Query 025166
Match_columns 257
No_of_seqs 321 out of 1296
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 03:17:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025166.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025166hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01989 STK_N The N-terminal d 100.0 1.7E-27 3.7E-32 193.1 17.9 143 54-205 1-146 (146)
2 PRK15456 universal stress prot 99.9 6.2E-26 1.3E-30 183.9 16.1 138 51-203 1-142 (142)
3 PRK15005 universal stress prot 99.9 5.6E-25 1.2E-29 177.7 16.0 140 51-203 1-144 (144)
4 PRK09982 universal stress prot 99.9 1.8E-23 3.8E-28 170.3 13.6 137 51-205 2-140 (142)
5 PRK15118 universal stress glob 99.9 6.6E-23 1.4E-27 166.2 13.4 136 51-205 2-140 (144)
6 PF00582 Usp: Universal stress 99.9 1.2E-21 2.5E-26 153.5 15.9 138 51-203 1-140 (140)
7 cd01988 Na_H_Antiporter_C The 99.9 5.3E-21 1.2E-25 151.2 16.3 129 54-203 1-132 (132)
8 PRK10116 universal stress prot 99.9 5.2E-21 1.1E-25 154.3 15.1 136 51-205 2-140 (142)
9 cd01987 USP_OKCHK USP domain i 99.9 9.5E-21 2.1E-25 149.4 13.5 121 54-203 1-124 (124)
10 PRK11175 universal stress prot 99.9 1.5E-20 3.2E-25 169.9 15.5 143 51-205 2-147 (305)
11 PRK11175 universal stress prot 99.8 3.2E-19 7E-24 161.2 15.0 141 51-206 151-302 (305)
12 COG0589 UspA Universal stress 99.8 3.9E-18 8.5E-23 137.0 17.3 147 50-205 3-153 (154)
13 cd00293 USP_Like Usp: Universa 99.8 1.2E-17 2.7E-22 129.4 15.9 128 54-202 1-130 (130)
14 PRK12652 putative monovalent c 99.5 2.9E-13 6.3E-18 126.4 13.7 105 50-174 3-125 (357)
15 PRK10490 sensor protein KdpD; 99.2 1.9E-10 4.2E-15 119.0 16.7 126 50-205 248-375 (895)
16 COG2205 KdpD Osmosensitive K+ 99.0 3.8E-09 8.3E-14 105.9 13.9 130 51-208 247-378 (890)
17 cd01984 AANH_like Adenine nucl 98.1 1.4E-05 3.1E-10 59.0 7.4 48 151-201 37-85 (86)
18 PLN03159 cation/H(+) antiporte 97.0 0.007 1.5E-07 62.9 12.3 148 49-204 455-615 (832)
19 PLN03159 cation/H(+) antiporte 96.4 0.071 1.5E-06 55.5 14.5 149 52-206 630-796 (832)
20 TIGR02432 lysidine_TilS_N tRNA 95.0 0.43 9.3E-06 40.1 11.2 93 54-174 1-111 (189)
21 PF01171 ATP_bind_3: PP-loop f 92.8 1.6 3.4E-05 36.6 10.4 91 54-172 1-106 (182)
22 cd01992 PP-ATPase N-terminal d 92.7 1.9 4.1E-05 35.8 10.8 94 54-175 1-109 (185)
23 PRK12342 hypothetical protein; 90.9 2.9 6.4E-05 37.6 10.5 96 64-194 38-136 (254)
24 PRK03359 putative electron tra 89.7 4.2 9E-05 36.6 10.4 99 64-198 39-141 (256)
25 COG2086 FixA Electron transfer 88.2 2.7 5.9E-05 37.9 8.2 80 64-174 40-123 (260)
26 cd01993 Alpha_ANH_like_II This 86.0 16 0.00034 30.0 11.2 23 151-173 95-117 (185)
27 TIGR00591 phr2 photolyase PhrI 84.9 10 0.00023 36.5 10.8 85 64-171 38-122 (454)
28 COG0041 PurE Phosphoribosylcar 83.6 9.8 0.00021 31.8 8.5 73 127-211 20-95 (162)
29 PF00875 DNA_photolyase: DNA p 82.6 9.9 0.00021 31.1 8.4 117 64-209 14-130 (165)
30 PRK10696 tRNA 2-thiocytidine b 81.9 25 0.00054 31.2 11.3 23 152-174 121-143 (258)
31 COG0037 MesJ tRNA(Ile)-lysidin 79.7 42 0.0009 29.9 12.2 38 52-90 21-59 (298)
32 TIGR03556 photolyase_8HDF deox 77.8 21 0.00045 34.8 10.1 84 64-171 16-99 (471)
33 TIGR01162 purE phosphoribosyla 75.3 25 0.00055 29.3 8.6 70 126-207 15-87 (156)
34 cd01985 ETF The electron trans 75.1 44 0.00096 27.7 10.3 23 151-173 80-102 (181)
35 TIGR00268 conserved hypothetic 73.0 38 0.00082 30.0 9.8 24 151-174 96-119 (252)
36 PF02601 Exonuc_VII_L: Exonucl 69.9 15 0.00033 33.5 6.8 76 138-217 44-128 (319)
37 PF00731 AIRC: AIR carboxylase 69.6 32 0.00069 28.5 7.9 76 127-214 18-96 (150)
38 PF01012 ETF: Electron transfe 68.4 63 0.0014 26.2 11.1 94 64-200 18-118 (164)
39 TIGR02765 crypto_DASH cryptoch 68.2 54 0.0012 31.3 10.4 91 64-172 16-106 (429)
40 PF02844 GARS_N: Phosphoribosy 66.4 5.2 0.00011 30.9 2.4 21 151-171 51-71 (100)
41 PRK13820 argininosuccinate syn 65.6 87 0.0019 30.0 11.0 23 151-173 98-120 (394)
42 TIGR00342 thiazole biosynthesi 62.5 1.4E+02 0.0029 28.2 11.7 35 50-88 170-206 (371)
43 PF13167 GTP-bdg_N: GTP-bindin 62.1 43 0.00093 25.5 6.7 48 122-170 7-65 (95)
44 PRK14057 epimerase; Provisiona 58.6 1.4E+02 0.003 26.9 11.2 35 134-171 189-223 (254)
45 PF00448 SRP54: SRP54-type pro 58.1 1.2E+02 0.0026 25.9 10.2 112 55-204 5-122 (196)
46 KOG1467 Translation initiation 56.7 1.4E+02 0.0029 29.7 10.5 112 53-212 360-477 (556)
47 cd01990 Alpha_ANH_like_I This 56.2 1E+02 0.0023 25.8 9.0 24 151-174 84-107 (202)
48 cd08550 GlyDH-like Glycerol_de 55.5 72 0.0016 29.5 8.5 66 128-205 41-110 (349)
49 cd01714 ETF_beta The electron 55.0 1.2E+02 0.0025 26.0 9.1 40 150-194 96-135 (202)
50 PF02887 PK_C: Pyruvate kinase 54.1 28 0.00061 26.9 4.7 46 150-206 4-49 (117)
51 PRK00109 Holliday junction res 53.7 20 0.00042 29.1 3.9 53 151-207 43-100 (138)
52 PRK08091 ribulose-phosphate 3- 53.7 1.6E+02 0.0035 26.1 11.3 35 134-171 175-209 (228)
53 PRK00286 xseA exodeoxyribonucl 52.9 67 0.0014 30.8 8.0 73 141-217 168-245 (438)
54 TIGR00237 xseA exodeoxyribonuc 51.4 85 0.0018 30.3 8.5 75 139-217 160-240 (432)
55 PRK08745 ribulose-phosphate 3- 49.1 1.8E+02 0.004 25.4 11.9 27 144-171 175-201 (223)
56 PRK05253 sulfate adenylyltrans 48.8 1.6E+02 0.0035 27.1 9.5 23 152-174 117-139 (301)
57 PRK06801 hypothetical protein; 47.3 55 0.0012 29.9 6.2 65 138-205 18-83 (286)
58 PRK09722 allulose-6-phosphate 46.9 2.1E+02 0.0044 25.3 11.8 39 130-171 161-199 (229)
59 PLN00200 argininosuccinate syn 46.3 2.8E+02 0.0061 26.7 12.8 24 151-174 102-125 (404)
60 PRK12857 fructose-1,6-bisphosp 46.2 54 0.0012 30.0 5.9 66 138-206 18-84 (284)
61 cd02067 B12-binding B12 bindin 45.5 98 0.0021 23.6 6.6 64 132-203 23-88 (119)
62 PRK08185 hypothetical protein; 45.3 53 0.0012 30.0 5.7 66 138-206 13-78 (283)
63 TIGR01858 tag_bisphos_ald clas 45.0 58 0.0013 29.7 5.9 66 138-206 16-82 (282)
64 PRK12737 gatY tagatose-bisphos 44.4 61 0.0013 29.6 6.0 66 138-206 18-84 (284)
65 PRK06806 fructose-bisphosphate 44.4 76 0.0016 28.9 6.6 65 138-205 18-83 (281)
66 PF02310 B12-binding: B12 bind 44.4 1.4E+02 0.0029 22.5 7.2 36 133-171 25-60 (121)
67 TIGR00273 iron-sulfur cluster- 43.8 77 0.0017 30.7 6.9 57 111-170 39-96 (432)
68 COG1597 LCB5 Sphingosine kinas 43.5 67 0.0014 29.4 6.1 73 123-206 20-93 (301)
69 TIGR00640 acid_CoA_mut_C methy 42.7 58 0.0013 26.1 5.0 40 151-193 42-81 (132)
70 KOG1650 Predicted K+/H+-antipo 42.4 1.5E+02 0.0032 31.0 9.0 39 52-90 614-654 (769)
71 PRK10799 metal-binding protein 42.1 35 0.00076 30.2 4.0 44 37-85 20-63 (247)
72 TIGR00250 RNAse_H_YqgF RNAse H 41.7 38 0.00083 27.1 3.8 52 151-206 37-93 (130)
73 PRK10660 tilS tRNA(Ile)-lysidi 41.5 1.9E+02 0.0042 27.9 9.2 37 52-88 15-54 (436)
74 PRK12738 kbaY tagatose-bisphos 41.2 77 0.0017 29.0 6.1 66 138-206 18-84 (286)
75 PF03652 UPF0081: Uncharacteri 40.5 94 0.002 25.0 5.9 55 150-207 39-98 (135)
76 PRK06395 phosphoribosylamine-- 40.5 1.3E+02 0.0028 29.0 7.9 29 52-84 2-31 (435)
77 PRK10674 deoxyribodipyrimidine 40.0 2.7E+02 0.0058 27.1 10.0 84 64-170 17-104 (472)
78 PRK11914 diacylglycerol kinase 38.0 92 0.002 28.1 6.1 64 131-206 34-98 (306)
79 PF04459 DUF512: Protein of un 38.0 2.5E+02 0.0054 24.4 8.5 54 151-206 149-203 (204)
80 PRK09195 gatY tagatose-bisphos 37.5 93 0.002 28.4 6.0 58 146-206 26-84 (284)
81 PRK04527 argininosuccinate syn 37.5 3.6E+02 0.0078 26.0 10.2 23 151-173 98-120 (400)
82 PF11684 DUF3280: Protein of u 37.5 1.2E+02 0.0027 24.7 6.2 23 152-174 70-92 (140)
83 cd00946 FBP_aldolase_IIA Class 37.0 1.1E+02 0.0024 28.8 6.6 78 121-206 4-97 (345)
84 PF03746 LamB_YcsF: LamB/YcsF 36.8 3.1E+02 0.0068 24.5 9.9 121 54-200 31-160 (242)
85 cd00947 TBP_aldolase_IIB Tagat 36.7 84 0.0018 28.6 5.6 66 138-206 13-79 (276)
86 TIGR02766 crypt_chrom_pln cryp 36.3 2.5E+02 0.0054 27.2 9.2 83 64-171 13-96 (475)
87 COG1197 Mfd Transcription-repa 36.1 5.2E+02 0.011 28.5 11.9 156 52-245 616-789 (1139)
88 PRK10415 tRNA-dihydrouridine s 35.7 3.1E+02 0.0067 25.2 9.3 132 53-204 65-202 (321)
89 TIGR00167 cbbA ketose-bisphosp 35.6 1.2E+02 0.0026 27.7 6.5 66 138-206 18-87 (288)
90 PF07302 AroM: AroM protein; 35.4 2.9E+02 0.0063 24.4 8.5 43 151-203 164-209 (221)
91 cd08171 GlyDH-like2 Glycerol d 35.1 2.2E+02 0.0048 26.3 8.3 62 132-205 45-111 (345)
92 PRK07998 gatY putative fructos 35.0 89 0.0019 28.6 5.5 66 138-206 18-84 (283)
93 PF01008 IF-2B: Initiation fac 34.9 1.2E+02 0.0026 27.0 6.4 44 162-208 176-222 (282)
94 PLN02948 phosphoribosylaminoim 34.2 2E+02 0.0043 29.0 8.2 71 125-207 426-499 (577)
95 PF14639 YqgF: Holliday-juncti 34.1 32 0.00069 28.3 2.2 53 151-206 52-108 (150)
96 TIGR00619 sbcd exonuclease Sbc 33.5 1E+02 0.0023 27.2 5.6 7 197-203 76-82 (253)
97 PRK09197 fructose-bisphosphate 33.3 1.4E+02 0.003 28.3 6.6 78 121-206 9-102 (350)
98 PF00340 IL1: Interleukin-1 / 33.1 31 0.00068 27.3 1.9 22 230-252 22-43 (120)
99 PRK00509 argininosuccinate syn 32.9 3.4E+02 0.0073 26.1 9.2 24 151-174 98-121 (399)
100 COG1606 ATP-utilizing enzymes 32.2 3.9E+02 0.0085 24.3 10.6 36 53-90 18-54 (269)
101 COG1927 Mtd Coenzyme F420-depe 32.1 1.4E+02 0.0031 26.4 5.9 47 153-206 51-97 (277)
102 cd00951 KDGDH 5-dehydro-4-deox 32.1 3.8E+02 0.0082 24.1 12.3 77 123-204 57-133 (289)
103 TIGR00177 molyb_syn molybdenum 31.1 1.7E+02 0.0036 23.5 6.0 34 134-169 38-73 (144)
104 PF07355 GRDB: Glycine/sarcosi 30.8 1.7E+02 0.0037 27.6 6.7 62 138-202 48-117 (349)
105 PRK00994 F420-dependent methyl 30.7 1.5E+02 0.0032 26.8 5.9 46 154-206 52-97 (277)
106 PRK13399 fructose-1,6-bisphosp 30.6 1.5E+02 0.0031 28.1 6.2 65 138-205 18-84 (347)
107 PRK13054 lipid kinase; Reviewe 30.4 3E+02 0.0065 24.7 8.2 66 132-206 27-94 (300)
108 PF01784 NIF3: NIF3 (NGG1p int 30.3 43 0.00093 29.5 2.6 48 33-85 12-60 (241)
109 COG3046 Uncharacterized protei 30.2 2.4E+02 0.0052 27.5 7.6 86 124-218 54-139 (505)
110 cd01712 ThiI ThiI is required 30.1 3.1E+02 0.0066 22.4 11.1 21 153-173 94-114 (177)
111 cd02071 MM_CoA_mut_B12_BD meth 30.0 2.1E+02 0.0046 22.1 6.3 39 132-173 23-61 (122)
112 COG1570 XseA Exonuclease VII, 30.0 2.9E+02 0.0062 27.0 8.2 71 143-216 170-245 (440)
113 PF02568 ThiI: Thiamine biosyn 29.9 2.6E+02 0.0057 24.1 7.3 37 52-90 3-39 (197)
114 smart00732 YqgFc Likely ribonu 29.6 1.3E+02 0.0028 21.8 4.8 53 151-206 40-94 (99)
115 TIGR00884 guaA_Cterm GMP synth 28.8 4.6E+02 0.01 24.1 9.9 35 53-89 17-52 (311)
116 cd03364 TOPRIM_DnaG_primases T 28.7 1.5E+02 0.0032 21.0 4.8 32 52-83 43-76 (79)
117 COG0301 ThiI Thiamine biosynth 28.2 3.3E+02 0.0072 26.1 8.2 20 71-90 192-211 (383)
118 TIGR00032 argG argininosuccina 28.2 5.4E+02 0.012 24.6 11.0 23 151-173 95-117 (394)
119 TIGR01520 FruBisAldo_II_A fruc 28.2 2.7E+02 0.0058 26.4 7.5 78 121-206 15-109 (357)
120 cd01997 GMP_synthase_C The C-t 27.6 4.8E+02 0.01 23.9 9.4 21 152-172 89-110 (295)
121 TIGR00147 lipid kinase, YegS/R 27.6 3.9E+02 0.0084 23.7 8.4 70 127-206 23-93 (293)
122 COG0415 PhrB Deoxyribodipyrimi 27.4 4.2E+02 0.0091 26.1 8.9 84 64-172 17-100 (461)
123 PF04007 DUF354: Protein of un 27.2 99 0.0021 28.9 4.5 48 124-176 15-62 (335)
124 cd01715 ETF_alpha The electron 27.2 1.3E+02 0.0027 24.7 4.8 25 150-174 71-95 (168)
125 TIGR00486 YbgI_SA1388 dinuclea 27.1 99 0.0021 27.4 4.3 45 36-85 19-64 (249)
126 PRK07315 fructose-bisphosphate 27.1 1.9E+02 0.0041 26.5 6.3 66 138-206 18-87 (293)
127 PRK02261 methylaspartate mutas 27.1 3E+02 0.0066 22.0 6.8 64 132-202 27-91 (137)
128 COG0151 PurD Phosphoribosylami 26.5 57 0.0012 31.6 2.8 21 151-171 52-72 (428)
129 PRK13010 purU formyltetrahydro 26.5 5E+02 0.011 23.7 9.9 102 30-172 72-179 (289)
130 PRK00919 GMP synthase subunit 26.3 3.4E+02 0.0074 25.0 7.8 34 53-89 22-57 (307)
131 cd00950 DHDPS Dihydrodipicolin 26.1 4.6E+02 0.01 23.2 9.5 52 151-205 84-135 (284)
132 cd00958 DhnA Class I fructose- 26.0 4.2E+02 0.0091 22.7 8.2 38 155-203 149-186 (235)
133 TIGR03249 KdgD 5-dehydro-4-deo 25.8 4.9E+02 0.011 23.4 12.3 75 122-203 61-137 (296)
134 TIGR01769 GGGP geranylgeranylg 25.6 1.3E+02 0.0028 26.2 4.6 49 152-206 14-63 (205)
135 COG0137 ArgG Argininosuccinate 25.5 6.2E+02 0.013 24.4 13.2 107 52-177 4-127 (403)
136 cd03557 L-arabinose_isomerase 25.4 2.9E+02 0.0064 27.2 7.6 46 151-205 51-100 (484)
137 COG0420 SbcD DNA repair exonuc 25.1 94 0.002 29.1 4.0 23 123-148 27-49 (390)
138 PRK12569 hypothetical protein; 24.8 4.7E+02 0.01 23.5 8.1 106 54-172 36-150 (245)
139 cd00408 DHDPS-like Dihydrodipi 24.7 4.8E+02 0.011 22.9 9.3 80 121-205 52-132 (281)
140 PF01116 F_bP_aldolase: Fructo 24.6 53 0.0011 30.0 2.2 76 121-204 5-81 (287)
141 TIGR02855 spore_yabG sporulati 24.5 2.3E+02 0.0049 26.0 6.1 46 125-172 117-163 (283)
142 KOG2310 DNA repair exonuclease 24.3 60 0.0013 32.6 2.6 20 151-170 41-60 (646)
143 PRK09875 putative hydrolase; P 24.1 1.7E+02 0.0037 26.7 5.4 50 123-174 139-190 (292)
144 PRK02929 L-arabinose isomerase 24.1 2.6E+02 0.0056 27.7 7.0 45 151-204 57-105 (499)
145 PF02441 Flavoprotein: Flavopr 24.0 1.3E+02 0.0029 23.5 4.1 31 53-84 1-33 (129)
146 PRK08883 ribulose-phosphate 3- 23.7 4.9E+02 0.011 22.6 11.4 42 127-171 156-197 (220)
147 COG0191 Fba Fructose/tagatose 23.7 2E+02 0.0043 26.5 5.6 63 138-206 18-85 (286)
148 cd01410 SIRT7 SIRT7: Eukaryoti 23.6 1.7E+02 0.0037 25.1 5.1 56 143-206 134-192 (206)
149 TIGR01917 gly_red_sel_B glycin 23.5 2.9E+02 0.0063 26.9 6.9 62 138-202 44-113 (431)
150 TIGR01501 MthylAspMutase methy 23.5 1.3E+02 0.0028 24.3 4.0 23 151-173 41-63 (134)
151 PF05582 Peptidase_U57: YabG p 23.5 2.3E+02 0.0049 26.1 5.9 45 125-171 118-163 (287)
152 PRK05370 argininosuccinate syn 23.4 7.1E+02 0.015 24.4 12.0 28 150-177 110-137 (447)
153 PRK06027 purU formyltetrahydro 23.3 5.6E+02 0.012 23.2 9.8 104 29-172 67-175 (286)
154 cd01995 ExsB ExsB is a transcr 23.3 4E+02 0.0086 21.4 8.7 23 152-174 66-88 (169)
155 TIGR01521 FruBisAldo_II_B fruc 23.1 2.4E+02 0.0052 26.7 6.2 66 138-206 16-83 (347)
156 PRK03708 ppnK inorganic polyph 23.0 2.3E+02 0.0051 25.6 6.0 13 197-209 81-93 (277)
157 PRK15411 rcsA colanic acid cap 22.9 4.7E+02 0.01 22.1 8.0 51 146-205 32-86 (207)
158 PRK10481 hypothetical protein; 22.7 2.2E+02 0.0048 25.1 5.6 42 151-202 168-212 (224)
159 PRK13059 putative lipid kinase 22.7 4.4E+02 0.0095 23.6 7.8 66 129-206 25-92 (295)
160 PRK07084 fructose-bisphosphate 22.5 2.2E+02 0.0048 26.6 5.8 77 121-205 12-94 (321)
161 COG0426 FpaA Uncharacterized f 22.2 4.7E+02 0.01 25.1 8.0 73 127-204 266-338 (388)
162 PF13662 Toprim_4: Toprim doma 21.9 1.4E+02 0.0031 21.2 3.6 31 52-82 46-78 (81)
163 COG1646 Predicted phosphate-bi 21.8 4.5E+02 0.0098 23.5 7.3 52 151-207 30-81 (240)
164 TIGR02069 cyanophycinase cyano 21.5 5.7E+02 0.012 22.6 8.2 29 56-84 1-34 (250)
165 PRK05835 fructose-bisphosphate 21.4 2.7E+02 0.0059 25.8 6.1 66 138-206 17-84 (307)
166 cd05565 PTS_IIB_lactose PTS_II 21.3 3.3E+02 0.0072 20.7 5.7 59 130-204 22-80 (99)
167 cd00861 ProRS_anticodon_short 21.3 2.8E+02 0.0061 19.7 5.2 37 133-172 28-65 (94)
168 COG0036 Rpe Pentose-5-phosphat 21.1 5.8E+02 0.013 22.5 10.1 25 145-170 174-198 (220)
169 cd02072 Glm_B12_BD B12 binding 21.0 1.6E+02 0.0034 23.7 4.0 22 151-172 39-60 (128)
170 cd00453 FTBP_aldolase_II Fruct 21.0 2.1E+02 0.0045 27.0 5.3 67 138-207 13-96 (340)
171 PRK06029 3-octaprenyl-4-hydrox 20.9 1.7E+02 0.0037 24.9 4.4 32 53-84 2-35 (185)
172 PRK07313 phosphopantothenoylcy 20.9 1.6E+02 0.0036 24.8 4.3 31 53-84 2-34 (182)
173 PF09967 DUF2201: VWA-like dom 20.9 1.6E+02 0.0035 23.1 4.1 33 55-87 1-40 (126)
174 cd00885 cinA Competence-damage 20.8 3.8E+02 0.0083 22.2 6.5 35 133-169 29-65 (170)
175 PRK06372 translation initiatio 20.6 4.3E+02 0.0093 23.7 7.1 44 162-209 151-198 (253)
176 PRK14665 mnmA tRNA-specific 2- 20.5 7.2E+02 0.016 23.4 10.7 22 152-173 103-124 (360)
177 TIGR02113 coaC_strep phosphopa 20.4 1.7E+02 0.0036 24.7 4.2 31 53-84 1-33 (177)
178 PRK15424 propionate catabolism 20.4 3.3E+02 0.0072 27.2 6.9 34 158-206 60-93 (538)
179 cd02070 corrinoid_protein_B12- 20.3 4.2E+02 0.009 22.4 6.8 64 132-202 106-171 (201)
180 PRK09196 fructose-1,6-bisphosp 20.1 2.7E+02 0.0058 26.3 5.9 66 138-206 18-85 (347)
181 PF00834 Ribul_P_3_epim: Ribul 20.1 80 0.0017 27.2 2.3 42 126-170 154-195 (201)
182 PRK03620 5-dehydro-4-deoxygluc 20.1 6.5E+02 0.014 22.7 12.0 77 122-205 63-141 (303)
183 PRK09423 gldA glycerol dehydro 20.0 5.7E+02 0.012 23.7 8.2 64 129-204 49-116 (366)
No 1
>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=99.96 E-value=1.7e-27 Score=193.12 Aligned_cols=143 Identities=37% Similarity=0.582 Sum_probs=117.9
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
+||||+|+|+ .+||+||+++|...+++|++|||+++........+. ......+.+..++.++++|+++.+.
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~~~~~~ 73 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGK-------LEVASAYKQEEDKEAKELLLPYRCF 73 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccc-------hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5999999999 999999999999899999999999764322211110 0112234445566778889999888
Q ss_pred hhhCCCeeEEEEEEec-CchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 132 CNDAKQVTVETMLVES-KATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~G-~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
+...+ ++++..++.| ++ ++.|+++|++.++|+||||+||++++.++++|+||+.+|++++++.||||||++|
T Consensus 74 ~~~~~-~~~~~~~~~g~~~-~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~~ 146 (146)
T cd01989 74 CSRKG-VQCEDVVLEDDDV-AKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSKG 146 (146)
T ss_pred HhhcC-CeEEEEEEeCCcH-HHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeCc
Confidence 87778 8999999987 56 8999999999999999999999999988888768999999999999999999875
No 2
>PRK15456 universal stress protein UspG; Provisional
Probab=99.94 E-value=6.2e-26 Score=183.94 Aligned_cols=138 Identities=15% Similarity=0.139 Sum_probs=108.2
Q ss_pred CCCeEEEeecCC--h--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKD--D--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQ 126 (257)
Q Consensus 51 ~~~kILVaVDgS--~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~ 126 (257)
+|++||||+||| + .+|++||+.+|.. .++|+++||+++...... .... ...+.+.+..++.+++.|+
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~-~~~l~llhv~~~~~~~~~--~~~~------~~~~~~~~~~~~~~~~~l~ 71 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQD-DGVIHLLHVLPGSASLSL--HRFA------ADVRRFEEHLQHEAEERLQ 71 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhc-CCeEEEEEEecCcccccc--cccc------cchhhHHHHHHHHHHHHHH
Confidence 489999999999 3 9999999999876 469999999986532110 0000 0112334445556677788
Q ss_pred HHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 127 KYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
++.+.+...+ +++++++..|+| +++|+++|+++++||||||+||++ +.+.++| ||+++|+++++ |||||||
T Consensus 72 ~~~~~~~~~~-~~v~~~v~~G~~-~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llG-S~a~~v~~~a~--~pVLvV~ 142 (142)
T PRK15456 72 TMVSHFTIDP-SRIKQHVRFGSV-RDEVNELAEELGADVVVIGSRNPS-ISTHLLG-SNASSVIRHAN--LPVLVVR 142 (142)
T ss_pred HHHHHhCCCC-cceEEEEcCCCh-HHHHHHHHhhcCCCEEEEcCCCCC-ccceecC-ccHHHHHHcCC--CCEEEeC
Confidence 7777665556 788999999999 899999999999999999999987 6766776 99999999999 9999996
No 3
>PRK15005 universal stress protein F; Provisional
Probab=99.93 E-value=5.6e-25 Score=177.70 Aligned_cols=140 Identities=16% Similarity=0.255 Sum_probs=106.8
Q ss_pred CCCeEEEeecCCh----HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD----LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQ 126 (257)
Q Consensus 51 ~~~kILVaVDgS~----~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~ 126 (257)
+|++||||+|||+ .+|++||+++|+..+++|+++||+++...... .+...... ... .+..++.+++.|+
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~-~~~~~~~~--~~~----~~~~~~~~~~~l~ 73 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYAS-LGLAYSAE--LPA----MDDLKAEAKSQLE 73 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCccccc-cccccccc--chH----HHHHHHHHHHHHH
Confidence 4799999999998 48999999999999999999999986432111 01000000 001 1123344556677
Q ss_pred HHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 127 KYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
++.+.+...+ ++++.++..|+| ++.|+++|++.++||||||+|+ +++.+.++| |++.+|+++++ |||||||
T Consensus 74 ~~~~~~~~~~-~~~~~~v~~G~p-~~~I~~~a~~~~~DLIV~Gs~~-~~~~~~llG-S~a~~vl~~a~--cpVlvVr 144 (144)
T PRK15005 74 EIIKKFKLPT-DRVHVHVEEGSP-KDRILELAKKIPADMIIIASHR-PDITTYLLG-SNAAAVVRHAE--CSVLVVR 144 (144)
T ss_pred HHHHHhCCCC-CceEEEEeCCCH-HHHHHHHHHHcCCCEEEEeCCC-CCchheeec-chHHHHHHhCC--CCEEEeC
Confidence 7766666556 788999999999 8999999999999999999995 567777777 99999999999 9999996
No 4
>PRK09982 universal stress protein UspD; Provisional
Probab=99.91 E-value=1.8e-23 Score=170.29 Aligned_cols=137 Identities=15% Similarity=0.125 Sum_probs=104.6
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKY 128 (257)
Q Consensus 51 ~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~ 128 (257)
.|++||||+|+|+ .+|+++|+++|+..+++|+++||+++..... .....+ ..+...+..++.+++.|+++
T Consensus 2 ~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~-~~~~~~-------~~~~~~~~~~~~~~~~l~~~ 73 (142)
T PRK09982 2 AYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELY-PGIYFP-------ATEDILQLLKNKSDNKLYKL 73 (142)
T ss_pred CceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhc-hhhhcc-------chHHHHHHHHHHHHHHHHHH
Confidence 4799999999999 9999999999999999999999997643111 000000 01122333445556667776
Q ss_pred HHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 129 IRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 129 ~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
.+.+. . ..++..+..|+| ++.|+++|++.++||||||+| ++++.+++ |++++|+++++ |||||||..
T Consensus 74 ~~~~~--~-~~~~~~v~~G~p-~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~---~va~~V~~~s~--~pVLvv~~~ 140 (142)
T PRK09982 74 TKNIQ--W-PKTKLRIERGEM-PETLLEIMQKEQCDLLVCGHH-HSFINRLM---PAYRGMINKMS--ADLLIVPFI 140 (142)
T ss_pred HHhcC--C-CcceEEEEecCH-HHHHHHHHHHcCCCEEEEeCC-hhHHHHHH---HHHHHHHhcCC--CCEEEecCC
Confidence 65543 2 457788889999 899999999999999999986 77777644 39999999999 999999864
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.90 E-value=6.6e-23 Score=166.15 Aligned_cols=136 Identities=15% Similarity=0.126 Sum_probs=96.6
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKY 128 (257)
Q Consensus 51 ~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~ 128 (257)
+|++||||+|||+ ..||++|+.+|+..+++|++|||..+..... .+... .....+.+...+..++.|+++
T Consensus 2 ~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~--~~~~~------~~~~~~~~~~~~~~~~~l~~~ 73 (144)
T PRK15118 2 AYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDLY--TGLID------VNLGDMQKRISEETHHALTEL 73 (144)
T ss_pred CceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhhh--hhhhh------cchHHHHHHHHHHHHHHHHHH
Confidence 4899999999999 9999999999988899999999953321110 01000 001122222233333444443
Q ss_pred HHHhhhCCCeeEE-EEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 129 IRLCNDAKQVTVE-TMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 129 ~~~~~~~g~v~ve-~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
. ...+ +.+. .++..|+| +++|+++|++.++||||||+||. .+. . +| ||+++|+++++ |||||||..
T Consensus 74 ~---~~~~-~~~~~~~~~~G~p-~~~I~~~a~~~~~DLIV~Gs~~~-~~~-~-lg-Sva~~v~~~a~--~pVLvv~~~ 140 (144)
T PRK15118 74 S---TNAG-YPITETLSGSGDL-GQVLVDAIKKYDMDLVVCGHHQD-FWS-K-LM-SSARQLINTVH--VDMLIVPLR 140 (144)
T ss_pred H---HhCC-CCceEEEEEecCH-HHHHHHHHHHhCCCEEEEeCccc-HHH-H-HH-HHHHHHHhhCC--CCEEEecCC
Confidence 3 3345 6654 45567999 89999999999999999999973 443 3 56 99999999999 999999864
No 6
>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=99.88 E-value=1.2e-21 Score=153.53 Aligned_cols=138 Identities=22% Similarity=0.316 Sum_probs=98.5
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKY 128 (257)
Q Consensus 51 ~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~ 128 (257)
++++||||+|+|+ ..|++||+.+|...+++|++|||++....... ... ........... .........
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~--~~~-----~~~~~~~~~~~--~~~~~~~~~- 70 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSF--SAA-----EDEESEEEAEE--EEQARQAEA- 70 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHH--HHH-----HHHHHHHHHHH--HHHHHHHHH-
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeecccccccc--ccc-----cccccccccch--hhhhhhHHH-
Confidence 4799999999999 99999999999999999999999987642110 000 00000000000 000000010
Q ss_pred HHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 129 IRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 129 ~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
........ ......+..|++ +++|++++++.++|+||||+++++.+.++++| |++++|+++++ |||||||
T Consensus 71 ~~~~~~~~-~~~~~~~~~~~~-~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~g-s~~~~l~~~~~--~pVlvv~ 140 (140)
T PF00582_consen 71 EEAEAEGG-IVIEVVIESGDV-ADAIIEFAEEHNADLIVMGSRGRSGLERLLFG-SVAEKLLRHAP--CPVLVVP 140 (140)
T ss_dssp HHHHHHTT-SEEEEEEEESSH-HHHHHHHHHHTTCSEEEEESSSTTSTTTSSSH-HHHHHHHHHTS--SEEEEEE
T ss_pred HHHhhhcc-ceeEEEEEeecc-chhhhhccccccceeEEEeccCCCCccCCCcC-CHHHHHHHcCC--CCEEEeC
Confidence 11222233 556666777777 89999999999999999999999999987776 99999999999 9999996
No 7
>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=99.87 E-value=5.3e-21 Score=151.16 Aligned_cols=129 Identities=22% Similarity=0.248 Sum_probs=105.2
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
+||||+|+|+ ..+|++|..+|...+++|+++||++....... . . .....+..++.++.+.+.
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~--~----------~----~~~~~~~~~~~~~~~~~~ 64 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSSP--S----------Q----LEVNVQRARKLLRQAERI 64 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCCc--c----------h----hHHHHHHHHHHHHHHHHH
Confidence 6999999999 99999999999989999999999986532110 0 0 011123455667777777
Q ss_pred hhhCCCeeEEEEEEe-cCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 132 CNDAKQVTVETMLVE-SKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~-G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
+...+ ++++..+.. |++ .++|++++++.++|+||||+++++.+.+.++| |++.+|+++++ |||+|||
T Consensus 65 ~~~~g-~~~~~~~~~~~~~-~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lG-s~~~~v~~~~~--~pvlvv~ 132 (132)
T cd01988 65 AASLG-VPVHTIIRIDHDI-ASGILRTAKERQADLIIMGWHGSTSLRDRLFG-GVIDQVLESAP--CDVAVVK 132 (132)
T ss_pred hhhcC-CceEEEEEecCCH-HHHHHHHHHhcCCCEEEEecCCCCCccceecC-chHHHHHhcCC--CCEEEeC
Confidence 77778 888888765 666 89999999999999999999999998777777 99999999999 9999986
No 8
>PRK10116 universal stress protein UspC; Provisional
Probab=99.87 E-value=5.2e-21 Score=154.28 Aligned_cols=136 Identities=18% Similarity=0.189 Sum_probs=102.9
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKY 128 (257)
Q Consensus 51 ~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~ 128 (257)
+|++|||++|+|+ ..||++|+.+|+..+++|+++|+++...... . .. ....+.+.+..+++.++.|+++
T Consensus 2 ~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~---~-~~-----~~~~~~~~~~~~~~~~~~l~~~ 72 (142)
T PRK10116 2 SYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYN---Q-FA-----APMLEDLRSVMQEETQSFLDKL 72 (142)
T ss_pred CCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccch---h-hh-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999 9999999999998999999999986642111 1 10 1112233333344445555554
Q ss_pred HHHhhhCCCeeE-EEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 129 IRLCNDAKQVTV-ETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 129 ~~~~~~~g~v~v-e~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
.. ..+ ++. ...+..|++ .+.|++++++.++||||||+||++++.++ + |++++|+++++ |||||||..
T Consensus 73 ~~---~~~-~~~~~~~~~~G~~-~~~I~~~a~~~~~DLiV~g~~~~~~~~~~--~-s~a~~v~~~~~--~pVLvv~~~ 140 (142)
T PRK10116 73 IQ---DAD-YPIEKTFIAYGEL-SEHILEVCRKHHFDLVICGNHNHSFFSRA--S-CSAKRVIASSE--VDVLLVPLT 140 (142)
T ss_pred HH---hcC-CCeEEEEEecCCH-HHHHHHHHHHhCCCEEEEcCCcchHHHHH--H-HHHHHHHhcCC--CCEEEEeCC
Confidence 32 335 654 356778999 89999999999999999999999988753 4 89999999999 999999864
No 9
>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=9.5e-21 Score=149.38 Aligned_cols=121 Identities=25% Similarity=0.273 Sum_probs=95.8
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
+||||+|+|+ .+|++||+.++...+++|++|||.++.... . . ++.++.|+.+.+.
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~------~-----~------------~~~~~~l~~~~~~ 57 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNR------L-----S------------EAERRRLAEALRL 57 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCcccc------C-----C------------HHHHHHHHHHHHH
Confidence 6999999999 999999999999999999999998754210 0 0 1123345555555
Q ss_pred hhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhC-CCCceEEEEc
Q 025166 132 CNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNA-PDYCEVTIVH 203 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A-~~~cPVLVVr 203 (257)
+.+.+ +++. .+..|++ ++.|+++++++++|+||||+++++.+.+.++| |++++|++++ + |||+|++
T Consensus 58 ~~~~~-~~~~-~~~~~~~-~~~I~~~~~~~~~dllviG~~~~~~~~~~~~G-s~~~~v~~~a~~--~~v~v~~ 124 (124)
T cd01987 58 AEELG-AEVV-TLPGDDV-AEAIVEFAREHNVTQIVVGKSRRSRWRELFRG-SLVDRLLRRAGN--IDVHIVA 124 (124)
T ss_pred HHHcC-CEEE-EEeCCcH-HHHHHHHHHHcCCCEEEeCCCCCchHHHHhcc-cHHHHHHHhCCC--CeEEEeC
Confidence 55545 5432 2334555 89999999999999999999999999988777 9999999999 8 9999984
No 10
>PRK11175 universal stress protein UspE; Provisional
Probab=99.85 E-value=1.5e-20 Score=169.94 Aligned_cols=143 Identities=15% Similarity=0.205 Sum_probs=110.6
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKY 128 (257)
Q Consensus 51 ~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~ 128 (257)
+|++||||+|+|+ ..||++|+.+|+..+++|++|||++.... ... +.+ .........+...+..++.|+++
T Consensus 2 ~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~-~~~-~~~-----~~~~~~~~~~~~~~~~~~~l~~~ 74 (305)
T PRK11175 2 KYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSY-EMT-TLL-----SPDEREAMRQGVISQRTAWIREQ 74 (305)
T ss_pred CcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchh-hhh-ccc-----chhHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999 99999999999999999999999865321 111 111 01111122222233455667777
Q ss_pred HHHhhhCCCeeEEEEEE-ecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 129 IRLCNDAKQVTVETMLV-ESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 129 ~~~~~~~g~v~ve~~v~-~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
...+...+ ++++..+. .|++ .++|+++|++.++||||||++|.+++.+.++| |++.+|+++++ ||||||+.+
T Consensus 75 ~~~~~~~~-~~~~~~v~~~g~~-~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~g-s~~~~l~~~~~--~pvlvv~~~ 147 (305)
T PRK11175 75 AKPYLDAG-IPIEIKVVWHNRP-FEAIIQEVIAGGHDLVVKMTHQHDKLESVIFT-PTDWHLLRKCP--CPVLMVKDQ 147 (305)
T ss_pred HHHHhhcC-CceEEEEecCCCc-HHHHHHHHHhcCCCEEEEeCCCCcHHHhhccC-hhHHHHHhcCC--CCEEEeccc
Confidence 76666667 88888777 4777 89999999999999999999999998887777 99999999999 999999974
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.81 E-value=3.2e-19 Score=161.23 Aligned_cols=141 Identities=16% Similarity=0.158 Sum_probs=102.5
Q ss_pred CCCeEEEeecCCh---------HHHHHHHHHHhcCC-CCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD---------LHVLKWALDHAVSP-GARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNR 120 (257)
Q Consensus 51 ~~~kILVaVDgS~---------~~AL~~Al~~a~~~-~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~ 120 (257)
.+++||||+|+|+ ..||++|+.+|... +++|+++||++....... ..++. . ....+.+..++.
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~--~~~~~--~---~~~~~~~~~~~~ 223 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIA--IELPE--F---DPSVYNDAIRGQ 223 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhcc--ccccc--c---chhhHHHHHHHH
Confidence 4789999999986 26999999999887 999999999875421100 00100 0 011122222333
Q ss_pred HHHHHHHHHHHhhhCCCeeE-EEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceE
Q 025166 121 RRNLLQKYIRLCNDAKQVTV-ETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEV 199 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~v-e~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPV 199 (257)
..+.++++.+.+ + +.. ..++..|++ .+.|++++++.++||||||++|++++.++++| |++++|+++++ |||
T Consensus 224 ~~~~l~~~~~~~---~-~~~~~~~v~~G~~-~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llG-S~a~~v~~~~~--~pV 295 (305)
T PRK11175 224 HLLAMKALRQKF---G-IDEEQTHVEEGLP-EEVIPDLAEHLDAELVILGTVGRTGLSAAFLG-NTAEHVIDHLN--CDL 295 (305)
T ss_pred HHHHHHHHHHHh---C-CChhheeeccCCH-HHHHHHHHHHhCCCEEEECCCccCCCcceeec-chHHHHHhcCC--CCE
Confidence 344455554433 4 443 456778988 89999999999999999999999999988887 99999999999 999
Q ss_pred EEEcCCC
Q 025166 200 TIVHDGK 206 (257)
Q Consensus 200 LVVr~~~ 206 (257)
||||+..
T Consensus 296 Lvv~~~~ 302 (305)
T PRK11175 296 LAIKPDG 302 (305)
T ss_pred EEEcCCC
Confidence 9998643
No 12
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.80 E-value=3.9e-18 Score=137.00 Aligned_cols=147 Identities=27% Similarity=0.300 Sum_probs=112.3
Q ss_pred CCCCeEEEeec-CCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHH
Q 025166 50 AAASDVYVAVG-KDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQ 126 (257)
Q Consensus 50 ~~~~kILVaVD-gS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~ 126 (257)
..+++||+++| +++ ..|+++|...+...+..+.+++|.+.............. . ..............+.++
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~----~-~~~~~~~~~~~~~~~~~~ 77 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALAD----A-PIPLSEEELEEEAEELLA 77 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEeccccccccccccccc----c-hhhhhHHHHHHHHHHHHH
Confidence 35799999999 999 999999999999999999999999775422111100000 0 000111222344556677
Q ss_pred HHHHHhhhCCCee-EEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 127 KYIRLCNDAKQVT-VETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 127 ~~~~~~~~~g~v~-ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
...+.+...+ +. ++..+..|.+..+.|++++.+.++|+||||++|++++++.++| |++++|+++++ |||+||+..
T Consensus 78 ~~~~~~~~~~-~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llG-svs~~v~~~~~--~pVlvv~~~ 153 (154)
T COG0589 78 EAKALAEAAG-VPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLG-SVAEKVLRHAP--CPVLVVRSE 153 (154)
T ss_pred HHHHHHHHcC-CCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeee-hhHHHHHhcCC--CCEEEEccC
Confidence 7777777767 77 5889999999669999999999999999999999999986666 99999999999 999999864
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=99.78 E-value=1.2e-17 Score=129.45 Aligned_cols=128 Identities=30% Similarity=0.393 Sum_probs=105.7
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
+||||+|+++ ..+++||..+|...+++|+++||.+....... ...+....+.++.|+++...
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 5999999999 99999999999999999999999876432110 11122234456678888777
Q ss_pred hhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 132 CNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
+...+ +++...+..|.+ +++|.+++++.++|+||||+++++.+.+.++| |++.+++++++ |||++|
T Consensus 65 ~~~~~-~~~~~~~~~~~~-~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~-~~~~~ll~~~~--~pvliv 130 (130)
T cd00293 65 LAEAG-VKVETVVLEGDP-AEAILEAAEELGADLIVMGSRGRSGLRRLLLG-SVAERVLRHAP--CPVLVV 130 (130)
T ss_pred HhcCC-CceEEEEecCCC-HHHHHHHHHHcCCCEEEEcCCCCCccceeeec-cHHHHHHhCCC--CCEEeC
Confidence 76667 888888999998 89999999999999999999999988776766 99999999999 999985
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.50 E-value=2.9e-13 Score=126.37 Aligned_cols=105 Identities=20% Similarity=0.285 Sum_probs=76.4
Q ss_pred CCCCeEEEeecCCh--HHHHHHHHHHhcCC--CCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHH
Q 025166 50 AAASDVYVAVGKDD--LHVLKWALDHAVSP--GARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLL 125 (257)
Q Consensus 50 ~~~~kILVaVDgS~--~~AL~~Al~~a~~~--~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL 125 (257)
.+|+|||||+|||+ .+|+++|+++|+.. +++|++|||.+....... . + ...+..++++
T Consensus 3 ~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~--~---------~-------~~~~~~eell 64 (357)
T PRK12652 3 MAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDPE--G---------Q-------DELAAAEELL 64 (357)
T ss_pred cccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCcccccc--h---------h-------HHHHHHHHHH
Confidence 36899999999999 99999999999874 699999999986432110 0 0 0011222333
Q ss_pred HHHHHHhhh------CCCeeEEEEEEe--------cCchHHHHHHHHhhCCCcEEEEccCCCC
Q 025166 126 QKYIRLCND------AKQVTVETMLVE--------SKATAKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 126 ~~~~~~~~~------~g~v~ve~~v~~--------G~~va~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
+++.+.+.+ .+ +++++.++. |+| +++|+++|+++++||||||-.-.-
T Consensus 65 e~~~~~~~~~l~~~~~g-V~ve~~vv~~~~~~~~~G~p-ae~Iv~~Aee~~aDLIVm~~~~~~ 125 (357)
T PRK12652 65 ERVEVWATEDLGDDASS-VTIETALLGTDEYLFGPGDY-AEVLIAYAEEHGIDRVVLDPEYNP 125 (357)
T ss_pred HHHHHHHHHhhhcccCC-CceEEEEEeccccccCCCCH-HHHHHHHHHHcCCCEEEECCCCCC
Confidence 333333322 47 889988876 788 999999999999999999987543
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.24 E-value=1.9e-10 Score=119.04 Aligned_cols=126 Identities=19% Similarity=0.247 Sum_probs=97.1
Q ss_pred CCCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHH
Q 025166 50 AAASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQK 127 (257)
Q Consensus 50 ~~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~ 127 (257)
+...+|||+|++++ .+++++|.++|.+.++++++|||..+.... . .. ..++.+.+
T Consensus 248 ~~~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~------~-----~~------------~~~~~l~~ 304 (895)
T PRK10490 248 HTRDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHR------L-----PE------------KKRRAILS 304 (895)
T ss_pred CcCCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCc------C-----CH------------HHHHHHHH
Confidence 34678999999999 899999999999999999999998653210 0 00 01112333
Q ss_pred HHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 128 YIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 128 ~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
..++++..| .+ ...+.|+.++++|+++|++.+++.||||.++++.+ |+.||+++++++.++ ++.|.||+..
T Consensus 305 ~~~lA~~lG-a~--~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~---~~~~s~~~~l~r~~~-~idi~iv~~~ 375 (895)
T PRK10490 305 ALRLAQELG-AE--TATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRW---WRRESFADRLARLGP-DLDLVIVALD 375 (895)
T ss_pred HHHHHHHcC-CE--EEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC---ccCCCHHHHHHHhCC-CCCEEEEeCC
Confidence 334555555 44 56677877799999999999999999999998875 445599999999997 8999999744
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.03 E-value=3.8e-09 Score=105.93 Aligned_cols=130 Identities=22% Similarity=0.208 Sum_probs=105.0
Q ss_pred CCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHH
Q 025166 51 AASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKY 128 (257)
Q Consensus 51 ~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~ 128 (257)
...+|||++++++ .+.+++|.++|.+.++++++|||..+..... .+..++.|.+.
T Consensus 247 ~~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~-----------------------~~~~~~~l~~~ 303 (890)
T COG2205 247 ARERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELHRL-----------------------SEKEARRLHEN 303 (890)
T ss_pred ccceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEeccccccc-----------------------cHHHHHHHHHH
Confidence 4578999999999 9999999999999999999999987653110 01122345556
Q ss_pred HHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCCcc
Q 025166 129 IRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGKKV 208 (257)
Q Consensus 129 ~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~~~ 208 (257)
..+++.-| .+++.+.|..++++|++||+.+++..||||.+.++.++++|.+ |.++++++.++ +..|.||+.+...
T Consensus 304 ~~Lae~lG---ae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~-~l~~~L~~~~~-~idv~ii~~~~~~ 378 (890)
T COG2205 304 LRLAEELG---AEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKG-SLADRLAREAP-GIDVHIVALDAPP 378 (890)
T ss_pred HHHHHHhC---CeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcc-cHHHHHHhcCC-CceEEEeeCCCCc
Confidence 66666544 4677888888899999999999999999999999998876665 99999999997 7999999875443
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=98.10 E-value=1.4e-05 Score=59.04 Aligned_cols=48 Identities=13% Similarity=0.082 Sum_probs=40.6
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCCCcccccccC-CHHHHHHhhCCCCceEEE
Q 025166 151 AKAILDLISVANVTSLVMGTKLSPRSRLFTKKL-SKGEFVKKNAPDYCEVTI 201 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGg-SVs~~Vv~~A~~~cPVLV 201 (257)
...+.+++++.++|+|++|+++...... ++++ |++.++++.++ |||+.
T Consensus 37 ~~~~~~~a~~~~~~~Iv~G~~~~d~~~~-~~~~~~~~~~~~~~~~--~~vl~ 85 (86)
T cd01984 37 VRILKRLAAEEGADVIILGHNADDVAGR-RLGASANVLVVIKGAG--IPVLT 85 (86)
T ss_pred HHHHHHHHHHcCCCEEEEcCCchhhhhh-ccCchhhhhhcccccC--CceeC
Confidence 5667788888899999999999888765 4455 89999999999 99974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.04 E-value=0.007 Score=62.86 Aligned_cols=148 Identities=13% Similarity=0.154 Sum_probs=83.8
Q ss_pred CCCCCeEEEeecCCh--HHHHHHHHHH--hcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHH
Q 025166 49 DAAASDVYVAVGKDD--LHVLKWALDH--AVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNL 124 (257)
Q Consensus 49 ~~~~~kILVaVDgS~--~~AL~~Al~~--a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~l 124 (257)
....-|||+++-..+ ...+..+-.. ..+..-.++++|.++...... +.- + ..+........+ .......+++
T Consensus 455 ~~~elriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~-~~l-~-~h~~~~~~~~~~-~~~~~~~~~i 530 (832)
T PLN03159 455 HDAELRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRAS-AML-I-VHNTRKSGRPAL-NRTQAQSDHI 530 (832)
T ss_pred CCCceeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCc-cce-e-eeeccccccccc-ccccccccHH
Confidence 345678999999887 5555543221 123346899999998643211 000 0 000000000000 0001112344
Q ss_pred HHHHHHHhhh-CCCeeEEEEE--EecCchHHHHHHHHhhCCCcEEEEccCCCCCcccc------cccCCHHHHHHhhCCC
Q 025166 125 LQKYIRLCND-AKQVTVETML--VESKATAKAILDLISVANVTSLVMGTKLSPRSRLF------TKKLSKGEFVKKNAPD 195 (257)
Q Consensus 125 L~~~~~~~~~-~g~v~ve~~v--~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~------~lGgSVs~~Vv~~A~~ 195 (257)
+..+...... .. +.++... ..-....+.||..|++..+++||++-|.+...... .++ .+-.+|+++||
T Consensus 531 ~~af~~~~~~~~~-v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r-~~n~~VL~~Ap- 607 (832)
T PLN03159 531 INAFENYEQHAGC-VSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFR-GVNQNVLANAP- 607 (832)
T ss_pred HHHHHHHHhhcCc-eEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHH-HHHHHHHccCC-
Confidence 5544443322 24 7666544 33346699999999999999999999976443221 333 67899999999
Q ss_pred CceEEEEcC
Q 025166 196 YCEVTIVHD 204 (257)
Q Consensus 196 ~cPVLVVr~ 204 (257)
|+|-|.=+
T Consensus 608 -CsVgIlVD 615 (832)
T PLN03159 608 -CSVGILVD 615 (832)
T ss_pred -CCEEEEEe
Confidence 99966544
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=96.45 E-value=0.071 Score=55.50 Aligned_cols=149 Identities=13% Similarity=0.148 Sum_probs=78.4
Q ss_pred CCeEEEee-cCCh-HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcc--cccccccccHHHHHHHHHHHHHHHHHHHHH
Q 025166 52 ASDVYVAV-GKDD-LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPV--GRLARSQLNQEQVRVYVNEENNRRRNLLQK 127 (257)
Q Consensus 52 ~~kILVaV-DgS~-~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~--g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~ 127 (257)
..+|.+.. .|.+ ++||.+|.+++..++-.++++|..+......... ...+.+...+ ......+.+++.-++.+++
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~~~D~~~~~e 708 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGEDAAPTASQPASSPSDPRIP-TVETDGKKERQLDEEYINE 708 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEcccccccccccccccccccccc-cccccchhHHHHHHHHHHH
Confidence 44788877 5666 9999999999999999999999886532111000 0000000000 0000001122233556777
Q ss_pred HHHHhhhCCCeeEEEEEEe-cCchHHHHHHHHhhCCCcEEEEccCCCC------Ccccc----cccCCHHHHHHhh---C
Q 025166 128 YIRLCNDAKQVTVETMLVE-SKATAKAILDLISVANVTSLVMGTKLSP------RSRLF----TKKLSKGEFVKKN---A 193 (257)
Q Consensus 128 ~~~~~~~~g~v~ve~~v~~-G~~va~~Il~~A~e~~aDLIVmGsrG~s------~l~r~----~lGgSVs~~Vv~~---A 193 (257)
++......+.+.+..+++. |..+..+|-+.. .+.||+|||+++.. ++.+| =|| -+.+.+.-. .
T Consensus 709 f~~~~~~~~~v~y~E~~V~~~~e~~~~l~~~~--~~ydL~iVGr~~~~~~~~~~gL~~w~e~pELG-~iGD~LaS~d~~~ 785 (832)
T PLN03159 709 FRARNAGNESIVYTEKVVSNGEETVAAIRSMD--SAHDLFIVGRGQGMISPLTAGLTDWSECPELG-AIGDLLASSDFAA 785 (832)
T ss_pred HHHhcCCCCceEEEEEecCCHHHHHHHHHHhh--ccCcEEEEecCCCCCcchhccccccccCCccc-hhhhHHhcCCCCC
Confidence 7766543232666665553 333222222222 24899999986432 22222 133 555544432 2
Q ss_pred CCCceEEEEcCCC
Q 025166 194 PDYCEVTIVHDGK 206 (257)
Q Consensus 194 ~~~cPVLVVr~~~ 206 (257)
. ..||||....
T Consensus 786 ~--~SVLVvQQ~~ 796 (832)
T PLN03159 786 T--VSVLVVQQYV 796 (832)
T ss_pred c--eeEEEEEeec
Confidence 3 6899997654
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=95.00 E-value=0.43 Score=40.06 Aligned_cols=93 Identities=14% Similarity=0.166 Sum_probs=54.6
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
+|+|++.|.. .-++.++.+.+...+.++.++||-.... + .. .+..+.+...
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~--~-------------~~------------~~~~~~~~~~ 53 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLR--P-------------ES------------DEEAEFVQQF 53 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCC--h-------------hH------------HHHHHHHHHH
Confidence 5899999999 5556565555544567899999853321 0 00 0011222223
Q ss_pred hhhCCCeeEEEEEEe--------cCchH--------HHHHHHHhhCCCcEEEEccCCCC
Q 025166 132 CNDAKQVTVETMLVE--------SKATA--------KAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~--------G~~va--------~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
|...| ++....-.. +...- ..|.++|++.+++.|+.|.+..-
T Consensus 54 ~~~~g-i~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D 111 (189)
T TIGR02432 54 CKKLN-IPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADD 111 (189)
T ss_pred HHHcC-CCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHH
Confidence 33445 554433221 11111 57788999999999999998654
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=92.76 E-value=1.6 Score=36.63 Aligned_cols=91 Identities=12% Similarity=0.299 Sum_probs=47.3
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
||+||+-|.. ...|....++....+-++.++||-.... .. . ....+.+.+ .
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~--~~-------------s---------~~~~~~v~~---~ 53 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLR--EE-------------S---------DEEAEFVEE---I 53 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STS--CC-------------H---------HHHHHHHHH---H
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCC--cc-------------c---------chhHHHHHH---H
Confidence 6999999988 4444444445555677999999975431 00 0 011122333 3
Q ss_pred hhhCCCeeEEEEEEe-----cCch--------HHHHHHHHhhCCCcEEEEccCC
Q 025166 132 CNDAKQVTVETMLVE-----SKAT--------AKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~-----G~~v--------a~~Il~~A~e~~aDLIVmGsrG 172 (257)
|...+ ++....-.. +... ...+.++|.+++++.|++|.|.
T Consensus 54 ~~~~~-i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~ 106 (182)
T PF01171_consen 54 CEQLG-IPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHL 106 (182)
T ss_dssp HHHTT--EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BH
T ss_pred HHhcC-CceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcC
Confidence 44445 665554443 1111 2466789999999999999875
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=92.71 E-value=1.9 Score=35.82 Aligned_cols=94 Identities=13% Similarity=0.148 Sum_probs=53.3
Q ss_pred eEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 54 DVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 54 kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
+|+|++.|.. .-++.++.+.....+.++.++|+-.... . . . .+.++.+.+.
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~--~------------~-~------------~~~~~~~~~~ 53 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLR--P------------E-S------------DEEAAFVADL 53 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCC--c------------h-H------------HHHHHHHHHH
Confidence 6899999999 5555555554443467899999853311 0 0 0 0011222223
Q ss_pred hhhCCCeeEEEE--E-EecCch----------HHHHHHHHhhCCCcEEEEccCCCCC
Q 025166 132 CNDAKQVTVETM--L-VESKAT----------AKAILDLISVANVTSLVMGTKLSPR 175 (257)
Q Consensus 132 ~~~~g~v~ve~~--v-~~G~~v----------a~~Il~~A~e~~aDLIVmGsrG~s~ 175 (257)
|...+ ++.... . ..+... ...+.++|++.+++.|+.|.+....
T Consensus 54 ~~~~~-i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD~ 109 (185)
T cd01992 54 CAKLG-IPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQ 109 (185)
T ss_pred HHHcC-CcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHHH
Confidence 33335 555443 1 111110 1557788999999999999986543
No 23
>PRK12342 hypothetical protein; Provisional
Probab=90.94 E-value=2.9 Score=37.57 Aligned_cols=96 Identities=16% Similarity=0.133 Sum_probs=56.3
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
.+||+.|+++. ..|++|++|++-++.. ....++.++..+=.+.. +-+...
T Consensus 38 ~~AlE~AlrLk-~~g~~Vtvls~Gp~~a----------------------------~~~~l~r~alamGaD~a-vli~d~ 87 (254)
T PRK12342 38 LNAIEAASQLA-TDGDEIAALTVGGSLL----------------------------QNSKVRKDVLSRGPHSL-YLVQDA 87 (254)
T ss_pred HHHHHHHHHHh-hcCCEEEEEEeCCChH----------------------------hHHHHHHHHHHcCCCEE-EEEecC
Confidence 89999999887 6789999998754320 01112333333322222 333322
Q ss_pred EEecCch---HHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCC
Q 025166 144 LVESKAT---AKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAP 194 (257)
Q Consensus 144 v~~G~~v---a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~ 194 (257)
...|.+. +..|..++++.++|||+.|....-+-. | -|.-.+...-.
T Consensus 88 ~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~t----g-qvg~~lA~~Lg 136 (254)
T PRK12342 88 QLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLYA----Q-QVGLLLGELLQ 136 (254)
T ss_pred ccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCCC----C-CHHHHHHHHhC
Confidence 2234332 678888999889999999976543322 2 44445555544
No 24
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=89.66 E-value=4.2 Score=36.63 Aligned_cols=99 Identities=15% Similarity=0.054 Sum_probs=57.7
Q ss_pred HHHHHHHHHHhcCCC-CeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEE
Q 025166 64 LHVLKWALDHAVSPG-ARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVET 142 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~-a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~ 142 (257)
..||+.|+++....+ .+|++|++-++.. .....|.++..+=.+.. +-+..
T Consensus 39 ~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a----------------------------~~~~~lr~aLAmGaD~a-vli~d 89 (256)
T PRK03359 39 LNAIEAACQLKQQAAEAQVTALSVGGKAL----------------------------TNAKGRKDVLSRGPDEL-IVVID 89 (256)
T ss_pred HHHHHHHHHHhhhcCCCEEEEEEECCcch----------------------------hhHHHHHHHHHcCCCEE-EEEec
Confidence 899999998887654 7999998865421 01122444333322222 33322
Q ss_pred EEEec-C--chHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCce
Q 025166 143 MLVES-K--ATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCE 198 (257)
Q Consensus 143 ~v~~G-~--~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cP 198 (257)
.-..| + .++..|..++++.++|||+.|....-+-. | -|.-.+..... .|
T Consensus 90 ~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~~t----g-qvg~~lAe~Lg--~P 141 (256)
T PRK03359 90 DQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDLYA----Q-QVGLLVGEILN--IP 141 (256)
T ss_pred CcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccCCC----C-cHHHHHHHHhC--CC
Confidence 22223 2 23677888899989999999987644322 2 44445555555 55
No 25
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=88.19 E-value=2.7 Score=37.93 Aligned_cols=80 Identities=16% Similarity=0.203 Sum_probs=49.9
Q ss_pred HHHHHHHHHHhc-CCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEE
Q 025166 64 LHVLKWALDHAV-SPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVET 142 (257)
Q Consensus 64 ~~AL~~Al~~a~-~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~ 142 (257)
..|++.|+++.. ..+.++++|++=++. +++.|.++..+=.+.. +-++.
T Consensus 40 ~~AvEeAlrLke~~~~~eV~vlt~Gp~~------------------------------a~~~lr~aLAmGaDra-ili~d 88 (260)
T COG2086 40 LNAVEEALRLKEKGYGGEVTVLTMGPPQ------------------------------AEEALREALAMGADRA-ILITD 88 (260)
T ss_pred HHHHHHHHHhhccCCCceEEEEEecchh------------------------------hHHHHHHHHhcCCCeE-EEEec
Confidence 899999999887 589999999975432 1112222222211112 22221
Q ss_pred EEEecC---chHHHHHHHHhhCCCcEEEEccCCCC
Q 025166 143 MLVESK---ATAKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 143 ~v~~G~---~va~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
.-..+. .++..|..++++.+.|||++|...--
T Consensus 89 ~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~D 123 (260)
T COG2086 89 RAFAGADPLATAKALAAAVKKIGPDLVLTGKQAID 123 (260)
T ss_pred ccccCccHHHHHHHHHHHHHhcCCCEEEEeccccc
Confidence 112232 24788889999999999999987653
No 26
>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=85.96 E-value=16 Score=30.00 Aligned_cols=23 Identities=13% Similarity=0.177 Sum_probs=18.9
Q ss_pred HHHHHHHHhhCCCcEEEEccCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
...+.++|++++++.|+.|.+..
T Consensus 95 ~~~l~~~a~~~g~~~l~~Gh~~d 117 (185)
T cd01993 95 RGLLNKIAKELGADKLATGHNLD 117 (185)
T ss_pred HHHHHHHHHHcCCCEEEEcCChH
Confidence 35677889999999999999864
No 27
>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=84.89 E-value=10 Score=36.52 Aligned_cols=85 Identities=8% Similarity=0.020 Sum_probs=56.0
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||..|++.|...+.+|+.|+++++..... + . .. ..-+.+-|..+.+.+.+.| +. ..
T Consensus 38 N~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~---~--------~-~r-------~~Fl~esL~~L~~~L~~~g-~~--L~ 95 (454)
T TIGR00591 38 NWALIAAQTLALKKKLPLHVCFCLVDFFLAA---T--------R-RH-------YFFMLGGLDEVANECERLI-IP--FH 95 (454)
T ss_pred CHHHHHHHHHHHHcCCCEEEEEEeCCCcccc---c--------H-HH-------HHHHHHHHHHHHHHHHHcC-Cc--eE
Confidence 5788888876655567899999998753211 1 0 00 1122333455555555555 44 46
Q ss_pred EEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 144 LVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 144 v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
+..|++ .+.|.+++++++|+.|+.-..
T Consensus 96 v~~g~~-~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 96 LLDGPP-KELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred EeecCh-HHHHHHHHHHcCCCEEEEecc
Confidence 678999 799999999999999998663
No 28
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=83.58 E-value=9.8 Score=31.77 Aligned_cols=73 Identities=18% Similarity=0.228 Sum_probs=48.7
Q ss_pred HHHHHhhhCCCeeEEEEEEecCchHHHHHHHH---hhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 127 KYIRLCNDAKQVTVETMLVESKATAKAILDLI---SVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A---~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
++.+.+.+.+ ++++..++..+..-+.+.+|| ++.++..||-|+-|.-. +-| -|....+ .||+=||
T Consensus 20 ~Aa~~L~~fg-i~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAH----LPG-----mvAa~T~--lPViGVP 87 (162)
T COG0041 20 KAAEILEEFG-VPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAH----LPG-----MVAAKTP--LPVIGVP 87 (162)
T ss_pred HHHHHHHHcC-CCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhh----cch-----hhhhcCC--CCeEecc
Confidence 3334444457 999999988766456666665 66778889999877433 345 3446678 9999998
Q ss_pred CCCccccc
Q 025166 204 DGKKVVDG 211 (257)
Q Consensus 204 ~~~~~~~~ 211 (257)
-.......
T Consensus 88 v~s~~L~G 95 (162)
T COG0041 88 VQSKALSG 95 (162)
T ss_pred Cccccccc
Confidence 76433333
No 29
>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=82.62 E-value=9.9 Score=31.12 Aligned_cols=117 Identities=14% Similarity=0.122 Sum_probs=63.0
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||..| ...+.+|..|+|+++....+...| +. .. .-..+-|..+...+.+.| + ...
T Consensus 14 N~aL~~A----~~~~~~v~~vfv~d~~~~~~~~~~--------~~-r~-------~Fl~~sL~~L~~~L~~~g-~--~L~ 70 (165)
T PF00875_consen 14 NPALHAA----AQNGDPVLPVFVFDPEEFHPYRIG--------PR-RR-------RFLLESLADLQESLRKLG-I--PLL 70 (165)
T ss_dssp -HHHHHH----HHTTSEEEEEEEE-HHGGTTCSSC--------HH-HH-------HHHHHHHHHHHHHHHHTT-S---EE
T ss_pred hHHHHHH----HHcCCCeEEEEEecccccccccCc--------ch-HH-------HHHHHHHHHHHHHHHhcC-c--ceE
Confidence 3455555 345788999999987621111001 10 01 112333555555555555 4 467
Q ss_pred EEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCCccc
Q 025166 144 LVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGKKVV 209 (257)
Q Consensus 144 v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~~~~ 209 (257)
++.|++ .+.|.+++++.+++.|+.-..- +...+..-- .+.+. +.... |.+..+.......
T Consensus 71 v~~g~~-~~~l~~l~~~~~~~~V~~~~~~-~~~~~~rd~-~v~~~-l~~~~--i~~~~~~~~~L~~ 130 (165)
T PF00875_consen 71 VLRGDP-EEVLPELAKEYGATAVYFNEEY-TPYERRRDE-RVRKA-LKKHG--IKVHTFDDHTLVP 130 (165)
T ss_dssp EEESSH-HHHHHHHHHHHTESEEEEE----SHHHHHHHH-HHHHH-HHHTT--SEEEEE--SSSS-
T ss_pred EEecch-HHHHHHHHHhcCcCeeEecccc-CHHHHHHHH-HHHHH-HHhcc--eEEEEECCcEEEe
Confidence 888998 7999999999999999976543 322222212 34433 34446 8888887654433
No 30
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=81.85 E-value=25 Score=31.24 Aligned_cols=23 Identities=9% Similarity=0.125 Sum_probs=19.1
Q ss_pred HHHHHHHhhCCCcEEEEccCCCC
Q 025166 152 KAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 152 ~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
..+.++|.+.++|.|++|.+.--
T Consensus 121 ~~l~~~a~~~g~~~Ia~GH~~dD 143 (258)
T PRK10696 121 GILYRTARELGATKIALGHHRDD 143 (258)
T ss_pred HHHHHHHHHcCCCEEEEcCchHH
Confidence 45678899999999999998643
No 31
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=79.70 E-value=42 Score=29.94 Aligned_cols=38 Identities=21% Similarity=0.118 Sum_probs=27.6
Q ss_pred CCeEEEeecCCh-HHHHHHHHHHhcCCCCeEEEEEEecCC
Q 025166 52 ASDVYVAVGKDD-LHVLKWALDHAVSPGARIYLVHVFSPV 90 (257)
Q Consensus 52 ~~kILVaVDgS~-~~AL~~Al~~a~~~~a~l~LlHV~~~~ 90 (257)
..+|+||+-|.. --+|-+.+...... -.+.++||-...
T Consensus 21 ~~~ilVavSGGkDS~~ll~~L~~l~~~-~~~~a~~Vd~~~ 59 (298)
T COG0037 21 EYKILVAVSGGKDSLALLHLLKELGRR-IEVEAVHVDHGL 59 (298)
T ss_pred CCeEEEEeCCChHHHHHHHHHHHhccC-ceEEEEEecCCC
Confidence 479999999998 55555555555433 789999997653
No 32
>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=77.81 E-value=21 Score=34.81 Aligned_cols=84 Identities=11% Similarity=0.064 Sum_probs=50.5
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||..|+. .+.+|..|+++++........| ... . .-+-+-|..+.+.+.+.| ++ ..
T Consensus 16 N~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~~--------~~r-~-------~Fl~esL~~L~~~L~~~G-~~--L~ 72 (471)
T TIGR03556 16 NIGLAAARQ----QSAKVVGLFCLDPNILQADDMA--------PAR-V-------AYLIGCLQELQQRYQQAG-SQ--LL 72 (471)
T ss_pred HHHHHHHHh----cCCCEEEEEEEchhhhccccCC--------HHH-H-------HHHHHHHHHHHHHHHHCC-CC--eE
Confidence 346666653 4567999999987422111001 000 0 112233444455555555 54 46
Q ss_pred EEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 144 LVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 144 v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
+..|++ .+.|.+++++.+++.|+.-..
T Consensus 73 v~~G~p-~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 73 ILQGDP-VQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred EEECCH-HHHHHHHHHHcCCCEEEEecc
Confidence 778999 799999999999999996544
No 33
>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=75.34 E-value=25 Score=29.34 Aligned_cols=70 Identities=16% Similarity=0.170 Sum_probs=44.7
Q ss_pred HHHHHHhhhCCCeeEEEEEEecCchHHHHHHHH---hhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 126 QKYIRLCNDAKQVTVETMLVESKATAKAILDLI---SVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 126 ~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A---~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
++....++..| ++++..+..-....+.+.+++ ++.+++.||.++-+...+. | -|.-+++ .||+-|
T Consensus 15 ~~a~~~L~~~g-i~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lp----g-----vva~~t~--~PVIgv 82 (156)
T TIGR01162 15 KKAADILEEFG-IPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLP----G-----MVAALTP--LPVIGV 82 (156)
T ss_pred HHHHHHHHHcC-CCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhH----H-----HHHhccC--CCEEEe
Confidence 33344444557 888888876544345555555 4567888888876644433 2 3446778 999999
Q ss_pred cCCCc
Q 025166 203 HDGKK 207 (257)
Q Consensus 203 r~~~~ 207 (257)
|....
T Consensus 83 P~~~~ 87 (156)
T TIGR01162 83 PVPSK 87 (156)
T ss_pred cCCcc
Confidence 97543
No 34
>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=75.10 E-value=44 Score=27.68 Aligned_cols=23 Identities=26% Similarity=0.290 Sum_probs=20.4
Q ss_pred HHHHHHHHhhCCCcEEEEccCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
+..|.+++++.++|+|++|+...
T Consensus 80 a~~l~~~i~~~~p~~Vl~g~t~~ 102 (181)
T cd01985 80 AKALAALIKKEKPDLILAGATSI 102 (181)
T ss_pred HHHHHHHHHHhCCCEEEECCccc
Confidence 67888998988999999999876
No 35
>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=73.04 E-value=38 Score=29.97 Aligned_cols=24 Identities=13% Similarity=0.093 Sum_probs=18.9
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
...+.++|++.+++.|+.|++..-
T Consensus 96 ~~~l~~~A~~~g~~~I~~G~n~dD 119 (252)
T TIGR00268 96 LSILVKEAEKRGYDVVVDGTNADD 119 (252)
T ss_pred HHHHHHHHHHcCCCEEEECCCCcc
Confidence 456678899999999999986643
No 36
>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=69.94 E-value=15 Score=33.51 Aligned_cols=76 Identities=8% Similarity=0.014 Sum_probs=44.6
Q ss_pred eeEEEEEEecCchHHHHHHHHhhC-------CCcEEEEccCCCCCcccccccC--CHHHHHHhhCCCCceEEEEcCCCcc
Q 025166 138 VTVETMLVESKATAKAILDLISVA-------NVTSLVMGTKLSPRSRLFTKKL--SKGEFVKKNAPDYCEVTIVHDGKKV 208 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~-------~aDLIVmGsrG~s~l~r~~lGg--SVs~~Vv~~A~~~cPVLVVr~~~~~ 208 (257)
+.+--..+.|...+..|++..+.. ++|+|||++-|-+. ..++... .++..| ..++ +||+.-=.+...
T Consensus 44 ~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~-eDL~~FN~e~varai-~~~~--~PvisaIGHe~D 119 (319)
T PF02601_consen 44 IILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGSI-EDLWAFNDEEVARAI-AASP--IPVISAIGHETD 119 (319)
T ss_pred EEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCCCh-HHhcccChHHHHHHH-HhCC--CCEEEecCCCCC
Confidence 333345567876677788755443 38999999877653 4433222 345444 4577 898776555544
Q ss_pred ccchhhhhh
Q 025166 209 VDGQKVAEA 217 (257)
Q Consensus 209 ~~~~~~~~~ 217 (257)
.+--+-.++
T Consensus 120 ~ti~D~vAd 128 (319)
T PF02601_consen 120 FTIADFVAD 128 (319)
T ss_pred chHHHHHHH
Confidence 444444333
No 37
>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=69.56 E-value=32 Score=28.50 Aligned_cols=76 Identities=11% Similarity=0.100 Sum_probs=43.0
Q ss_pred HHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhC---CCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 127 KYIRLCNDAKQVTVETMLVESKATAKAILDLISVA---NVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~---~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
+....++..| +.++..+.......+.+.+++++. +++.||.++-....+. | -|.-+++ +||+-||
T Consensus 18 ~a~~~L~~~g-i~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lp----g-----vva~~t~--~PVIgvP 85 (150)
T PF00731_consen 18 EAAKTLEEFG-IPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALP----G-----VVASLTT--LPVIGVP 85 (150)
T ss_dssp HHHHHHHHTT--EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HH----H-----HHHHHSS--S-EEEEE
T ss_pred HHHHHHHHcC-CCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccch----h-----hheeccC--CCEEEee
Confidence 3334444457 888888877655457777777664 5687777664433322 2 3456778 9999998
Q ss_pred CCCccccchhh
Q 025166 204 DGKKVVDGQKV 214 (257)
Q Consensus 204 ~~~~~~~~~~~ 214 (257)
.........++
T Consensus 86 ~~~~~~~g~d~ 96 (150)
T PF00731_consen 86 VSSGYLGGLDS 96 (150)
T ss_dssp E-STTTTTHHH
T ss_pred cCcccccCccc
Confidence 76555544444
No 38
>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=68.39 E-value=63 Score=26.23 Aligned_cols=94 Identities=15% Similarity=0.068 Sum_probs=55.2
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
..+|..|.+++...+.+++++.+-+... ..+.|.+. +...| ++--..
T Consensus 18 ~e~l~~A~~La~~~g~~v~av~~G~~~~-----------------------------~~~~l~~~---l~~~G-~d~v~~ 64 (164)
T PF01012_consen 18 LEALEAARRLAEALGGEVTAVVLGPAEE-----------------------------AAEALRKA---LAKYG-ADKVYH 64 (164)
T ss_dssp HHHHHHHHHHHHCTTSEEEEEEEETCCC-----------------------------HHHHHHHH---HHSTT-ESEEEE
T ss_pred HHHHHHHHHHHhhcCCeEEEEEEecchh-----------------------------hHHHHhhh---hhhcC-CcEEEE
Confidence 8999999999988899999997652111 00112221 22234 432222
Q ss_pred EEec-------CchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEE
Q 025166 144 LVES-------KATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVT 200 (257)
Q Consensus 144 v~~G-------~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVL 200 (257)
+-.. ...+..|.+++++.++|+|++|+...+ ..++.++..... +|++
T Consensus 65 ~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~~g--------~~la~~lA~~L~--~~~v 118 (164)
T PF01012_consen 65 IDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTSFG--------RDLAPRLAARLG--APLV 118 (164)
T ss_dssp EE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSHHH--------HHHHHHHHHHHT---EEE
T ss_pred ecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcCCC--------CcHHHHHHHHhC--CCcc
Confidence 2111 124678999999999999999985533 235556666655 6554
No 39
>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=68.19 E-value=54 Score=31.25 Aligned_cols=91 Identities=11% Similarity=0.074 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||..|++. +.+|..|+|+++........+..+. ... .. ..-+.+-|.++.+.+.+.| +. ..
T Consensus 16 N~aL~~A~~~----~~~vl~vfi~dp~~~~~~~~~~~~~--~~~-~r-------~~Fl~esL~~L~~~L~~~g-~~--L~ 78 (429)
T TIGR02765 16 NPALYKASSS----SDTLIPLYCFDPRQFKLTHFFGFPK--TGP-AR-------GKFLLESLKDLRTSLRKLG-SD--LL 78 (429)
T ss_pred HHHHHHHHhc----CCeEEEEEEECchHhccccccccCC--CCH-HH-------HHHHHHHHHHHHHHHHHcC-CC--eE
Confidence 4566666543 4579999999874321000000000 000 01 1112333555555555555 44 46
Q ss_pred EEecCchHHHHHHHHhhCCCcEEEEccCC
Q 025166 144 LVESKATAKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 144 v~~G~~va~~Il~~A~e~~aDLIVmGsrG 172 (257)
+..|++ .+.|.+++++.+|+.|+.-..-
T Consensus 79 v~~G~~-~~vl~~L~~~~~~~~V~~~~~~ 106 (429)
T TIGR02765 79 VRSGKP-EDVLPELIKELGVRTVFLHQEV 106 (429)
T ss_pred EEeCCH-HHHHHHHHHHhCCCEEEEeccC
Confidence 678999 7999999999999999976543
No 40
>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=66.44 E-value=5.2 Score=30.91 Aligned_cols=21 Identities=14% Similarity=0.373 Sum_probs=19.4
Q ss_pred HHHHHHHHhhCCCcEEEEccC
Q 025166 151 AKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsr 171 (257)
.++|+++|+++++||+|+|.-
T Consensus 51 ~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 51 PEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp HHHHHHHHHHTTESEEEESSH
T ss_pred HHHHHHHHHHcCCCEEEECCh
Confidence 599999999999999999974
No 41
>PRK13820 argininosuccinate synthase; Provisional
Probab=65.55 E-value=87 Score=30.05 Aligned_cols=23 Identities=13% Similarity=0.260 Sum_probs=20.4
Q ss_pred HHHHHHHHhhCCCcEEEEccCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
.+.++++|++.+++.|.-|+.++
T Consensus 98 ~~~l~e~A~e~G~~~IA~G~t~~ 120 (394)
T PRK13820 98 AEKIVEVAEKEGASAIAHGCTGK 120 (394)
T ss_pred HHHHHHHHHHcCCCEEEECCCCC
Confidence 57788999999999999999765
No 42
>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=62.49 E-value=1.4e+02 Score=28.21 Aligned_cols=35 Identities=17% Similarity=0.222 Sum_probs=24.4
Q ss_pred CCCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEec
Q 025166 50 AAASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFS 88 (257)
Q Consensus 50 ~~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~ 88 (257)
|...++||++-|.- .-|+.++. ..|.++++||+..
T Consensus 170 g~~~kvlvllSGGiDS~vaa~ll~----krG~~V~av~~~~ 206 (371)
T TIGR00342 170 GTQGKVLALLSGGIDSPVAAFMMM----KRGCRVVAVHFFN 206 (371)
T ss_pred CcCCeEEEEecCCchHHHHHHHHH----HcCCeEEEEEEeC
Confidence 45678999998877 44443332 2488999999873
No 43
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=62.07 E-value=43 Score=25.55 Aligned_cols=48 Identities=19% Similarity=0.219 Sum_probs=32.4
Q ss_pred HHHHHHHHHHhhhCCCeeEEEEEE-----------ecCchHHHHHHHHhhCCCcEEEEcc
Q 025166 122 RNLLQKYIRLCNDAKQVTVETMLV-----------ESKATAKAILDLISVANVTSLVMGT 170 (257)
Q Consensus 122 ~~lL~~~~~~~~~~g~v~ve~~v~-----------~G~~va~~Il~~A~e~~aDLIVmGs 170 (257)
++.|+++..++...| +.+...+. .|.-..++|-+.++..++|+||.-.
T Consensus 7 ~~~l~El~~L~~t~g-~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~ 65 (95)
T PF13167_consen 7 EESLEELEELAETAG-YEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDN 65 (95)
T ss_pred HHHHHHHHHHHHHCC-CeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECC
Confidence 344666666666666 55443322 2433468999999999999999875
No 44
>PRK14057 epimerase; Provisional
Probab=58.65 E-value=1.4e+02 Score=26.91 Aligned_cols=35 Identities=11% Similarity=0.217 Sum_probs=20.6
Q ss_pred hCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 134 DAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 134 ~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
+.+ ..+.. -+.|.--.+.|- .+.+.++|.+|+|+.
T Consensus 189 ~~~-~~~~I-eVDGGI~~~ti~-~l~~aGad~~V~GSa 223 (254)
T PRK14057 189 DKR-EGKII-VIDGSLTQDQLP-SLIAQGIDRVVSGSA 223 (254)
T ss_pred hcC-CCceE-EEECCCCHHHHH-HHHHCCCCEEEEChH
Confidence 344 44333 345655244444 444579999999964
No 45
>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=58.05 E-value=1.2e+02 Score=25.86 Aligned_cols=112 Identities=15% Similarity=0.095 Sum_probs=59.7
Q ss_pred EEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 025166 55 VYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLC 132 (257)
Q Consensus 55 ILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~ 132 (257)
++|+.-|+- .-+.+.|...... +.++.++..-.-. . .+.+.|+.|.+.+
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R------~----------------------ga~eQL~~~a~~l 55 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYR------I----------------------GAVEQLKTYAEIL 55 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSS------T----------------------HHHHHHHHHHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCC------c----------------------cHHHHHHHHHHHh
Confidence 467777776 7788888877766 8888888752111 0 1122244444433
Q ss_pred hhCCCeeEEEEEEecCchHHH---HHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhC-CCCceEEEEcC
Q 025166 133 NDAKQVTVETMLVESKATAKA---ILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNA-PDYCEVTIVHD 204 (257)
Q Consensus 133 ~~~g~v~ve~~v~~G~~va~~---Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A-~~~cPVLVVr~ 204 (257)
+ +++...-..-++ .+. .++..+..++|+|+|=+-|++......+. ... .+++.. + +.+++|-.
T Consensus 56 ---~-vp~~~~~~~~~~-~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~-el~-~~~~~~~~--~~~~LVls 122 (196)
T PF00448_consen 56 ---G-VPFYVARTESDP-AEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLE-ELK-KLLEALNP--DEVHLVLS 122 (196)
T ss_dssp ---T-EEEEESSTTSCH-HHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHH-HHH-HHHHHHSS--SEEEEEEE
T ss_pred ---c-cccchhhcchhh-HHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHH-HHH-HHhhhcCC--ccceEEEe
Confidence 4 554332222234 343 34555667899999999999875432222 222 333333 4 55655543
No 46
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=56.72 E-value=1.4e+02 Score=29.72 Aligned_cols=112 Identities=19% Similarity=0.193 Sum_probs=64.7
Q ss_pred CeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 53 SDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIR 130 (257)
Q Consensus 53 ~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~ 130 (257)
.++|+-++.|. ...|..|.+ .+-.+.++-|-..+.. +.+.+|..+
T Consensus 360 gdviltyg~s~vV~~ill~A~~----~~k~frVvVVDSRP~~---------------------------EG~~~lr~L-- 406 (556)
T KOG1467|consen 360 GDVLLTYGSSSVVNMILLEAKE----LGKKFRVVVVDSRPNL---------------------------EGRKLLRRL-- 406 (556)
T ss_pred CCEEEEecchHHHHHHHHHHHH----hCcceEEEEEeCCCCc---------------------------chHHHHHHH--
Confidence 46888899988 555555543 4455555555433211 122334333
Q ss_pred HhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCC---CcccccccCCHHHH-HHhhCCCCceEEEEcCCC
Q 025166 131 LCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSP---RSRLFTKKLSKGEF-VKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 131 ~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s---~l~r~~lGgSVs~~-Vv~~A~~~cPVLVVr~~~ 206 (257)
...| +++...++.+- ..|. ..++.|.+|+|..- .+. ...| .-.-. |.++-. +||||++...
T Consensus 407 --v~~G-inctYv~I~a~---syim-----~evtkvfLGahailsNG~vy-sR~G-Ta~valvAna~n--VPVlVCCE~y 471 (556)
T KOG1467|consen 407 --VDRG-INCTYVLINAA---SYIM-----LEVTKVFLGAHAILSNGAVY-SRVG-TACVALVANAFN--VPVLVCCEAY 471 (556)
T ss_pred --HHcC-CCeEEEEehhH---HHHH-----HhcceeeechhhhhcCcchh-hhcc-hHHHHHHhcccC--CCEEEEechh
Confidence 3458 99988887653 3344 34799999999632 221 1234 33333 445556 9999999876
Q ss_pred ccccch
Q 025166 207 KVVDGQ 212 (257)
Q Consensus 207 ~~~~~~ 212 (257)
....+-
T Consensus 472 KF~eRv 477 (556)
T KOG1467|consen 472 KFHERV 477 (556)
T ss_pred hhhhhh
Confidence 555543
No 47
>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=56.18 E-value=1e+02 Score=25.77 Aligned_cols=24 Identities=13% Similarity=0.199 Sum_probs=19.1
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
...+.++|++.+++.|+.|.+..-
T Consensus 84 ~~~l~~~a~~~g~~~I~~G~~~dD 107 (202)
T cd01990 84 YEALKEIAEELGLDVVLDGTNADD 107 (202)
T ss_pred HHHHHHHHHHCCCCEEEEcCcccc
Confidence 346678899999999999987643
No 48
>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=55.50 E-value=72 Score=29.54 Aligned_cols=66 Identities=9% Similarity=0.101 Sum_probs=38.9
Q ss_pred HHHHhhhCCCeeEEEEEEecCch---HHHHHHHHhhCCCcEEE-EccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 128 YIRLCNDAKQVTVETMLVESKAT---AKAILDLISVANVTSLV-MGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 128 ~~~~~~~~g~v~ve~~v~~G~~v---a~~Il~~A~e~~aDLIV-mGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
..+.+...+ +.+...+..|+|. ...+++.+++.++|.|| +|. -+. . .++..+..... +|++.||
T Consensus 41 v~~~l~~~~-i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGG--Gs~------~-D~aK~ia~~~~--~p~i~VP 108 (349)
T cd08550 41 FEAALAKSI-IVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGG--GKT------L-DTAKAVADRLD--KPIVIVP 108 (349)
T ss_pred HHHHHHhcC-CeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecC--cHH------H-HHHHHHHHHcC--CCEEEeC
Confidence 333344445 6555555566643 34566777888999887 552 111 1 34444545556 8999998
Q ss_pred CC
Q 025166 204 DG 205 (257)
Q Consensus 204 ~~ 205 (257)
..
T Consensus 109 Tt 110 (349)
T cd08550 109 TI 110 (349)
T ss_pred Cc
Confidence 63
No 49
>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=55.04 E-value=1.2e+02 Score=26.00 Aligned_cols=40 Identities=20% Similarity=0.167 Sum_probs=26.9
Q ss_pred hHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCC
Q 025166 150 TAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAP 194 (257)
Q Consensus 150 va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~ 194 (257)
.+..|.+++++.++|+|++|+...+... +.++-++..+..
T Consensus 96 ~a~al~~~i~~~~p~lVL~~~t~~~~~g-----rdlaprlAarLg 135 (202)
T cd01714 96 TAKALAAAIKKIGVDLILTGKQSIDGDT-----GQVGPLLAELLG 135 (202)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCcccCCc-----CcHHHHHHHHhC
Confidence 3667888888889999999988754322 244444444444
No 50
>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=54.09 E-value=28 Score=26.88 Aligned_cols=46 Identities=20% Similarity=0.263 Sum_probs=33.0
Q ss_pred hHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 150 TAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 150 va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
++...++.|++.++..||+=+.. | .++..+.+.-| .|||+++-+..
T Consensus 4 ia~aa~~~A~~~~ak~Ivv~T~s---------G-~ta~~isk~RP-~~pIiavt~~~ 49 (117)
T PF02887_consen 4 IARAAVELAEDLNAKAIVVFTES---------G-RTARLISKYRP-KVPIIAVTPNE 49 (117)
T ss_dssp HHHHHHHHHHHHTESEEEEE-SS---------S-HHHHHHHHT-T-SSEEEEEESSH
T ss_pred HHHHHHHHHHhcCCCEEEEECCC---------c-hHHHHHHhhCC-CCeEEEEcCcH
Confidence 35677889999999999987643 3 66666777654 69999986653
No 51
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=53.75 E-value=20 Score=29.09 Aligned_cols=53 Identities=15% Similarity=0.090 Sum_probs=36.0
Q ss_pred HHHHHHHHhhCCCcEEEEccCC-----CCCcccccccCCHHHHHHhhCCCCceEEEEcCCCc
Q 025166 151 AKAILDLISVANVTSLVMGTKL-----SPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGKK 207 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG-----~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~~ 207 (257)
...|.+++++++++.||||--- .+.... ..- ..++.+.+..+ +||..+-....
T Consensus 43 ~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~-~v~-~f~~~L~~~~~--~~v~~~DEr~T 100 (138)
T PRK00109 43 WDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTE-RAR-KFANRLEGRFG--LPVVLVDERLS 100 (138)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHH-HHH-HHHHHHHHHhC--CCEEEEcCCcC
Confidence 6889999999999999999322 222111 112 55667766667 99998865543
No 52
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=53.74 E-value=1.6e+02 Score=26.05 Aligned_cols=35 Identities=9% Similarity=0.214 Sum_probs=21.5
Q ss_pred hCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 134 DAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 134 ~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
+.+ .++. .-+.|.- ...-+..+.+.+||.+|+|+.
T Consensus 175 ~~~-~~~~-IeVDGGI-~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 175 NRR-VEKL-ISIDGSM-TLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred hcC-CCce-EEEECCC-CHHHHHHHHHCCCCEEEEChh
Confidence 344 4433 3446665 344454555579999999963
No 53
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=52.91 E-value=67 Score=30.81 Aligned_cols=73 Identities=12% Similarity=0.016 Sum_probs=43.9
Q ss_pred EEEEEecCchHHHHHHHHhhCC---CcEEEEccCCCCCcccccccC--CHHHHHHhhCCCCceEEEEcCCCccccchhhh
Q 025166 141 ETMLVESKATAKAILDLISVAN---VTSLVMGTKLSPRSRLFTKKL--SKGEFVKKNAPDYCEVTIVHDGKKVVDGQKVA 215 (257)
Q Consensus 141 e~~v~~G~~va~~Il~~A~e~~---aDLIVmGsrG~s~l~r~~lGg--SVs~~Vv~~A~~~cPVLVVr~~~~~~~~~~~~ 215 (257)
--..+.|...+..|++..+..+ +|+||+|+-|-+ ...++... .++..| -.++ +||+.-=.+....+--+-.
T Consensus 168 ~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS-~eDL~~Fn~e~v~~ai-~~~~--~Pvis~IGHE~D~tl~D~v 243 (438)
T PRK00286 168 YPTLVQGEGAAASIVAAIERANARGEDVLIVARGGGS-LEDLWAFNDEAVARAI-AASR--IPVISAVGHETDFTIADFV 243 (438)
T ss_pred ecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCC-HHHhhccCcHHHHHHH-HcCC--CCEEEeccCCCCccHHHHh
Confidence 3345678765788887665444 599999987765 34443322 355444 4567 8988765555555544443
Q ss_pred hh
Q 025166 216 EA 217 (257)
Q Consensus 216 ~~ 217 (257)
++
T Consensus 244 Ad 245 (438)
T PRK00286 244 AD 245 (438)
T ss_pred hh
Confidence 33
No 54
>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=51.41 E-value=85 Score=30.32 Aligned_cols=75 Identities=9% Similarity=0.050 Sum_probs=44.3
Q ss_pred eEEEEEEecCchHHHHHHHHhhC----CCcEEEEccCCCCCcccccccC--CHHHHHHhhCCCCceEEEEcCCCccccch
Q 025166 139 TVETMLVESKATAKAILDLISVA----NVTSLVMGTKLSPRSRLFTKKL--SKGEFVKKNAPDYCEVTIVHDGKKVVDGQ 212 (257)
Q Consensus 139 ~ve~~v~~G~~va~~Il~~A~e~----~aDLIVmGsrG~s~l~r~~lGg--SVs~~Vv~~A~~~cPVLVVr~~~~~~~~~ 212 (257)
.+-...+.|...+..|++..+.. ++|+||+|+-|-+. ..++... .++..| ..++ +||+.-=.+....+--
T Consensus 160 ~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~-eDL~~Fn~e~~~rai-~~~~--~Pvis~iGHe~D~ti~ 235 (432)
T TIGR00237 160 VIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSL-EDLWSFNDEKVARAI-FLSK--IPIISAVGHETDFTIS 235 (432)
T ss_pred EEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCH-HHhhhcCcHHHHHHH-HcCC--CCEEEecCcCCCccHH
Confidence 33334567877667777655432 37999999877554 4444222 344444 5677 8888776665555554
Q ss_pred hhhhh
Q 025166 213 KVAEA 217 (257)
Q Consensus 213 ~~~~~ 217 (257)
+-.++
T Consensus 236 D~vAd 240 (432)
T TIGR00237 236 DFVAD 240 (432)
T ss_pred HHhhh
Confidence 44443
No 55
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=49.08 E-value=1.8e+02 Score=25.44 Aligned_cols=27 Identities=15% Similarity=0.276 Sum_probs=17.6
Q ss_pred EEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 144 LVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 144 v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
-+.|.- ...-+....+.+||.+|+|+.
T Consensus 175 eVDGGI-~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 175 EIDGGV-KADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred EEECCC-CHHHHHHHHHcCCCEEEEChh
Confidence 345655 344444555579999999964
No 56
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=48.80 E-value=1.6e+02 Score=27.08 Aligned_cols=23 Identities=4% Similarity=0.088 Sum_probs=19.3
Q ss_pred HHHHHHHhhCCCcEEEEccCCCC
Q 025166 152 KAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 152 ~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
..+.++++++++|.++.|.|.--
T Consensus 117 ~pL~~al~e~g~da~~~G~RrDE 139 (301)
T PRK05253 117 EGLKQALEKYGFDAAFGGARRDE 139 (301)
T ss_pred HHHHHHHHHcCCCEEEeccccch
Confidence 56778889999999999998754
No 57
>PRK06801 hypothetical protein; Provisional
Probab=47.32 E-value=55 Score=29.90 Aligned_cols=65 Identities=8% Similarity=-0.033 Sum_probs=45.7
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
.-+=..-+.......+|++.|++.+.-+|+.-+.+...... ..+. .....+.++++ +||.+-=++
T Consensus 18 yaV~Afn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~-~~~~~~a~~~~--vpV~lHlDH 83 (286)
T PRK06801 18 YALGAFNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLV-EAVKFEAARHD--IPVVLNLDH 83 (286)
T ss_pred ceEEEEeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHH-HHHHHHHHHCC--CCEEEECCC
Confidence 44333333343347999999999999999999887654322 2234 67778889999 998876654
No 58
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=46.85 E-value=2.1e+02 Score=25.32 Aligned_cols=39 Identities=15% Similarity=0.176 Sum_probs=22.4
Q ss_pred HHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 130 RLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 130 ~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
++..+.+ ..+.. -+.|.--.+.|-+ +.+.+||.+|+|+.
T Consensus 161 ~~~~~~~-~~~~I-eVDGGI~~~~i~~-~~~aGad~~V~Gss 199 (229)
T PRK09722 161 ALRERNG-LEYLI-EVDGSCNQKTYEK-LMEAGADVFIVGTS 199 (229)
T ss_pred HHHHhcC-CCeEE-EEECCCCHHHHHH-HHHcCCCEEEEChH
Confidence 3333444 44333 3456552454544 44579999999975
No 59
>PLN00200 argininosuccinate synthase; Provisional
Probab=46.29 E-value=2.8e+02 Score=26.72 Aligned_cols=24 Identities=21% Similarity=0.292 Sum_probs=21.5
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
+..|+++|++.+++.|.=|+.+++
T Consensus 102 ~~~lv~~A~~~G~~~VahG~tgkG 125 (404)
T PLN00200 102 AKAMVDIAKEVGADAVAHGATGKG 125 (404)
T ss_pred HHHHHHHHHHcCCCEEEeCCcCCC
Confidence 688899999999999999998864
No 60
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=46.22 E-value=54 Score=29.98 Aligned_cols=66 Identities=9% Similarity=0.013 Sum_probs=44.2
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......++++.|++.+..+|+..+.+.-.... .++. .....+.++++ +||.+-=++.
T Consensus 18 yaV~AfNv~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~-~~~~~~A~~~~--VPValHLDH~ 84 (284)
T PRK12857 18 YAVGAFNCNNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYIS-AMVRTAAEKAS--VPVALHLDHG 84 (284)
T ss_pred CeEEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 33333333444447999999999999999998876432211 1233 55667888999 9998876543
No 61
>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=45.50 E-value=98 Score=23.60 Aligned_cols=64 Identities=16% Similarity=0.067 Sum_probs=37.2
Q ss_pred hhhCCCeeEEEEEE-ecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCC-CceEEEEc
Q 025166 132 CNDAKQVTVETMLV-ESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPD-YCEVTIVH 203 (257)
Q Consensus 132 ~~~~g~v~ve~~v~-~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~-~cPVLVVr 203 (257)
++..| .++ ..+ ...+ .+.+++.+.+.++|+|++.......+. ... ...+.+ +...+ .+++++--
T Consensus 23 l~~~G-~~V--~~lg~~~~-~~~l~~~~~~~~pdvV~iS~~~~~~~~--~~~-~~i~~l-~~~~~~~~~i~vGG 88 (119)
T cd02067 23 LRDAG-FEV--IDLGVDVP-PEEIVEAAKEEDADAIGLSGLLTTHMT--LMK-EVIEEL-KEAGLDDIPVLVGG 88 (119)
T ss_pred HHHCC-CEE--EECCCCCC-HHHHHHHHHHcCCCEEEEeccccccHH--HHH-HHHHHH-HHcCCCCCeEEEEC
Confidence 44457 665 222 3345 789999999999999999877333322 111 333333 33332 45655543
No 62
>PRK08185 hypothetical protein; Provisional
Probab=45.28 E-value=53 Score=30.01 Aligned_cols=66 Identities=12% Similarity=-0.017 Sum_probs=44.7
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-........++++.|++.+.-+|+..+.+.-.....-+. .....+.+.++ +||.+-=++.
T Consensus 13 yaV~AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~-~~~~~~a~~~~--vPV~lHLDHg 78 (283)
T PRK08185 13 FAVGAFNVADSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFF-AYVRERAKRSP--VPFVIHLDHG 78 (283)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 333333333333379999999999999999998876432222233 66677888999 9988765543
No 63
>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=44.95 E-value=58 Score=29.74 Aligned_cols=66 Identities=9% Similarity=0.012 Sum_probs=45.2
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......+|++.|++.+.-+|+.-+.+.-.... ..+. .....+.+.++ +||.+-=++.
T Consensus 16 yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~-~~~~~~a~~~~--VPValHLDHg 82 (282)
T TIGR01858 16 YAVPAFNIHNLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIV-ALCSAASTTYN--MPLALHLDHH 82 (282)
T ss_pred CeEEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 33333333333347999999999999999998876533222 1233 67778899999 9998876543
No 64
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=44.44 E-value=61 Score=29.60 Aligned_cols=66 Identities=9% Similarity=0.023 Sum_probs=44.3
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-........++++.|++.+..+|+.-+.+.-.... .++. .......++++ +||.+-=++.
T Consensus 18 yaV~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~-~~~~~~a~~~~--VPValHLDH~ 84 (284)
T PRK12737 18 YAVPAFNIHNLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIV-AIAEVAARKYN--IPLALHLDHH 84 (284)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 43333333343348999999999999999988776432111 1233 56778888999 9998776543
No 65
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=44.43 E-value=76 Score=28.90 Aligned_cols=65 Identities=11% Similarity=-0.009 Sum_probs=44.6
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
.-+=..-+.......+|++.|++.+.-+|+.-+.+.-.... .+++ .......+.++ +||.+-=++
T Consensus 18 yaV~Afn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~-~~~~~~a~~~~--vpv~lHlDH 83 (281)
T PRK06806 18 YGVGAFSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIG-PLMVAAAKQAK--VPVAVHFDH 83 (281)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHH-HHHHHHHHHCC--CCEEEECCC
Confidence 44434333443347999999999999999998876543221 1334 66677889999 998876554
No 66
>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=44.37 E-value=1.4e+02 Score=22.53 Aligned_cols=36 Identities=6% Similarity=0.231 Sum_probs=25.4
Q ss_pred hhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 133 NDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 133 ~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
++.| .++. ++..+...+.+.+.+.+.++|+|.+...
T Consensus 25 ~~~G-~~v~--~~d~~~~~~~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 25 RKAG-HEVD--ILDANVPPEELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHTT-BEEE--EEESSB-HHHHHHHHHHTTCSEEEEEES
T ss_pred HHCC-CeEE--EECCCCCHHHHHHHHhcCCCcEEEEEcc
Confidence 3346 6544 4444433599999999999999999874
No 67
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=43.80 E-value=77 Score=30.73 Aligned_cols=57 Identities=9% Similarity=-0.027 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEEEEe-cCchHHHHHHHHhhCCCcEEEEcc
Q 025166 111 RVYVNEENNRRRNLLQKYIRLCNDAKQVTVETMLVE-SKATAKAILDLISVANVTSLVMGT 170 (257)
Q Consensus 111 ~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~v~~-G~~va~~Il~~A~e~~aDLIVmGs 170 (257)
.+.++...+...++++++.+.+...| .. ++... .....+.|++++++.++..||.|.
T Consensus 39 ~~ik~~~~~~ld~~l~~~~~~~~~~g-~~--v~~a~t~~eA~~~v~~i~~~~~~~~vv~~k 96 (432)
T TIGR00273 39 KEIKLKVLENLDFYLDQLKENVTQRG-GH--VYYAKTAEEARKIIGKVAQEKNGKKVVKSK 96 (432)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHCC-CE--EEEECCHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 34444455567778888888787766 43 33332 344367788999999999999983
No 68
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=43.45 E-value=67 Score=29.38 Aligned_cols=73 Identities=14% Similarity=0.108 Sum_probs=47.6
Q ss_pred HHHHHHHHHhhhCCCeeEEEEEEecC-chHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEE
Q 025166 123 NLLQKYIRLCNDAKQVTVETMLVESK-ATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTI 201 (257)
Q Consensus 123 ~lL~~~~~~~~~~g~v~ve~~v~~G~-~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLV 201 (257)
+.+.+..+.+...+ ........+.. . +..+++.+...+.|+||.+. |-|- +. .++..+..+-. -|+-|
T Consensus 20 ~~~~~~~~~l~~~g-~~~~~~~t~~~g~-a~~~a~~a~~~~~D~via~G-GDGT-----v~-evingl~~~~~--~~Lgi 88 (301)
T COG1597 20 KLLREVEELLEEAG-HELSVRVTEEAGD-AIEIAREAAVEGYDTVIAAG-GDGT-----VN-EVANGLAGTDD--PPLGI 88 (301)
T ss_pred hHHHHHHHHHHhcC-CeEEEEEeecCcc-HHHHHHHHHhcCCCEEEEec-Ccch-----HH-HHHHHHhcCCC--CceEE
Confidence 34445555555667 77777777665 6 78999988888999998865 2222 22 56666666544 33778
Q ss_pred EcCCC
Q 025166 202 VHDGK 206 (257)
Q Consensus 202 Vr~~~ 206 (257)
+|-+.
T Consensus 89 lP~GT 93 (301)
T COG1597 89 LPGGT 93 (301)
T ss_pred ecCCc
Confidence 88653
No 69
>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=42.71 E-value=58 Score=26.10 Aligned_cols=40 Identities=10% Similarity=-0.031 Sum_probs=27.4
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNA 193 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A 193 (257)
.+++++.|.+.++|.|+|.+.--.... .+. .+.+.+-+..
T Consensus 42 ~e~~v~aa~e~~adii~iSsl~~~~~~--~~~-~~~~~L~~~g 81 (132)
T TIGR00640 42 PEEIARQAVEADVHVVGVSSLAGGHLT--LVP-ALRKELDKLG 81 (132)
T ss_pred HHHHHHHHHHcCCCEEEEcCchhhhHH--HHH-HHHHHHHhcC
Confidence 689999999999999999775533322 223 5666654433
No 70
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=42.38 E-value=1.5e+02 Score=31.05 Aligned_cols=39 Identities=18% Similarity=0.160 Sum_probs=30.1
Q ss_pred CCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCC
Q 025166 52 ASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPV 90 (257)
Q Consensus 52 ~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~ 90 (257)
..+|.+-.=|.+ ++||.++..++..++..+++++-++..
T Consensus 614 ~~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~ 654 (769)
T KOG1650|consen 614 SYKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDE 654 (769)
T ss_pred eeEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccc
Confidence 335555544444 899999999999899999999988764
No 71
>PRK10799 metal-binding protein; Provisional
Probab=42.10 E-value=35 Score=30.23 Aligned_cols=44 Identities=16% Similarity=0.117 Sum_probs=28.4
Q ss_pred ccccccccccccCCCCCeEEEeecCChHHHHHHHHHHhcCCCCeEEEEE
Q 025166 37 EDHSRSIGAASRDAAASDVYVAVGKDDLHVLKWALDHAVSPGARIYLVH 85 (257)
Q Consensus 37 ~~~~~~~~~~~~~~~~~kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlH 85 (257)
++|+++-=+.......++|+|++|.+. .++++|++ .++.+.+.|
T Consensus 20 ~~wd~~Gl~v~~~~~v~~I~~alD~t~-~vi~~A~~----~~~dlIitH 63 (247)
T PRK10799 20 SDYAPNGLQVEGRETVQKIVTGVTASQ-ALLDEAVR----LQADAVIVH 63 (247)
T ss_pred ccCCCceeEeCCcccccEEEEEeCCCH-HHHHHHHH----CCCCEEEEC
Confidence 356644323223356899999999998 44555543 477888776
No 72
>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=41.69 E-value=38 Score=27.09 Aligned_cols=52 Identities=10% Similarity=0.015 Sum_probs=35.1
Q ss_pred HHHHHHHHhhCCCcEEEEc-----cCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 151 AKAILDLISVANVTSLVMG-----TKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmG-----srG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
...|.+++++++++.|||| ....+.... ..- ..++.+-+..+ +||..+-...
T Consensus 37 ~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~-~v~-~f~~~L~~~~~--~~v~~~DEr~ 93 (130)
T TIGR00250 37 WSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTE-RAQ-KFANRLEGRFG--VPVVLWDERL 93 (130)
T ss_pred HHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHH-HHH-HHHHHHHHHhC--CCEEEEcCCc
Confidence 6889999999999999999 322222111 111 45566666667 9999986553
No 73
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=41.45 E-value=1.9e+02 Score=27.89 Aligned_cols=37 Identities=24% Similarity=0.279 Sum_probs=26.5
Q ss_pred CCeEEEeecCCh-HHHHHHHHHHhc--CCCCeEEEEEEec
Q 025166 52 ASDVYVAVGKDD-LHVLKWALDHAV--SPGARIYLVHVFS 88 (257)
Q Consensus 52 ~~kILVaVDgS~-~~AL~~Al~~a~--~~~a~l~LlHV~~ 88 (257)
..+|+||+-|.. --+|-+.+.... ..+-+++++||-.
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnh 54 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHH 54 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeC
Confidence 478999999999 555555554332 3467999999963
No 74
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=41.24 E-value=77 Score=29.03 Aligned_cols=66 Identities=15% Similarity=0.099 Sum_probs=44.2
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCc-ccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRS-RLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l-~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-........++++.|++.+..+|+..+.+.-.. ....+. .....+.++++ +||.+-=++.
T Consensus 18 yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~-~~~~~~a~~~~--VPValHLDHg 84 (286)
T PRK12738 18 YAVPAFNIHNAETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIY-ALCSAYSTTYN--MPLALHLDHH 84 (286)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 333333333433489999999999999999877654321 111233 66777889999 9999876543
No 75
>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=40.50 E-value=94 Score=24.97 Aligned_cols=55 Identities=18% Similarity=0.195 Sum_probs=37.3
Q ss_pred hHHHHHHHHhhCCCcEEEEccCCCC----CcccccccCCHHHHHHhhC-CCCceEEEEcCCCc
Q 025166 150 TAKAILDLISVANVTSLVMGTKLSP----RSRLFTKKLSKGEFVKKNA-PDYCEVTIVHDGKK 207 (257)
Q Consensus 150 va~~Il~~A~e~~aDLIVmGsrG~s----~l~r~~lGgSVs~~Vv~~A-~~~cPVLVVr~~~~ 207 (257)
..+.|.+++++++++.||||---.. .-.....- ..+..+-+.. . +||..+-....
T Consensus 39 ~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~-~f~~~L~~~~~~--ipV~~~DEr~T 98 (135)
T PF03652_consen 39 DIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVR-KFAEELKKRFPG--IPVILVDERLT 98 (135)
T ss_dssp CHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHH-HHHHHHHHHH-T--SEEEEEECSCS
T ss_pred HHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHH-HHHHHHHHhcCC--CcEEEECCChh
Confidence 3799999999999999999974221 11111112 4556666766 6 99999976543
No 76
>PRK06395 phosphoribosylamine--glycine ligase; Provisional
Probab=40.49 E-value=1.3e+02 Score=28.99 Aligned_cols=29 Identities=24% Similarity=0.423 Sum_probs=20.4
Q ss_pred CCeEEEeecCCh-HHHHHHHHHHhcCCCCeEEEE
Q 025166 52 ASDVYVAVGKDD-LHVLKWALDHAVSPGARIYLV 84 (257)
Q Consensus 52 ~~kILVaVDgS~-~~AL~~Al~~a~~~~a~l~Ll 84 (257)
.+|||| +.... .+||.|++... +.+|+.+
T Consensus 2 ~~kVLv-lG~G~re~al~~~l~~~---g~~v~~~ 31 (435)
T PRK06395 2 TMKVML-VGSGGREDAIARAIKRS---GAILFSV 31 (435)
T ss_pred ceEEEE-ECCcHHHHHHHHHHHhC---CCeEEEE
Confidence 478998 66666 99999998654 4444444
No 77
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=40.00 E-value=2.7e+02 Score=27.12 Aligned_cols=84 Identities=12% Similarity=0.128 Sum_probs=48.1
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||..|++.+ +.+|..|+|+++........| . ... .-+.+-|..+.+.+.+.| +.. .
T Consensus 17 N~aL~~A~~~~---~~~vlpvyv~dp~~~~~~~~~--------~-~r~-------~Fl~esL~~L~~~L~~~g-~~L--~ 74 (472)
T PRK10674 17 NLALAAACRDP---SARVLALFIATPAQWAAHDMA--------P-RQA-------AFINAQLNALQIALAEKG-IPL--L 74 (472)
T ss_pred HHHHHHHHhCC---CCCEEEEEEECchhhccCCCC--------H-HHH-------HHHHHHHHHHHHHHHHcC-Cce--E
Confidence 44666665432 246999999987432110001 0 001 112233444555555555 443 5
Q ss_pred EEe----cCchHHHHHHHHhhCCCcEEEEcc
Q 025166 144 LVE----SKATAKAILDLISVANVTSLVMGT 170 (257)
Q Consensus 144 v~~----G~~va~~Il~~A~e~~aDLIVmGs 170 (257)
+.. |++ .+.|.+++++.+|+.|+.-.
T Consensus 75 v~~g~~~g~~-~~vl~~l~~~~~i~~v~~~~ 104 (472)
T PRK10674 75 FHEVDDFAAS-VEWLKQFCQQHQVTHLFYNY 104 (472)
T ss_pred EEecCCcCCH-HHHHHHHHHHcCCCEEEEec
Confidence 554 467 78899999999999999754
No 78
>PRK11914 diacylglycerol kinase; Reviewed
Probab=37.98 E-value=92 Score=28.12 Aligned_cols=64 Identities=11% Similarity=0.078 Sum_probs=35.9
Q ss_pred HhhhCCCeeEEEEEEec-CchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 131 LCNDAKQVTVETMLVES-KATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 131 ~~~~~g~v~ve~~v~~G-~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.+.+.+ +++.....+. .. +..+++.+.+.++|+||+.. |-|.+. -++..+. ... .|+-|+|-+.
T Consensus 34 ~l~~~g-~~~~~~~t~~~~~-~~~~a~~~~~~~~d~vvv~G-GDGTi~------evv~~l~-~~~--~~lgiiP~GT 98 (306)
T PRK11914 34 RLHHRG-VDVVEIVGTDAHD-ARHLVAAALAKGTDALVVVG-GDGVIS------NALQVLA-GTD--IPLGIIPAGT 98 (306)
T ss_pred HHHHcC-CeEEEEEeCCHHH-HHHHHHHHHhcCCCEEEEEC-CchHHH------HHhHHhc-cCC--CcEEEEeCCC
Confidence 334446 6655544432 34 57777766667889776533 333332 2333333 345 8999999764
No 79
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=37.95 E-value=2.5e+02 Score=24.39 Aligned_cols=54 Identities=9% Similarity=0.010 Sum_probs=37.4
Q ss_pred HHHHHHHHhhCC-CcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 151 AKAILDLISVAN-VTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 151 a~~Il~~A~e~~-aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
+.-|++..+..+ -|+|++=..-...-...||-+-+.+.+.+... +||.||+...
T Consensus 149 g~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~el~~~lg--~~v~vv~~~~ 203 (204)
T PF04459_consen 149 GQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLEELEERLG--VPVIVVRGPG 203 (204)
T ss_pred HHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHHHHHHHhC--CcEEEeCCCC
Confidence 566766665433 38999877654443344555577888999999 9999998653
No 80
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=37.54 E-value=93 Score=28.44 Aligned_cols=58 Identities=9% Similarity=-0.030 Sum_probs=41.4
Q ss_pred ecCchHHHHHHHHhhCCCcEEEEccCCCCCcccc-cccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 146 ESKATAKAILDLISVANVTSLVMGTKLSPRSRLF-TKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 146 ~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~-~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.+.....++++.|++.+.-+|+.-+.+.-..... .+. .....+.+.++ +||.+-=++.
T Consensus 26 ~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~-~~~~~~A~~~~--VPV~lHLDHg 84 (284)
T PRK09195 26 HNLETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLL-AIVSAAAKQYH--HPLALHLDHH 84 (284)
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 3333489999999999999999988764322211 233 56778889999 9998765543
No 81
>PRK04527 argininosuccinate synthase; Provisional
Probab=37.53 E-value=3.6e+02 Score=25.98 Aligned_cols=23 Identities=13% Similarity=0.020 Sum_probs=21.1
Q ss_pred HHHHHHHHhhCCCcEEEEccCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
.+.++++|++.++|.|+=|+.|+
T Consensus 98 ~~~l~e~A~~~G~~~IA~G~tgk 120 (400)
T PRK04527 98 VDAALKRAEELGTRIIAHGCTGM 120 (400)
T ss_pred HHHHHHHHHHCCCCEEEecCcCC
Confidence 67899999999999999999866
No 82
>PF11684 DUF3280: Protein of unknown function (DUF2380); InterPro: IPR021698 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=37.46 E-value=1.2e+02 Score=24.66 Aligned_cols=23 Identities=4% Similarity=-0.009 Sum_probs=18.7
Q ss_pred HHHHHHHhhCCCcEEEEccCCCC
Q 025166 152 KAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 152 ~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
....++|++.+||++++|.-.+-
T Consensus 70 gC~~~~Ar~~GAd~~lvG~VqKv 92 (140)
T PF11684_consen 70 GCEARIARELGADYVLVGEVQKV 92 (140)
T ss_pred CHHHHHHHHcCCCEEEEEEEech
Confidence 45677999999999999986543
No 83
>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=37.04 E-value=1.1e+02 Score=28.82 Aligned_cols=78 Identities=10% Similarity=-0.001 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCc-ccc---------------cccCC
Q 025166 121 RRNLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRS-RLF---------------TKKLS 184 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l-~r~---------------~lGgS 184 (257)
++++|..+. +.+ .-+=..-........+|++.|++.+..+|+.-+.+.... ... .+. .
T Consensus 4 ~k~iL~~A~----~~~-yAV~AfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ 77 (345)
T cd00946 4 VLKLFDYAK----ENG-FAIPAVNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAA-H 77 (345)
T ss_pred HHHHHHHHH----HCC-ceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHH-H
Confidence 344555443 334 433333333433479999999999999999998874321 111 222 4
Q ss_pred HHHHHHhhCCCCceEEEEcCCC
Q 025166 185 KGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 185 Vs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
....+.++++ +||.+-=++.
T Consensus 78 ~v~~~A~~~~--VPValHLDHg 97 (345)
T cd00946 78 HVRSMAEHYG--VPVVLHTDHC 97 (345)
T ss_pred HHHHHHHHCC--CCEEEECCCC
Confidence 5567888999 9988765543
No 84
>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=36.77 E-value=3.1e+02 Score=24.53 Aligned_cols=121 Identities=15% Similarity=0.124 Sum_probs=59.4
Q ss_pred eEEEeecCChHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025166 54 DVYVAVGKDDLHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCN 133 (257)
Q Consensus 54 kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~ 133 (257)
+|-++.-..+....+.++++|+..+..|-+==-++... ..|+-.. .++++ +..+.....+..+..++.
T Consensus 31 NIACG~HAGDp~~M~~tv~lA~~~gV~iGAHPsyPD~~----gFGRr~m-~~s~~-------el~~~v~yQigaL~~~a~ 98 (242)
T PF03746_consen 31 NIACGFHAGDPETMRRTVRLAKEHGVAIGAHPSYPDRE----GFGRRSM-DISPE-------ELRDSVLYQIGALQAIAA 98 (242)
T ss_dssp EEE-SSSS--HHHHHHHHHHHHHTT-EEEEE---S-TT----TTT-S------HH-------HHHHHHHHHHHHHHHHHH
T ss_pred HHhhcccccCHHHHHHHHHHHHHcCCEeccCCCCCCCC----CCCCCCC-CCCHH-------HHHHHHHHHHHHHHHHHH
Confidence 45555444445666677777777776554322222221 1132111 11122 223334444666667777
Q ss_pred hCCCeeEEEEEEec---------CchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEE
Q 025166 134 DAKQVTVETMLVES---------KATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVT 200 (257)
Q Consensus 134 ~~g~v~ve~~v~~G---------~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVL 200 (257)
..| .++..+--.| ...++.|++.+.+.+.+|+++|-. | |.-....+... .+++
T Consensus 99 ~~g-~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a----------g-s~~~~~A~~~G--l~~~ 160 (242)
T PF03746_consen 99 AEG-VPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA----------G-SELEKAAKELG--LPVV 160 (242)
T ss_dssp HTT---EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET----------T-SHHHHHHHHCT----EE
T ss_pred HcC-CeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC----------C-cHHHHHHHHCC--CcEE
Confidence 777 7776655554 234789999999999999999865 2 55556666666 6654
No 85
>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=36.65 E-value=84 Score=28.62 Aligned_cols=66 Identities=14% Similarity=0.021 Sum_probs=44.4
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......++++.|++.+..+|+.-+.+.-.... ..+. .....+.+.++ +||.+-=++.
T Consensus 13 yaV~AfN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~-~~~~~~a~~~~--VPV~lHLDH~ 79 (276)
T cd00947 13 YAVGAFNINNLETLKAILEAAEETRSPVILQISEGAIKYAGLELLV-AMVKAAAERAS--VPVALHLDHG 79 (276)
T ss_pred ceEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHH-HHHHHHHHHCC--CCEEEECCCC
Confidence 43333333333348999999999999999988776433221 1233 56667788888 9998876654
No 86
>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=36.29 E-value=2.5e+02 Score=27.23 Aligned_cols=83 Identities=17% Similarity=0.149 Sum_probs=47.3
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||..|++ .+ +|..|+|+++........+ . ... .-+.+-|..+.+.+.+.| .+. .
T Consensus 13 N~aL~~A~~----~~-~vlpvyi~dp~~~~~~~~~--------~-~~~-------~fl~~sL~~L~~~L~~~G-~~L--~ 68 (475)
T TIGR02766 13 NPALAAAAR----AG-PVIPVFVWAPEEEGQYYPG--------R-VSR-------WWLKQSLAHLDQSLRSLG-TCL--V 68 (475)
T ss_pred HHHHHHHHh----CC-CEEEEEEechHHhcccccc--------H-HHH-------HHHHHHHHHHHHHHHHcC-Cce--E
Confidence 356655542 23 7999999987532110001 0 000 112233445555555555 443 3
Q ss_pred EE-ecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 144 LV-ESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 144 v~-~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
++ .|++ .+.|.+++++.+++.|..-..
T Consensus 69 v~~~g~~-~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 69 TIRSTDT-VAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred EEeCCCH-HHHHHHHHHHcCCCEEEEecc
Confidence 33 4777 799999999999999887655
No 87
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=36.06 E-value=5.2e+02 Score=28.46 Aligned_cols=156 Identities=15% Similarity=0.076 Sum_probs=80.8
Q ss_pred CCeEEEe-ecCCh-HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 52 ASDVYVA-VGKDD-LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYI 129 (257)
Q Consensus 52 ~~kILVa-VDgS~-~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~ 129 (257)
..|.+++ |.+.+ +=|++.|.. |...|-.|.+| | |.. . . +++-.+.|.
T Consensus 616 MDRLiCGDVGFGKTEVAmRAAFk-AV~~GKQVAvL-V-PTT-----l-------------L----------A~QHy~tFk 664 (1139)
T COG1197 616 MDRLICGDVGFGKTEVAMRAAFK-AVMDGKQVAVL-V-PTT-----L-------------L----------AQQHYETFK 664 (1139)
T ss_pred chheeecCcCCcHHHHHHHHHHH-HhcCCCeEEEE-c-ccH-----H-------------h----------HHHHHHHHH
Confidence 4566665 56777 788887764 44456555544 1 111 0 0 112244445
Q ss_pred HHhhhCCCeeEEEEEE--ecCchHHHHHHHHhhCCCcEEEEccCCCCC----ccc---------ccccCCHHHHHHhhCC
Q 025166 130 RLCNDAKQVTVETMLV--ESKATAKAILDLISVANVTSLVMGTKLSPR----SRL---------FTKKLSKGEFVKKNAP 194 (257)
Q Consensus 130 ~~~~~~g~v~ve~~v~--~G~~va~~Il~~A~e~~aDLIVmGsrG~s~----l~r---------~~lGgSVs~~Vv~~A~ 194 (257)
+.+...+ |+++..-. ...- .+.|++-.++-.+|. |||+|..=. ++. ..+| =--..=++.-.
T Consensus 665 eRF~~fP-V~I~~LSRF~s~kE-~~~il~~la~G~vDI-vIGTHrLL~kdv~FkdLGLlIIDEEqRFG-Vk~KEkLK~Lr 740 (1139)
T COG1197 665 ERFAGFP-VRIEVLSRFRSAKE-QKEILKGLAEGKVDI-VIGTHRLLSKDVKFKDLGLLIIDEEQRFG-VKHKEKLKELR 740 (1139)
T ss_pred HHhcCCC-eeEEEecccCCHHH-HHHHHHHHhcCCccE-EEechHhhCCCcEEecCCeEEEechhhcC-ccHHHHHHHHh
Confidence 5555445 55554433 2334 577888777778885 569987422 111 0123 11122222222
Q ss_pred CCceEEEEcCCCccccchhhhhhhhhcCCCCC-CCCCCCCCCeeeecccCCc
Q 025166 195 DYCEVTIVHDGKKVVDGQKVAEAELARSSSPS-PSSPGTGRPQVKGKSRRNL 245 (257)
Q Consensus 195 ~~cPVLVVr~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~p~~~~~~~~~~ 245 (257)
..+.||-.--....-+-.+++... -|-+. ..+|.+|.||-+-|++.|.
T Consensus 741 ~~VDvLTLSATPIPRTL~Msm~Gi---RdlSvI~TPP~~R~pV~T~V~~~d~ 789 (1139)
T COG1197 741 ANVDVLTLSATPIPRTLNMSLSGI---RDLSVIATPPEDRLPVKTFVSEYDD 789 (1139)
T ss_pred ccCcEEEeeCCCCcchHHHHHhcc---hhhhhccCCCCCCcceEEEEecCCh
Confidence 236777665544444444444332 01111 2267889999999988664
No 88
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=35.74 E-value=3.1e+02 Score=25.22 Aligned_cols=132 Identities=16% Similarity=0.125 Sum_probs=65.0
Q ss_pred CeEEEeecCChHHHHHHHHHHhcCCCCeEEEEEEecCCCCCC-CcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025166 53 SDVYVAVGKDDLHVLKWALDHAVSPGARIYLVHVFSPVTYIN-TPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRL 131 (257)
Q Consensus 53 ~kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~-~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~ 131 (257)
..+.|=+=|++...+..|++.+...+...+=|+.--|..... ...|.. +.+ .-+...++++..++.
T Consensus 65 ~~~~vQl~g~~~~~~~~aa~~~~~~g~d~IdlN~gCP~~~v~~~g~Gs~------------ll~-~p~~~~eiv~av~~a 131 (321)
T PRK10415 65 GIRTVQIAGSDPKEMADAARINVESGAQIIDINMGCPAKKVNRKLAGSA------------LLQ-YPDLVKSILTEVVNA 131 (321)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHCCCCEEEEeCCCCHHHHcCCCcccH------------Hhc-CHHHHHHHHHHHHHh
Confidence 344555666662222334444544577777777654431110 011210 000 012344455554443
Q ss_pred hhhCCCeeEEEEEEecCc----hHHHHHHHHhhCCCcEEEEccCCCCCc-ccccccCCHHHHHHhhCCCCceEEEEcC
Q 025166 132 CNDAKQVTVETMLVESKA----TAKAILDLISVANVTSLVMGTKLSPRS-RLFTKKLSKGEFVKKNAPDYCEVTIVHD 204 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~G~~----va~~Il~~A~e~~aDLIVmGsrG~s~l-~r~~lGgSVs~~Vv~~A~~~cPVLVVr~ 204 (257)
+ + +.+...+..|-. -...+++.+++.++|.|.+-.+.+... ....- -....+|.++.+ +||+...+
T Consensus 132 ~---d-~pv~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~~~~~G~a~-~~~i~~ik~~~~--iPVI~nGg 202 (321)
T PRK10415 132 V---D-VPVTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRACLFNGEAE-YDSIRAVKQKVS--IPVIANGD 202 (321)
T ss_pred c---C-CceEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccccccCCCcC-hHHHHHHHHhcC--CcEEEeCC
Confidence 3 3 455555555521 145677778888999998855543221 11010 144556777777 88777643
No 89
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=35.64 E-value=1.2e+02 Score=27.75 Aligned_cols=66 Identities=8% Similarity=0.012 Sum_probs=43.8
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCc-cc-ccccCCHHHHHHhhC--CCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRS-RL-FTKKLSKGEFVKKNA--PDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l-~r-~~lGgSVs~~Vv~~A--~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......+|++.|++.+.-+|+.-+.+.-.. .. ..+. .......+.+ + +||.+-=++.
T Consensus 18 yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~~~~~-~~~~~~a~~~~~~--VPV~lHLDHg 87 (288)
T TIGR00167 18 YAIPAFNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGLGAIS-AMVKAMSEAYPYG--VPVALHLDHG 87 (288)
T ss_pred ceEEEEEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCHHHHH-HHHHHHHHhccCC--CcEEEECCCC
Confidence 444344444444479999999999999999988765322 11 1233 5666778888 7 9988765543
No 90
>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=35.36 E-value=2.9e+02 Score=24.38 Aligned_cols=43 Identities=7% Similarity=-0.006 Sum_probs=29.3
Q ss_pred HHHHHHHH---hhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 151 AKAILDLI---SVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 151 a~~Il~~A---~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
.+.+.+.| .+.++|+|||=.=|.+.-.+. .+.+.+. +||+.-+
T Consensus 164 ~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r~--------~~~~~~g--~PVlLsr 209 (221)
T PF07302_consen 164 EEELAAAARELAEQGADLIVLDCMGYTQEMRD--------IVQRALG--KPVLLSR 209 (221)
T ss_pred HHHHHHHHHHHHhcCCCEEEEECCCCCHHHHH--------HHHHHhC--CCEEeHH
Confidence 46777666 445899999999887653332 3446667 9998754
No 91
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. 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.
Probab=35.15 E-value=2.2e+02 Score=26.26 Aligned_cols=62 Identities=6% Similarity=0.057 Sum_probs=35.6
Q ss_pred hhhCCCeeEEE-EEEecCch---HHHHHHHHhhCCCcEEE-EccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 132 CNDAKQVTVET-MLVESKAT---AKAILDLISVANVTSLV-MGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 132 ~~~~g~v~ve~-~v~~G~~v---a~~Il~~A~e~~aDLIV-mGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
+...+ +.+.. ..+.++|. .+.+++.+++.++|.|| +|. -+ . . .++..+.-... +|++.||..
T Consensus 45 l~~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGG--Gs-----~-~-D~aK~ia~~~~--~p~i~VPTt 111 (345)
T cd08171 45 LEQSG-IEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGG--GK-----A-I-DTVKVLADKLG--KPVFTFPTI 111 (345)
T ss_pred HHHCC-CeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCC--cH-----H-H-HHHHHHHHHcC--CCEEEecCc
Confidence 33445 65442 23456653 34566677788999988 552 11 0 1 34444444456 899999863
No 92
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=35.05 E-value=89 Score=28.58 Aligned_cols=66 Identities=11% Similarity=-0.016 Sum_probs=43.7
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..-........++++.|++.+.-+|+..+.+.-.... ..+. .....+.+++. +||.+-=++.
T Consensus 18 yaV~AfN~~n~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~-~~~~~~A~~~~--vPV~lHLDH~ 84 (283)
T PRK07998 18 VLAGAFNTTNLETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIY-EIVKRHADKMD--VPVSLHLDHG 84 (283)
T ss_pred CEEEEEeeCCHHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHH-HHHHHHHHHCC--CCEEEECcCC
Confidence 33333333343347999999999999999998776432211 1222 56667788999 9998766543
No 93
>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=34.93 E-value=1.2e+02 Score=26.96 Aligned_cols=44 Identities=11% Similarity=0.105 Sum_probs=23.4
Q ss_pred CCcEEEEccCC---CCCcccccccCCHHHHHHhhCCCCceEEEEcCCCcc
Q 025166 162 NVTSLVMGTKL---SPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGKKV 208 (257)
Q Consensus 162 ~aDLIVmGsrG---~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~~~ 208 (257)
++|++++|+.. .|++-. -.|.....-+.++.. +||+|+.+....
T Consensus 176 ~vd~VliGad~v~~nG~v~n-k~Gt~~~a~~Ak~~~--vPv~v~~~~~K~ 222 (282)
T PF01008_consen 176 DVDKVLIGADAVLANGGVVN-KVGTLQLALAAKEFN--VPVYVLAESYKF 222 (282)
T ss_dssp TESEEEEE-SEEETTS-EEE-ETTHHHHHHHHHHTT---EEEEE--GGGB
T ss_pred hCCeeEEeeeEEecCCCEee-hhhHHHHHHHHHhhC--CCEEEEcccccc
Confidence 59999999986 232322 134222334456667 999999765433
No 94
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=34.18 E-value=2e+02 Score=28.98 Aligned_cols=71 Identities=13% Similarity=0.128 Sum_probs=43.3
Q ss_pred HHHHHHHhhhCCCeeEEEEEEecCchHHHH---HHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEE
Q 025166 125 LQKYIRLCNDAKQVTVETMLVESKATAKAI---LDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTI 201 (257)
Q Consensus 125 L~~~~~~~~~~g~v~ve~~v~~G~~va~~I---l~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLV 201 (257)
++++...+...| ++++..+..-.-..+.+ ++-+++.+++.||.++-+...+. | -|.-++. +||+=
T Consensus 426 ~~~~~~~l~~~g-~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~----~-----~~a~~t~--~pvi~ 493 (577)
T PLN02948 426 MKDAAEILDSFG-VPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLP----G-----MVASMTP--LPVIG 493 (577)
T ss_pred HHHHHHHHHHcC-CCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccch----H-----HHhhccC--CCEEE
Confidence 334444455557 88887776544323444 44456678898887775544332 2 2446777 99999
Q ss_pred EcCCCc
Q 025166 202 VHDGKK 207 (257)
Q Consensus 202 Vr~~~~ 207 (257)
||....
T Consensus 494 vp~~~~ 499 (577)
T PLN02948 494 VPVKTS 499 (577)
T ss_pred cCCCCC
Confidence 998543
No 95
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=34.09 E-value=32 Score=28.34 Aligned_cols=53 Identities=13% Similarity=0.077 Sum_probs=20.2
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhC----CCCceEEEEcCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNA----PDYCEVTIVHDGK 206 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A----~~~cPVLVVr~~~ 206 (257)
.+.|.+++.++++|+|+||..+... +.+.- .+.+-|-+.. .+.+||.+|.+.-
T Consensus 52 ~~~l~~~i~~~kP~vI~v~g~~~~s--~~l~~-~v~~~v~~~~~~~~~~~i~V~~v~~~~ 108 (150)
T PF14639_consen 52 MERLKKFIEKHKPDVIAVGGNSRES--RKLYD-DVRDIVEELDEDEQMPPIPVVIVDDEV 108 (150)
T ss_dssp HHHHHHHHHHH--SEEEE--SSTHH--HHHHH-HHHHHHHHTTB-TTS-B--EEE---TT
T ss_pred HHHHHHHHHHcCCeEEEEcCCChhH--HHHHH-HHHHHHHHhhhcccCCCceEEEECcHH
Confidence 3556666777777777775443332 11221 2332222222 0239998887653
No 96
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.54 E-value=1e+02 Score=27.21 Aligned_cols=7 Identities=0% Similarity=0.358 Sum_probs=3.3
Q ss_pred ceEEEEc
Q 025166 197 CEVTIVH 203 (257)
Q Consensus 197 cPVLVVr 203 (257)
+||++|.
T Consensus 76 i~v~~i~ 82 (253)
T TIGR00619 76 IPIVVIS 82 (253)
T ss_pred ceEEEEc
Confidence 4454443
No 97
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=33.30 E-value=1.4e+02 Score=28.26 Aligned_cols=78 Identities=9% Similarity=0.030 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCc------cc-----cc-----ccCC
Q 025166 121 RRNLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRS------RL-----FT-----KKLS 184 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l------~r-----~~-----lGgS 184 (257)
.+++|.++. +.+ .-+=..-+.......+|++.|++.+..+|+.-+.+.... .. .. +. .
T Consensus 9 ~k~~L~~A~----~~~-yAV~AfNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~-~ 82 (350)
T PRK09197 9 YQEMFDRAK----ENG-FALPAVNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGA-K 82 (350)
T ss_pred HHHHHHHHH----HCC-ceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHH-H
Confidence 445555543 334 444343334433489999999999999999988763321 11 00 22 4
Q ss_pred HHHHHHhhCCCCceEEEEcCCC
Q 025166 185 KGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 185 Vs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
....+.++++ +||.+-=++.
T Consensus 83 ~v~~~A~~~~--VPValHLDHg 102 (350)
T PRK09197 83 HVHEVAEHYG--VPVILHTDHC 102 (350)
T ss_pred HHHHHHHHCC--CCEEEECCCC
Confidence 5667788999 9988766544
No 98
>PF00340 IL1: Interleukin-1 / 18; InterPro: IPR000975 Interleukin-1 alpha and interleukin-1 beta (IL-1 alpha and IL-1 beta) are cytokines that participate in the regulation of immune responses, inflammatory reactions, and hematopoiesis []. Two types of IL-1 receptor, each with three extracellular immunoglobulin (Ig)-like domains, limited sequence similarity (28%) and different pharmacological characteristics have been cloned from mouse and human cell lines: these have been termed type I and type II receptors []. The receptors both exist in transmembrane (TM) and soluble forms: the soluble IL-1 receptor is thought to be post-translationally derived from cleavage of the extracellular portion of the membrane receptors. Both IL-1 receptors appear to be well conserved in evolution, and map to the same chromosomal location []. The receptors can both bind all three forms of IL-1 (IL-1 alpha, IL-1 beta and IL-1RA). The crystal structures of IL1A and IL1B [] have been solved, showing them to share the same 12-stranded beta-sheet structure as both the heparin binding growth factors and the Kunitz-type soybean trypsin inhibitors []. The beta-sheets are arranged in 3 similar lobes around a central axis, 6 strands forming an anti-parallel beta-barrel. Several regions, especially the loop between strands 4 and 5, have been implicated in receptor binding. The Vaccinia virus genes B15R and B18R each encode proteins with N-terminal hydrophobic sequences, possible sites for attachment of N-linked carbohydrate and a short C-terminal hydrophobic domain []. These properties are consistent with the mature proteins being either virion, cell surface or secretory glycoproteins. Protein sequence comparisons reveal that the gene products are related to each other (20% identity) and to the Ig superfamily. The highest degree of similarity is to the human and murine interleukin-1 receptors, although both proteins are related to a wide range of Ig superfamily members, including the interleukin-6 receptor. A novel method for virus immune evasion has been proposed in which the product of one or both of these proteins may bind interleukin-1 and/or interleukin-6, preventing these cytokines reaching their natural receptors []. A similar gene product from Cowpox virus (CPV) has also been shown to specifically bind murine IL-1 beta []. This entry represents Interleukin-1. ; GO: 0005615 extracellular space; PDB: 1J0S_A 3F62_B 2VXT_I 1MD6_A 2KKI_A 2L5X_D 2WRY_A 3NJ5_A 8I1B_A 2MIB_A ....
Probab=33.07 E-value=31 Score=27.30 Aligned_cols=22 Identities=27% Similarity=0.545 Sum_probs=17.3
Q ss_pred CCCCCCeeeecccCCceeeeecc
Q 025166 230 PGTGRPQVKGKSRRNLFECVCLS 252 (257)
Q Consensus 230 ~~~~~p~~~~~~~~~~~~~~~~~ 252 (257)
.+..+||++|++..+.+.| |-+
T Consensus 22 ~~~~~pV~L~I~~~~l~Ls-C~~ 43 (120)
T PF00340_consen 22 DDKGNPVILGIKNTNLCLS-CVK 43 (120)
T ss_dssp CTTCEEEEEEETTSTEEEE-EEE
T ss_pred CcCCCcEEEEEeCCcEEEE-Eec
Confidence 3467999999999998877 543
No 99
>PRK00509 argininosuccinate synthase; Provisional
Probab=32.94 E-value=3.4e+02 Score=26.12 Aligned_cols=24 Identities=13% Similarity=0.212 Sum_probs=21.6
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
+..++++|++.+++.|.=|+.+++
T Consensus 98 ~~~l~~~A~~~G~~~IA~G~t~kG 121 (399)
T PRK00509 98 AKKLVEIARKEGADAVAHGCTGKG 121 (399)
T ss_pred HHHHHHHHHHcCCCEEEeCCCcCC
Confidence 688999999999999999999864
No 100
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=32.23 E-value=3.9e+02 Score=24.31 Aligned_cols=36 Identities=28% Similarity=0.202 Sum_probs=26.4
Q ss_pred CeEEEeecCCh-HHHHHHHHHHhcCCCCeEEEEEEecCC
Q 025166 53 SDVYVAVGKDD-LHVLKWALDHAVSPGARIYLVHVFSPV 90 (257)
Q Consensus 53 ~kILVaVDgS~-~~AL~~Al~~a~~~~a~l~LlHV~~~~ 90 (257)
.+++||..|.- -..|..++..+ .|.++.++.|..+.
T Consensus 18 ~kv~vAfSGGvDSslLa~la~~~--lG~~v~AvTv~sP~ 54 (269)
T COG1606 18 KKVVVAFSGGVDSSLLAKLAKEA--LGDNVVAVTVDSPY 54 (269)
T ss_pred CeEEEEecCCccHHHHHHHHHHH--hccceEEEEEecCC
Confidence 49999998888 55565555445 36889999988753
No 101
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=32.11 E-value=1.4e+02 Score=26.44 Aligned_cols=47 Identities=11% Similarity=0.110 Sum_probs=37.6
Q ss_pred HHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 153 AILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 153 ~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
+.-+..+++++|.||+++..... -|.+-+..++..+. .|++||.+..
T Consensus 51 av~~~~e~~~pDfvi~isPNpaa-----PGP~kARE~l~~s~--~PaiiigDaP 97 (277)
T COG1927 51 AVTEMLEEFNPDFVIYISPNPAA-----PGPKKAREILSDSD--VPAIIIGDAP 97 (277)
T ss_pred HHHHHHHhcCCCEEEEeCCCCCC-----CCchHHHHHHhhcC--CCEEEecCCc
Confidence 34467789999999999876542 36688999999999 9999997654
No 102
>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=32.06 E-value=3.8e+02 Score=24.08 Aligned_cols=77 Identities=14% Similarity=0.023 Sum_probs=41.8
Q ss_pred HHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 123 NLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 123 ~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
++++...+.+.. . +.+-.-+-.+..-+-++.+.|++.++|.|++-..-.......-+. .--..|...++ +||++-
T Consensus 57 ~l~~~~~~~~~~-~-~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~-~~f~~v~~~~~--~pi~lY 131 (289)
T cd00951 57 QVVRAAVEETAG-R-VPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLY-AHVEAVCKSTD--LGVIVY 131 (289)
T ss_pred HHHHHHHHHhCC-C-CCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHH-HHHHHHHhcCC--CCEEEE
Confidence 445555554432 3 554444332211134456788999999999976543322111011 22335667778 999998
Q ss_pred cC
Q 025166 203 HD 204 (257)
Q Consensus 203 r~ 204 (257)
..
T Consensus 132 n~ 133 (289)
T cd00951 132 NR 133 (289)
T ss_pred eC
Confidence 63
No 103
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=31.11 E-value=1.7e+02 Score=23.45 Aligned_cols=34 Identities=12% Similarity=0.219 Sum_probs=22.4
Q ss_pred hCCCeeEEEEEEecCchHHHHHHHHhhC--CCcEEEEc
Q 025166 134 DAKQVTVETMLVESKATAKAILDLISVA--NVTSLVMG 169 (257)
Q Consensus 134 ~~g~v~ve~~v~~G~~va~~Il~~A~e~--~aDLIVmG 169 (257)
+.| +++......++. .+.|.+..++. ++|+||+-
T Consensus 38 ~~G-~~v~~~~~v~Dd-~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 38 EAG-FNVSRLGIVPDD-PEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred HCC-CeEEEEeecCCC-HHHHHHHHHHHHhCCCEEEEC
Confidence 346 777776666776 56666654432 69999874
No 104
>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=30.80 E-value=1.7e+02 Score=27.64 Aligned_cols=62 Identities=10% Similarity=0.137 Sum_probs=44.4
Q ss_pred eeEEEEEEecCc--------hHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 138 VTVETMLVESKA--------TAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 138 v~ve~~v~~G~~--------va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
.++..-++-|+. +.+.|++.+++.++|++|-|--=.-+--...-| .++..|-+... |||+..
T Consensus 48 ~eIv~TiiCGDnyf~en~eea~~~i~~mv~~~~pD~viaGPaFnagrYG~acg-~v~~aV~e~~~--IP~vta 117 (349)
T PF07355_consen 48 AEIVATIICGDNYFNENKEEALKKILEMVKKLKPDVVIAGPAFNAGRYGVACG-EVAKAVQEKLG--IPVVTA 117 (349)
T ss_pred CEEEEEEEECcchhhhCHHHHHHHHHHHHHhcCCCEEEEcCCcCCchHHHHHH-HHHHHHHHhhC--CCEEEE
Confidence 566666666653 367899999999999999996522221122344 89999999999 998754
No 105
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=30.73 E-value=1.5e+02 Score=26.76 Aligned_cols=46 Identities=9% Similarity=0.056 Sum_probs=36.0
Q ss_pred HHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 154 ILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 154 Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.....++++.|++|+.+.... .-|.+-+..++..+. .|++||.++.
T Consensus 52 ~~~~~~~~~pDf~i~isPN~a-----~PGP~~ARE~l~~~~--iP~IvI~D~p 97 (277)
T PRK00994 52 VKKMLEEWKPDFVIVISPNPA-----APGPKKAREILKAAG--IPCIVIGDAP 97 (277)
T ss_pred HHHHHHhhCCCEEEEECCCCC-----CCCchHHHHHHHhcC--CCEEEEcCCC
Confidence 444567899999999886643 346688899999998 9999997654
No 106
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=30.59 E-value=1.5e+02 Score=28.08 Aligned_cols=65 Identities=8% Similarity=0.011 Sum_probs=42.3
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhC-CCCceEEEEcCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNA-PDYCEVTIVHDG 205 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A-~~~cPVLVVr~~ 205 (257)
.-+=..-+.......+|++.|++.+.-+|+.-+.+.-.... .++. .....+.+++ . +||.+-=++
T Consensus 18 yaV~AfN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g~~~~~-~~v~~~ae~~~~--VPVaLHLDH 84 (347)
T PRK13399 18 YGVPAFNVNNMEQILAIMEAAEATDSPVILQASRGARKYAGDAMLR-HMVLAAAEMYPD--IPICLHQDH 84 (347)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHH-HHHHHHHHhcCC--CcEEEECCC
Confidence 43333333343338999999999999999999887543222 1223 5566666677 5 898876554
No 107
>PRK13054 lipid kinase; Reviewed
Probab=30.36 E-value=3e+02 Score=24.74 Aligned_cols=66 Identities=9% Similarity=0.018 Sum_probs=36.6
Q ss_pred hhhCCCeeEEEEEEe-cCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhC-CCCceEEEEcCCC
Q 025166 132 CNDAKQVTVETMLVE-SKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNA-PDYCEVTIVHDGK 206 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~-G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A-~~~cPVLVVr~~~ 206 (257)
+.+.+ ++++..... ... +.++.+.+...++|.||+.. |-+.+. .+...++... ...+|+-|+|-+.
T Consensus 27 l~~~g-~~~~v~~t~~~~~-a~~~a~~~~~~~~d~vvv~G-GDGTl~------evv~~l~~~~~~~~~~lgiiP~GT 94 (300)
T PRK13054 27 LREEG-HTLHVRVTWEKGD-AARYVEEALALGVATVIAGG-GDGTIN------EVATALAQLEGDARPALGILPLGT 94 (300)
T ss_pred HHHcC-CEEEEEEecCCCc-HHHHHHHHHHcCCCEEEEEC-CccHHH------HHHHHHHhhccCCCCcEEEEeCCc
Confidence 44456 666654433 244 56777766566788776543 333332 4445555431 1128999999764
No 108
>PF01784 NIF3: NIF3 (NGG1p interacting factor 3); InterPro: IPR002678 This family contains several NIF3 (NGG1p interacting factor 3) protein homologues. NIF3 interacts with the yeast transcriptional coactivator NGG1p which is part of the ADA complex, the exact function of this interaction is unknown [][].; PDB: 1NMO_F 1NMP_B 2GX8_C 2FYW_B 2NYD_A 3LNL_A 2YYB_A 3RXY_F.
Probab=30.35 E-value=43 Score=29.48 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=0.0
Q ss_pred hhhccccccc-ccccccCCCCCeEEEeecCChHHHHHHHHHHhcCCCCeEEEEE
Q 025166 33 VEIGEDHSRS-IGAASRDAAASDVYVAVGKDDLHVLKWALDHAVSPGARIYLVH 85 (257)
Q Consensus 33 ~~~~~~~~~~-~~~~~~~~~~~kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlH 85 (257)
.+-.++||++ +.--+.+..-++|++++|.++ -.++.|...++.+++.|
T Consensus 12 ~~~a~~wDn~Gl~vg~~~~~v~~V~~~ld~t~-----~vi~~A~~~~~dlIItH 60 (241)
T PF01784_consen 12 LSLAEDWDNVGLQVGDPEQEVKKVLVALDATP-----EVIEEAIEKGADLIITH 60 (241)
T ss_dssp GGGSTTTS-EEEEES-SSSBESEEEEESS-SH-----HHHHHHHHTT-SEEEES
T ss_pred HhHcCCCCCCceEECcCccccCEEEEEEeCCH-----HHHHHHHHcCCCEEEEc
No 109
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=30.23 E-value=2.4e+02 Score=27.55 Aligned_cols=86 Identities=7% Similarity=-0.011 Sum_probs=62.9
Q ss_pred HHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 124 LLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 124 lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
.+..|.+.+...| ++|+....+.++....|-++.+.+.+|-|++-.-|.-++...+. .+.-..+ |++.+|.
T Consensus 54 AMR~Fad~LraeG-~~V~Y~~~~~~~~~~~l~~~l~~~~~d~~~~~~p~~~~l~~~m~------~L~~~~g--~~i~~~~ 124 (505)
T COG3046 54 AMRHFADELRAEG-LKVRYERADDNSFGGELRRALEAYPGDRVQVQEPGDHRLEARMK------SLSMALG--IEITEVE 124 (505)
T ss_pred HHHHHHHHHhhCC-ceeEEEEcCCcccchHHHHHHHhcCCCeEEEecCcchhHHHHHH------hhhhhcC--ceeEEec
Confidence 4566677777788 99988888777767888889999999999988877666543332 2333456 9999999
Q ss_pred CCCccccchhhhhhh
Q 025166 204 DGKKVVDGQKVAEAE 218 (257)
Q Consensus 204 ~~~~~~~~~~~~~~~ 218 (257)
+..-...+..-.++.
T Consensus 125 ~~~Fl~s~a~f~~w~ 139 (505)
T COG3046 125 NPHFLCSRAEFDAWA 139 (505)
T ss_pred CcceecCHHHhhhhh
Confidence 887666666555554
No 110
>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=30.07 E-value=3.1e+02 Score=22.40 Aligned_cols=21 Identities=19% Similarity=0.234 Sum_probs=17.2
Q ss_pred HHHHHHhhCCCcEEEEccCCC
Q 025166 153 AILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 153 ~Il~~A~e~~aDLIVmGsrG~ 173 (257)
.+.++|++.+++.|+.|.+.-
T Consensus 94 ~~~~~A~~~g~~~I~~G~~~~ 114 (177)
T cd01712 94 IAEKLAEELGADAIVTGESLG 114 (177)
T ss_pred HHHHHHHHcCCCEEEEccCcc
Confidence 456788999999999998753
No 111
>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=29.97 E-value=2.1e+02 Score=22.08 Aligned_cols=39 Identities=15% Similarity=0.194 Sum_probs=27.3
Q ss_pred hhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCC
Q 025166 132 CNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
+...| +++ ..+-.+.+.+.+++.+.+.++|.|+|.+...
T Consensus 23 l~~~G-~~v--i~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~ 61 (122)
T cd02071 23 LRDAG-FEV--IYTGLRQTPEEIVEAAIQEDVDVIGLSSLSG 61 (122)
T ss_pred HHHCC-CEE--EECCCCCCHHHHHHHHHHcCCCEEEEcccch
Confidence 44556 543 3333333379999999999999999987653
No 112
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=29.96 E-value=2.9e+02 Score=27.03 Aligned_cols=71 Identities=11% Similarity=-0.009 Sum_probs=41.7
Q ss_pred EEEecCchHHHHHHHHh---hCC-CcEEEEccCCCCCcccccccC-CHHHHHHhhCCCCceEEEEcCCCccccchhhhh
Q 025166 143 MLVESKATAKAILDLIS---VAN-VTSLVMGTKLSPRSRLFTKKL-SKGEFVKKNAPDYCEVTIVHDGKKVVDGQKVAE 216 (257)
Q Consensus 143 ~v~~G~~va~~Il~~A~---e~~-aDLIVmGsrG~s~l~r~~lGg-SVs~~Vv~~A~~~cPVLVVr~~~~~~~~~~~~~ 216 (257)
..+.|+..+..|++.++ +.+ +|.||+|.-|-| +..+|... -.--+-+-.++ .||+--=.+....+--+-.+
T Consensus 170 t~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGS-iEDLW~FNdE~vaRAi~~s~--iPvISAVGHEtD~tL~DfVA 245 (440)
T COG1570 170 TLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGGS-IEDLWAFNDEIVARAIAASR--IPVISAVGHETDFTLADFVA 245 (440)
T ss_pred ccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcch-HHHHhccChHHHHHHHHhCC--CCeEeecccCCCccHHHhhh
Confidence 45568766788887653 333 899999976654 45544322 12224445577 88887655554444444333
No 113
>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=29.88 E-value=2.6e+02 Score=24.05 Aligned_cols=37 Identities=14% Similarity=0.028 Sum_probs=21.2
Q ss_pred CCeEEEeecCChHHHHHHHHHHhcCCCCeEEEEEEecCC
Q 025166 52 ASDVYVAVGKDDLHVLKWALDHAVSPGARIYLVHVFSPV 90 (257)
Q Consensus 52 ~~kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlHV~~~~ 90 (257)
..|+|+-+-|.-... .|+.+..++|.+|..||...++
T Consensus 3 ~gk~l~LlSGGiDSp--VAa~lm~krG~~V~~l~f~~~~ 39 (197)
T PF02568_consen 3 QGKALALLSGGIDSP--VAAWLMMKRGCEVIALHFDSPP 39 (197)
T ss_dssp T-EEEEE-SSCCHHH--HHHHHHHCBT-EEEEEEEE-TT
T ss_pred CceEEEEecCCccHH--HHHHHHHHCCCEEEEEEEECCC
Confidence 467777776555121 2334555689999999998654
No 114
>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=29.63 E-value=1.3e+02 Score=21.81 Aligned_cols=53 Identities=21% Similarity=0.217 Sum_probs=33.1
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCCC--cccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSPR--SRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s~--l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.+.|.++.++++++.|+||.-|.-. ....+-. ...+.+-++.. +||.++.+..
T Consensus 40 ~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~~-~l~~~l~~~~~--~pv~~~nDa~ 94 (99)
T smart00732 40 AARLKKLIKKYQPDLIVIGLPLNMNGTASRETEE-AFAELLKERFN--LPVVLVDERL 94 (99)
T ss_pred HHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHHH-HHHHHHHHhhC--CcEEEEeCCc
Confidence 5677777777788899999766421 0101111 44455556667 9999987654
No 115
>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=28.78 E-value=4.6e+02 Score=24.09 Aligned_cols=35 Identities=23% Similarity=0.137 Sum_probs=23.5
Q ss_pred CeEEEeecCCh-HHHHHHHHHHhcCCCCeEEEEEEecC
Q 025166 53 SDVYVAVGKDD-LHVLKWALDHAVSPGARIYLVHVFSP 89 (257)
Q Consensus 53 ~kILVaVDgS~-~~AL~~Al~~a~~~~a~l~LlHV~~~ 89 (257)
++|+|++-|.- -.++-+.+..+ .|.+++.+|+-..
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~--~G~~v~av~vd~G 52 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA--IGDRLTCVFVDHG 52 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH--hCCCEEEEEEeCC
Confidence 78999999887 33333333333 3578999998754
No 116
>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=28.67 E-value=1.5e+02 Score=20.96 Aligned_cols=32 Identities=22% Similarity=0.285 Sum_probs=24.0
Q ss_pred CCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEE
Q 025166 52 ASDVYVAVGKDD--LHVLKWALDHAVSPGARIYL 83 (257)
Q Consensus 52 ~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~L 83 (257)
.++|+++.|.++ .+|.+...+.+...+-.+.+
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~ 76 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRV 76 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEE
Confidence 589999999999 77776666666656666554
No 117
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=28.22 E-value=3.3e+02 Score=26.09 Aligned_cols=20 Identities=20% Similarity=0.169 Sum_probs=15.4
Q ss_pred HHHhcCCCCeEEEEEEecCC
Q 025166 71 LDHAVSPGARIYLVHVFSPV 90 (257)
Q Consensus 71 l~~a~~~~a~l~LlHV~~~~ 90 (257)
.-++.++|.++..||...++
T Consensus 192 ~~l~mkRG~~v~~v~f~~~p 211 (383)
T COG0301 192 AWLMMKRGVEVIPVHFGNPP 211 (383)
T ss_pred HHHHHhcCCEEEEEEEcCCC
Confidence 34566799999999987654
No 118
>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=28.17 E-value=5.4e+02 Score=24.63 Aligned_cols=23 Identities=13% Similarity=0.198 Sum_probs=20.5
Q ss_pred HHHHHHHHhhCCCcEEEEccCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
++.|+++|++.+++.|+=|+.+.
T Consensus 95 ~~~l~~~A~~~G~~~Ia~G~t~~ 117 (394)
T TIGR00032 95 AKKLVEAAKKEGANAVAHGCTGK 117 (394)
T ss_pred HHHHHHHHHHcCCCEEEECccCC
Confidence 67789999999999999999765
No 119
>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=28.16 E-value=2.7e+02 Score=26.44 Aligned_cols=78 Identities=10% Similarity=0.026 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCc------cc------cc-----ccC
Q 025166 121 RRNLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRS------RL------FT-----KKL 183 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l------~r------~~-----lGg 183 (257)
.+++|+.+. +.+ .-+=..-+.......++++.|++.+..+|+..+.+.-.. .. .+ +.
T Consensus 15 ~~~lL~~A~----~~~-yAVgAfNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~- 88 (357)
T TIGR01520 15 VHKLFQYAK----ENN-FAIPAINCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGA- 88 (357)
T ss_pred HHHHHHHHH----HCC-ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHH-
Confidence 344555543 333 433333333333379999999999999999988765221 10 00 22
Q ss_pred CHHHHHHhhCCCCceEEEEcCCC
Q 025166 184 SKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 184 SVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.....+.++++ +||.+-=++.
T Consensus 89 ~~v~~~Ae~a~--VPValHLDHg 109 (357)
T TIGR01520 89 HHVHSIAEHYG--VPVVLHTDHC 109 (357)
T ss_pred HHHHHHHHHCC--CCEEEECCCC
Confidence 46667888999 9998876654
No 120
>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=27.64 E-value=4.8e+02 Score=23.85 Aligned_cols=21 Identities=14% Similarity=0.072 Sum_probs=17.5
Q ss_pred HHHHHHHhhCC-CcEEEEccCC
Q 025166 152 KAILDLISVAN-VTSLVMGTKL 172 (257)
Q Consensus 152 ~~Il~~A~e~~-aDLIVmGsrG 172 (257)
+.+.++|++.+ ++.|+.|+..
T Consensus 89 ~~l~~~A~~~g~~~~Ia~Gh~~ 110 (295)
T cd01997 89 EVFEEEAKKLGLAEYLAQGTLY 110 (295)
T ss_pred HHHHHHHHHcCCCCEEEECCcc
Confidence 45677899999 9999999865
No 121
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=27.63 E-value=3.9e+02 Score=23.70 Aligned_cols=70 Identities=11% Similarity=0.056 Sum_probs=35.4
Q ss_pred HHHHHhhhCCCeeEEEEEEecC-chHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 127 KYIRLCNDAKQVTVETMLVESK-ATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~-~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
++.+.+...+ ++++....... . +..+++.+.+.++|+||+. -|-|.+. .+...+..... ..|+-++|-|
T Consensus 23 ~i~~~l~~~~-~~~~~~~t~~~~~-~~~~~~~~~~~~~d~ivv~-GGDGTl~------~v~~~l~~~~~-~~~lgiiP~G 92 (293)
T TIGR00147 23 EVIMLLREEG-MEIHVRVTWEKGD-AARYVEEARKFGVDTVIAG-GGDGTIN------EVVNALIQLDD-IPALGILPLG 92 (293)
T ss_pred HHHHHHHHCC-CEEEEEEecCccc-HHHHHHHHHhcCCCEEEEE-CCCChHH------HHHHHHhcCCC-CCcEEEEcCc
Confidence 3334445556 66665544433 3 3455554545567876652 2333322 44445554322 1367778866
Q ss_pred C
Q 025166 206 K 206 (257)
Q Consensus 206 ~ 206 (257)
.
T Consensus 93 t 93 (293)
T TIGR00147 93 T 93 (293)
T ss_pred C
Confidence 4
No 122
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=27.35 E-value=4.2e+02 Score=26.07 Aligned_cols=84 Identities=12% Similarity=0.109 Sum_probs=50.4
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEE
Q 025166 64 LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETM 143 (257)
Q Consensus 64 ~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~ 143 (257)
-.||.+|+.... ..+++|.++++.... ..+ + ....+ +.+-|..+.+.+.+.| + ...
T Consensus 17 N~aL~~A~~~~~---~~~~~vfi~~~~~~~--~~~--------~-~~~~F-------l~~sL~~L~~~L~~~g-i--~L~ 72 (461)
T COG0415 17 NAALAAACQSGQ---PVIIAVFILDPEQLG--HAS--------P-RHAAF-------LLQSLQALQQSLAELG-I--PLL 72 (461)
T ss_pred hHHHHHHHhcCC---CceEEEEEechhhcc--ccC--------H-HHHHH-------HHHHHHHHHHHHHHcC-C--ceE
Confidence 567777765442 234677887765321 001 1 01112 2233555555555555 4 467
Q ss_pred EEecCchHHHHHHHHhhCCCcEEEEccCC
Q 025166 144 LVESKATAKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 144 v~~G~~va~~Il~~A~e~~aDLIVmGsrG 172 (257)
+..|++ ...|.+++++.+++.|+-...-
T Consensus 73 v~~~~~-~~~l~~~~~~~~~~~v~~n~~~ 100 (461)
T COG0415 73 VREGDP-EQVLPELAKQLAATTVFWNRDY 100 (461)
T ss_pred EEeCCH-HHHHHHHHHHhCcceEEeeeee
Confidence 888999 7999999999998888766544
No 123
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=27.24 E-value=99 Score=28.91 Aligned_cols=48 Identities=13% Similarity=0.164 Sum_probs=31.8
Q ss_pred HHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCc
Q 025166 124 LLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRS 176 (257)
Q Consensus 124 lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l 176 (257)
++..++..+.+.| .++.....+- +.+.++.+.++++.+++|.+|.+..
T Consensus 15 fFk~~I~eL~~~G-heV~it~R~~----~~~~~LL~~yg~~y~~iG~~g~~~~ 62 (335)
T PF04007_consen 15 FFKNIIRELEKRG-HEVLITARDK----DETEELLDLYGIDYIVIGKHGDSLY 62 (335)
T ss_pred HHHHHHHHHHhCC-CEEEEEEecc----chHHHHHHHcCCCeEEEcCCCCCHH
Confidence 4555556666667 5554444433 4566666778999999999996543
No 124
>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=27.17 E-value=1.3e+02 Score=24.68 Aligned_cols=25 Identities=16% Similarity=0.178 Sum_probs=21.0
Q ss_pred hHHHHHHHHhhCCCcEEEEccCCCC
Q 025166 150 TAKAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 150 va~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
.++.|.+++++.++|+|++|....+
T Consensus 71 ~a~al~~~i~~~~p~~Vl~~~t~~g 95 (168)
T cd01715 71 YAPALVALAKKEKPSHILAGATSFG 95 (168)
T ss_pred HHHHHHHHHHhcCCCEEEECCCccc
Confidence 4678889999989999999998653
No 125
>TIGR00486 YbgI_SA1388 dinuclear metal center protein, YbgI/SA1388 family. The characterization of this family of uncharacterized proteins as orthologous is tentative. Members are found in all three domains of life. Several members (from Bacillus subtilis, Listeria monocytogenes, and Mycobacterium tuberculosis - all classified as Firmicutes within the Eubacteria) share a long insert relative to other members.
Probab=27.12 E-value=99 Score=27.37 Aligned_cols=45 Identities=27% Similarity=0.286 Sum_probs=29.1
Q ss_pred cccccccccc-cccCCCCCeEEEeecCChHHHHHHHHHHhcCCCCeEEEEE
Q 025166 36 GEDHSRSIGA-ASRDAAASDVYVAVGKDDLHVLKWALDHAVSPGARIYLVH 85 (257)
Q Consensus 36 ~~~~~~~~~~-~~~~~~~~kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlH 85 (257)
.++|+++==+ .+.+..-++|++++|.++ .++++|++ .++.+++.|
T Consensus 19 a~~wDn~Gl~vg~~~~~v~~I~~alD~t~-~vi~~Ai~----~~~dlIitH 64 (249)
T TIGR00486 19 AEDGDNNGLQVGSGNEEVKKVVVAVDASE-SVADEAVR----LGADLIITH 64 (249)
T ss_pred hcCCCCCeeEecCCCcccCEEEEEecCCH-HHHHHHHH----CCCCEEEEc
Confidence 3456633212 335566899999999998 44555554 367777777
No 126
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=27.08 E-value=1.9e+02 Score=26.46 Aligned_cols=66 Identities=15% Similarity=0.013 Sum_probs=43.0
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc--ccccCCHHHHHHhhC--CCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL--FTKKLSKGEFVKKNA--PDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r--~~lGgSVs~~Vv~~A--~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......++++.|++.+..+|+.-+.+.-.... .++. .....+.+.+ . +||.+-=++.
T Consensus 18 yav~AfN~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~~~~~-~~~~~~a~~~~~~--vPV~lHLDH~ 87 (293)
T PRK07315 18 YAVGGFNTNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGYKVCK-NLIENLVESMGIT--VPVAIHLDHG 87 (293)
T ss_pred ceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHH-HHHHHHHHHcCCC--CcEEEECCCC
Confidence 33334434444447999999999999999998876532211 1223 5566777878 5 7888766654
No 127
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=27.07 E-value=3e+02 Score=22.01 Aligned_cols=64 Identities=6% Similarity=0.019 Sum_probs=37.5
Q ss_pred hhhCCCeeEEEEEE-ecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 132 CNDAKQVTVETMLV-ESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 132 ~~~~g~v~ve~~v~-~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
+...| +++ +.+ ...| .+.|++.|.+.++|+|.|.+.-..... .+. .+.+.+-+.-.+.++|++-
T Consensus 27 lr~~G-~eV--i~LG~~vp-~e~i~~~a~~~~~d~V~lS~~~~~~~~--~~~-~~~~~L~~~~~~~~~i~vG 91 (137)
T PRK02261 27 LTEAG-FEV--INLGVMTS-QEEFIDAAIETDADAILVSSLYGHGEI--DCR-GLREKCIEAGLGDILLYVG 91 (137)
T ss_pred HHHCC-CEE--EECCCCCC-HHHHHHHHHHcCCCEEEEcCccccCHH--HHH-HHHHHHHhcCCCCCeEEEE
Confidence 44556 543 222 2345 799999999999999999876554322 222 4555554442323544443
No 128
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=26.51 E-value=57 Score=31.62 Aligned_cols=21 Identities=24% Similarity=0.412 Sum_probs=19.4
Q ss_pred HHHHHHHHhhCCCcEEEEccC
Q 025166 151 AKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsr 171 (257)
.+.|+++|++.++||+|+|.-
T Consensus 52 ~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 52 HEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred HHHHHHHHHHcCCCEEEECCc
Confidence 599999999999999999974
No 129
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=26.49 E-value=5e+02 Score=23.68 Aligned_cols=102 Identities=20% Similarity=0.217 Sum_probs=56.3
Q ss_pred hhhhhhcccccccccccccCCCCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccH
Q 025166 30 PEIVEIGEDHSRSIGAASRDAAASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQ 107 (257)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~ 107 (257)
.++.++++.++=.+ ..+..+...||.|=+-|+. ..||-+|.+.- ..++++.+| +....
T Consensus 72 ~~l~~l~~~l~l~~-~i~~~~~~~kiavl~Sg~g~nl~al~~~~~~~-~l~~~i~~v--isn~~---------------- 131 (289)
T PRK13010 72 QEFQPVAEKFDMQW-AIHPDGQRPKVVIMVSKFDHCLNDLLYRWRMG-ELDMDIVGI--ISNHP---------------- 131 (289)
T ss_pred HHHHHHHHHhCCeE-EEecCCCCeEEEEEEeCCCccHHHHHHHHHCC-CCCcEEEEE--EECCh----------------
Confidence 34555566555333 2233344678988888887 88888886533 234555444 33210
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEEEEe----cCchHHHHHHHHhhCCCcEEEEccCC
Q 025166 108 EQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETMLVE----SKATAKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 108 ~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~v~~----G~~va~~Il~~A~e~~aDLIVmGsrG 172 (257)
.+ .+.+.+.| +++...-.. ... ...+++..+++++|+||+..-.
T Consensus 132 ------------~~-------~~~A~~~g-Ip~~~~~~~~~~~~~~-~~~~~~~l~~~~~Dlivlagym 179 (289)
T PRK13010 132 ------------DL-------QPLAVQHD-IPFHHLPVTPDTKAQQ-EAQILDLIETSGAELVVLARYM 179 (289)
T ss_pred ------------hH-------HHHHHHcC-CCEEEeCCCcccccch-HHHHHHHHHHhCCCEEEEehhh
Confidence 00 01223345 665432111 112 3578888999999999997643
No 130
>PRK00919 GMP synthase subunit B; Validated
Probab=26.33 E-value=3.4e+02 Score=25.04 Aligned_cols=34 Identities=21% Similarity=0.083 Sum_probs=23.6
Q ss_pred CeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecC
Q 025166 53 SDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSP 89 (257)
Q Consensus 53 ~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~ 89 (257)
++++|++-|.- .-++.++.+ + .|.+++.||+-..
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~-~--lG~~v~aV~vD~G 57 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR-A--IGDRLTPVFVDTG 57 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH-H--hCCeEEEEEEECC
Confidence 79999998887 333333333 3 3678999998754
No 131
>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=26.07 E-value=4.6e+02 Score=23.18 Aligned_cols=52 Identities=8% Similarity=-0.061 Sum_probs=33.7
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
+-++.+.|++.++|.|++...........-+. .--..|...++ +||++-...
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~-~~~~~ia~~~~--~pi~lYn~P 135 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPSQEGLY-AHFKAIAEATD--LPVILYNVP 135 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCCHHHHH-HHHHHHHhcCC--CCEEEEECh
Confidence 44566788999999999987654332211111 33445677777 999988643
No 132
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=26.05 E-value=4.2e+02 Score=22.68 Aligned_cols=38 Identities=11% Similarity=-0.046 Sum_probs=26.2
Q ss_pred HHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEc
Q 025166 155 LDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVH 203 (257)
Q Consensus 155 l~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr 203 (257)
++.+.+.++|.|=++-.+ +-.....+++..+ +||++.-
T Consensus 149 ~~~a~~~GaD~Ik~~~~~---------~~~~~~~i~~~~~--~pvv~~G 186 (235)
T cd00958 149 ARIGAELGADIVKTKYTG---------DAESFKEVVEGCP--VPVVIAG 186 (235)
T ss_pred HHHHHHHCCCEEEecCCC---------CHHHHHHHHhcCC--CCEEEeC
Confidence 445778899998885221 1255678888889 9986653
No 133
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=25.76 E-value=4.9e+02 Score=23.38 Aligned_cols=75 Identities=15% Similarity=0.070 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhhhCCCeeEEEEEEecCchHH--HHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceE
Q 025166 122 RNLLQKYIRLCNDAKQVTVETMLVESKATAK--AILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEV 199 (257)
Q Consensus 122 ~~lL~~~~~~~~~~g~v~ve~~v~~G~~va~--~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPV 199 (257)
+++++.+.+.... . +.+-.-+ |..+.+ ++.+.|++.++|.|++-.--.......-+. .--..|...++ +||
T Consensus 61 ~~v~~~~~~~~~g-~-~pvi~gv--~~~t~~ai~~a~~a~~~Gadav~~~pP~y~~~s~~~i~-~~f~~v~~a~~--~pv 133 (296)
T TIGR03249 61 EQVVEIAVSTAKG-K-VPVYTGV--GGNTSDAIEIARLAEKAGADGYLLLPPYLINGEQEGLY-AHVEAVCESTD--LGV 133 (296)
T ss_pred HHHHHHHHHHhCC-C-CcEEEec--CccHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHH-HHHHHHHhccC--CCE
Confidence 3445555544332 2 4444443 223333 466788999999998866543222111111 23335667777 999
Q ss_pred EEEc
Q 025166 200 TIVH 203 (257)
Q Consensus 200 LVVr 203 (257)
++-.
T Consensus 134 ilYn 137 (296)
T TIGR03249 134 IVYQ 137 (296)
T ss_pred EEEe
Confidence 9986
No 134
>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=25.61 E-value=1.3e+02 Score=26.16 Aligned_cols=49 Identities=12% Similarity=0.036 Sum_probs=30.5
Q ss_pred HHHHHHHhhCCCcEEEEccC-CCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 152 KAILDLISVANVTSLVMGTK-LSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 152 ~~Il~~A~e~~aDLIVmGsr-G~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
..|.+.+.+.++|.|.+|.+ |... . -+. .+...+-++.+ +||++.+...
T Consensus 14 ~~ia~~v~~~gtDaI~VGGS~gvt~--~-~~~-~~v~~ik~~~~--lPvilfp~~~ 63 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVGGSLGIVE--S-NLD-QTVKKIKKITN--LPVILFPGNV 63 (205)
T ss_pred HHHHHHHHhcCCCEEEEcCcCCCCH--H-HHH-HHHHHHHhhcC--CCEEEECCCc
Confidence 44666677788999999754 3321 1 122 44455555577 9999886543
No 135
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=25.55 E-value=6.2e+02 Score=24.44 Aligned_cols=107 Identities=16% Similarity=0.189 Sum_probs=60.9
Q ss_pred CCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHH----------
Q 025166 52 ASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENN---------- 119 (257)
Q Consensus 52 ~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~---------- 119 (257)
.+||++|+.|.- --+|.|-.+.- +.+++.+.+---. + ++..+...+.+.+
T Consensus 4 ~kkvvLAYSGGLDTSv~i~wL~e~~---~~eVia~tadvGQ---~------------eed~~~i~eKA~~~Ga~~~~viD 65 (403)
T COG0137 4 VKKVVLAYSGGLDTSVAIKWLKEKG---GAEVIAVTADVGQ---P------------EEDLDAIREKALELGAEEAYVID 65 (403)
T ss_pred CcEEEEEecCCccHHHHHHHHHHhc---CceEEEEEEeCCC---C------------hHHhHHHHHHHHHhCCceEEEee
Confidence 478999998777 77888865543 4677666543111 0 0111111111110
Q ss_pred HHHHHHHHHHHHhhhCCCeeEEEEEEecCc-----hHHHHHHHHhhCCCcEEEEccCCCCCcc
Q 025166 120 RRRNLLQKYIRLCNDAKQVTVETMLVESKA-----TAKAILDLISVANVTSLVMGTKLSPRSR 177 (257)
Q Consensus 120 ~~~~lL~~~~~~~~~~g~v~ve~~v~~G~~-----va~~Il~~A~e~~aDLIVmGsrG~s~l~ 177 (257)
-.+++.++++-.+-..+ ...+....-|.+ +++.++++|++.+++.|-=|+.|+|.-.
T Consensus 66 ~reeF~~~yi~~~i~an-a~Yeg~YpL~TalaRPLIak~lVe~A~k~ga~avaHGcTGKGNDQ 127 (403)
T COG0137 66 AREEFVEDYIFPAIKAN-ALYEGVYPLGTALARPLIAKKLVEAAKKEGADAVAHGCTGKGNDQ 127 (403)
T ss_pred cHHHHHHHHHHHHHHhh-ceeeccccccchhhHHHHHHHHHHHHHHcCCCEEEecCCCCCCce
Confidence 11233444443332223 344443333333 3789999999999999999999998644
No 136
>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=25.41 E-value=2.9e+02 Score=27.23 Aligned_cols=46 Identities=11% Similarity=-0.010 Sum_probs=32.7
Q ss_pred HHHHHHHHhhC----CCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 151 AKAILDLISVA----NVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 151 a~~Il~~A~e~----~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
++.|.+..++. ++|.||+--+.-+.-+ ..-.+++... +|||+....
T Consensus 51 ~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~-------~~i~~~~~l~--~PvL~~~~q 100 (484)
T cd03557 51 PDEILAVCREANADDNCAGVITWMHTFSPAK-------MWIAGLTALQ--KPLLHLHTQ 100 (484)
T ss_pred HHHHHHHHHHccccCCccEEEEccCCCchHH-------HHHHHHHHcC--CCEEEEccC
Confidence 46677777664 5999999887765533 2334578888 999999765
No 137
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=25.11 E-value=94 Score=29.11 Aligned_cols=23 Identities=13% Similarity=0.442 Sum_probs=11.7
Q ss_pred HHHHHHHHHhhhCCCeeEEEEEEecC
Q 025166 123 NLLQKYIRLCNDAKQVTVETMLVESK 148 (257)
Q Consensus 123 ~lL~~~~~~~~~~g~v~ve~~v~~G~ 148 (257)
+.+....+.+.+.. ++.+++.|+
T Consensus 27 ~~f~~~l~~a~~~~---vD~vliAGD 49 (390)
T COG0420 27 KAFDELLEIAKEEK---VDFVLIAGD 49 (390)
T ss_pred HHHHHHHHHHHHcc---CCEEEEccc
Confidence 34555555555433 355666653
No 138
>PRK12569 hypothetical protein; Provisional
Probab=24.76 E-value=4.7e+02 Score=23.49 Aligned_cols=106 Identities=11% Similarity=0.129 Sum_probs=58.6
Q ss_pred eEEEeecCChHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 025166 54 DVYVAVGKDDLHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLNQEQVRVYVNEENNRRRNLLQKYIRLCN 133 (257)
Q Consensus 54 kILVaVDgS~~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~~~~~~~~~~~~~~~~~~lL~~~~~~~~ 133 (257)
+|-++--..+....+.++++|+..+..|-.==-++... ..|+-.. .++++.+ .+.....+..+..+|.
T Consensus 36 NIACG~HAGDp~~M~~tv~lA~~~~V~IGAHPsyPD~~----gFGRr~m-~~s~~el-------~~~v~yQigaL~~~~~ 103 (245)
T PRK12569 36 NIATGFHAGDPNIMRRTVELAKAHGVGIGAHPGFRDLV----GFGRRHI-NASPQEL-------VNDVLYQLGALREFAR 103 (245)
T ss_pred HHhccccCCCHHHHHHHHHHHHHcCCEeccCCCCCcCC----CCCCCCC-CCCHHHH-------HHHHHHHHHHHHHHHH
Confidence 34444444445666677777776776654311111111 1232111 1222222 2233344666667777
Q ss_pred hCCCeeEEEEEEec---------CchHHHHHHHHhhCCCcEEEEccCC
Q 025166 134 DAKQVTVETMLVES---------KATAKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 134 ~~g~v~ve~~v~~G---------~~va~~Il~~A~e~~aDLIVmGsrG 172 (257)
..| .++..+--.| ..++++|++.+.+.+.+|+++|..|
T Consensus 104 ~~g-~~l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~~ 150 (245)
T PRK12569 104 AHG-VRLQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMDG 150 (245)
T ss_pred HcC-CeeEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 777 7766554443 3348899999999999999988644
No 139
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=24.73 E-value=4.8e+02 Score=22.94 Aligned_cols=80 Identities=9% Similarity=0.036 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhhhCCCeeEEEEEEecCc-hHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceE
Q 025166 121 RRNLLQKYIRLCNDAKQVTVETMLVESKA-TAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEV 199 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~ve~~v~~G~~-va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPV 199 (257)
.+++++.+.+.+.. . +.+-.-+-.... -+-.+.+.|++.++|-|++...........-+. .--..|....+ .||
T Consensus 52 r~~l~~~~~~~~~~-~-~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~-~~~~~ia~~~~--~pi 126 (281)
T cd00408 52 RKEVIEAVVEAVAG-R-VPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIV-AHFKAVADASD--LPV 126 (281)
T ss_pred HHHHHHHHHHHhCC-C-CeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHH-HHHHHHHhcCC--CCE
Confidence 34456666555432 2 443333322111 134455788999999999987654332211111 33445666677 999
Q ss_pred EEEcCC
Q 025166 200 TIVHDG 205 (257)
Q Consensus 200 LVVr~~ 205 (257)
++-..+
T Consensus 127 ~iYn~P 132 (281)
T cd00408 127 ILYNIP 132 (281)
T ss_pred EEEECc
Confidence 988654
No 140
>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=24.62 E-value=53 Score=30.02 Aligned_cols=76 Identities=16% Similarity=0.075 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhCCCCceE
Q 025166 121 RRNLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNAPDYCEV 199 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A~~~cPV 199 (257)
++++|+++.+ .+ .-+=..-..+.....++++.|++.+..+|+.-+.+.-.... ..+. .....+.++++ +||
T Consensus 5 ~~~ll~~A~~----~~-yAV~AfN~~n~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~~~~~~-~~~~~~a~~~~--vPV 76 (287)
T PF01116_consen 5 MKELLKKAKE----GG-YAVPAFNVYNLETARAVIEAAEELNSPVILQISPSEVKYMGLEYLA-AMVKAAAEEAS--VPV 76 (287)
T ss_dssp HHHHHHHHHH----HT--BEEEEE-SSHHHHHHHHHHHHHTTS-EEEEEEHHHHHHHHHHHHH-HHHHHHHHHST--SEE
T ss_pred HHHHHHHHHH----CC-CeEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcchhhhhhhhHHHHH-HHHHHHHHHcC--CCE
Confidence 3455555433 23 43334444444448999999999999999998876443221 1334 67888999999 999
Q ss_pred EEEcC
Q 025166 200 TIVHD 204 (257)
Q Consensus 200 LVVr~ 204 (257)
.+==+
T Consensus 77 alHLD 81 (287)
T PF01116_consen 77 ALHLD 81 (287)
T ss_dssp EEEEE
T ss_pred Eeecc
Confidence 77544
No 141
>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=24.54 E-value=2.3e+02 Score=26.03 Aligned_cols=46 Identities=26% Similarity=0.332 Sum_probs=31.9
Q ss_pred HHHHHHHhhhCCCeeEEEEEE-ecCchHHHHHHHHhhCCCcEEEEccCC
Q 025166 125 LQKYIRLCNDAKQVTVETMLV-ESKATAKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 125 L~~~~~~~~~~g~v~ve~~v~-~G~~va~~Il~~A~e~~aDLIVmGsrG 172 (257)
|+...+..++-+ +++....+ +..- .+.|.++.+++..|.||+-.|.
T Consensus 117 L~~Cl~~Ykql~-i~a~G~~~~E~eq-p~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 117 LRKCLKLYKKIG-VPVVGIHCKEKEM-PEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHHHHHhC-CceEEEEecchhc-hHHHHHHHHHhCCCEEEEeCch
Confidence 444444444456 77776555 4444 5999999999999999985553
No 142
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=24.33 E-value=60 Score=32.57 Aligned_cols=20 Identities=20% Similarity=0.446 Sum_probs=18.9
Q ss_pred HHHHHHHHhhCCCcEEEEcc
Q 025166 151 AKAILDLISVANVTSLVMGT 170 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGs 170 (257)
-++|+++|++.++|+|++|.
T Consensus 41 FeEIl~iA~e~~VDmiLlGG 60 (646)
T KOG2310|consen 41 FEEILEIAQENDVDMILLGG 60 (646)
T ss_pred HHHHHHHHHhcCCcEEEecC
Confidence 58999999999999999996
No 143
>PRK09875 putative hydrolase; Provisional
Probab=24.15 E-value=1.7e+02 Score=26.73 Aligned_cols=50 Identities=14% Similarity=0.060 Sum_probs=34.7
Q ss_pred HHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCC--cEEEEccCCCC
Q 025166 123 NLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANV--TSLVMGTKLSP 174 (257)
Q Consensus 123 ~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~a--DLIVmGsrG~s 174 (257)
++|+.......+.| ..+.++.-.|.. +.+++++.++.++ +.||||.-...
T Consensus 139 kvl~Aaa~a~~~TG-~pi~~Ht~~~~~-g~e~l~il~e~Gvd~~rvvi~H~d~~ 190 (292)
T PRK09875 139 KVFIAAALAHNQTG-RPISTHTSFSTM-GLEQLALLQAHGVDLSRVTVGHCDLK 190 (292)
T ss_pred HHHHHHHHHHHHHC-CcEEEcCCCccc-hHHHHHHHHHcCcCcceEEEeCCCCC
Confidence 34444444444456 777777666665 6778999998888 88999987643
No 144
>PRK02929 L-arabinose isomerase; Provisional
Probab=24.05 E-value=2.6e+02 Score=27.71 Aligned_cols=45 Identities=9% Similarity=-0.049 Sum_probs=32.8
Q ss_pred HHHHHHHHhhCC----CcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcC
Q 025166 151 AKAILDLISVAN----VTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHD 204 (257)
Q Consensus 151 a~~Il~~A~e~~----aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~ 204 (257)
++.|.++.++.+ +|.||+--+.-+.-+ ..-.+++... +|||+...
T Consensus 57 ~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~-------~~i~~~~~l~--~PvL~~~~ 105 (499)
T PRK02929 57 PDEITAVCREANYDDNCAGVITWMHTFSPAK-------MWIRGLSALQ--KPLLHLHT 105 (499)
T ss_pred HHHHHHHHHHccccCCCcEEEEccCCCchHH-------HHHHHHHHcC--CCEEEEec
Confidence 466667766666 999999887765533 3334578888 99999976
No 145
>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=23.95 E-value=1.3e+02 Score=23.47 Aligned_cols=31 Identities=10% Similarity=0.053 Sum_probs=21.3
Q ss_pred CeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEE
Q 025166 53 SDVYVAVGKDD--LHVLKWALDHAVSPGARIYLV 84 (257)
Q Consensus 53 ~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~Ll 84 (257)
+||++++-||- .+++++.-. +++.|.+|.++
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~-L~~~g~~v~vv 33 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRR-LKRAGWEVRVV 33 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHH-HHTTTSEEEEE
T ss_pred CEEEEEEECHHHHHHHHHHHHH-HhhCCCEEEEE
Confidence 68999999999 667777654 44457786654
No 146
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=23.74 E-value=4.9e+02 Score=22.62 Aligned_cols=42 Identities=10% Similarity=0.219 Sum_probs=23.5
Q ss_pred HHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccC
Q 025166 127 KYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
++++...+.+ ..+...+ .|.--.+.|-+++ +.+||.+|+|+.
T Consensus 156 ~l~~~~~~~~-~~~~I~v-dGGI~~eni~~l~-~aGAd~vVvGSa 197 (220)
T PRK08883 156 AVRKMIDESG-RDIRLEI-DGGVKVDNIREIA-EAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHhcC-CCeeEEE-ECCCCHHHHHHHH-HcCCCEEEEeHH
Confidence 3333333334 4444334 5544245555554 579999999964
No 147
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=23.65 E-value=2e+02 Score=26.48 Aligned_cols=63 Identities=11% Similarity=0.045 Sum_probs=43.4
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccC-----CHHHHHHhhCCCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKL-----SKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGg-----SVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
.-+=..=+.+.....+|++.|++.+...||=.+.|.-. ++|| .....++++.+ +||.+--++.
T Consensus 18 yAvpAfN~~nlE~~~AileaA~e~~sPvIiq~S~g~~~----y~gg~~~~~~~v~~~a~~~~--vPV~lHlDHg 85 (286)
T COG0191 18 YAVPAFNINNLETLQAILEAAEEEKSPVIIQFSEGAAK----YAGGADSLAHMVKALAEKYG--VPVALHLDHG 85 (286)
T ss_pred CceeeeeecCHHHHHHHHHHHHHhCCCEEEEecccHHH----HhchHHHHHHHHHHHHHHCC--CCEEEECCCC
Confidence 43333333444447999999999999999999988533 3332 34456678888 9998876644
No 148
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=23.62 E-value=1.7e+02 Score=25.11 Aligned_cols=56 Identities=13% Similarity=0.080 Sum_probs=27.7
Q ss_pred EEEecCchHHH-HHHHHhh-CCCc-EEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 143 MLVESKATAKA-ILDLISV-ANVT-SLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 143 ~v~~G~~va~~-Il~~A~e-~~aD-LIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
++..|+..... +-+..+. .++| +||||++..-.... +.. ...+... .+|++|..+.
T Consensus 134 VV~FgE~lp~~~~~~a~~~~~~aDlllviGTSl~V~pa~-----~l~-~~~~~~g--~~vi~iN~~~ 192 (206)
T cd01410 134 IVDFGERLPPENWMGAAAAACRADLFLCLGTSLQVTPAA-----NLP-LKAARAG--GRLVIVNLQP 192 (206)
T ss_pred EEECCCCCCHHHHHHHHHHHhcCCEEEEECcCceehhHH-----HHH-HHHHhcC--CeEEEECCCC
Confidence 45567643232 2222211 2578 56678866432111 111 1234445 8999997754
No 149
>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=23.52 E-value=2.9e+02 Score=26.91 Aligned_cols=62 Identities=11% Similarity=0.126 Sum_probs=43.8
Q ss_pred eeEEEEEEecCch--------HHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 138 VTVETMLVESKAT--------AKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 138 v~ve~~v~~G~~v--------a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
.++..-++-|+.. .+.|++.+++.++|++|-|--=.-+--...-| .++..|-++.. ||++..
T Consensus 44 ~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG~acg-~va~aV~e~~~--IP~vta 113 (431)
T TIGR01917 44 AEIVATVVCGDSFFGENLEEAKAKVLEMIKGANPDIFIAGPAFNAGRYGMAAG-AITKAVQDELG--IKAFTA 113 (431)
T ss_pred CEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHHHHHH-HHHHHHHHhhC--CCeEEE
Confidence 5666666666542 47799999999999999996422221122344 89999999888 998754
No 150
>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=23.51 E-value=1.3e+02 Score=24.35 Aligned_cols=23 Identities=0% Similarity=0.127 Sum_probs=20.1
Q ss_pred HHHHHHHHhhCCCcEEEEccCCC
Q 025166 151 AKAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
.+.+++.|.++++|+|-|.+.--
T Consensus 41 ~e~~v~aa~~~~adiVglS~l~~ 63 (134)
T TIGR01501 41 QEEFIKAAIETKADAILVSSLYG 63 (134)
T ss_pred HHHHHHHHHHcCCCEEEEecccc
Confidence 69999999999999999977543
No 151
>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=23.47 E-value=2.3e+02 Score=26.09 Aligned_cols=45 Identities=16% Similarity=0.233 Sum_probs=32.0
Q ss_pred HHHHHHHhhhCCCeeEEEEEEe-cCchHHHHHHHHhhCCCcEEEEccC
Q 025166 125 LQKYIRLCNDAKQVTVETMLVE-SKATAKAILDLISVANVTSLVMGTK 171 (257)
Q Consensus 125 L~~~~~~~~~~g~v~ve~~v~~-G~~va~~Il~~A~e~~aDLIVmGsr 171 (257)
|+...+...+.+ +++....+. ..- .+.|.++.+++..|.||+--|
T Consensus 118 L~~Cl~~Ykql~-i~a~G~~~~E~eq-p~~i~~Ll~~~~PDIlViTGH 163 (287)
T PF05582_consen 118 LNKCLKVYKQLG-IPAVGIHVPEKEQ-PEKIYRLLEEYRPDILVITGH 163 (287)
T ss_pred HHHHHHHHHHcC-CceEEEEechHHh-hHHHHHHHHHcCCCEEEEeCc
Confidence 444444445557 887776654 444 599999999999999998554
No 152
>PRK05370 argininosuccinate synthase; Validated
Probab=23.41 E-value=7.1e+02 Score=24.41 Aligned_cols=28 Identities=11% Similarity=0.080 Sum_probs=24.9
Q ss_pred hHHHHHHHHhhCCCcEEEEccCCCCCcc
Q 025166 150 TAKAILDLISVANVTSLVMGTKLSPRSR 177 (257)
Q Consensus 150 va~~Il~~A~e~~aDLIVmGsrG~s~l~ 177 (257)
+++.|+++|++.+++.|-=|+.|++.-.
T Consensus 110 ia~~lv~~A~~~ga~aIAHG~TGKGNDQ 137 (447)
T PRK05370 110 TGTMLVAAMKEDGVNIWGDGSTYKGNDI 137 (447)
T ss_pred HHHHHHHHHHHhCCcEEEEcCCCCCCch
Confidence 3899999999999999999999988644
No 153
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=23.34 E-value=5.6e+02 Score=23.20 Aligned_cols=104 Identities=17% Similarity=0.204 Sum_probs=55.0
Q ss_pred chhhhhhcccccccccccccCCCCCeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCccccccccccc
Q 025166 29 SPEIVEIGEDHSRSIGAASRDAAASDVYVAVGKDD--LHVLKWALDHAVSPGARIYLVHVFSPVTYINTPVGRLARSQLN 106 (257)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~LlHV~~~~~~~~~~~g~~~~~~l~ 106 (257)
...+.+++++.+-.+.... .....||.|-+-|+- ..||-.+.+.- ..+++|.+|-.-.+.
T Consensus 67 ~~~L~~l~~~l~l~i~l~~-~~~~~ri~vl~Sg~gsnl~al~~~~~~~-~~~~~i~~visn~~~---------------- 128 (286)
T PRK06027 67 RADFAALAEEFEMDWRLLD-SAERKRVVILVSKEDHCLGDLLWRWRSG-ELPVEIAAVISNHDD---------------- 128 (286)
T ss_pred HHHHHHHHHHhCCEEEEcc-cccCcEEEEEEcCCCCCHHHHHHHHHcC-CCCcEEEEEEEcChh----------------
Confidence 4445666666553331222 224567888777776 77777665432 235565554332110
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCeeEEEEEEe---cCchHHHHHHHHhhCCCcEEEEccCC
Q 025166 107 QEQVRVYVNEENNRRRNLLQKYIRLCNDAKQVTVETMLVE---SKATAKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 107 ~~~~~~~~~~~~~~~~~lL~~~~~~~~~~g~v~ve~~v~~---G~~va~~Il~~A~e~~aDLIVmGsrG 172 (257)
+.. .+.+.| +++...-.. -......+++..+++++|+||+..-+
T Consensus 129 --------------~~~-------lA~~~g-Ip~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 129 --------------LRS-------LVERFG-IPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred --------------HHH-------HHHHhC-CCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence 001 123345 665432111 11113568888888999999997644
No 154
>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=23.29 E-value=4e+02 Score=21.43 Aligned_cols=23 Identities=4% Similarity=0.160 Sum_probs=18.9
Q ss_pred HHHHHHHhhCCCcEEEEccCCCC
Q 025166 152 KAILDLISVANVTSLVMGTKLSP 174 (257)
Q Consensus 152 ~~Il~~A~e~~aDLIVmGsrG~s 174 (257)
..+.++|.+.+++.|++|.+...
T Consensus 66 ~~l~~~a~~~g~~~i~~G~~~~d 88 (169)
T cd01995 66 SIAAAYAEALGAEAIIIGVNAED 88 (169)
T ss_pred HHHHHHHHHCCCCEEEEeeccCc
Confidence 45667889999999999998754
No 155
>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=23.13 E-value=2.4e+02 Score=26.67 Aligned_cols=66 Identities=9% Similarity=-0.010 Sum_probs=41.9
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhC-CCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNA-PDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A-~~~cPVLVVr~~~ 206 (257)
.-+=..-........+|++.|++.+.-+|+.-+.+.-.... .++. .....+.+.+ . +||.+-=++.
T Consensus 16 yAV~AfN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g~~~~~-~~~~~~ae~~~~--VPValHLDHg 83 (347)
T TIGR01521 16 YGVPAFNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAGAPFLR-HLILAAIEEYPH--IPVVMHQDHG 83 (347)
T ss_pred ceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHH-HHHHHHHHhCCC--CcEEEECCCC
Confidence 43333333343347999999999999999999887533221 1222 4555666666 5 8888765543
No 156
>PRK03708 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=22.98 E-value=2.3e+02 Score=25.56 Aligned_cols=13 Identities=8% Similarity=-0.038 Sum_probs=9.6
Q ss_pred ceEEEEcCCCccc
Q 025166 197 CEVTIVHDGKKVV 209 (257)
Q Consensus 197 cPVLVVr~~~~~~ 209 (257)
|||+.|+.|...+
T Consensus 81 ~pi~gIn~G~lGF 93 (277)
T PRK03708 81 IPILGINMGTLGF 93 (277)
T ss_pred CeEEEEeCCCCCc
Confidence 8888888776533
No 157
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=22.94 E-value=4.7e+02 Score=22.12 Aligned_cols=51 Identities=4% Similarity=-0.005 Sum_probs=33.0
Q ss_pred ecCchHHHHHHHHhhCCCcEEEEc----cCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCC
Q 025166 146 ESKATAKAILDLISVANVTSLVMG----TKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDG 205 (257)
Q Consensus 146 ~G~~va~~Il~~A~e~~aDLIVmG----srG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~ 205 (257)
.... ++..++.+++..+|+|+|. -.+.+++ .....+.+..| .++|+|+-..
T Consensus 32 ~~~~-~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~-------~~i~~i~~~~p-~~~iivlt~~ 86 (207)
T PRK15411 32 DIET-VDDLAIACDSLRPSVVFINEDCFIHDASNS-------QRIKQIINQHP-NTLFIVFMAI 86 (207)
T ss_pred ecCC-HHHHHHHHhccCCCEEEEeCcccCCCCChH-------HHHHHHHHHCC-CCeEEEEECC
Confidence 3444 5666777777889999999 3343221 35556665554 5898888543
No 158
>PRK10481 hypothetical protein; Provisional
Probab=22.70 E-value=2.2e+02 Score=25.09 Aligned_cols=42 Identities=12% Similarity=0.158 Sum_probs=28.2
Q ss_pred HHHHHHHHh---hCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEE
Q 025166 151 AKAILDLIS---VANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIV 202 (257)
Q Consensus 151 a~~Il~~A~---e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVV 202 (257)
.+.+.+.++ ..++|+||++.-|.+. . ....+-+... +||+..
T Consensus 168 ~~~l~~aa~~L~~~gaD~Ivl~C~G~~~-~-------~~~~le~~lg--~PVI~~ 212 (224)
T PRK10481 168 EEELIDAGKELLDQGADVIVLDCLGYHQ-R-------HRDLLQKALD--VPVLLS 212 (224)
T ss_pred HHHHHHHHHHhhcCCCCEEEEeCCCcCH-H-------HHHHHHHHHC--cCEEcH
Confidence 356777777 5689999999999763 1 1223445556 787653
No 159
>PRK13059 putative lipid kinase; Reviewed
Probab=22.66 E-value=4.4e+02 Score=23.64 Aligned_cols=66 Identities=11% Similarity=-0.031 Sum_probs=33.4
Q ss_pred HHHhhhCCCeeEEEEEEe-cCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhh-CCCCceEEEEcCCC
Q 025166 129 IRLCNDAKQVTVETMLVE-SKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKN-APDYCEVTIVHDGK 206 (257)
Q Consensus 129 ~~~~~~~g~v~ve~~v~~-G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~-A~~~cPVLVVr~~~ 206 (257)
...+.+.+ +++...... +.. . ++...+.+.+.|.||+. -|-|.+. .|++.+++. .. +|+-|+|-+.
T Consensus 25 ~~~l~~~g-~~~~~~~~~~~~~-~-~~~~~~~~~~~d~vi~~-GGDGTv~------evv~gl~~~~~~--~~lgviP~GT 92 (295)
T PRK13059 25 IRIHQEKG-YLVVPYRISLEYD-L-KNAFKDIDESYKYILIA-GGDGTVD------NVVNAMKKLNID--LPIGILPVGT 92 (295)
T ss_pred HHHHHHCC-cEEEEEEccCcch-H-HHHHHHhhcCCCEEEEE-CCccHHH------HHHHHHHhcCCC--CcEEEECCCC
Confidence 33444456 665443332 333 2 33333334577866542 2333332 455566543 35 8999998664
No 160
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=22.54 E-value=2.2e+02 Score=26.60 Aligned_cols=77 Identities=10% Similarity=0.095 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc---c-cccCCHHHHHHhhC--C
Q 025166 121 RRNLLQKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL---F-TKKLSKGEFVKKNA--P 194 (257)
Q Consensus 121 ~~~lL~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r---~-~lGgSVs~~Vv~~A--~ 194 (257)
++++|+++. +.+ .-+=..-+.......+|++.|++.+.-+|+..+.+...... . .+. .......+.+ +
T Consensus 12 ~k~lL~~A~----~~~-yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~g~~~~~~~~-~~~~~~a~~a~~~ 85 (321)
T PRK07084 12 TREMFAKAV----KGG-YAIPAYNFNNMEQLQAIIQACVETKSPVILQVSKGARKYANATLLRYMA-QGAVEYAKELGCP 85 (321)
T ss_pred HHHHHHHHH----HCC-ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHHhhCCchHHHHHH-HHHHHHHHHcCCC
Confidence 344555443 333 43333333443448999999999999999999876432211 0 111 2234455555 6
Q ss_pred CCceEEEEcCC
Q 025166 195 DYCEVTIVHDG 205 (257)
Q Consensus 195 ~~cPVLVVr~~ 205 (257)
+||.+-=++
T Consensus 86 --VPV~lHLDH 94 (321)
T PRK07084 86 --IPIVLHLDH 94 (321)
T ss_pred --CcEEEECCC
Confidence 888876554
No 161
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=22.20 E-value=4.7e+02 Score=25.13 Aligned_cols=73 Identities=16% Similarity=0.114 Sum_probs=48.3
Q ss_pred HHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcC
Q 025166 127 KYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHD 204 (257)
Q Consensus 127 ~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~ 204 (257)
.+.+-+.+.| +.++.+-+.-.. ..+|++.+. +++-||+|+...+.-.--.++ ..-.+|...+++.-++.|+-.
T Consensus 266 aiaegl~~~g-v~v~~~~~~~~~-~~eI~~~i~--~a~~~vvGsPT~~~~~~p~i~-~~l~~v~~~~~~~k~~~vfgS 338 (388)
T COG0426 266 AIAEGLMKEG-VDVEVINLEDAD-PSEIVEEIL--DAKGLVVGSPTINGGAHPPIQ-TALGYVLALAPKNKLAGVFGS 338 (388)
T ss_pred HHHHHhhhcC-CceEEEEcccCC-HHHHHHHHh--hcceEEEecCcccCCCCchHH-HHHHHHHhccCcCceEEEEec
Confidence 3334455667 888888877777 688998885 589999999875432211223 444566666665567777754
No 162
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=21.93 E-value=1.4e+02 Score=21.18 Aligned_cols=31 Identities=16% Similarity=0.233 Sum_probs=18.7
Q ss_pred CCeEEEeecCCh--HHHHHHHHHHhcCCCCeEE
Q 025166 52 ASDVYVAVGKDD--LHVLKWALDHAVSPGARIY 82 (257)
Q Consensus 52 ~~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~ 82 (257)
.++|++++|.+. +.+.....+.+...+-++.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccc
Confidence 689999999999 7777777665655555554
No 163
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=21.76 E-value=4.5e+02 Score=23.52 Aligned_cols=52 Identities=13% Similarity=0.113 Sum_probs=35.9
Q ss_pred HHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCCc
Q 025166 151 AKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGKK 207 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~~ 207 (257)
...|++.+.+.+.|.|.+|-.-- ....-+- .+.+++-.... .||++.+....
T Consensus 30 ~~ei~~~~~~~GTDaImIGGS~g--vt~~~~~-~~v~~ik~~~~--lPvilfP~~~~ 81 (240)
T COG1646 30 ADEIAEAAAEAGTDAIMIGGSDG--VTEENVD-NVVEAIKERTD--LPVILFPGSPS 81 (240)
T ss_pred cHHHHHHHHHcCCCEEEECCccc--ccHHHHH-HHHHHHHhhcC--CCEEEecCChh
Confidence 57899999999999999975432 1211122 55566666777 99999886543
No 164
>TIGR02069 cyanophycinase cyanophycinase. This model describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.
Probab=21.50 E-value=5.7e+02 Score=22.62 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=19.0
Q ss_pred EEeecCCh-----HHHHHHHHHHhcCCCCeEEEE
Q 025166 56 YVAVGKDD-----LHVLKWALDHAVSPGARIYLV 84 (257)
Q Consensus 56 LVaVDgS~-----~~AL~~Al~~a~~~~a~l~Ll 84 (257)
||++.|.+ ...+++-++++...+++|.++
T Consensus 1 l~~iGG~~~~~~~~~i~~~~~~lag~~~~rI~~i 34 (250)
T TIGR02069 1 LVIIGGAEDKVGDREILREFVSRAGGEDAIIVII 34 (250)
T ss_pred CeEEeCccccCChHHHHHHHHHHhCCCCceEEEE
Confidence 35555554 457788888887667777644
No 165
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=21.42 E-value=2.7e+02 Score=25.80 Aligned_cols=66 Identities=9% Similarity=-0.063 Sum_probs=41.4
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhC-CCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNA-PDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A-~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......+|++.|++.+.-+|+..+.+.-.... .++. .....+.+++ . +||.+-=++.
T Consensus 17 yaV~AfN~~n~e~~~avi~AAe~~~sPvIlq~s~~~~~~~g~~~~~-~~~~~~a~~~~~--VPValHLDHg 84 (307)
T PRK05835 17 YGVGAFNFVNFEMLNAIFEAGNEENSPLFIQASEGAIKYMGIDMAV-GMVKIMCERYPH--IPVALHLDHG 84 (307)
T ss_pred ceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhCChHHHH-HHHHHHHHhcCC--CeEEEECCCC
Confidence 43333333443347999999999999999998876532211 1222 4555566766 5 8998765543
No 166
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=21.35 E-value=3.3e+02 Score=20.69 Aligned_cols=59 Identities=8% Similarity=0.116 Sum_probs=34.0
Q ss_pred HHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcC
Q 025166 130 RLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHD 204 (257)
Q Consensus 130 ~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~ 204 (257)
+.+++.| ++++.. -.+ ...+-+..+ ++|+|++|..-+-.+ .-....+.... .||.+++.
T Consensus 22 ~~a~~~g-i~~~i~---a~~-~~e~~~~~~--~~Dvill~PQv~~~~-------~~i~~~~~~~~--ipv~~I~~ 80 (99)
T cd05565 22 KGAKERG-VPLEAA---AGA-YGSHYDMIP--DYDLVILAPQMASYY-------DELKKDTDRLG--IKLVTTTG 80 (99)
T ss_pred HHHHHCC-CcEEEE---Eee-HHHHHHhcc--CCCEEEEcChHHHHH-------HHHHHHhhhcC--CCEEEeCH
Confidence 3445567 776533 223 344555554 689999998654322 23334444445 89988863
No 167
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=21.31 E-value=2.8e+02 Score=19.67 Aligned_cols=37 Identities=16% Similarity=0.106 Sum_probs=25.1
Q ss_pred hhCCCeeEEEEEEecCchHHHHHHHHhhCCCc-EEEEccCC
Q 025166 133 NDAKQVTVETMLVESKATAKAILDLISVANVT-SLVMGTKL 172 (257)
Q Consensus 133 ~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aD-LIVmGsrG 172 (257)
...| +.++.... +.. -..-+++|...++. +||+|..-
T Consensus 28 r~~g-~~v~~d~~-~~~-l~k~i~~a~~~g~~~~iiiG~~e 65 (94)
T cd00861 28 QAAG-VDVLLDDR-NER-PGVKFADADLIGIPYRIVVGKKS 65 (94)
T ss_pred HHCC-CEEEEECC-CCC-cccchhHHHhcCCCEEEEECCch
Confidence 3457 77766543 445 46677888889998 77778653
No 168
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=21.13 E-value=5.8e+02 Score=22.53 Aligned_cols=25 Identities=16% Similarity=0.295 Sum_probs=18.9
Q ss_pred EecCchHHHHHHHHhhCCCcEEEEcc
Q 025166 145 VESKATAKAILDLISVANVTSLVMGT 170 (257)
Q Consensus 145 ~~G~~va~~Il~~A~e~~aDLIVmGs 170 (257)
+.|.- ...-+..+.+.+||.+|+||
T Consensus 174 VDGGI-~~~t~~~~~~AGad~~VaGS 198 (220)
T COG0036 174 VDGGI-NLETIKQLAAAGADVFVAGS 198 (220)
T ss_pred EeCCc-CHHHHHHHHHcCCCEEEEEE
Confidence 45655 56666666678999999999
No 169
>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=21.04 E-value=1.6e+02 Score=23.68 Aligned_cols=22 Identities=5% Similarity=0.211 Sum_probs=19.3
Q ss_pred HHHHHHHHhhCCCcEEEEccCC
Q 025166 151 AKAILDLISVANVTSLVMGTKL 172 (257)
Q Consensus 151 a~~Il~~A~e~~aDLIVmGsrG 172 (257)
.+.+++.|.++++|+|.|.+--
T Consensus 39 ~e~~v~aa~~~~adiVglS~L~ 60 (128)
T cd02072 39 QEEFIDAAIETDADAILVSSLY 60 (128)
T ss_pred HHHHHHHHHHcCCCEEEEeccc
Confidence 6999999999999999986643
No 170
>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=20.98 E-value=2.1e+02 Score=27.01 Aligned_cols=67 Identities=7% Similarity=-0.004 Sum_probs=43.2
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccC-CCCCccc----------------ccccCCHHHHHHhhCCCCceEE
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTK-LSPRSRL----------------FTKKLSKGEFVKKNAPDYCEVT 200 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsr-G~s~l~r----------------~~lGgSVs~~Vv~~A~~~cPVL 200 (257)
.-+=..-+.+.....++++.|++.+...|+.-+. +.-.... ..+. .......+++. +||.
T Consensus 13 yAV~AfN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~-~~~~~~A~~~~--VPV~ 89 (340)
T cd00453 13 FALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGA-HHVHQMAEHYG--VPVI 89 (340)
T ss_pred ceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHH-HHHHHHHHHCC--CCEE
Confidence 4443444444444789999999999999999887 3311111 1122 45667788898 9998
Q ss_pred EEcCCCc
Q 025166 201 IVHDGKK 207 (257)
Q Consensus 201 VVr~~~~ 207 (257)
+-=++..
T Consensus 90 lHLDH~~ 96 (340)
T cd00453 90 LHTDHCA 96 (340)
T ss_pred EEcCCCC
Confidence 8766543
No 171
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=20.94 E-value=1.7e+02 Score=24.92 Aligned_cols=32 Identities=9% Similarity=-0.016 Sum_probs=23.7
Q ss_pred CeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEE
Q 025166 53 SDVYVAVGKDD--LHVLKWALDHAVSPGARIYLV 84 (257)
Q Consensus 53 ~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~Ll 84 (257)
++|+++|-||- .++++.+-.+.+..|.++.++
T Consensus 2 k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv 35 (185)
T PRK06029 2 KRLIVGISGASGAIYGVRLLQVLRDVGEIETHLV 35 (185)
T ss_pred CEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEE
Confidence 68999999997 888887765544357675554
No 172
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=20.93 E-value=1.6e+02 Score=24.80 Aligned_cols=31 Identities=10% Similarity=0.178 Sum_probs=23.0
Q ss_pred CeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEE
Q 025166 53 SDVYVAVGKDD--LHVLKWALDHAVSPGARIYLV 84 (257)
Q Consensus 53 ~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~Ll 84 (257)
++|++++-||- .++.++.-. +++.+.+|.++
T Consensus 2 k~Ill~vtGsiaa~~~~~li~~-L~~~g~~V~vv 34 (182)
T PRK07313 2 KNILLAVSGSIAAYKAADLTSQ-LTKRGYQVTVL 34 (182)
T ss_pred CEEEEEEeChHHHHHHHHHHHH-HHHCCCEEEEE
Confidence 78999999998 777776644 44567776654
No 173
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=20.85 E-value=1.6e+02 Score=23.13 Aligned_cols=33 Identities=12% Similarity=0.023 Sum_probs=21.1
Q ss_pred EEEeecCCh---HHHHH----HHHHHhcCCCCeEEEEEEe
Q 025166 55 VYVAVGKDD---LHVLK----WALDHAVSPGARIYLVHVF 87 (257)
Q Consensus 55 ILVaVDgS~---~~AL~----~Al~~a~~~~a~l~LlHV~ 87 (257)
|+|++|-|- .+.|+ -...+++..+.+++++..-
T Consensus 1 i~vaiDtSGSis~~~l~~fl~ev~~i~~~~~~~v~vi~~D 40 (126)
T PF09967_consen 1 IVVAIDTSGSISDEELRRFLSEVAGILRRFPAEVHVIQFD 40 (126)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEEEC
Confidence 578999887 33444 3344455567788888643
No 174
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=20.76 E-value=3.8e+02 Score=22.20 Aligned_cols=35 Identities=9% Similarity=0.119 Sum_probs=22.4
Q ss_pred hhCCCeeEEEEEEecCchHHHHHHHHhh--CCCcEEEEc
Q 025166 133 NDAKQVTVETMLVESKATAKAILDLISV--ANVTSLVMG 169 (257)
Q Consensus 133 ~~~g~v~ve~~v~~G~~va~~Il~~A~e--~~aDLIVmG 169 (257)
.+.| +++....+.++. .+.|.+..++ ..+|+||..
T Consensus 29 ~~~G-~~v~~~~~v~Dd-~~~I~~~l~~~~~~~dlVItt 65 (170)
T cd00885 29 AELG-IEVYRVTVVGDD-EDRIAEALRRASERADLVITT 65 (170)
T ss_pred HHCC-CEEEEEEEeCCC-HHHHHHHHHHHHhCCCEEEEC
Confidence 3447 777776666777 5666665433 368988874
No 175
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=20.61 E-value=4.3e+02 Score=23.74 Aligned_cols=44 Identities=9% Similarity=-0.001 Sum_probs=28.0
Q ss_pred CCcEEEEccCCCC---CcccccccCCHHH-HHHhhCCCCceEEEEcCCCccc
Q 025166 162 NVTSLVMGTKLSP---RSRLFTKKLSKGE-FVKKNAPDYCEVTIVHDGKKVV 209 (257)
Q Consensus 162 ~aDLIVmGsrG~s---~l~r~~lGgSVs~-~Vv~~A~~~cPVLVVr~~~~~~ 209 (257)
++|.+++|+++-- ++.. -.| +-.- -..++.. +||+|+.......
T Consensus 151 ~vd~VlvGAd~V~~nG~v~n-kvG-T~~~Al~A~~~~--vPv~V~~~s~Kf~ 198 (253)
T PRK06372 151 NVDAVIVGSDSVLYDGGLIH-KNG-TFPLALCARYLK--KPFYSLTISMKIE 198 (253)
T ss_pred hCCEEEECccEEecCCCEee-hhh-HHHHHHHHHHcC--CCEEEEeeccccC
Confidence 4999999999732 2222 235 4333 3446667 9999998754443
No 176
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=20.48 E-value=7.2e+02 Score=23.38 Aligned_cols=22 Identities=9% Similarity=0.137 Sum_probs=18.3
Q ss_pred HHHHHHHhhCCCcEEEEccCCC
Q 025166 152 KAILDLISVANVTSLVMGTKLS 173 (257)
Q Consensus 152 ~~Il~~A~e~~aDLIVmGsrG~ 173 (257)
..+.++|++.++|.|+.|.+-+
T Consensus 103 ~~l~~~A~~~G~~~IATGHya~ 124 (360)
T PRK14665 103 PLLAKIADEMGIFYLATGHYVR 124 (360)
T ss_pred HHHHHHHHHcCCCEEEECCccc
Confidence 4567899999999999997753
No 177
>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=20.44 E-value=1.7e+02 Score=24.68 Aligned_cols=31 Identities=10% Similarity=0.141 Sum_probs=22.7
Q ss_pred CeEEEeecCCh--HHHHHHHHHHhcCCCCeEEEE
Q 025166 53 SDVYVAVGKDD--LHVLKWALDHAVSPGARIYLV 84 (257)
Q Consensus 53 ~kILVaVDgS~--~~AL~~Al~~a~~~~a~l~Ll 84 (257)
++|+|++-||- .+++++. +.+++.+.+++++
T Consensus 1 k~I~lgvtGs~~a~~~~~ll-~~L~~~g~~V~vi 33 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLT-SQLTKLGYDVTVL 33 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHH-HHHHHCCCEEEEE
Confidence 58999999998 7777654 4555567776654
No 178
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=20.41 E-value=3.3e+02 Score=27.22 Aligned_cols=34 Identities=12% Similarity=0.312 Sum_probs=25.7
Q ss_pred HhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcCCC
Q 025166 158 ISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHDGK 206 (257)
Q Consensus 158 A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~~~ 206 (257)
....++|.|| .+ |+++.++-++.+ +||+.|+...
T Consensus 60 ~~~~~~dviI---------sr----G~ta~~i~~~~~--iPVv~i~~s~ 93 (538)
T PRK15424 60 LATERCDAII---------AA----GSNGAYLKSRLS--VPVILIKPSG 93 (538)
T ss_pred HhhCCCcEEE---------EC----chHHHHHHhhCC--CCEEEecCCH
Confidence 4445788887 11 389999999999 9999998643
No 179
>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=20.35 E-value=4.2e+02 Score=22.39 Aligned_cols=64 Identities=13% Similarity=0.016 Sum_probs=37.5
Q ss_pred hhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCC--CceEEEE
Q 025166 132 CNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPD--YCEVTIV 202 (257)
Q Consensus 132 ~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~--~cPVLVV 202 (257)
+...| .++ .-+-..-| .+.|++.+.+.++|+|.+...-...... +. .+.+.+ +..++ .++|+|-
T Consensus 106 l~~~G-~~v-i~lG~~~p-~~~l~~~~~~~~~d~v~lS~~~~~~~~~--~~-~~i~~l-r~~~~~~~~~i~vG 171 (201)
T cd02070 106 LEANG-FEV-IDLGRDVP-PEEFVEAVKEHKPDILGLSALMTTTMGG--MK-EVIEAL-KEAGLRDKVKVMVG 171 (201)
T ss_pred HHHCC-CEE-EECCCCCC-HHHHHHHHHHcCCCEEEEeccccccHHH--HH-HHHHHH-HHCCCCcCCeEEEE
Confidence 34557 655 11223445 7999999999999999998754443321 22 344444 44442 3555554
No 180
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=20.15 E-value=2.7e+02 Score=26.31 Aligned_cols=66 Identities=9% Similarity=-0.016 Sum_probs=41.5
Q ss_pred eeEEEEEEecCchHHHHHHHHhhCCCcEEEEccCCCCCccc-ccccCCHHHHHHhhC-CCCceEEEEcCCC
Q 025166 138 VTVETMLVESKATAKAILDLISVANVTSLVMGTKLSPRSRL-FTKKLSKGEFVKKNA-PDYCEVTIVHDGK 206 (257)
Q Consensus 138 v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGsrG~s~l~r-~~lGgSVs~~Vv~~A-~~~cPVLVVr~~~ 206 (257)
.-+=..-+.......+|++.|++.+.-+|+.-+.+...... .++. .......+++ . +||.+-=++.
T Consensus 18 yAVgAfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~g~~~~~-~~~~~~a~~~~~--VPValHLDHg 85 (347)
T PRK09196 18 YGVPAFNVNNLEQVQAIMEAADETDSPVILQASAGARKYAGEPFLR-HLILAAVEEYPH--IPVVMHQDHG 85 (347)
T ss_pred ceEEEeeeCCHHHHHHHHHHHHHhCCCEEEECCccHhhhCCHHHHH-HHHHHHHHhCCC--CcEEEECCCC
Confidence 33333333333337999999999999999999887543221 1222 5556666666 4 7887765543
No 181
>PF00834 Ribul_P_3_epim: Ribulose-phosphate 3 epimerase family; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Ralstonia eutropha (Alcaligenes eutrophus) two copies of the gene coding for PPE are known [], one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process; PDB: 3CTL_A 3CT7_D 3CU2_A 1RPX_A 3OVR_A 3OVP_A 3OVQ_B 3QC3_B 3INP_A 1TQJ_D ....
Probab=20.14 E-value=80 Score=27.24 Aligned_cols=42 Identities=14% Similarity=0.213 Sum_probs=21.4
Q ss_pred HHHHHHhhhCCCeeEEEEEEecCchHHHHHHHHhhCCCcEEEEcc
Q 025166 126 QKYIRLCNDAKQVTVETMLVESKATAKAILDLISVANVTSLVMGT 170 (257)
Q Consensus 126 ~~~~~~~~~~g~v~ve~~v~~G~~va~~Il~~A~e~~aDLIVmGs 170 (257)
+++++...+.+ ..++. .+.|.- ...-+....+.++|.+|+||
T Consensus 154 ~~l~~~~~~~~-~~~~I-~vDGGI-~~~~~~~~~~aGad~~V~Gs 195 (201)
T PF00834_consen 154 RELRKLIPENG-LDFEI-EVDGGI-NEENIKQLVEAGADIFVAGS 195 (201)
T ss_dssp HHHHHHHHHHT-CGSEE-EEESSE-STTTHHHHHHHT--EEEESH
T ss_pred HHHHHHHHhcC-CceEE-EEECCC-CHHHHHHHHHcCCCEEEECH
Confidence 33344444433 33333 345655 34445555556999999996
No 182
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=20.13 E-value=6.5e+02 Score=22.73 Aligned_cols=77 Identities=12% Similarity=0.038 Sum_probs=42.7
Q ss_pred HHHHHHHHHHhhhCCCeeEEEEEEecCchH--HHHHHHHhhCCCcEEEEccCCCCCcccccccCCHHHHHHhhCCCCceE
Q 025166 122 RNLLQKYIRLCNDAKQVTVETMLVESKATA--KAILDLISVANVTSLVMGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEV 199 (257)
Q Consensus 122 ~~lL~~~~~~~~~~g~v~ve~~v~~G~~va--~~Il~~A~e~~aDLIVmGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPV 199 (257)
.++++...+.+.. . +.+-.-+ |..+. -.+.+.|++.++|-|++-.--.......-+. .--..|...++ .||
T Consensus 63 ~~~~~~~~~~~~~-~-~pvi~gv--~~~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~-~~f~~va~~~~--lpi 135 (303)
T PRK03620 63 SQVVRAAVETTAG-R-VPVIAGA--GGGTAQAIEYAQAAERAGADGILLLPPYLTEAPQEGLA-AHVEAVCKSTD--LGV 135 (303)
T ss_pred HHHHHHHHHHhCC-C-CcEEEec--CCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHH-HHHHHHHHhCC--CCE
Confidence 3445555554432 3 4444433 33323 3345788999999999966543222111111 23345777788 999
Q ss_pred EEEcCC
Q 025166 200 TIVHDG 205 (257)
Q Consensus 200 LVVr~~ 205 (257)
++-...
T Consensus 136 ~lYn~~ 141 (303)
T PRK03620 136 IVYNRD 141 (303)
T ss_pred EEEcCC
Confidence 998643
No 183
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=20.03 E-value=5.7e+02 Score=23.75 Aligned_cols=64 Identities=13% Similarity=0.146 Sum_probs=36.7
Q ss_pred HHHhhhCCCeeEEEEEEecCch---HHHHHHHHhhCCCcEEE-EccCCCCCcccccccCCHHHHHHhhCCCCceEEEEcC
Q 025166 129 IRLCNDAKQVTVETMLVESKAT---AKAILDLISVANVTSLV-MGTKLSPRSRLFTKKLSKGEFVKKNAPDYCEVTIVHD 204 (257)
Q Consensus 129 ~~~~~~~g~v~ve~~v~~G~~v---a~~Il~~A~e~~aDLIV-mGsrG~s~l~r~~lGgSVs~~Vv~~A~~~cPVLVVr~ 204 (257)
...+...+ +.+....+.++|. .+.+++.+++.++|.|| +|. -+. . .++..+.-... .|++.||.
T Consensus 49 ~~~l~~~~-~~~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGG--Gsv------~-D~aK~iA~~~~--~p~i~IPT 116 (366)
T PRK09423 49 EASLKEAG-LTVVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGG--GKT------L-DTAKAVADYLG--VPVVIVPT 116 (366)
T ss_pred HHHHHhCC-CeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecC--hHH------H-HHHHHHHHHcC--CCEEEeCC
Confidence 33344445 6554444566663 34566677788999887 342 111 1 34444444456 89999986
Done!