFNVYNLETARAVIEAAEELNSPVILQISPSEVKYMG--LEYLAAMVKAAAEEASVPVALH 79 (287)
T ss_dssp T-BEEEEE-SSHHHHHHHHHHHHHTTS-EEEEEEHHHHHHHH--HHHHHHHHHHHHHHSTSEEEEE
T ss_pred CCeEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcchhhhhhhh--HHHHHHHHHHHHHHcCCCEEee
Confidence 666666666666789999999999999999999875432221 1145678899999999999765
No 249
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=25.44 E-value=63 Score=29.79 Aligned_cols=23 Identities=17% Similarity=0.242 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
-.+.|+++|++.++||+|+|...
T Consensus 51 ~~~~lv~fA~~~~idl~vVGPE~ 73 (428)
T COG0151 51 DHEALVAFAKEKNVDLVVVGPEA 73 (428)
T ss_pred CHHHHHHHHHHcCCCEEEECCcH
Confidence 35779999999999999999853
No 250
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=25.32 E-value=3.2e+02 Score=24.63 Aligned_cols=51 Identities=12% Similarity=0.064 Sum_probs=37.6
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
-....++.+++..+|.|.|.-. ......+ ...+.+++..++||+++-.-.+
T Consensus 35 ng~~a~~~~~~~~PDVi~ld~e-mp~mdgl------~~l~~im~~~p~pVimvsslt~ 85 (350)
T COG2201 35 NGREAIDKVKKLKPDVITLDVE-MPVMDGL------EALRKIMRLRPLPVIMVSSLTE 85 (350)
T ss_pred CHHHHHHHHHhcCCCEEEEecc-cccccHH------HHHHHHhcCCCCcEEEEecccc
Confidence 3455677788899999999975 3333333 4678899999999999976433
No 251
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=25.24 E-value=3.5e+02 Score=23.23 Aligned_cols=61 Identities=18% Similarity=0.279 Sum_probs=34.0
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhc---CCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH---CVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~---a~~PVlvV~~~~ 196 (247)
+++++++......-+..+.+.+...++|.||+.. |-+.+... ...++.+ ..+|+-++|-..
T Consensus 27 g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~G-GDGTi~ev--------~ngl~~~~~~~~~~lgiiP~GT 90 (293)
T TIGR03702 27 GIQLHVRVTWEKGDAQRYVAEALALGVSTVIAGG-GDGTLREV--------ATALAQIRDDAAPALGLLPLGT 90 (293)
T ss_pred CCeEEEEEecCCCCHHHHHHHHHHcCCCEEEEEc-CChHHHHH--------HHHHHhhCCCCCCcEEEEcCCc
Confidence 7777666554323455566666566678776553 33444443 3444432 346788888543
No 252
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=25.08 E-value=1.7e+02 Score=22.49 Aligned_cols=61 Identities=8% Similarity=-0.060 Sum_probs=36.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~ 194 (247)
|+++.. +.-.-+.+.+++.+.++++|+|.|.+.-.+.... +..+.+.+-.+.- .+++++-.
T Consensus 29 GfeVi~--LG~~v~~e~~v~aa~~~~adiVglS~l~~~~~~~-----~~~~~~~l~~~gl~~~~vivGG 90 (134)
T TIGR01501 29 GFNVVN--LGVLSPQEEFIKAAIETKADAILVSSLYGHGEID-----CKGLRQKCDEAGLEGILLYVGG 90 (134)
T ss_pred CCEEEE--CCCCCCHHHHHHHHHHcCCCEEEEecccccCHHH-----HHHHHHHHHHCCCCCCEEEecC
Confidence 655432 2222478999999999999999998865433332 2445555544322 34455533
No 253
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=24.99 E-value=4.1e+02 Score=22.25 Aligned_cols=57 Identities=16% Similarity=0.258 Sum_probs=34.4
Q ss_pred CCceEEEEEecC-ChHHHHHHHHH---HcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 127 QIPFKIHIVKDH-DMKERLCLEVE---RLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~-d~~~~I~~~a~---~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
+.++.+....-. .-.+.+.+.++ +.++|+|||-.-|++.-.+ +.+-+.+.+||++-+
T Consensus 149 ~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r----------~~~~~~~g~PVlLsr 209 (221)
T PF07302_consen 149 GNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMR----------DIVQRALGKPVLLSR 209 (221)
T ss_pred CCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHH----------HHHHHHhCCCEEeHH
Confidence 444444444321 23455555554 4589999999887654322 355666789998743
No 254
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=24.89 E-value=97 Score=23.81 Aligned_cols=69 Identities=16% Similarity=0.239 Sum_probs=32.4
Q ss_pred CCCceEEEEEecC----ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCCCCcC
Q 025835 126 AQIPFKIHIVKDH----DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDKDAA 201 (247)
Q Consensus 126 ~~v~v~~~v~~g~----d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~~~~ 201 (247)
.|+.+...+..|. +..+-|--+.++-+...|++=-.+.+.-++| -....+..++ +||++++....+.+.
T Consensus 24 ~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D~~t~~I~ly~E~~~d~~~f-----~~~~~~a~~~--KPVv~lk~Grt~~g~ 96 (138)
T PF13607_consen 24 RGIGFSYVVSVGNEADVDFADLLEYLAEDPDTRVIVLYLEGIGDGRRF-----LEAARRAARR--KPVVVLKAGRTEAGA 96 (138)
T ss_dssp TT-EESEEEE-TT-SSS-HHHHHHHHCT-SS--EEEEEES--S-HHHH-----HHHHHHHCCC--S-EEEEE--------
T ss_pred cCCCeeEEEEeCccccCCHHHHHHHHhcCCCCCEEEEEccCCCCHHHH-----HHHHHHHhcC--CCEEEEeCCCchhhh
Confidence 3777777777664 3445555555666788888877765554444 2444555444 999999987644443
No 255
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=24.74 E-value=1.1e+02 Score=28.16 Aligned_cols=56 Identities=13% Similarity=0.108 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDDK 198 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~~ 198 (247)
+.++|.+..+++++++|++-+..-+.+-.- =+.++.+.+-....+||+.|+.+.-.
T Consensus 77 L~~aI~~~~~~~~P~~I~V~ttC~~~iIGd---Di~~v~~~~~~~~~~pvi~v~t~gf~ 132 (426)
T cd01972 77 LEDTIKEAYSRYKPKAIFVATSCATGIIGD---DVESVVEELEDEIGIPVVALHCEGFK 132 (426)
T ss_pred HHHHHHHHHHhCCCCEEEEECCChHHHhcc---CHHHHHHHHHHhhCCCEEEEeCCccC
Confidence 566677777777788777777654332221 22334444443446788877754443
No 256
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=24.73 E-value=1.5e+02 Score=25.91 Aligned_cols=65 Identities=8% Similarity=0.042 Sum_probs=45.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcc-ccccCccCCCHHHHHhhcCC--ccEEEEe
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAA-KKSSKSRLGSVSDYCVHHCV--CPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~~~~lGSvs~~vl~~a~--~PVlvV~ 193 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+.-.. ..+ ..+......+.+++. .||.+-=
T Consensus 17 ~yAV~AfN~~n~e~~~avi~AAe~~~sPvIiq~~~~~~~~~~~~--~~~~~~~~~~a~~~~~~VPV~lHL 84 (285)
T PRK07709 17 KYAVGQFNMNNLEWTQAILAAAEEEKSPVILGVSEGAARHMTGF--KTVVAMVKALIEEMNITVPVAIHL 84 (285)
T ss_pred CceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCcchhhhcCCH--HHHHHHHHHHHHHcCCCCcEEEEC
Confidence 6666566555657889999999999999999988764322 111 134567888888876 6876653
No 257
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=24.69 E-value=4.5e+02 Score=22.54 Aligned_cols=32 Identities=19% Similarity=0.096 Sum_probs=21.9
Q ss_pred EEeecCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 42 GIAVDLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 42 LVavD~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
+++.-|+-.+..+...|..++. .+.+|.++-.
T Consensus 77 l~G~~G~GKTTt~akLA~~l~~-~g~~V~li~~ 108 (272)
T TIGR00064 77 FVGVNGVGKTTTIAKLANKLKK-QGKSVLLAAG 108 (272)
T ss_pred EECCCCCcHHHHHHHHHHHHHh-cCCEEEEEeC
Confidence 3444567778888888877754 5677777653
No 258
>PRK10481 hypothetical protein; Provisional
Probab=23.96 E-value=2.6e+02 Score=23.45 Aligned_cols=56 Identities=18% Similarity=0.271 Sum_probs=34.6
Q ss_pred CCceEEEEEec-CChHHHHHHHHH---HcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEE
Q 025835 127 QIPFKIHIVKD-HDMKERLCLEVE---RLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVV 192 (247)
Q Consensus 127 ~v~v~~~v~~g-~d~~~~I~~~a~---~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV 192 (247)
|+++....... ....+.+.+.++ ..++|+||++.-|.+. + ....+-+...+||+.-
T Consensus 153 G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~--~--------~~~~le~~lg~PVI~~ 212 (224)
T PRK10481 153 QKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ--R--------HRDLLQKALDVPVLLS 212 (224)
T ss_pred CCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH--H--------HHHHHHHHHCcCEEcH
Confidence 66655433221 123345666666 5689999999988653 2 2456666778888753
No 259
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=23.91 E-value=4.5e+02 Score=22.63 Aligned_cols=62 Identities=13% Similarity=0.087 Sum_probs=38.6
Q ss_pred CCceEEEEEecCChHH--HHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEe
Q 025835 127 QIPFKIHIVKDHDMKE--RLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVR 193 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~--~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~ 193 (247)
.+++-..+. . +..+ .+.+.+++.++|.+++-.........- -+-..-..|...+++||++..
T Consensus 69 ~~pvi~gv~-~-~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~---~i~~~f~~v~~~~~~pi~lYn 132 (289)
T cd00951 69 RVPVLAGAG-Y-GTATAIAYAQAAEKAGADGILLLPPYLTEAPQE---GLYAHVEAVCKSTDLGVIVYN 132 (289)
T ss_pred CCCEEEecC-C-CHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHH---HHHHHHHHHHhcCCCCEEEEe
Confidence 455544443 2 4443 457888999999999976544322111 112334567788899999996
No 260
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.86 E-value=4.9e+02 Score=23.68 Aligned_cols=91 Identities=14% Similarity=0.109 Sum_probs=49.0
Q ss_pred EEEeecCChHHHHHHHHHHHHhCCCC-CEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025835 41 IGIAVDLSDESAFAVKWAVQNYLRPG-DAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDL 119 (247)
Q Consensus 41 ILVavD~S~~s~~al~~A~~la~~~~-a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 119 (247)
+|++--|+-.+..+.+.|..+....| ..|.++.. +.. +....+.+..+.+.
T Consensus 141 ~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~-D~~------------------R~ga~EqL~~~a~~--------- 192 (374)
T PRK14722 141 ALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT-DSY------------------RIGGHEQLRIFGKI--------- 192 (374)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec-ccc------------------cccHHHHHHHHHHH---------
Confidence 34444567777888888877766555 46655542 111 01122233222211
Q ss_pred hhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccc
Q 025835 120 AQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 120 ~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
.++++...- .+.++...+.+ -.+.|+|++-+-|++.....
T Consensus 193 ------~gv~~~~~~-~~~~l~~~l~~---l~~~DlVLIDTaG~~~~d~~ 232 (374)
T PRK14722 193 ------LGVPVHAVK-DGGDLQLALAE---LRNKHMVLIDTIGMSQRDRT 232 (374)
T ss_pred ------cCCceEecC-CcccHHHHHHH---hcCCCEEEEcCCCCCcccHH
Confidence 166655332 23355554443 34679999999998765544
No 261
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=23.55 E-value=4.5e+02 Score=24.33 Aligned_cols=89 Identities=12% Similarity=0.092 Sum_probs=0.0
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
..++++|.++.+ .++.++..++...|.++..+... ....+.+...++
T Consensus 316 ~gkrvai~~~~~----~~~~~~~~ll~elGm~v~~~~~~----------------------~~~~~~~~~~l~------- 362 (443)
T TIGR01862 316 QGKRVCLYIGGS----RLWHWIGSAEEDLGMEVVAVGYE----------------------FAHEDDYEKTMK------- 362 (443)
T ss_pred cCCeEEEECCch----hHHHHHHHHHHHCCCEEEEeccc----------------------cccHHHHHHHHH-------
Q ss_pred hhhhhhhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccc
Q 025835 117 NDLAQPLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKS 169 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~ 169 (247)
.......++.+. -...+.+.+++.++||||=+++++....++
T Consensus 363 ----------~l~~~~~~v~~~-~~~e~~~~i~~~~pdllig~s~~~~~A~~l 404 (443)
T TIGR01862 363 ----------RMGEGTLLIDDP-NELEFEEILEKLKPDIIFSGIKEKFVAQKL 404 (443)
T ss_pred ----------hCCCceEEecCC-CHHHHHHHHHhcCCCEEEEcCcchhhhhhc
No 262
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=23.49 E-value=1.3e+02 Score=26.73 Aligned_cols=67 Identities=4% Similarity=-0.035 Sum_probs=43.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcccc---ccCccCCCHHHHHhhcC--CccEEEEecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKK---SSKSRLGSVSDYCVHHC--VCPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~---~~~~~lGSvs~~vl~~a--~~PVlvV~~~ 195 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+...... + ..+......+.+++ .+||.+-=.+
T Consensus 23 ~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~g~~~~--~~~~~~~~~~a~~a~~~VPV~lHLDH 94 (321)
T PRK07084 23 GYAIPAYNFNNMEQLQAIIQACVETKSPVILQVSKGARKYANATLL--RYMAQGAVEYAKELGCPIPIVLHLDH 94 (321)
T ss_pred CceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHHhhCCchHH--HHHHHHHHHHHHHcCCCCcEEEECCC
Confidence 666656666666789999999999999999999875422111 0 01233345556665 6788765433
No 263
>PTZ00435 isocitrate dehydrogenase; Provisional
Probab=23.15 E-value=1.1e+02 Score=28.23 Aligned_cols=27 Identities=11% Similarity=-0.080 Sum_probs=22.3
Q ss_pred ChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 48 SDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 48 S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
...+++.+++|+++|+..+.+|+++|=
T Consensus 187 r~~~eRIar~AF~~A~~r~~~Vt~v~K 213 (413)
T PTZ00435 187 DESIEGFARSCFQYALDRKMPLYLSTK 213 (413)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEECC
Confidence 456889999999999887778888874
No 264
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=22.97 E-value=1.4e+02 Score=26.95 Aligned_cols=67 Identities=10% Similarity=0.070 Sum_probs=46.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEecC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~~ 195 (247)
++-+-..-+.......++++.|++.+.-+|+..+.+... ..+..++......+.+++. +||.+-=.+
T Consensus 17 ~yAVgAfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~--~~g~~~~~~~~~~~a~~~~~VPValHLDH 84 (347)
T PRK09196 17 GYGVPAFNVNNLEQVQAIMEAADETDSPVILQASAGARK--YAGEPFLRHLILAAVEEYPHIPVVMHQDH 84 (347)
T ss_pred CceEEEeeeCCHHHHHHHHHHHHHhCCCEEEECCccHhh--hCCHHHHHHHHHHHHHhCCCCcEEEECCC
Confidence 666656655565789999999999999999999876422 1111145667777887775 898765433
No 265
>PF01949 DUF99: Protein of unknown function DUF99; InterPro: IPR002802 The function of the archaebacterial proteins in this family is unknown.; PDB: 2QH9_A.
Probab=22.86 E-value=46 Score=27.13 Aligned_cols=64 Identities=22% Similarity=0.222 Sum_probs=39.1
Q ss_pred CCceEEEEEecCChHHHHHHHHHHc---CCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERL---GLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~---~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
|+-+....+.|.|..+.|+++.+.. ++.+|++..-..+++.=. -...+-+.+..||++|-....
T Consensus 36 Gv~~~~itvdG~DaT~~i~~m~~~~~r~~i~~v~LdGit~agFNii-------D~~~l~~~tg~PVI~V~~~~p 102 (187)
T PF01949_consen 36 GVAFGRITVDGMDATEAIIEMVKRLFRPDIRVVMLDGITFAGFNII-------DIERLYEETGLPVIVVMRKEP 102 (187)
T ss_dssp EEEEEEE-TT-S-HHHHHHHHHCCTTTTTEEEEEESSSEETTTEE---------HHHHHHHH---EEEEESS--
T ss_pred EEEEEEEEECCchHHHHHHHHHHhcccCcceEEEECCEeEEeeEEe-------cHHHHHHHHCCCEEEEEEeCC
Confidence 6777777888889999999999752 356666665544444322 467888899999999965443
No 266
>KOG1466 consensus Translation initiation factor 2B, alpha subunit (eIF-2Balpha/GCN3) [Translation, ribosomal structure and biogenesis]
Probab=22.80 E-value=5.1e+02 Score=22.54 Aligned_cols=56 Identities=20% Similarity=0.265 Sum_probs=35.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCC---CccccccCccCCCHHHHH-hhcCCccEEEEec
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGF---GAAKKSSKSRLGSVSDYC-VHHCVCPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~---~~~~~~~~~~lGSvs~~v-l~~a~~PVlvV~~ 194 (247)
|++++..+-. -+-|.=+ .+|+|++|..|- |++-. .+|...-.| .++.+.|+.|+-.
T Consensus 181 ~IPvtlvlDS-------aVgyvMe-~vD~VlVGAEGVvEsGGIIN----~iGTyq~~v~Ak~~~kPfYV~AE 240 (313)
T KOG1466|consen 181 GIPVTLVLDS-------AVGYVME-RVDLVLVGAEGVVESGGIIN----KIGTYQVAVCAKSMNKPFYVVAE 240 (313)
T ss_pred CCCeEEEehh-------hHHHHHh-hccEEEEccceeeecCceee----ecccchhhhhHHhcCCCeEEEee
Confidence 8887765422 2223322 489999999874 44444 257665554 5556799999954
No 267
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=22.75 E-value=3e+02 Score=19.76 Aligned_cols=23 Identities=17% Similarity=0.208 Sum_probs=19.7
Q ss_pred ChHHHHHHHHHHcCCCEEEEeec
Q 025835 139 DMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
.-.+.|.+.++..++|+||+-..
T Consensus 44 GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 44 GKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred hHHHHHHHHHhhcCCCEEEECCC
Confidence 36788999999999999999753
No 268
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=22.67 E-value=3.8e+02 Score=24.31 Aligned_cols=67 Identities=10% Similarity=0.107 Sum_probs=37.8
Q ss_pred hhhhCCCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEE
Q 025835 122 PLVEAQIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIV 191 (247)
Q Consensus 122 ~~~~~~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlv 191 (247)
...+.++.+++++ +..-..++.+.+.+.++|+|++-.+-.+.....+.... ....++++..++||++
T Consensus 127 ~vr~a~VtvkiRl--~~~~~~e~a~~l~eAGad~I~ihgrt~~q~~~sg~~~p-~~l~~~i~~~~IPVI~ 193 (369)
T TIGR01304 127 EVRDSGVITAVRV--SPQNAREIAPIVVKAGADLLVIQGTLVSAEHVSTSGEP-LNLKEFIGELDVPVIA 193 (369)
T ss_pred HHHhcceEEEEec--CCcCHHHHHHHHHHCCCCEEEEeccchhhhccCCCCCH-HHHHHHHHHCCCCEEE
Confidence 3344456666665 32356778899999999999986443221110000000 1233566777889886
No 269
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=22.65 E-value=1.5e+02 Score=25.85 Aligned_cols=68 Identities=10% Similarity=0.025 Sum_probs=46.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCcccc-ccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKK-SSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~-~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++-+=..=+.+-+...+|++.|++.+...||=.+.|.-..-. . ..+-.....++.+.++||.+-=.+.
T Consensus 17 ~yAvpAfN~~nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~--~~~~~~v~~~a~~~~vPV~lHlDHg 85 (286)
T COG0191 17 GYAVPAFNINNLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGA--DSLAHMVKALAEKYGVPVALHLDHG 85 (286)
T ss_pred CCceeeeeecCHHHHHHHHHHHHHhCCCEEEEecccHHHHhchH--HHHHHHHHHHHHHCCCCEEEECCCC
Confidence 566555555565789999999999999999999886422111 0 0223456677788889998864443
No 270
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=22.56 E-value=4.7e+02 Score=21.96 Aligned_cols=50 Identities=12% Similarity=0.028 Sum_probs=36.3
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHh
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCV 182 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl 182 (247)
|++.-+.+-.+ .+.+.|-.+..+ +|+|.+=+-.-|+-.+. |+-++.++|-
T Consensus 109 G~kaGv~lnP~-Tp~~~i~~~l~~--vD~VllMsVnPGfgGQ~---Fi~~~l~Ki~ 158 (220)
T COG0036 109 GVKAGLVLNPA-TPLEALEPVLDD--VDLVLLMSVNPGFGGQK---FIPEVLEKIR 158 (220)
T ss_pred CCeEEEEECCC-CCHHHHHHHHhh--CCEEEEEeECCCCcccc---cCHHHHHHHH
Confidence 78877777777 588989888877 79888777665555555 6666666553
No 271
>PRK08591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated
Probab=22.45 E-value=5.5e+02 Score=23.49 Aligned_cols=34 Identities=18% Similarity=0.156 Sum_probs=24.2
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
++|+||+. +.+..+...++.|.. .|.++++++.-
T Consensus 1 ~~k~iLi~-g~g~~a~~i~~aa~~----~G~~vv~~~~~ 34 (451)
T PRK08591 1 MFDKILIA-NRGEIALRIIRACKE----LGIKTVAVHST 34 (451)
T ss_pred CcceEEEE-CCCHHHHHHHHHHHH----cCCeEEEEcCh
Confidence 37899998 777777777776555 47777776553
No 272
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=22.32 E-value=5.7e+02 Score=22.89 Aligned_cols=37 Identities=11% Similarity=0.215 Sum_probs=25.5
Q ss_pred CeEEEeecCCh--------HHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 39 RKIGIAVDLSD--------ESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 39 k~ILVavD~S~--------~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.-+++.++.+- .....+.|-+..+++.|+...-++++
T Consensus 84 ~GLil~~e~tg~d~t~~gr~~~~~~~~sve~a~~~GAdAVk~lv~ 128 (340)
T PRK12858 84 CGLLLSYEKTGYDATAPGRLPDLLDNWSVRRIKEAGADAVKLLLY 128 (340)
T ss_pred CCeEEEecccccccCCCCCCccccccccHHHHHHcCCCEEEEEEE
Confidence 34777776222 23456777778888899988888886
No 273
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=22.32 E-value=1.3e+02 Score=28.63 Aligned_cols=55 Identities=7% Similarity=0.050 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
+.+.|.+..+++++++|++.+..-+.+-.= =+++++..+-....+||+.+.-+.-
T Consensus 73 L~~~I~~~~~~~~P~~I~V~tTC~~eiIGD---Di~~v~~~~~~~~~~pVi~v~t~~f 127 (513)
T CHL00076 73 VVDNITRKDKEERPDLIVLTPTCTSSILQE---DLQNFVDRASIESDSDVILADVNHY 127 (513)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCchhhhhc---CHHHHHHHhhcccCCCEEEeCCCCC
Confidence 667777777888888888888765443222 2333444433345688888876643
No 274
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=22.07 E-value=45 Score=23.52 Aligned_cols=44 Identities=11% Similarity=0.064 Sum_probs=27.8
Q ss_pred HHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEE
Q 025835 143 RLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVI 190 (247)
Q Consensus 143 ~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVl 190 (247)
.+.+..++.++||||.-......... --|...+++.-...+|++
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~----~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEH----TDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHT----HHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHHcCCeEEEEEeCCCCccccc----CCcHHHHHHHHHcCCCCc
Confidence 49999999999999988765433221 024555666666666654
No 275
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=22.04 E-value=2.5e+02 Score=24.01 Aligned_cols=44 Identities=11% Similarity=0.024 Sum_probs=29.9
Q ss_pred HHHHHHcCCCEEEEeecCCC-ccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 145 CLEVERLGLSAVIMGSRGFG-AAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 145 ~~~a~~~~~DLIVmGs~g~~-~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
..+.+++++|.||.=-+|.. ++..- + ...+...+||+||.++..
T Consensus 190 ~al~~~~~i~~lVtK~SG~~Gg~~eK---i------~AA~~lgi~vivI~RP~~ 234 (256)
T TIGR00715 190 KALLREYRIDAVVTKASGEQGGELEK---V------KAAEALGINVIRIARPQT 234 (256)
T ss_pred HHHHHHcCCCEEEEcCCCCccchHHH---H------HHHHHcCCcEEEEeCCCC
Confidence 44557889999987666542 22211 1 556778899999988865
No 276
>PRK07178 pyruvate carboxylase subunit A; Validated
Probab=21.99 E-value=6.1e+02 Score=23.55 Aligned_cols=75 Identities=15% Similarity=0.070 Sum_probs=0.0
Q ss_pred CCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhh
Q 025835 37 AHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKA 116 (247)
Q Consensus 37 ~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 116 (247)
++|||||+ ..++.+..+++++.++ |..+.+++.-+.......
T Consensus 1 ~~~kvLi~-~~geia~~ii~a~~~~----Gi~~v~v~~~~d~~a~~~--------------------------------- 42 (472)
T PRK07178 1 MIKKILIA-NRGEIAVRIVRACAEM----GIRSVAIYSEADRHALHV--------------------------------- 42 (472)
T ss_pred CCcEEEEE-CCcHHHHHHHHHHHHc----CCeEEEEeCCCccCCccH---------------------------------
Q ss_pred hhhhhhhhhCCCceEEEEEecCCh-----HHHHHHHHHHcCCCEEEEe
Q 025835 117 NDLAQPLVEAQIPFKIHIVKDHDM-----KERLCLEVERLGLSAVIMG 159 (247)
Q Consensus 117 ~~~~~~~~~~~v~v~~~v~~g~d~-----~~~I~~~a~~~~~DLIVmG 159 (247)
...-+...+..... .+.|++.|++.++|.|+-|
T Consensus 43 ----------~~aD~~~~i~~~~~~~y~d~~~i~~~a~~~~~D~I~pg 80 (472)
T PRK07178 43 ----------KRADEAYSIGADPLAGYLNPRRLVNLAVETGCDALHPG 80 (472)
T ss_pred ----------hhCCEEEEcCCCchhhhcCHHHHHHHHHHHCCCEEEeC
No 277
>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched between helical layers. It has a signature nucleotide-binding motif, or P-loop, at the end of the first-beta strand.The dimerization domain formed by the C-terminal 115 amino acid for prokaryotic proteins. It is adjacent to teh ATP-binding site of the ATP-PPase subdomain. The largest difference between the primary sequence of prokaryotic and eukaryotic GMP synthetase map to the dimerization domain.Eukaryotic GMP synthetase has several large insertions relative to prokaryotes.
Probab=21.84 E-value=5.4e+02 Score=22.46 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=26.2
Q ss_pred eEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 40 KIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 40 ~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+|+|++.|.-.|.-++..+.+. .|.+++.+|+-
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd 33 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVD 33 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEec
Confidence 5899999999998888877653 35678999984
No 278
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=21.75 E-value=1.4e+02 Score=27.87 Aligned_cols=26 Identities=12% Similarity=0.075 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 49 DESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 49 ~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
-....-|.-.++|...-.+.++|+|-
T Consensus 18 ~~~fc~~~~~~wl~~~I~Da~~lVhG 43 (457)
T CHL00073 18 YHTFCPISCVAWLYQKIEDSFFLVIG 43 (457)
T ss_pred ccccCCcceEeeecccccceeEEeec
Confidence 33444445556777777788888885
No 279
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=21.69 E-value=1.9e+02 Score=23.39 Aligned_cols=49 Identities=10% Similarity=-0.076 Sum_probs=32.7
Q ss_pred ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC---ccEEEE
Q 025835 139 DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV---CPVIVV 192 (247)
Q Consensus 139 d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~---~PVlvV 192 (247)
-+.+.|++.+++.++|+|.+.......+..+ ..+.+.+-.... ++|++-
T Consensus 120 ~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~~-----~~~i~~lr~~~~~~~~~i~vG 171 (201)
T cd02070 120 VPPEEFVEAVKEHKPDILGLSALMTTTMGGM-----KEVIEALKEAGLRDKVKVMVG 171 (201)
T ss_pred CCHHHHHHHHHHcCCCEEEEeccccccHHHH-----HHHHHHHHHCCCCcCCeEEEE
Confidence 3789999999999999999998644444333 445555544433 455554
No 280
>PRK00211 sulfur relay protein TusC; Validated
Probab=21.68 E-value=2.7e+02 Score=20.63 Aligned_cols=37 Identities=3% Similarity=0.062 Sum_probs=25.6
Q ss_pred CCeEEEeecC----ChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 38 HRKIGIAVDL----SDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 38 ~k~ILVavD~----S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
+++|++-+.. +..++.+++.|+..+... -+|.++..-
T Consensus 1 M~ki~~i~~~~Pyg~~~~~eaLd~ala~~a~~-~~v~vff~~ 41 (119)
T PRK00211 1 MKRIAFVFRQAPHGTASGREGLDALLATSAFT-EDIGVFFID 41 (119)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHHHHHhccc-CCeeEEEEh
Confidence 4678888874 566788888888776643 467776653
No 281
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=21.67 E-value=1.6e+02 Score=27.10 Aligned_cols=54 Identities=6% Similarity=-0.112 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
-.+.|.+.++++++|-||.-.........+ -...+-+.+.....+|+|.+-...
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~---e~~~~~~~l~e~~GIP~L~iE~D~ 391 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSA---GQLLMMREIEKRTGKPAAFIETDL 391 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchh---hhHHHHHHHHHHcCCCEEEEEcCC
Confidence 467799999999999999988866554332 122334566666899999995443
No 282
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=21.64 E-value=1.8e+02 Score=20.08 Aligned_cols=52 Identities=13% Similarity=0.114 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCC-c-cccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFG-A-AKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~-~-~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
..+.|.+.+++++++.|++|..+.- + .... +.-...+.+-++..+||.++..
T Consensus 39 ~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~---~~~~l~~~l~~~~~~pv~~~nD 92 (99)
T smart00732 39 DAARLKKLIKKYQPDLIVIGLPLNMNGTASRE---TEEAFAELLKERFNLPVVLVDE 92 (99)
T ss_pred HHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHH---HHHHHHHHHHHhhCCcEEEEeC
Confidence 5677777777788999999976531 1 1100 1112334445567899998854
No 283
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=21.64 E-value=2.1e+02 Score=24.94 Aligned_cols=117 Identities=17% Similarity=0.167 Sum_probs=71.0
Q ss_pred CCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHh
Q 025835 36 GAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTK 115 (247)
Q Consensus 36 ~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 115 (247)
....+|| -+|+++. =|+..+.+.+..+-++..+|+-+. +.-+.+.+.++
T Consensus 103 ~~PGkVL-HlDGD~~---YL~~Cl~~Ykql~i~a~G~~~~E~---------------------eqp~~i~~Ll~------ 151 (287)
T PF05582_consen 103 ERPGKVL-HLDGDEE---YLNKCLKVYKQLGIPAVGIHVPEK---------------------EQPEKIYRLLE------ 151 (287)
T ss_pred CCCCeEE-EecCCHH---HHHHHHHHHHHcCCceEEEEechH---------------------HhhHHHHHHHH------
Confidence 3345554 5787754 467778888999999999998532 11122222222
Q ss_pred hhhhhhhhhhCCCceEEEEEecCChH-------------------HHHHHHHHHc---CCCEEEEeecCCCccccccCc-
Q 025835 116 ANDLAQPLVEAQIPFKIHIVKDHDMK-------------------ERLCLEVERL---GLSAVIMGSRGFGAAKKSSKS- 172 (247)
Q Consensus 116 ~~~~~~~~~~~~v~v~~~v~~g~d~~-------------------~~I~~~a~~~---~~DLIVmGs~g~~~~~~~~~~- 172 (247)
.+.-.+.++.|+|.. -+-++.|+++ -=+|||...--.|.++.+...
T Consensus 152 -----------~~~PDIlViTGHD~~~K~~~d~~dl~~YrnSkyFVeaV~~aR~~ep~~D~LVIfAGACQS~fEall~AG 220 (287)
T PF05582_consen 152 -----------EYRPDILVITGHDGYLKNKKDYSDLNNYRNSKYFVEAVKEARKYEPNLDDLVIFAGACQSHFEALLEAG 220 (287)
T ss_pred -----------HcCCCEEEEeCchhhhcCCCChhhhhhhhccHHHHHHHHHHHhcCCCcccEEEEcchhHHHHHHHHHcC
Confidence 234467777887641 1223444444 235666665555666554000
Q ss_pred -cCCCHHHHHhhcCCccEEEEec
Q 025835 173 -RLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 173 -~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
-|-|...+|+=||-=||+|+-.
T Consensus 221 ANFASSP~RVlIHalDPV~I~eK 243 (287)
T PF05582_consen 221 ANFASSPKRVLIHALDPVFIVEK 243 (287)
T ss_pred ccccCCccceEEeccCcceeEee
Confidence 2568888999999999999954
No 284
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=21.50 E-value=6.2e+02 Score=23.00 Aligned_cols=37 Identities=19% Similarity=0.132 Sum_probs=30.5
Q ss_pred CCCCCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEe
Q 025835 35 GGAHRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVR 75 (247)
Q Consensus 35 ~~~~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~ 75 (247)
.+...+++|++.|.-.|.-++.++.. .|..+..+|..
T Consensus 173 ~g~~gkvvvllSGGiDS~vaa~l~~k----~G~~v~av~~~ 209 (394)
T PRK01565 173 VGTSGKALLLLSGGIDSPVAGYLAMK----RGVEIEAVHFH 209 (394)
T ss_pred cCCCCCEEEEECCChhHHHHHHHHHH----CCCEEEEEEEe
Confidence 45678999999999999988877755 37889999984
No 285
>COG1628 Endonuclease V homolog [Replication, recombination, and repair]
Probab=21.49 E-value=3e+02 Score=22.38 Aligned_cols=63 Identities=21% Similarity=0.232 Sum_probs=44.8
Q ss_pred CCceEEEEEecCChHHHHHHHHHHc---CCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERL---GLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~---~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
++.+...-+.|.|..+.|.+..+.. +..+|++-.=..+++.=. ....+-+.+..||++|=...
T Consensus 41 gv~~~~i~vDG~D~T~~i~~~v~~~~~~~~rvVlLdGIt~aGFNiv-------Di~~l~~~tg~PVi~V~~k~ 106 (185)
T COG1628 41 GVAFSLITVDGLDVTDAISDMVNRSKRRDLRVVLLDGITFAGFNIV-------DIEALYKETGLPVIVVYRKK 106 (185)
T ss_pred eeEEEEEEecCchHHHHHHHHHHHhhcccccEEEECCeeeccceEe-------cHHHHHHhhCCcEEEEEecC
Confidence 6777777888889998888877553 467777766555554322 45677788999999995433
No 286
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=21.36 E-value=1.5e+02 Score=27.72 Aligned_cols=54 Identities=17% Similarity=0.106 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
+.+.|.+..+++++++|++-+..-+.+-.- =+.++...+-....+||+.|+.+.
T Consensus 107 L~~~I~ei~~~~~P~~I~V~tTC~~~lIGd---Di~~v~~~~~~~~~~pvi~v~t~G 160 (475)
T PRK14478 107 LFKAIDEIIEKYAPPAVFVYQTCVVALIGD---DIDAVCKRAAEKFGIPVIPVNSPG 160 (475)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCChHHHhcc---CHHHHHHHHHHhhCCCEEEEECCC
Confidence 566666666667777776666554332221 223333333333457777665443
No 287
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=21.33 E-value=2.6e+02 Score=21.31 Aligned_cols=59 Identities=8% Similarity=-0.029 Sum_probs=35.9
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhc-C-CccEEEE
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH-C-VCPVIVV 192 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~-a-~~PVlvV 192 (247)
|+++. .+...-+.+.|++.+.++++|+|.+.......... +..+.+.+-.. . .++|++-
T Consensus 31 G~eVi--~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~-----~~~~~~~L~~~~~~~~~i~vG 91 (137)
T PRK02261 31 GFEVI--NLGVMTSQEEFIDAAIETDADAILVSSLYGHGEID-----CRGLREKCIEAGLGDILLYVG 91 (137)
T ss_pred CCEEE--ECCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHH-----HHHHHHHHHhcCCCCCeEEEE
Confidence 55543 33333478999999999999999998765433322 23445555444 2 3444443
No 288
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=21.32 E-value=5.5e+02 Score=22.30 Aligned_cols=83 Identities=13% Similarity=0.053 Sum_probs=49.8
Q ss_pred CCeEEEeecCChHHHHHHHHHHHHhCCCCCEEEEEEEecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhh
Q 025835 38 HRKIGIAVDLSDESAFAVKWAVQNYLRPGDAVILLHVRPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKAN 117 (247)
Q Consensus 38 ~k~ILVavD~S~~s~~al~~A~~la~~~~a~v~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 117 (247)
..||+|.+.++.....+|-.+...-. .+++|.++-. .. ...... .+
T Consensus 89 ~~ri~vl~Sg~g~nl~al~~~~~~~~-~~~~i~~vis--n~-------------------~~~~~l----A~-------- 134 (286)
T PRK13011 89 RPKVLIMVSKFDHCLNDLLYRWRIGE-LPMDIVGVVS--NH-------------------PDLEPL----AA-------- 134 (286)
T ss_pred CceEEEEEcCCcccHHHHHHHHHcCC-CCcEEEEEEE--CC-------------------ccHHHH----HH--------
Confidence 45899999998888888887765433 4566555433 11 011111 11
Q ss_pred hhhhhhhhCCCceEEEEEecC---ChHHHHHHHHHHcCCCEEEEeec
Q 025835 118 DLAQPLVEAQIPFKIHIVKDH---DMKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 118 ~~~~~~~~~~v~v~~~v~~g~---d~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
+.|+++...-.... +....+++..+.+++|++|+..-
T Consensus 135 -------~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 135 -------WHGIPFHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred -------HhCCCEEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 12788654321111 13456888889999999999854
No 289
>PHA02546 47 endonuclease subunit; Provisional
Probab=21.26 E-value=2.2e+02 Score=25.27 Aligned_cols=20 Identities=10% Similarity=-0.024 Sum_probs=12.2
Q ss_pred HHHHHHHHHHcCCCEEEEee
Q 025835 141 KERLCLEVERLGLSAVIMGS 160 (247)
Q Consensus 141 ~~~I~~~a~~~~~DLIVmGs 160 (247)
.+.|++++++.++|+||++.
T Consensus 28 l~~ii~~a~~~~vD~VliaG 47 (340)
T PHA02546 28 IKQAIEYSKAHGITTWIQLG 47 (340)
T ss_pred HHHHHHHHHHcCCCEEEECC
Confidence 34456666666666666664
No 290
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=21.25 E-value=1.4e+02 Score=25.47 Aligned_cols=53 Identities=15% Similarity=0.137 Sum_probs=36.3
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 141 KERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 141 ~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
..++.+.+++.++|.|++..........- -+-..-+.|...+.+||++...+.
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~~~---~l~~~~~~ia~~~~~pi~lYn~P~ 136 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPSQE---GLYAHFKAIAEATDLPVILYNVPG 136 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCCHH---HHHHHHHHHHhcCCCCEEEEEChh
Confidence 34467888999999999987654322111 122455677888899999997764
No 291
>PLN00096 isocitrate dehydrogenase (NADP+); Provisional
Probab=21.06 E-value=3.6e+02 Score=24.77 Aligned_cols=35 Identities=9% Similarity=-0.002 Sum_probs=27.0
Q ss_pred eEEE-eecCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 40 KIGI-AVDLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 40 ~ILV-avD~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
-|++ -....+.+++..++|+++|+..+-+|+++|=
T Consensus 166 gv~~~~~N~~~si~RiAr~AF~~A~~r~~~Vt~v~K 201 (393)
T PLN00096 166 NAVVTYHNPLDNVHHLARIFFGRCLDAGIVPYVVTK 201 (393)
T ss_pred eEEEEeccCHHHHHHHHHHHHHHHHHhCCcEEEEeC
Confidence 4444 3456778899999999999887778888884
No 292
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=21.04 E-value=1.6e+02 Score=22.89 Aligned_cols=55 Identities=11% Similarity=0.029 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHcCCCEEEEeecCC-CccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 140 MKERLCLEVERLGLSAVIMGSRGF-GAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~g~-~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
....|.+.+++++++.||+|-.-. .+-...-....-...+.+-++..+||.++-.
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~~L~~r~~lpv~l~DE 96 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAERLKKRFNLPVVLWDE 96 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHHHHHHhcCCCEEEEcC
Confidence 577899999999999999997631 1111110001234556777778899999853
No 293
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=20.87 E-value=1.7e+02 Score=24.97 Aligned_cols=46 Identities=17% Similarity=0.045 Sum_probs=29.6
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 142 ERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 142 ~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
+...+..+++++|++|+.+.....- . -.-++.++....+|++|+-.
T Consensus 49 ~~~~~~~~~~~pdf~I~isPN~~~P-G------P~~ARE~l~~~~iP~IvI~D 94 (276)
T PF01993_consen 49 EVVTKMLKEWDPDFVIVISPNAAAP-G------PTKAREMLSAKGIPCIVISD 94 (276)
T ss_dssp HHHHHHHHHH--SEEEEE-S-TTSH-H------HHHHHHHHHHSSS-EEEEEE
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCC-C------cHHHHHHHHhCCCCEEEEcC
Confidence 4455666789999999998753322 1 24578899999999999964
No 294
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=20.86 E-value=2.6e+02 Score=21.72 Aligned_cols=60 Identities=12% Similarity=0.008 Sum_probs=37.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
.+.+--.++.| .+.+.=.++.+++++|.|++|--..+.. +-....+.+ ....+-|.|...
T Consensus 62 s~ryVD~vi~~-~p~~~~~~~i~~~k~Div~lG~D~~~d~--------~~l~~~~~k-~G~~~~v~R~~g 121 (140)
T COG0615 62 SLRYVDEVILG-APWDIKFEDIEEYKPDIVVLGDDQKFDE--------DDLKYELVK-RGLFVEVKRTEG 121 (140)
T ss_pred cCcchheeeeC-CccccChHHHHHhCCCEEEECCCCcCCh--------HHHHHHHHH-cCCeeEEEeccC
Confidence 44555566677 3665448889999999999997654221 223444444 666666666544
No 295
>PF10808 DUF2542: Protein of unknown function (DUF2542) ; InterPro: IPR020155 This entry represents transmembrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=20.78 E-value=83 Score=21.60 Aligned_cols=23 Identities=22% Similarity=0.276 Sum_probs=19.1
Q ss_pred CCHHHHHhhcCCccEEEEecCCC
Q 025835 175 GSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 175 GSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
....++++++++-||.+-|..+.
T Consensus 29 sGaVdK~vkna~ePvyi~R~~~P 51 (79)
T PF10808_consen 29 SGAVDKIVKNAQEPVYIYRAKNP 51 (79)
T ss_pred hcchHHHhcCCCCcEEEEecCCc
Confidence 44679999999999999987654
No 296
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=20.64 E-value=2.4e+02 Score=23.46 Aligned_cols=51 Identities=22% Similarity=0.131 Sum_probs=34.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 141 KERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 141 ~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
...+++.+++.++|.|++......+.... ..-.....+...+.+||+..-.
T Consensus 151 ~~~~~~~l~~~G~d~i~v~~i~~~g~~~g---~~~~~i~~i~~~~~~pvia~GG 201 (243)
T cd04731 151 AVEWAKEVEELGAGEILLTSMDRDGTKKG---YDLELIRAVSSAVNIPVIASGG 201 (243)
T ss_pred HHHHHHHHHHCCCCEEEEeccCCCCCCCC---CCHHHHHHHHhhCCCCEEEeCC
Confidence 34566777888999888866544332222 3335677888888999988753
No 297
>PRK13055 putative lipid kinase; Reviewed
Probab=20.59 E-value=5.8e+02 Score=22.42 Aligned_cols=60 Identities=7% Similarity=0.022 Sum_probs=33.6
Q ss_pred CCceEEEEEecC-ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhc-CCccEEEEecC
Q 025835 127 QIPFKIHIVKDH-DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHH-CVCPVIVVRFS 195 (247)
Q Consensus 127 ~v~v~~~v~~g~-d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~-a~~PVlvV~~~ 195 (247)
++.+++...... .-+..+++.+...++|+||+.. |-|.+... ...++.. ...|+-|+|..
T Consensus 33 g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~G-GDGTl~ev--------vngl~~~~~~~~LgiiP~G 94 (334)
T PRK13055 33 GYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAG-GDGTINEV--------VNGIAPLEKRPKMAIIPAG 94 (334)
T ss_pred CCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEEC-CCCHHHHH--------HHHHhhcCCCCcEEEECCC
Confidence 777776655432 2445566666566788887764 33444443 3333332 34678888753
No 298
>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.
Probab=20.57 E-value=5.7e+02 Score=22.27 Aligned_cols=66 Identities=20% Similarity=0.059 Sum_probs=36.5
Q ss_pred CCceEEEEEecC----ChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 127 QIPFKIHIVKDH----DMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~----d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
++++.+.+..|. .-...+++.+++.++|.|++..+.. ...+.....-.....+....++||+..-.
T Consensus 131 ~~pv~vKir~g~~~~~~~~~~~a~~l~~~G~d~i~vh~r~~--~~~~~~~~~~~~i~~i~~~~~ipvi~nGg 200 (319)
T TIGR00737 131 DIPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVTLHGRTR--AQGYSGEANWDIIARVKQAVRIPVIGNGD 200 (319)
T ss_pred CCCEEEEEEcccCCCcchHHHHHHHHHHhCCCEEEEEcccc--cccCCCchhHHHHHHHHHcCCCcEEEeCC
Confidence 455555553331 1235677777888999999864422 11110001113455667777889887643
No 299
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=20.49 E-value=1.7e+02 Score=24.97 Aligned_cols=44 Identities=9% Similarity=0.073 Sum_probs=31.3
Q ss_pred HHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCCC
Q 025835 145 CLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSDD 197 (247)
Q Consensus 145 ~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~~ 197 (247)
..+.+++++|.||.=-+|..+...- + ...+...+||++++++..
T Consensus 183 ~aL~~~~~i~~lVtK~SG~~g~~eK---i------~AA~~lgi~vivI~RP~~ 226 (248)
T PRK08057 183 RALLRQHRIDVVVTKNSGGAGTEAK---L------EAARELGIPVVMIARPAL 226 (248)
T ss_pred HHHHHHcCCCEEEEcCCCchhhHHH---H------HHHHHcCCeEEEEeCCCC
Confidence 4455789999999876655422221 1 667788999999998865
No 300
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=20.42 E-value=5.6e+02 Score=23.66 Aligned_cols=35 Identities=14% Similarity=0.029 Sum_probs=20.6
Q ss_pred CeEEEee--cCChHHHHHHHHHHHHhCCCCCEEEEEEE
Q 025835 39 RKIGIAV--DLSDESAFAVKWAVQNYLRPGDAVILLHV 74 (247)
Q Consensus 39 k~ILVav--D~S~~s~~al~~A~~la~~~~a~v~llhV 74 (247)
.+|++-+ -++-.+..+...|..+.. .+..|.++..
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~-~g~~V~lIta 242 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLK-QNRTVGFITT 242 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEeC
Confidence 3444434 466667777777766544 4666666554
No 301
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=20.42 E-value=85 Score=30.01 Aligned_cols=22 Identities=9% Similarity=0.187 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHcCCCEEEEeec
Q 025835 140 MKERLCLEVERLGLSAVIMGSR 161 (247)
Q Consensus 140 ~~~~I~~~a~~~~~DLIVmGs~ 161 (247)
..++|+..|++.++|||++|.-
T Consensus 40 tFeEIl~iA~e~~VDmiLlGGD 61 (646)
T KOG2310|consen 40 TFEEILEIAQENDVDMILLGGD 61 (646)
T ss_pred HHHHHHHHHHhcCCcEEEecCc
Confidence 5788999999999999999964
No 302
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=20.34 E-value=5.4e+02 Score=21.82 Aligned_cols=59 Identities=12% Similarity=0.069 Sum_probs=35.4
Q ss_pred CCceEEEEEecCChHHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCCccEEEEecCC
Q 025835 127 QIPFKIHIVKDHDMKERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCVCPVIVVRFSD 196 (247)
Q Consensus 127 ~v~v~~~v~~g~d~~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~~PVlvV~~~~ 196 (247)
|+.+-.....+..-.+..++...++++|-||+.+.... . .....+.+. .+||+++-...
T Consensus 31 Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~~-~---------~~l~~~~~~-~iPvV~~~~~~ 89 (279)
T PF00532_consen 31 GYQLLLCNTGDDEEKEEYIELLLQRRVDGIILASSEND-D---------EELRRLIKS-GIPVVLIDRYI 89 (279)
T ss_dssp TCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEESSSCT-C---------HHHHHHHHT-TSEEEEESS-S
T ss_pred CCEEEEecCCCchHHHHHHHHHHhcCCCEEEEecccCC-h---------HHHHHHHHc-CCCEEEEEecc
Confidence 77655443333222336677778889999999855332 1 223444555 89999997653
No 303
>PRK12569 hypothetical protein; Provisional
Probab=20.33 E-value=3.3e+02 Score=23.29 Aligned_cols=102 Identities=11% Similarity=0.084 Sum_probs=52.7
Q ss_pred ecCChHHHHHHHHHHHHhCCCCCEEEEEEE-ecCCCccCCCcccchhhhcchhhHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 025835 45 VDLSDESAFAVKWAVQNYLRPGDAVILLHV-RPTSVLYGADWGAIEVSLEMSESEESQRKLEDDFDQFTTTKANDLAQPL 123 (247)
Q Consensus 45 vD~S~~s~~al~~A~~la~~~~a~v~llhV-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 123 (247)
..+-......++..+++|+..+..|- .|. ++. ..+++...+.. ..++....+..++..+. .+ +
T Consensus 39 CG~HAGDp~~M~~tv~lA~~~~V~IG-AHPsyPD--~~gFGRr~m~~-----s~~el~~~v~yQigaL~-----~~---~ 102 (245)
T PRK12569 39 TGFHAGDPNIMRRTVELAKAHGVGIG-AHPGFRD--LVGFGRRHINA-----SPQELVNDVLYQLGALR-----EF---A 102 (245)
T ss_pred ccccCCCHHHHHHHHHHHHHcCCEec-cCCCCCc--CCCCCCCCCCC-----CHHHHHHHHHHHHHHHH-----HH---H
Confidence 33444456677788888887766542 332 222 12222222221 12333333333332211 11 1
Q ss_pred hhCCCceEEEEEec---------CChHHHHHHHHHHcCCCEEEEeecC
Q 025835 124 VEAQIPFKIHIVKD---------HDMKERLCLEVERLGLSAVIMGSRG 162 (247)
Q Consensus 124 ~~~~v~v~~~v~~g---------~d~~~~I~~~a~~~~~DLIVmGs~g 162 (247)
...|.++...--.| ...++.|++.+++.+.+|++++..+
T Consensus 103 ~~~g~~l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~~ 150 (245)
T PRK12569 103 RAHGVRLQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMDG 150 (245)
T ss_pred HHcCCeeEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 22366655443333 2478889999999999999988553
No 304
>COG2069 CdhD CO dehydrogenase/acetyl-CoA synthase delta subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=20.20 E-value=5e+02 Score=23.08 Aligned_cols=29 Identities=17% Similarity=0.248 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhCCCCCEEEEEEEecCC
Q 025835 50 ESAFAVKWAVQNYLRPGDAVILLHVRPTS 78 (247)
Q Consensus 50 ~s~~al~~A~~la~~~~a~v~llhV~~~~ 78 (247)
--..-.+||....+.+|+.++-+|.+.+.
T Consensus 148 VmedP~eWArk~Vk~fgadmvTiHlIsTd 176 (403)
T COG2069 148 VMEDPGEWARKCVKKFGADMVTIHLISTD 176 (403)
T ss_pred HhhCHHHHHHHHHHHhCCceEEEEeecCC
Confidence 34456789999999999999999988664
No 305
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=20.06 E-value=6e+02 Score=22.32 Aligned_cols=65 Identities=14% Similarity=0.098 Sum_probs=38.6
Q ss_pred CCceEEEEEecCC----hHHHHHHHHHHcCCCEEEEeecCCCcc-ccccCccCCCHHHHHhhcCCccEEEEec
Q 025835 127 QIPFKIHIVKDHD----MKERLCLEVERLGLSAVIMGSRGFGAA-KKSSKSRLGSVSDYCVHHCVCPVIVVRF 194 (247)
Q Consensus 127 ~v~v~~~v~~g~d----~~~~I~~~a~~~~~DLIVmGs~g~~~~-~~~~~~~lGSvs~~vl~~a~~PVlvV~~ 194 (247)
++++.+.+..|.+ -...+++.+++.++|.|.+-.+.+... ... ..-....+|.++..+||+..-.
T Consensus 133 d~pv~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~~~~~G~---a~~~~i~~ik~~~~iPVI~nGg 202 (321)
T PRK10415 133 DVPVTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRACLFNGE---AEYDSIRAVKQKVSIPVIANGD 202 (321)
T ss_pred CCceEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccccccCCC---cChHHHHHHHHhcCCcEEEeCC
Confidence 4555555544432 244677778888999998866543221 111 1113556777778899887654
No 306
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=20.03 E-value=2.1e+02 Score=23.87 Aligned_cols=53 Identities=21% Similarity=0.225 Sum_probs=33.1
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCccccccCccCCCHHHHHhhcCC-ccEEEEecCCCCC
Q 025835 141 KERLCLEVERLGLSAVIMGSRGFGAAKKSSKSRLGSVSDYCVHHCV-CPVIVVRFSDDKD 199 (247)
Q Consensus 141 ~~~I~~~a~~~~~DLIVmGs~g~~~~~~~~~~~lGSvs~~vl~~a~-~PVlvV~~~~~~~ 199 (247)
.+.|.+.+.+.+.|.|++|.... .. . -+..+...+-+.+. .||++.|.....-
T Consensus 14 ~~~~~~~~~~~gtdai~vGGS~~--v~-~---~~~~~~~~ik~~~~~~Pvilfp~~~~~i 67 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVGGSDG--VS-S---TLDNVVRLIKRIRRPVPVILFPSNPEAV 67 (219)
T ss_pred HHHHHHHHHhcCCCEEEECCccc--hh-h---hHHHHHHHHHHhcCCCCEEEeCCCcccc
Confidence 35577888878899999997642 21 1 22333444444444 8999998765543
Done!