Query 040308
Match_columns 167
No_of_seqs 144 out of 1847
Neff 10.1
Searched_HMMs 46136
Date Fri Mar 29 07:09:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040308.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040308hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 100.0 2.7E-29 5.8E-34 168.0 16.1 140 4-161 1-142 (142)
2 PRK15005 universal stress prot 100.0 1.2E-28 2.6E-33 165.0 15.8 142 4-161 1-144 (144)
3 PRK09982 universal stress prot 100.0 2.5E-28 5.4E-33 163.3 14.1 141 3-164 1-141 (142)
4 cd01989 STK_N The N-terminal d 100.0 2.2E-27 4.7E-32 159.3 17.0 142 7-163 1-146 (146)
5 PRK15118 universal stress glob 100.0 7.7E-27 1.7E-31 156.4 14.5 140 3-164 1-141 (144)
6 PF00582 Usp: Universal stress 99.9 2E-26 4.4E-31 152.2 15.0 140 4-161 1-140 (140)
7 PRK10116 universal stress prot 99.9 3.2E-26 7E-31 152.9 15.4 140 3-164 1-141 (142)
8 PRK11175 universal stress prot 99.9 1.6E-25 3.6E-30 166.9 15.6 147 3-164 1-148 (305)
9 cd01988 Na_H_Antiporter_C The 99.9 1.3E-24 2.8E-29 143.2 15.9 131 7-161 1-132 (132)
10 cd01987 USP_OKCHK USP domain i 99.9 6.7E-24 1.5E-28 138.6 12.9 123 7-161 1-124 (124)
11 PRK11175 universal stress prot 99.9 2.6E-22 5.6E-27 149.7 14.7 147 4-167 151-305 (305)
12 cd00293 USP_Like Usp: Universa 99.9 3.2E-21 7E-26 125.8 15.7 130 7-160 1-130 (130)
13 COG0589 UspA Universal stress 99.9 9.3E-21 2E-25 127.5 17.6 150 1-163 1-153 (154)
14 PRK12652 putative monovalent c 99.8 8E-18 1.7E-22 126.8 15.9 108 1-132 1-122 (357)
15 PRK10490 sensor protein KdpD; 99.5 5.6E-13 1.2E-17 112.0 15.2 125 5-163 250-375 (895)
16 COG2205 KdpD Osmosensitive K+ 99.4 2.8E-12 6.1E-17 103.5 13.2 128 6-165 249-377 (890)
17 cd01984 AANH_like Adenine nucl 98.7 1.4E-07 2.9E-12 57.4 7.1 84 8-159 1-85 (86)
18 PLN03159 cation/H(+) antiporte 98.1 5.5E-05 1.2E-09 63.9 11.3 149 6-164 459-617 (832)
19 TIGR02432 lysidine_TilS_N tRNA 97.3 0.007 1.5E-07 42.1 11.0 94 7-135 1-111 (189)
20 PLN03159 cation/H(+) antiporte 97.3 0.005 1.1E-07 52.4 11.7 119 5-133 630-752 (832)
21 PF01171 ATP_bind_3: PP-loop f 97.1 0.033 7.2E-07 38.5 12.1 94 7-135 1-108 (182)
22 cd01992 PP-ATPase N-terminal d 96.9 0.034 7.3E-07 38.4 11.0 94 7-135 1-108 (185)
23 PRK12342 hypothetical protein; 96.2 0.087 1.9E-06 38.6 9.6 104 13-157 32-139 (254)
24 PF01012 ETF: Electron transfe 95.9 0.068 1.5E-06 36.3 7.4 87 7-133 1-100 (164)
25 PRK03359 putative electron tra 95.8 0.087 1.9E-06 38.6 8.2 88 13-135 33-124 (256)
26 TIGR00591 phr2 photolyase PhrI 95.8 0.26 5.6E-06 39.3 11.3 91 13-132 32-122 (454)
27 COG0041 PurE Phosphoribosylcar 95.7 0.15 3.2E-06 34.1 8.0 68 88-163 18-89 (162)
28 COG2086 FixA Electron transfer 95.6 0.14 3.1E-06 37.6 8.4 86 11-134 32-122 (260)
29 cd01993 Alpha_ANH_like_II This 95.5 0.48 1E-05 32.5 10.7 40 7-47 1-40 (185)
30 COG0037 MesJ tRNA(Ile)-lysidin 94.9 0.36 7.8E-06 36.0 9.2 39 6-49 22-60 (298)
31 TIGR01162 purE phosphoribosyla 94.7 0.43 9.3E-06 32.2 8.1 70 87-164 13-86 (156)
32 PRK10696 tRNA 2-thiocytidine b 94.1 1.7 3.7E-05 31.9 12.1 96 4-135 28-143 (258)
33 PRK05253 sulfate adenylyltrans 93.7 1.6 3.5E-05 32.9 10.2 94 4-134 26-138 (301)
34 PF00731 AIRC: AIR carboxylase 93.6 0.69 1.5E-05 31.1 7.3 70 87-164 15-88 (150)
35 PF00875 DNA_photolyase: DNA p 93.5 1.5 3.3E-05 29.7 9.1 117 14-162 9-125 (165)
36 PRK10660 tilS tRNA(Ile)-lysidi 92.8 2.6 5.6E-05 33.6 10.7 66 6-106 16-82 (436)
37 PRK07313 phosphopantothenoylcy 92.7 1 2.2E-05 31.4 7.4 34 5-42 1-34 (182)
38 PRK13820 argininosuccinate syn 92.6 4 8.6E-05 32.1 11.1 37 4-46 1-38 (394)
39 PRK05579 bifunctional phosphop 92.4 1.7 3.8E-05 34.1 9.1 37 2-42 3-39 (399)
40 PRK14665 mnmA tRNA-specific 2- 92.2 4.4 9.5E-05 31.4 12.5 39 1-46 1-39 (360)
41 PF02601 Exonuc_VII_L: Exonucl 92.1 0.79 1.7E-05 34.7 6.8 75 85-160 29-113 (319)
42 TIGR02765 crypto_DASH cryptoch 91.3 5.9 0.00013 31.3 11.2 122 13-160 10-131 (429)
43 KOG1650 Predicted K+/H+-antipo 90.8 1.5 3.2E-05 37.5 7.7 43 6-51 615-657 (769)
44 TIGR03556 photolyase_8HDF deox 90.3 5 0.00011 32.3 10.0 90 13-132 10-99 (471)
45 PRK08305 spoVFB dipicolinate s 90.1 1.9 4.1E-05 30.4 6.6 39 1-43 1-40 (196)
46 PRK13982 bifunctional SbtC-lik 90.0 3.6 7.7E-05 33.2 8.8 35 5-43 70-104 (475)
47 cd05565 PTS_IIB_lactose PTS_II 89.9 0.79 1.7E-05 28.5 4.1 65 87-162 16-80 (99)
48 TIGR02039 CysD sulfate adenyly 89.8 7 0.00015 29.5 10.1 41 5-48 19-59 (294)
49 TIGR02113 coaC_strep phosphopa 89.6 2.1 4.5E-05 29.6 6.5 33 6-42 1-33 (177)
50 TIGR00853 pts-lac PTS system, 89.5 1.2 2.6E-05 27.4 4.7 67 87-164 19-85 (95)
51 PRK10867 signal recognition pa 89.5 7.4 0.00016 31.0 10.1 93 9-140 105-200 (433)
52 COG0299 PurN Folate-dependent 88.8 6.5 0.00014 27.7 9.6 82 6-131 1-87 (200)
53 cd01985 ETF The electron trans 88.7 6 0.00013 27.2 12.1 36 7-46 1-45 (181)
54 PRK00286 xseA exodeoxyribonucl 88.2 2 4.4E-05 34.1 6.4 54 106-160 171-230 (438)
55 cd05564 PTS_IIB_chitobiose_lic 88.0 1.7 3.7E-05 26.8 4.7 67 87-164 15-81 (96)
56 PF03746 LamB_YcsF: LamB/YcsF 87.9 8.6 0.00019 28.1 13.1 127 2-158 24-160 (242)
57 TIGR02852 spore_dpaB dipicolin 87.8 4.6 0.0001 28.3 7.2 34 6-43 1-35 (187)
58 PF00448 SRP54: SRP54-type pro 87.8 7.6 0.00017 27.3 8.7 112 8-160 5-120 (196)
59 KOG1467 Translation initiation 86.7 15 0.00033 29.6 10.5 105 7-162 361-469 (556)
60 PF02441 Flavoprotein: Flavopr 86.7 1.3 2.7E-05 28.8 3.8 33 6-42 1-33 (129)
61 PRK14664 tRNA-specific 2-thiou 86.6 13 0.00029 28.9 10.0 38 1-45 1-38 (362)
62 PLN02948 phosphoribosylaminoim 86.5 4.3 9.3E-05 33.6 7.5 71 86-164 424-498 (577)
63 TIGR00237 xseA exodeoxyribonuc 86.4 3.6 7.7E-05 32.7 6.8 54 106-160 165-225 (432)
64 COG1597 LCB5 Sphingosine kinas 86.3 7.2 0.00016 29.4 8.1 76 83-164 17-93 (301)
65 PF10087 DUF2325: Uncharacteri 85.3 5.4 0.00012 24.5 5.9 73 86-164 10-85 (97)
66 PRK09590 celB cellobiose phosp 85.2 2.3 5E-05 26.7 4.2 68 87-163 17-84 (104)
67 TIGR00521 coaBC_dfp phosphopan 84.3 12 0.00026 29.4 8.6 34 5-42 3-36 (390)
68 PF02844 GARS_N: Phosphoribosy 84.2 1 2.3E-05 28.1 2.3 24 110-133 49-72 (100)
69 PF03652 UPF0081: Uncharacteri 84.2 3.1 6.8E-05 27.4 4.8 63 102-164 28-97 (135)
70 PRK00109 Holliday junction res 84.2 2.4 5.2E-05 28.1 4.2 54 111-164 42-99 (138)
71 TIGR00959 ffh signal recogniti 84.2 20 0.00042 28.7 10.3 93 8-139 103-198 (428)
72 TIGR00268 conserved hypothetic 83.8 15 0.00032 26.9 10.3 36 4-46 11-46 (252)
73 PF12683 DUF3798: Protein of u 83.0 12 0.00025 27.8 7.5 91 7-133 4-96 (275)
74 COG1927 Mtd Coenzyme F420-depe 82.5 14 0.00031 26.4 7.5 66 93-163 25-96 (277)
75 COG1184 GCD2 Translation initi 82.3 19 0.00042 27.2 10.9 104 7-160 121-227 (301)
76 PF01261 AP_endonuc_2: Xylose 82.3 14 0.0003 25.5 8.2 81 19-126 70-158 (213)
77 PF04459 DUF512: Protein of un 82.2 16 0.00034 26.0 7.9 81 84-164 108-203 (204)
78 cd08550 GlyDH-like Glycerol_de 82.1 16 0.00034 28.1 8.5 69 88-164 38-111 (349)
79 COG0541 Ffh Signal recognition 81.7 25 0.00054 28.1 9.7 96 8-143 104-202 (451)
80 TIGR00655 PurU formyltetrahydr 81.7 20 0.00043 26.9 9.7 83 4-132 83-169 (280)
81 PRK11914 diacylglycerol kinase 81.0 14 0.0003 27.7 7.8 70 89-165 29-99 (306)
82 COG0452 Dfp Phosphopantothenoy 80.9 9.6 0.00021 30.0 7.0 115 4-164 3-123 (392)
83 TIGR02855 spore_yabG sporulati 80.8 7.9 0.00017 28.7 6.0 48 86-133 115-163 (283)
84 PLN00200 argininosuccinate syn 80.7 26 0.00057 27.7 12.7 39 3-47 3-41 (404)
85 PRK06027 purU formyltetrahydro 80.6 22 0.00047 26.7 9.9 40 94-133 132-175 (286)
86 cd00532 MGS-like MGS-like doma 80.6 10 0.00022 23.9 6.0 66 95-160 38-105 (112)
87 PRK12563 sulfate adenylyltrans 80.5 23 0.0005 27.0 9.5 41 5-48 37-77 (312)
88 TIGR02699 archaeo_AfpA archaeo 80.5 13 0.00027 25.8 6.7 33 7-42 1-34 (174)
89 PF05582 Peptidase_U57: YabG p 80.4 6.9 0.00015 29.2 5.7 49 85-133 115-164 (287)
90 PF13167 GTP-bdg_N: GTP-bindin 80.0 12 0.00025 23.2 6.9 67 84-158 6-84 (95)
91 cd01713 PAPS_reductase This do 80.0 15 0.00032 24.4 10.0 37 7-47 1-37 (173)
92 PF04244 DPRP: Deoxyribodipyri 79.0 15 0.00032 26.6 7.0 79 82-165 45-128 (224)
93 COG1570 XseA Exonuclease VII, 78.7 8.3 0.00018 30.7 6.0 75 85-160 150-231 (440)
94 PF11965 DUF3479: Domain of un 78.5 19 0.0004 24.7 8.0 39 7-46 2-40 (164)
95 cd01714 ETF_beta The electron 78.2 21 0.00046 25.2 10.1 34 10-46 29-62 (202)
96 PRK15411 rcsA colanic acid cap 77.8 22 0.00047 25.1 7.7 65 91-162 16-85 (207)
97 TIGR01826 CofD_related conserv 77.5 6.5 0.00014 29.8 5.0 51 110-163 161-213 (310)
98 cd07044 CofD_YvcK Family of Co 77.1 3.9 8.5E-05 31.0 3.7 50 110-162 163-214 (309)
99 COG1646 Predicted phosphate-bi 76.9 17 0.00036 26.5 6.6 54 110-165 28-81 (240)
100 COG0415 PhrB Deoxyribodipyrimi 76.9 38 0.00082 27.4 9.4 90 13-133 11-100 (461)
101 TIGR00250 RNAse_H_YqgF RNAse H 76.2 6.3 0.00014 25.8 4.1 55 110-164 35-93 (130)
102 PRK02929 L-arabinose isomerase 76.0 29 0.00062 28.4 8.5 67 89-162 32-105 (499)
103 PRK08185 hypothetical protein; 75.9 13 0.00028 27.9 6.1 58 106-163 20-77 (283)
104 PRK06029 3-octaprenyl-4-hydrox 75.9 6.6 0.00014 27.4 4.4 35 5-42 1-35 (185)
105 PRK13010 purU formyltetrahydro 75.8 31 0.00068 25.9 9.8 40 93-132 135-178 (289)
106 PF01596 Methyltransf_3: O-met 75.8 11 0.00024 26.7 5.6 45 89-133 84-131 (205)
107 PF09043 Lys-AminoMut_A: D-Lys 75.8 29 0.00063 27.7 8.0 48 100-147 147-197 (509)
108 cd07186 CofD_like LPPG:FO 2-ph 75.4 11 0.00025 28.4 5.7 51 110-162 172-223 (303)
109 PF01220 DHquinase_II: Dehydro 74.8 16 0.00034 24.4 5.6 74 82-162 25-100 (140)
110 cd01990 Alpha_ANH_like_I This 74.4 26 0.00057 24.4 10.2 34 8-47 1-34 (202)
111 cd03557 L-arabinose_isomerase 74.1 31 0.00067 28.0 8.2 49 110-164 49-101 (484)
112 PRK12857 fructose-1,6-bisphosp 74.1 19 0.00042 27.0 6.7 57 107-163 26-83 (284)
113 smart00851 MGS MGS-like domain 74.1 9.9 0.00021 22.8 4.4 64 94-158 25-89 (90)
114 PF03575 Peptidase_S51: Peptid 74.1 3.2 7E-05 27.8 2.4 62 88-151 2-63 (154)
115 cd02067 B12-binding B12 bindin 74.0 19 0.00042 22.7 7.2 47 90-137 18-64 (119)
116 cd02070 corrinoid_protein_B12- 73.7 18 0.00038 25.5 6.2 67 91-160 102-171 (201)
117 COG1058 CinA Predicted nucleot 73.6 26 0.00057 25.9 7.1 67 88-159 23-92 (255)
118 PRK12737 gatY tagatose-bisphos 73.4 19 0.00042 27.0 6.5 71 93-163 11-83 (284)
119 PRK13054 lipid kinase; Reviewe 73.4 36 0.00078 25.5 8.2 68 91-164 23-94 (300)
120 PRK13059 putative lipid kinase 73.3 36 0.00078 25.5 8.3 70 88-164 21-92 (295)
121 cd06318 PBP1_ABC_sugar_binding 73.0 31 0.00067 25.0 7.6 73 84-162 14-88 (282)
122 PRK06801 hypothetical protein; 73.0 23 0.0005 26.6 6.9 70 94-163 12-83 (286)
123 PF07279 DUF1442: Protein of u 72.9 32 0.0007 24.7 8.7 46 90-137 84-129 (218)
124 TIGR01425 SRP54_euk signal rec 72.5 48 0.001 26.5 9.7 54 89-142 145-201 (429)
125 PRK10653 D-ribose transporter 71.9 29 0.00063 25.5 7.3 72 85-162 42-115 (295)
126 PRK06806 fructose-bisphosphate 71.7 28 0.0006 26.1 7.0 71 93-163 11-83 (281)
127 PRK15424 propionate catabolism 71.6 22 0.00049 29.2 7.0 67 86-164 24-93 (538)
128 PRK13055 putative lipid kinase 71.6 43 0.00093 25.6 8.8 73 86-164 20-95 (334)
129 TIGR01769 GGGP geranylgeranylg 71.4 11 0.00025 26.7 4.7 50 114-165 15-64 (205)
130 PRK13015 3-dehydroquinate dehy 71.1 28 0.00062 23.3 6.2 72 84-162 28-101 (146)
131 PF10236 DAP3: Mitochondrial r 71.0 15 0.00033 27.8 5.6 132 10-161 26-162 (309)
132 TIGR02069 cyanophycinase cyano 70.8 39 0.00084 24.8 8.2 61 89-151 46-110 (250)
133 PRK09195 gatY tagatose-bisphos 70.6 23 0.0005 26.6 6.4 58 106-163 25-83 (284)
134 PRK00994 F420-dependent methyl 70.5 40 0.00086 24.7 7.5 46 115-164 52-97 (277)
135 PF07302 AroM: AroM protein; 70.3 38 0.00082 24.5 7.5 63 90-160 141-208 (221)
136 PRK05395 3-dehydroquinate dehy 70.0 22 0.00048 23.8 5.5 72 84-162 28-101 (146)
137 PF00072 Response_reg: Respons 69.7 22 0.00048 21.5 6.7 67 90-164 13-81 (112)
138 TIGR00273 iron-sulfur cluster- 69.7 25 0.00054 28.1 6.7 61 71-131 36-96 (432)
139 KOG0780 Signal recognition par 69.6 25 0.00054 27.9 6.4 59 85-143 142-203 (483)
140 PF01933 UPF0052: Uncharacteri 69.3 7.3 0.00016 29.4 3.6 61 100-162 157-223 (300)
141 PF07355 GRDB: Glycine/sarcosi 69.1 7.7 0.00017 29.9 3.6 49 111-160 68-117 (349)
142 cd01424 MGS_CPS_II Methylglyox 69.1 25 0.00054 21.9 6.1 62 95-159 39-100 (110)
143 cd07187 YvcK_like family of mo 69.1 8.6 0.00019 29.2 3.9 50 110-162 164-215 (308)
144 cd01537 PBP1_Repressors_Sugar_ 69.0 37 0.00081 23.9 8.6 71 86-163 16-88 (264)
145 PRK05234 mgsA methylglyoxal sy 69.0 31 0.00067 22.9 10.3 63 95-159 45-111 (142)
146 PF02142 MGS: MGS-like domain 68.9 4.7 0.0001 24.6 2.1 65 93-158 24-94 (95)
147 COG0036 Rpe Pentose-5-phosphat 68.6 42 0.0009 24.2 8.8 58 91-150 101-158 (220)
148 PRK00779 ornithine carbamoyltr 68.5 49 0.0011 25.1 9.1 41 109-159 85-125 (304)
149 PRK08745 ribulose-phosphate 3- 68.4 21 0.00045 25.8 5.6 45 87-132 157-201 (223)
150 TIGR00715 precor6x_red precorr 68.2 24 0.00053 26.0 6.0 64 95-164 167-233 (256)
151 cd01995 ExsB ExsB is a transcr 68.1 34 0.00074 23.0 10.3 33 7-46 1-33 (169)
152 cd01539 PBP1_GGBP Periplasmic 68.0 30 0.00066 25.6 6.7 71 86-162 16-90 (303)
153 TIGR02634 xylF D-xylose ABC tr 68.0 39 0.00084 25.1 7.3 73 84-162 13-87 (302)
154 PRK13337 putative lipid kinase 67.9 49 0.0011 24.8 8.8 70 89-164 22-93 (304)
155 PRK09423 gldA glycerol dehydro 67.8 55 0.0012 25.4 8.7 70 87-164 44-118 (366)
156 cd06322 PBP1_ABC_sugar_binding 67.7 35 0.00075 24.5 6.9 73 84-162 14-88 (267)
157 PRK08091 ribulose-phosphate 3- 67.5 22 0.00047 25.8 5.5 45 87-132 165-209 (228)
158 COG0191 Fba Fructose/tagatose 67.5 42 0.00091 25.2 7.1 73 92-164 10-85 (286)
159 COG0426 FpaA Uncharacterized f 67.4 54 0.0012 25.8 7.9 49 84-134 260-308 (388)
160 cd08170 GlyDH Glycerol dehydro 67.4 55 0.0012 25.2 8.5 72 86-164 36-111 (351)
161 COG0420 SbcD DNA repair exonuc 67.4 11 0.00023 29.5 4.3 20 112-131 29-48 (390)
162 cd01538 PBP1_ABC_xylose_bindin 67.0 47 0.001 24.3 7.6 72 85-162 15-88 (288)
163 TIGR02329 propionate_PrpR prop 66.8 57 0.0012 26.9 8.4 66 87-164 15-83 (526)
164 cd06282 PBP1_GntR_like_2 Ligan 66.8 44 0.00094 23.8 7.9 69 86-161 16-86 (266)
165 TIGR01858 tag_bisphos_ald clas 66.5 35 0.00075 25.6 6.6 57 107-163 24-81 (282)
166 cd00466 DHQase_II Dehydroquina 66.4 32 0.00069 22.9 5.7 72 84-162 26-99 (140)
167 PRK09722 allulose-6-phosphate 66.3 32 0.0007 24.9 6.2 46 86-132 154-199 (229)
168 COG0655 WrbA Multimeric flavod 66.2 43 0.00094 23.6 7.6 39 7-48 5-43 (207)
169 PRK14057 epimerase; Provisiona 66.2 28 0.00061 25.7 6.0 46 86-132 178-223 (254)
170 PRK11889 flhF flagellar biosyn 66.1 22 0.00048 28.3 5.7 74 88-162 285-360 (436)
171 COG1504 Uncharacterized conser 66.1 17 0.00037 23.1 4.1 39 122-163 60-98 (121)
172 cd00946 FBP_aldolase_IIA Class 66.1 38 0.00082 26.2 6.8 69 95-163 11-96 (345)
173 cd00578 L-fuc_L-ara-isomerases 66.0 38 0.00081 27.1 7.2 47 112-164 52-98 (452)
174 TIGR02088 LEU3_arch isopropylm 65.9 25 0.00054 26.9 5.8 27 14-43 139-165 (322)
175 PRK11070 ssDNA exonuclease Rec 65.9 79 0.0017 26.4 9.4 37 98-134 126-162 (575)
176 PRK12738 kbaY tagatose-bisphos 65.6 38 0.00083 25.5 6.7 58 106-163 25-83 (286)
177 PRK06731 flhF flagellar biosyn 65.5 25 0.00054 26.2 5.7 73 89-162 120-194 (270)
178 TIGR02766 crypt_chrom_pln cryp 65.3 72 0.0016 25.8 11.7 115 13-159 7-121 (475)
179 cd06319 PBP1_ABC_sugar_binding 65.3 45 0.00098 24.0 7.1 72 85-162 15-88 (277)
180 PF01008 IF-2B: Initiation fac 65.2 54 0.0012 24.3 9.8 60 96-162 155-218 (282)
181 PF13407 Peripla_BP_4: Peripla 65.2 42 0.00091 23.9 6.9 74 84-163 13-89 (257)
182 cd08171 GlyDH-like2 Glycerol d 65.0 61 0.0013 24.9 8.3 69 88-164 38-112 (345)
183 cd00954 NAL N-Acetylneuraminic 64.9 56 0.0012 24.4 8.4 50 114-163 87-137 (288)
184 cd00950 DHDPS Dihydrodipicolin 64.8 53 0.0011 24.3 7.4 51 112-162 84-134 (284)
185 PRK05406 LamB/YcsF family prot 64.6 54 0.0012 24.1 7.6 103 11-133 35-147 (246)
186 cd01994 Alpha_ANH_like_IV This 64.6 46 0.001 23.3 9.2 34 7-47 1-34 (194)
187 PRK06372 translation initiatio 64.2 41 0.00089 24.8 6.5 62 93-162 128-193 (253)
188 TIGR00619 sbcd exonuclease Sbc 64.1 15 0.00033 26.8 4.4 22 87-110 27-48 (253)
189 TIGR01088 aroQ 3-dehydroquinat 64.0 40 0.00087 22.5 5.8 72 84-162 26-99 (141)
190 PF00834 Ribul_P_3_epim: Ribul 63.8 13 0.00027 26.4 3.7 47 84-131 149-195 (201)
191 PRK13606 LPPG:FO 2-phospho-L-l 63.7 27 0.00058 26.5 5.5 46 110-160 174-221 (303)
192 TIGR00034 aroFGH phospho-2-deh 63.6 68 0.0015 24.9 9.2 133 6-161 47-182 (344)
193 PF02887 PK_C: Pyruvate kinase 63.3 28 0.0006 22.0 5.0 44 111-163 4-48 (117)
194 COG0036 Rpe Pentose-5-phosphat 63.2 35 0.00076 24.6 5.8 44 87-132 156-199 (220)
195 PRK12858 tagatose 1,6-diphosph 63.1 69 0.0015 24.8 10.6 116 20-164 106-251 (340)
196 cd00947 TBP_aldolase_IIB Tagat 63.0 35 0.00076 25.5 6.0 69 95-163 8-78 (276)
197 TIGR00524 eIF-2B_rel eIF-2B al 63.0 35 0.00075 25.9 6.1 62 95-162 174-239 (303)
198 PRK04147 N-acetylneuraminate l 62.9 62 0.0013 24.2 7.9 76 86-162 61-138 (293)
199 cd06323 PBP1_ribose_binding Pe 62.9 35 0.00077 24.3 6.1 73 84-162 14-88 (268)
200 PF02571 CbiJ: Precorrin-6x re 62.9 24 0.00052 25.9 5.2 56 104-165 174-230 (249)
201 PF01884 PcrB: PcrB family; I 62.8 20 0.00044 26.0 4.6 51 111-165 20-70 (230)
202 COG0391 Uncharacterized conser 62.6 15 0.00033 28.1 4.1 50 110-162 178-229 (323)
203 PF02310 B12-binding: B12 bind 62.5 36 0.00077 21.3 7.4 43 89-133 18-61 (121)
204 PRK09261 phospho-2-dehydro-3-d 62.3 72 0.0016 24.8 8.6 132 6-160 52-186 (349)
205 TIGR00169 leuB 3-isopropylmala 62.1 42 0.00092 26.0 6.5 28 16-46 163-190 (349)
206 COG0434 SgcQ Predicted TIM-bar 62.1 27 0.00058 25.6 5.1 48 110-160 164-211 (263)
207 TIGR00147 lipid kinase, YegS/R 61.9 63 0.0014 24.0 8.4 73 86-164 19-93 (293)
208 KOG3180 Electron transfer flav 61.8 56 0.0012 23.3 6.5 48 85-132 72-123 (254)
209 PLN02828 formyltetrahydrofolat 61.7 65 0.0014 24.0 9.6 87 4-133 69-157 (268)
210 PRK08194 tartrate dehydrogenas 61.3 33 0.00072 26.6 5.8 28 16-46 161-188 (352)
211 cd00408 DHDPS-like Dihydrodipi 61.1 64 0.0014 23.8 8.4 79 84-163 52-132 (281)
212 PRK07998 gatY putative fructos 61.0 40 0.00087 25.3 6.1 69 94-162 12-82 (283)
213 PRK00766 hypothetical protein; 61.0 31 0.00068 24.3 5.2 58 99-160 42-104 (194)
214 cd08173 Gro1PDH Sn-glycerol-1- 60.9 73 0.0016 24.4 8.1 69 87-164 40-112 (339)
215 PRK13057 putative lipid kinase 60.8 53 0.0012 24.4 6.8 70 88-165 15-85 (287)
216 TIGR00347 bioD dethiobiotin sy 60.8 29 0.00062 23.2 5.0 38 123-161 99-136 (166)
217 cd01971 Nitrogenase_VnfN_like 60.6 20 0.00044 28.4 4.7 28 109-136 102-129 (427)
218 COG3340 PepE Peptidase E [Amin 60.5 61 0.0013 23.4 7.6 47 85-133 48-94 (224)
219 TIGR00674 dapA dihydrodipicoli 60.4 68 0.0015 23.9 7.4 48 115-162 85-132 (285)
220 cd06533 Glyco_transf_WecG_TagA 60.0 51 0.0011 22.5 6.1 44 111-160 87-130 (171)
221 cd05403 NT_KNTase_like Nucleot 60.0 8.3 0.00018 22.8 2.0 60 101-163 17-76 (93)
222 cd06320 PBP1_allose_binding Pe 59.8 57 0.0012 23.4 6.8 72 85-162 15-90 (275)
223 PF02878 PGM_PMM_I: Phosphoglu 59.3 17 0.00036 23.8 3.5 40 5-47 40-79 (137)
224 PLN02331 phosphoribosylglycina 59.3 62 0.0013 23.0 9.5 40 93-132 43-87 (207)
225 COG0816 Predicted endonuclease 59.3 27 0.00058 23.3 4.4 53 111-163 41-97 (141)
226 cd06305 PBP1_methylthioribose_ 59.2 63 0.0014 23.1 7.1 72 85-162 15-88 (273)
227 PRK10674 deoxyribodipyrimidine 59.2 95 0.0021 25.1 11.1 93 13-132 11-105 (472)
228 PF14639 YqgF: Holliday-juncti 58.7 17 0.00036 24.5 3.4 49 112-163 52-107 (150)
229 PHA02546 47 endonuclease subun 58.5 31 0.00067 26.5 5.3 14 87-100 27-40 (340)
230 cd06315 PBP1_ABC_sugar_binding 58.5 46 0.001 24.2 6.2 73 84-162 15-89 (280)
231 COG0788 PurU Formyltetrahydrof 58.3 24 0.00052 26.2 4.4 43 90-132 129-175 (287)
232 cd06309 PBP1_YtfQ_like Peripla 58.2 67 0.0015 23.1 7.4 73 84-162 14-88 (273)
233 PRK00861 putative lipid kinase 57.5 78 0.0017 23.6 7.4 58 100-164 33-91 (300)
234 cd06313 PBP1_ABC_sugar_binding 56.9 63 0.0014 23.4 6.6 71 86-162 16-88 (272)
235 cd06300 PBP1_ABC_sugar_binding 56.3 72 0.0016 22.9 7.5 72 85-162 15-93 (272)
236 PRK03670 competence damage-ind 56.1 79 0.0017 23.3 7.2 66 89-158 23-91 (252)
237 TIGR03702 lip_kinase_YegS lipi 56.1 82 0.0018 23.5 8.1 66 93-164 21-90 (293)
238 PF00885 DMRL_synthase: 6,7-di 56.1 58 0.0013 21.7 6.4 78 82-159 16-104 (144)
239 cd05569 PTS_IIB_fructose PTS_I 56.1 30 0.00064 21.2 4.0 44 89-134 19-64 (96)
240 PRK13399 fructose-1,6-bisphosp 56.0 69 0.0015 24.9 6.7 70 94-163 12-84 (347)
241 PRK12569 hypothetical protein; 56.0 53 0.0012 24.1 5.8 103 11-133 38-150 (245)
242 TIGR00342 thiazole biosynthesi 56.0 96 0.0021 24.2 11.9 37 4-47 171-207 (371)
243 TIGR01859 fruc_bis_ald_ fructo 56.0 62 0.0014 24.2 6.4 57 106-162 23-82 (282)
244 TIGR02089 TTC tartrate dehydro 55.9 47 0.001 25.8 5.8 28 16-46 164-191 (352)
245 cd06301 PBP1_rhizopine_binding 55.8 73 0.0016 22.8 7.5 71 86-162 16-89 (272)
246 PRK08883 ribulose-phosphate 3- 55.8 50 0.0011 23.7 5.7 53 78-131 144-196 (220)
247 cd02072 Glm_B12_BD B12 binding 55.6 56 0.0012 21.4 6.8 42 93-137 21-64 (128)
248 PF03358 FMN_red: NADPH-depend 55.4 41 0.00089 22.0 5.0 49 84-134 16-81 (152)
249 COG1201 Lhr Lhr-like helicases 55.4 1E+02 0.0022 27.0 8.2 85 13-132 46-132 (814)
250 PRK12756 phospho-2-dehydro-3-d 55.0 53 0.0012 25.4 5.9 53 95-162 132-187 (348)
251 TIGR00167 cbbA ketose-bisphosp 54.5 76 0.0017 23.9 6.7 70 94-163 12-86 (288)
252 cd01972 Nitrogenase_VnfE_like 54.5 31 0.00066 27.4 4.9 11 36-46 23-33 (426)
253 PLN00118 isocitrate dehydrogen 54.5 53 0.0012 25.8 5.9 30 14-46 182-212 (372)
254 PF03054 tRNA_Me_trans: tRNA m 54.5 97 0.0021 24.2 7.4 36 6-48 1-36 (356)
255 TIGR00177 molyb_syn molybdenum 54.4 57 0.0012 21.5 5.5 40 91-130 32-73 (144)
256 PF13662 Toprim_4: Toprim doma 54.4 24 0.00052 20.6 3.4 28 5-32 46-73 (81)
257 TIGR00930 2a30 K-Cl cotranspor 54.3 1.6E+02 0.0035 26.3 10.6 43 123-166 903-947 (953)
258 cd01422 MGS Methylglyoxal synt 54.2 54 0.0012 20.8 6.3 59 98-159 44-106 (115)
259 TIGR00512 salvage_mtnA S-methy 54.2 1E+02 0.0022 23.8 8.8 62 95-162 202-267 (331)
260 cd06317 PBP1_ABC_sugar_binding 54.1 78 0.0017 22.6 7.6 71 86-162 17-89 (275)
261 KOG3111 D-ribulose-5-phosphate 54.1 57 0.0012 23.2 5.4 58 88-147 101-158 (224)
262 PF07476 MAAL_C: Methylasparta 54.0 83 0.0018 22.9 8.3 53 86-138 123-176 (248)
263 cd02071 MM_CoA_mut_B12_BD meth 54.0 55 0.0012 20.8 6.3 47 91-138 19-65 (122)
264 cd01986 Alpha_ANH_like Adenine 54.0 49 0.0011 20.2 8.6 34 8-48 1-34 (103)
265 TIGR00884 guaA_Cterm GMP synth 53.8 97 0.0021 23.6 10.4 37 6-48 17-53 (311)
266 TIGR01520 FruBisAldo_II_A fruc 53.6 1E+02 0.0022 24.1 7.3 70 95-164 22-109 (357)
267 PLN02476 O-methyltransferase 53.6 50 0.0011 24.7 5.5 48 86-133 154-204 (278)
268 PF03162 Y_phosphatase2: Tyros 53.5 43 0.00094 22.8 4.9 70 95-164 28-101 (164)
269 cd01536 PBP1_ABC_sugar_binding 53.5 78 0.0017 22.4 7.6 72 85-162 15-88 (267)
270 TIGR01917 gly_red_sel_B glycin 53.4 21 0.00046 28.3 3.7 48 112-160 65-113 (431)
271 PRK00090 bioD dithiobiotin syn 53.4 33 0.00072 24.2 4.5 38 123-161 103-140 (222)
272 cd03364 TOPRIM_DnaG_primases T 53.4 43 0.00093 19.4 4.8 35 5-42 43-77 (79)
273 cd08189 Fe-ADH5 Iron-containin 53.3 71 0.0015 24.9 6.6 45 88-132 43-93 (374)
274 TIGR01918 various_sel_PB selen 53.3 22 0.00047 28.3 3.7 48 112-160 65-113 (431)
275 PF01012 ETF: Electron transfe 53.2 66 0.0014 21.5 7.4 82 82-163 15-99 (164)
276 PRK08535 translation initiatio 52.9 1E+02 0.0022 23.5 10.3 61 94-162 166-230 (310)
277 COG1197 Mfd Transcription-repa 52.8 1.1E+02 0.0023 27.9 8.0 49 84-133 656-706 (1139)
278 PRK07315 fructose-bisphosphate 52.8 77 0.0017 23.9 6.5 57 106-162 25-85 (293)
279 cd06312 PBP1_ABC_sugar_binding 52.8 82 0.0018 22.6 6.6 72 85-162 16-90 (271)
280 PRK03170 dihydrodipicolinate s 52.5 95 0.0021 23.1 8.3 76 86-162 58-135 (292)
281 PRK08997 isocitrate dehydrogen 52.3 71 0.0015 24.7 6.2 30 15-46 146-175 (334)
282 PRK03767 NAD(P)H:quinone oxido 52.3 67 0.0014 22.4 5.9 13 122-134 68-80 (200)
283 PRK14974 cell division protein 52.3 84 0.0018 24.3 6.7 53 89-141 185-240 (336)
284 COG1036 Archaeal flavoproteins 52.2 21 0.00045 24.5 3.0 48 119-166 84-137 (187)
285 cd00952 CHBPH_aldolase Trans-o 52.1 1E+02 0.0022 23.3 8.8 79 84-163 63-144 (309)
286 COG1066 Sms Predicted ATP-depe 52.0 83 0.0018 25.2 6.6 75 87-161 131-217 (456)
287 PRK08745 ribulose-phosphate 3- 51.9 88 0.0019 22.6 6.6 61 88-150 99-159 (223)
288 TIGR00930 2a30 K-Cl cotranspor 51.9 1.8E+02 0.0039 26.1 12.2 96 6-133 576-677 (953)
289 cd06284 PBP1_LacI_like_6 Ligan 51.9 84 0.0018 22.3 8.2 68 85-161 15-84 (267)
290 TIGR01283 nifE nitrogenase mol 51.6 34 0.00074 27.4 4.7 11 36-46 58-68 (456)
291 PF00781 DAGK_cat: Diacylglyce 51.3 63 0.0014 20.7 6.3 70 89-164 18-92 (130)
292 PRK09197 fructose-bisphosphate 51.3 1.2E+02 0.0025 23.7 7.5 69 95-163 16-101 (350)
293 TIGR00381 cdhD CO dehydrogenas 51.3 50 0.0011 26.0 5.3 17 144-160 178-194 (389)
294 PRK12361 hypothetical protein; 51.2 1.3E+02 0.0028 24.8 8.1 72 86-165 260-332 (547)
295 COG2201 CheB Chemotaxis respon 51.1 1.2E+02 0.0025 23.7 7.8 68 90-163 16-83 (350)
296 COG1139 Uncharacterized conser 51.0 91 0.002 25.0 6.7 60 73-132 52-111 (459)
297 PF01116 F_bP_aldolase: Fructo 51.0 24 0.00052 26.5 3.5 54 107-160 25-79 (287)
298 PRK10481 hypothetical protein; 50.9 93 0.002 22.5 7.3 60 92-159 147-211 (224)
299 TIGR00583 mre11 DNA repair pro 50.9 42 0.00091 26.6 5.0 12 153-164 109-120 (405)
300 COG1440 CelA Phosphotransferas 50.9 57 0.0012 20.4 4.5 63 89-162 19-81 (102)
301 TIGR00032 argG argininosuccina 50.9 1.2E+02 0.0027 24.0 10.2 34 7-47 1-34 (394)
302 PRK13011 formyltetrahydrofolat 50.8 1E+02 0.0023 23.1 9.4 38 95-132 133-174 (286)
303 PF13500 AAA_26: AAA domain; P 50.8 26 0.00057 24.3 3.6 37 123-160 99-135 (199)
304 TIGR02370 pyl_corrinoid methyl 50.8 78 0.0017 22.2 6.0 59 91-152 104-162 (197)
305 cd06295 PBP1_CelR Ligand bindi 50.7 91 0.002 22.4 9.1 69 86-162 27-95 (275)
306 smart00852 MoCF_biosynth Proba 50.7 66 0.0014 20.8 5.6 42 89-130 21-64 (135)
307 PRK00143 mnmA tRNA-specific 2- 50.6 1.2E+02 0.0025 23.5 11.2 34 6-46 1-34 (346)
308 PRK08057 cobalt-precorrin-6x r 50.6 54 0.0012 24.0 5.3 53 106-164 172-225 (248)
309 KOG2805 tRNA (5-methylaminomet 50.2 1.2E+02 0.0025 23.5 8.9 39 1-46 1-39 (377)
310 cd00453 FTBP_aldolase_II Fruct 50.0 73 0.0016 24.7 5.9 69 95-163 8-94 (340)
311 PRK08392 hypothetical protein; 50.0 79 0.0017 22.4 6.0 68 87-156 138-205 (215)
312 PRK15408 autoinducer 2-binding 49.9 61 0.0013 24.7 5.7 71 87-163 41-114 (336)
313 PRK00919 GMP synthase subunit 49.9 1.1E+02 0.0025 23.2 10.1 37 6-48 22-58 (307)
314 PRK06371 translation initiatio 49.8 74 0.0016 24.5 6.0 64 93-162 190-257 (329)
315 cd01968 Nitrogenase_NifE_I Nit 49.8 51 0.0011 26.0 5.4 25 109-133 102-127 (410)
316 PF03129 HGTP_anticodon: Antic 49.8 54 0.0012 19.5 5.4 49 84-132 14-62 (94)
317 TIGR00696 wecB_tagA_cpsF bacte 49.6 69 0.0015 22.2 5.4 42 112-159 89-130 (177)
318 PRK09875 putative hydrolase; P 49.5 78 0.0017 23.9 6.1 50 84-133 137-188 (292)
319 PF02610 Arabinose_Isome: L-ar 49.4 1.3E+02 0.0027 23.6 7.9 46 113-164 61-107 (359)
320 cd07388 MPP_Tt1561 Thermus the 49.3 55 0.0012 23.6 5.1 20 112-131 20-39 (224)
321 COG0329 DapA Dihydrodipicolina 49.3 1.1E+02 0.0024 23.0 11.6 131 1-162 1-138 (299)
322 PF00180 Iso_dh: Isocitrate/is 49.3 86 0.0019 24.3 6.4 29 16-46 160-188 (348)
323 cd01967 Nitrogenase_MoFe_alpha 49.1 35 0.00076 26.7 4.4 26 109-134 103-129 (406)
324 cd06316 PBP1_ABC_sugar_binding 49.1 1E+02 0.0022 22.5 7.1 71 86-162 16-89 (294)
325 COG0745 OmpR Response regulato 49.1 99 0.0021 22.3 7.6 69 87-164 12-82 (229)
326 PHA02031 putative DnaG-like pr 49.0 41 0.00088 25.0 4.3 37 6-45 207-243 (266)
327 PF02729 OTCace_N: Aspartate/o 49.0 19 0.00041 23.9 2.5 40 109-158 81-120 (142)
328 PF14582 Metallophos_3: Metall 48.9 34 0.00074 25.0 3.8 17 148-164 83-99 (255)
329 PF13727 CoA_binding_3: CoA-bi 48.9 28 0.0006 23.2 3.4 46 112-161 130-175 (175)
330 PRK10355 xylF D-xylose transpo 48.7 98 0.0021 23.4 6.7 71 86-162 42-114 (330)
331 cd01981 Pchlide_reductase_B Pc 48.5 36 0.00078 27.0 4.4 26 109-134 101-127 (430)
332 cd00951 KDGDH 5-dehydro-4-deox 48.5 1.1E+02 0.0024 22.8 7.8 50 113-162 84-133 (289)
333 PRK05772 translation initiatio 48.2 1.1E+02 0.0024 23.9 6.8 63 95-162 223-288 (363)
334 TIGR01501 MthylAspMutase methy 48.1 73 0.0016 21.0 5.1 68 92-162 22-90 (134)
335 TIGR00511 ribulose_e2b2 ribose 48.0 1.2E+02 0.0026 23.0 10.2 61 94-162 161-225 (301)
336 TIGR00683 nanA N-acetylneurami 48.0 1.2E+02 0.0025 22.8 8.6 76 87-163 59-137 (290)
337 PLN02781 Probable caffeoyl-CoA 47.8 76 0.0016 22.9 5.7 46 87-132 105-153 (234)
338 TIGR01304 IMP_DH_rel_2 IMP deh 47.7 1.4E+02 0.003 23.5 7.7 59 96-159 129-193 (369)
339 TIGR00829 FRU PTS system, fruc 47.7 45 0.00098 20.0 3.8 46 89-134 18-63 (85)
340 PLN02858 fructose-bisphosphate 47.6 1.3E+02 0.0028 28.2 8.0 95 70-164 1084-1179(1378)
341 PRK09196 fructose-1,6-bisphosp 47.4 1E+02 0.0022 24.0 6.5 68 95-162 13-83 (347)
342 PRK08576 hypothetical protein; 47.1 1.5E+02 0.0033 23.9 9.4 33 7-46 236-268 (438)
343 TIGR02313 HpaI-NOT-DapA 2,4-di 47.0 1.2E+02 0.0026 22.7 8.0 76 86-162 57-135 (294)
344 PRK08005 epimerase; Validated 47.0 1E+02 0.0023 22.0 6.6 61 88-150 95-155 (210)
345 cd06267 PBP1_LacI_sugar_bindin 46.9 99 0.0021 21.7 8.1 69 86-162 16-86 (264)
346 PRK00211 sulfur relay protein 46.8 30 0.00065 22.2 3.1 38 5-46 1-42 (119)
347 cd06308 PBP1_sensor_kinase_lik 46.7 1.1E+02 0.0023 22.0 7.5 71 86-162 16-89 (270)
348 PRK14025 multifunctional 3-iso 46.7 89 0.0019 24.1 6.0 32 15-46 139-172 (330)
349 PF00793 DAHP_synth_1: DAHP sy 46.6 1.2E+02 0.0026 22.6 6.6 59 93-163 82-140 (270)
350 TIGR00175 mito_nad_idh isocitr 46.5 80 0.0017 24.4 5.8 29 15-46 144-173 (333)
351 smart00732 YqgFc Likely ribonu 46.4 63 0.0014 19.3 5.1 55 111-165 39-95 (99)
352 cd01712 ThiI ThiI is required 46.3 92 0.002 21.1 11.8 35 7-48 1-35 (177)
353 TIGR00640 acid_CoA_mut_C methy 46.3 82 0.0018 20.6 5.1 57 91-151 22-79 (132)
354 PF01207 Dus: Dihydrouridine s 46.3 1.3E+02 0.0028 22.8 7.6 73 84-159 110-188 (309)
355 COG1911 RPL30 Ribosomal protei 45.9 69 0.0015 19.9 4.3 48 112-164 24-71 (100)
356 TIGR01859 fruc_bis_ald_ fructo 45.9 1.3E+02 0.0027 22.6 9.1 76 87-162 116-208 (282)
357 PRK05920 aromatic acid decarbo 45.9 57 0.0012 23.2 4.6 36 4-43 2-37 (204)
358 cd01541 PBP1_AraR Ligand-bindi 45.7 1.1E+02 0.0024 21.9 8.8 75 85-162 15-91 (273)
359 CHL00076 chlB photochlorophyll 45.7 41 0.0009 27.5 4.4 14 36-49 24-37 (513)
360 PRK09271 flavodoxin; Provision 45.6 43 0.00094 22.5 3.9 11 123-133 51-61 (160)
361 PRK09222 isocitrate dehydrogen 45.5 78 0.0017 25.8 5.8 29 15-46 148-177 (482)
362 KOG3928 Mitochondrial ribosome 45.5 49 0.0011 26.4 4.5 76 10-90 182-259 (461)
363 PRK11921 metallo-beta-lactamas 45.1 1.5E+02 0.0033 23.3 10.4 48 85-134 262-311 (394)
364 cd06296 PBP1_CatR_like Ligand- 45.0 1.1E+02 0.0024 21.8 8.5 70 85-162 15-86 (270)
365 COG0552 FtsY Signal recognitio 44.8 1.5E+02 0.0032 23.0 9.3 57 85-142 180-240 (340)
366 cd08199 EEVS 2-epi-5-epi-valio 44.7 1E+02 0.0022 23.9 6.2 68 89-164 43-124 (354)
367 COG3360 Uncharacterized conser 44.6 61 0.0013 18.6 3.8 43 3-48 4-46 (71)
368 cd06306 PBP1_TorT-like TorT-li 44.6 1.2E+02 0.0025 21.9 7.0 70 85-161 15-88 (268)
369 cd00840 MPP_Mre11_N Mre11 nucl 44.5 56 0.0012 22.8 4.6 10 126-135 80-89 (223)
370 cd02065 B12-binding_like B12 b 44.5 78 0.0017 19.8 5.7 67 90-160 18-86 (125)
371 COG4122 Predicted O-methyltran 43.9 82 0.0018 22.7 5.2 48 85-133 94-142 (219)
372 cd01997 GMP_synthase_C The C-t 43.3 1.4E+02 0.0031 22.5 9.9 35 7-47 1-35 (295)
373 PLN02589 caffeoyl-CoA O-methyl 43.3 93 0.002 22.8 5.5 46 88-133 117-166 (247)
374 cd03145 GAT1_cyanophycinase Ty 43.2 1.2E+02 0.0026 21.6 9.1 38 112-151 74-111 (217)
375 cd06281 PBP1_LacI_like_5 Ligan 43.2 1.2E+02 0.0026 21.7 8.1 70 85-161 15-86 (269)
376 PLN02958 diacylglycerol kinase 43.2 1.8E+02 0.004 23.7 12.6 71 89-165 133-210 (481)
377 PRK05568 flavodoxin; Provision 43.1 90 0.002 20.1 5.5 43 86-134 17-59 (142)
378 TIGR00420 trmU tRNA (5-methyla 42.9 1.6E+02 0.0034 22.9 10.8 33 6-45 1-33 (352)
379 TIGR01755 flav_wrbA NAD(P)H:qu 42.7 1.2E+02 0.0025 21.3 6.1 13 122-134 67-79 (197)
380 cd06314 PBP1_tmGBP Periplasmic 42.6 1.3E+02 0.0027 21.7 6.8 71 85-162 14-87 (271)
381 COG2876 AroA 3-deoxy-D-arabino 42.5 79 0.0017 23.6 4.9 92 8-133 47-138 (286)
382 cd06310 PBP1_ABC_sugar_binding 42.4 1.3E+02 0.0027 21.6 6.8 72 85-162 15-90 (273)
383 cd01979 Pchlide_reductase_N Pc 42.3 43 0.00094 26.3 4.0 50 86-135 74-130 (396)
384 PRK10966 exonuclease subunit S 42.2 53 0.0012 26.0 4.4 13 147-159 94-106 (407)
385 cd06291 PBP1_Qymf_like Ligand 42.1 1.2E+02 0.0027 21.5 8.3 68 85-163 15-84 (265)
386 PRK03673 hypothetical protein; 42.0 1.8E+02 0.0038 23.2 7.7 67 89-159 24-92 (396)
387 PLN00123 isocitrate dehydrogen 41.9 1.2E+02 0.0026 23.7 6.1 30 15-46 167-196 (360)
388 PF05913 DUF871: Bacterial pro 41.8 1.5E+02 0.0032 23.2 6.7 94 8-135 112-225 (357)
389 cd06277 PBP1_LacI_like_1 Ligan 41.6 1.3E+02 0.0028 21.5 8.7 69 85-162 18-88 (268)
390 cd01715 ETF_alpha The electron 41.6 1.1E+02 0.0024 20.6 10.4 24 111-134 71-94 (168)
391 cd08194 Fe-ADH6 Iron-containin 41.3 1.1E+02 0.0023 23.9 5.9 44 88-131 40-89 (375)
392 cd06275 PBP1_PurR Ligand-bindi 41.3 1.3E+02 0.0028 21.4 8.7 72 85-163 15-88 (269)
393 TIGR01521 FruBisAldo_II_B fruc 41.2 1.7E+02 0.0037 22.8 7.5 69 95-163 11-82 (347)
394 cd06302 PBP1_LsrB_Quorum_Sensi 41.2 1.3E+02 0.0029 22.1 6.3 71 86-162 16-89 (298)
395 cd02069 methionine_synthase_B1 41.1 1.3E+02 0.0028 21.4 6.5 66 91-159 108-174 (213)
396 PRK14478 nitrogenase molybdenu 41.1 51 0.0011 26.7 4.3 26 109-134 135-161 (475)
397 PF00534 Glycos_transf_1: Glyc 41.0 94 0.002 20.5 5.1 46 107-161 78-123 (172)
398 cd07766 DHQ_Fe-ADH Dehydroquin 40.5 1.1E+02 0.0023 23.2 5.8 45 112-164 67-114 (332)
399 cd06321 PBP1_ABC_sugar_binding 40.3 1.4E+02 0.003 21.4 6.5 71 86-162 16-90 (271)
400 cd00758 MoCF_BD MoCF_BD: molyb 40.2 1E+02 0.0022 19.9 5.4 40 91-130 24-65 (133)
401 cd07402 MPP_GpdQ Enterobacter 40.2 81 0.0018 22.4 4.9 15 149-163 65-79 (240)
402 PF00994 MoCF_biosynth: Probab 40.1 1.1E+02 0.0023 20.1 5.6 42 89-130 20-63 (144)
403 COG3969 Predicted phosphoadeno 40.1 58 0.0012 25.3 4.0 41 4-46 26-66 (407)
404 KOG1552 Predicted alpha/beta h 39.8 88 0.0019 23.2 4.9 66 96-164 124-202 (258)
405 PRK05835 fructose-bisphosphate 39.8 1.7E+02 0.0037 22.4 7.4 69 95-163 12-83 (307)
406 cd00886 MogA_MoaB MogA_MoaB fa 39.6 1.1E+02 0.0025 20.3 5.5 40 91-130 25-68 (152)
407 cd06274 PBP1_FruR Ligand bindi 39.6 1.4E+02 0.003 21.3 8.9 69 86-162 16-86 (264)
408 COG0284 PyrF Orotidine-5'-phos 39.4 1.5E+02 0.0033 21.7 7.3 38 2-47 8-45 (240)
409 cd08175 G1PDH Glycerol-1-phosp 39.3 1.8E+02 0.0038 22.4 7.3 66 89-163 40-113 (348)
410 PF02602 HEM4: Uroporphyrinoge 39.3 1.1E+02 0.0024 21.6 5.4 74 91-164 132-224 (231)
411 TIGR03609 S_layer_CsaB polysac 39.2 1.6E+02 0.0034 21.8 6.8 47 114-162 57-107 (298)
412 PRK02261 methylaspartate mutas 39.2 1.1E+02 0.0024 20.1 7.3 59 91-152 23-81 (137)
413 TIGR01768 GGGP-family geranylg 39.2 77 0.0017 22.9 4.5 51 112-165 16-66 (223)
414 cd01540 PBP1_arabinose_binding 39.1 1.5E+02 0.0032 21.5 6.2 69 86-161 16-86 (289)
415 TIGR03297 Ppyr-DeCO2ase phosph 39.1 38 0.00083 26.4 3.1 55 109-163 63-124 (361)
416 COG2099 CobK Precorrin-6x redu 39.1 1.3E+02 0.0028 22.3 5.6 60 98-163 169-231 (257)
417 cd01542 PBP1_TreR_like Ligand- 39.1 1.4E+02 0.003 21.1 9.0 70 85-162 15-86 (259)
418 PRK08335 translation initiatio 39.0 1.7E+02 0.0036 22.0 9.4 62 93-162 154-219 (275)
419 cd07399 MPP_YvnB Bacillus subt 39.0 64 0.0014 22.8 4.1 8 126-133 73-80 (214)
420 PF02302 PTS_IIB: PTS system, 38.7 83 0.0018 18.4 5.3 40 89-133 18-57 (90)
421 PRK05703 flhF flagellar biosyn 38.6 2E+02 0.0044 23.0 9.7 70 89-162 268-340 (424)
422 cd06361 PBP1_GPC6A_like Ligand 38.4 2E+02 0.0042 22.6 12.0 25 110-134 245-269 (403)
423 cd00885 cinA Competence-damage 38.2 1.3E+02 0.0028 20.6 7.4 42 89-130 22-65 (170)
424 TIGR00200 cinA_nterm competenc 38.1 2.1E+02 0.0045 22.9 7.9 66 90-159 24-91 (413)
425 cd06311 PBP1_ABC_sugar_binding 37.9 1.5E+02 0.0033 21.2 7.0 43 114-162 51-93 (274)
426 COG0151 PurD Phosphoribosylami 37.8 34 0.00074 27.2 2.7 24 110-133 50-73 (428)
427 cd00019 AP2Ec AP endonuclease 37.7 1.6E+02 0.0035 21.5 8.1 78 18-123 83-166 (279)
428 PRK10310 PTS system galactitol 37.7 95 0.0021 18.9 4.7 40 88-132 20-59 (94)
429 cd06294 PBP1_ycjW_transcriptio 37.6 1.5E+02 0.0032 21.1 8.2 70 85-162 20-91 (270)
430 CHL00073 chlN photochlorophyll 37.6 63 0.0014 26.1 4.2 51 85-135 83-140 (457)
431 PF11215 DUF3010: Protein of u 37.6 1.2E+02 0.0027 20.1 4.8 49 114-162 52-102 (138)
432 PRK08091 ribulose-phosphate 3- 37.3 1.6E+02 0.0035 21.4 8.4 59 90-150 107-167 (228)
433 TIGR03729 acc_ester putative p 37.3 1E+02 0.0022 22.1 5.0 11 102-112 33-43 (239)
434 PRK05569 flavodoxin; Provision 37.2 1.1E+02 0.0025 19.6 5.6 42 87-134 18-59 (141)
435 cd06324 PBP1_ABC_sugar_binding 37.1 1.7E+02 0.0037 21.6 7.4 70 86-162 17-90 (305)
436 TIGR03249 KdgD 5-dehydro-4-deo 37.1 1.8E+02 0.0039 21.8 8.3 49 114-162 90-138 (296)
437 PTZ00408 NAD-dependent deacety 37.0 1.4E+02 0.003 21.8 5.6 52 106-164 154-209 (242)
438 cd06271 PBP1_AglR_RafR_like Li 37.0 1.5E+02 0.0033 21.0 8.0 69 85-161 19-89 (268)
439 cd04724 Tryptophan_synthase_al 37.0 1.6E+02 0.0035 21.3 8.6 72 88-159 118-192 (242)
440 PRK01372 ddl D-alanine--D-alan 36.9 1.3E+02 0.0028 22.3 5.7 42 89-134 26-67 (304)
441 COG1445 FrwB Phosphotransferas 36.8 61 0.0013 21.0 3.3 44 91-134 24-67 (122)
442 COG2129 Predicted phosphoester 36.8 1E+02 0.0022 22.3 4.7 54 111-164 18-74 (226)
443 TIGR00064 ftsY signal recognit 36.6 1.8E+02 0.0038 21.6 9.2 51 89-139 117-170 (272)
444 TIGR01753 flav_short flavodoxi 36.4 1.1E+02 0.0025 19.4 6.0 43 86-134 14-56 (140)
445 cd01545 PBP1_SalR Ligand-bindi 36.4 1.6E+02 0.0034 21.0 8.1 71 85-162 15-88 (270)
446 COG3598 RepA RecA-family ATPas 36.4 1.5E+02 0.0033 23.1 5.7 52 115-166 186-244 (402)
447 PRK09722 allulose-6-phosphate 36.1 1.7E+02 0.0037 21.3 6.3 59 89-149 98-156 (229)
448 TIGR01357 aroB 3-dehydroquinat 36.1 1.6E+02 0.0034 22.6 6.1 69 87-163 35-116 (344)
449 TIGR00646 MG010 DNA primase-re 36.0 1.7E+02 0.0036 21.2 7.3 35 5-42 154-188 (218)
450 PRK12726 flagellar biosynthesi 36.0 1.1E+02 0.0024 24.3 5.2 51 89-139 251-301 (407)
451 COG1831 Predicted metal-depend 35.9 1.9E+02 0.0041 21.7 9.1 90 17-131 101-194 (285)
452 cd02812 PcrB_like PcrB_like pr 35.8 97 0.0021 22.3 4.6 51 112-165 14-65 (219)
453 PRK10474 putative PTS system f 35.8 86 0.0019 18.8 3.8 43 90-134 5-49 (88)
454 PRK00771 signal recognition pa 35.8 2.3E+02 0.0051 22.8 9.9 47 91-139 142-191 (437)
455 KOG2310 DNA repair exonuclease 35.8 34 0.00075 28.2 2.4 23 110-132 39-61 (646)
456 TIGR01279 DPOR_bchN light-inde 35.6 63 0.0014 25.5 3.9 49 86-134 71-126 (407)
457 TIGR01819 F420_cofD LPPG:FO 2- 35.6 69 0.0015 24.3 3.9 47 110-161 171-219 (297)
458 PF01993 MTD: methylene-5,6,7, 35.6 87 0.0019 23.1 4.2 44 115-162 51-94 (276)
459 cd07396 MPP_Nbla03831 Homo sap 35.5 83 0.0018 23.1 4.4 14 149-162 68-81 (267)
460 PRK00843 egsA NAD(P)-dependent 35.2 2.1E+02 0.0045 22.1 7.6 66 89-164 51-121 (350)
461 PF06925 MGDG_synth: Monogalac 35.2 93 0.002 21.0 4.3 23 110-132 76-98 (169)
462 cd03146 GAT1_Peptidase_E Type 35.1 71 0.0015 22.6 3.8 57 91-151 51-108 (212)
463 PRK13398 3-deoxy-7-phosphohept 35.1 1.9E+02 0.0041 21.5 11.5 105 16-162 38-142 (266)
464 PRK03620 5-dehydro-4-deoxygluc 35.1 2E+02 0.0043 21.7 7.7 75 86-162 64-140 (303)
465 TIGR03573 WbuX N-acetyl sugar 35.0 2.1E+02 0.0046 22.0 9.4 23 111-133 148-170 (343)
466 PRK13602 putative ribosomal pr 35.0 74 0.0016 18.9 3.3 44 113-161 17-60 (82)
467 cd07392 MPP_PAE1087 Pyrobaculu 34.9 71 0.0015 21.5 3.8 17 148-164 46-62 (188)
468 cd02696 MurNAc-LAA N-acetylmur 34.8 1.4E+02 0.0031 20.0 6.5 50 83-132 26-77 (172)
469 cd06276 PBP1_FucR_like Ligand- 34.7 1.7E+02 0.0037 20.9 7.5 70 86-163 15-85 (247)
470 PRK12723 flagellar biosynthesi 34.6 2.3E+02 0.005 22.4 8.7 69 90-163 224-296 (388)
471 PF04430 DUF498: Protein of un 34.2 1.2E+02 0.0025 19.0 4.3 35 123-161 53-87 (110)
472 PRK12755 phospho-2-dehydro-3-d 34.2 2.3E+02 0.0049 22.2 10.3 54 95-160 134-187 (353)
473 PRK00002 aroB 3-dehydroquinate 34.1 1.7E+02 0.0037 22.6 6.0 69 87-163 46-127 (358)
474 PRK11303 DNA-binding transcrip 33.7 2E+02 0.0043 21.4 7.7 69 87-162 79-149 (328)
475 cd07391 MPP_PF1019 Pyrococcus 33.6 1.4E+02 0.0029 20.2 4.9 6 105-110 45-50 (172)
476 COG1609 PurR Transcriptional r 33.6 2.2E+02 0.0047 21.7 7.3 71 84-162 73-145 (333)
477 PRK03708 ppnK inorganic polyph 33.5 1.1E+02 0.0023 22.9 4.6 74 83-164 13-90 (277)
478 cd01976 Nitrogenase_MoFe_alpha 33.4 98 0.0021 24.6 4.7 28 109-136 115-143 (421)
479 PRK14805 ornithine carbamoyltr 33.2 2.2E+02 0.0047 21.6 6.8 43 107-159 78-120 (302)
480 PLN02329 3-isopropylmalate deh 33.1 54 0.0012 26.1 3.1 26 16-44 211-236 (409)
481 COG0301 ThiI Thiamine biosynth 33.1 2.5E+02 0.0054 22.3 8.2 37 6-49 176-212 (383)
482 PF03437 BtpA: BtpA family; I 33.0 83 0.0018 23.3 3.9 46 111-159 159-205 (254)
483 PRK08610 fructose-bisphosphate 32.9 2.2E+02 0.0047 21.5 7.4 58 106-163 25-86 (286)
484 cd05844 GT1_like_7 Glycosyltra 32.9 2.1E+02 0.0046 21.4 7.8 68 91-163 234-303 (367)
485 COG1606 ATP-utilizing enzymes 32.9 2.1E+02 0.0045 21.4 9.6 88 5-132 17-122 (269)
486 cd02801 DUS_like_FMN Dihydrour 32.9 1.8E+02 0.0039 20.5 10.0 61 100-161 124-190 (231)
487 PF13362 Toprim_3: Toprim doma 32.8 1.1E+02 0.0025 18.3 4.6 38 4-44 40-79 (96)
488 cd00958 DhnA Class I fructose- 32.7 1.8E+02 0.004 20.7 8.8 71 84-162 107-187 (235)
489 PRK05452 anaerobic nitric oxid 32.7 2E+02 0.0044 23.4 6.4 49 84-134 265-315 (479)
490 PRK09856 fructoselysine 3-epim 32.6 2E+02 0.0043 21.0 8.9 80 18-124 88-173 (275)
491 COG0482 TrmU Predicted tRNA(5- 32.6 2.4E+02 0.0053 22.1 10.2 112 3-133 1-126 (356)
492 TIGR01278 DPOR_BchB light-inde 32.5 62 0.0014 26.5 3.5 12 123-134 115-126 (511)
493 COG0669 CoaD Phosphopantethein 32.5 1.6E+02 0.0036 20.0 10.7 49 114-163 73-121 (159)
494 cd01965 Nitrogenase_MoFe_beta_ 32.5 1.1E+02 0.0024 24.3 4.8 28 108-135 96-128 (428)
495 cd01575 PBP1_GntR Ligand-bindi 32.3 1.8E+02 0.004 20.5 8.4 68 86-161 16-85 (268)
496 TIGR03151 enACPred_II putative 32.3 2.2E+02 0.0049 21.5 6.9 46 115-160 121-167 (307)
497 cd01423 MGS_CPS_I_III Methylgl 32.3 1E+02 0.0023 19.3 3.9 63 94-158 38-105 (116)
498 COG1735 Php Predicted metal-de 32.2 1.8E+02 0.0038 22.3 5.5 52 84-135 150-203 (316)
499 PTZ00365 60S ribosomal protein 32.1 1.1E+02 0.0023 22.8 4.2 48 112-163 137-184 (266)
500 PF08915 tRNA-Thr_ED: Archaea- 32.1 1.6E+02 0.0034 19.7 7.1 57 18-103 56-112 (138)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.97 E-value=2.7e-29 Score=167.97 Aligned_cols=140 Identities=28% Similarity=0.312 Sum_probs=110.7
Q ss_pred CCcEEEEeecCCh--hHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGE--ESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQG 81 (167)
Q Consensus 4 ~~~~ILv~id~s~--~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (167)
||++||||+|+|+ .+.+++++|..+|+.. ++++++||+++...... . . .....+.+.+...
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~----~~l~llhv~~~~~~~~~-~-------~-----~~~~~~~~~~~~~ 63 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD----GVIHLLHVLPGSASLSL-H-------R-----FAADVRRFEEHLQ 63 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhcC----CeEEEEEEecCcccccc-c-------c-----cccchhhHHHHHH
Confidence 5899999999994 8999999999999865 48999999986532110 0 0 0011122334455
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
+..++.++.+.+.+...+.++++++..|++.+.|.+++++.++||||||+++++ +.++++||++++++++++||||+||
T Consensus 64 ~~~~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 64 HEAEERLQTMVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred HHHHHHHHHHHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence 556666666666655557888999999999999999999999999999999976 7788999999999999999999996
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.96 E-value=1.2e-28 Score=165.00 Aligned_cols=142 Identities=22% Similarity=0.311 Sum_probs=108.1
Q ss_pred CCcEEEEeecCChh--HHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEE--SMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQG 81 (167)
Q Consensus 4 ~~~~ILv~id~s~~--s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (167)
||++||||+|+|+. +.+++++|..+|+.. +++++++||++.......... .. .... .. .+...
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~---~~~l~ll~v~~~~~~~~~~~~-----~~-----~~~~-~~-~~~~~ 65 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKID---DAEVHFLTVIPSLPYYASLGL-----AY-----SAEL-PA-MDDLK 65 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhcc---CCeEEEEEEEccCcccccccc-----cc-----cccc-hH-HHHHH
Confidence 58999999999998 579999999999999 899999999986432211000 00 0000 00 11223
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
+..++.++.+.+.+...+.+++.++..|++.+.|++++++.++||||||+++ +.+.+.++||++++|+++++||||+||
T Consensus 66 ~~~~~~l~~~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~~~llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 66 AEAKSQLEEIIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASHR-PDITTYLLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred HHHHHHHHHHHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCCC-CCchheeecchHHHHHHhCCCCEEEeC
Confidence 3344455555555555667888899999999999999999999999999884 568888999999999999999999996
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.96 E-value=2.5e-28 Score=163.27 Aligned_cols=141 Identities=18% Similarity=0.137 Sum_probs=108.7
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
|||++||||+|+|+.|..++++|+.+|+.. +++++++||+++...... .. .. ...+...+...+
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~---~a~l~llhV~~~~~~~~~--~~----------~~-~~~~~~~~~~~~ 64 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHN---DAHLTLIHIDDGLSELYP--GI----------YF-PATEDILQLLKN 64 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHh---CCeEEEEEEccCcchhch--hh----------hc-cchHHHHHHHHH
Confidence 468999999999999999999999999999 999999999876432110 00 00 001222344445
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..++.++.+.+.+. ...++.++..|+|.+.|++++++.++||||||++ ++.+.+++ | ++++++++++||||+||.
T Consensus 65 ~~~~~l~~~~~~~~--~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~~pVLvv~~ 139 (142)
T PRK09982 65 KSDNKLYKLTKNIQ--WPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMSADLLIVPF 139 (142)
T ss_pred HHHHHHHHHHHhcC--CCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCCCCEEEecC
Confidence 55566666665543 2357778889999999999999999999999986 78788776 5 999999999999999996
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 140 ~~ 141 (142)
T PRK09982 140 ID 141 (142)
T ss_pred CC
Confidence 53
No 4
>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=2.2e-27 Score=159.30 Aligned_cols=142 Identities=27% Similarity=0.408 Sum_probs=117.1
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+||||+|+|+.+.++++||+.+|+.. +++++++||.++....... . + .........+...+..++
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~---~~~l~ll~v~~~~~~~~~~-~-----~------~~~~~~~~~~~~~~~~~~ 65 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATK---GQTIVLVHVHPPITSIPSS-S-----G------KLEVASAYKQEEDKEAKE 65 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCC---CCcEEEEEeccCcccCCCC-c-----c------chHHHHHHHHHHHHHHHH
Confidence 59999999999999999999999998 8999999998865332110 0 0 011223344555566778
Q ss_pred HHHHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCccceeccc-chhHHHHhcCC--CCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLG-SVSNYCANHAQ--CPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g-s~~~~i~~~~~--~pVliv~~ 162 (167)
.++++.+.+...++.++..+..| ++.+.|++++++.++|+||||+++++.+.++++| |++++++++++ ||||+|++
T Consensus 66 ~l~~~~~~~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 66 LLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred HHHHHHHHHhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeC
Confidence 88888888877889999888886 8999999999999999999999999999998887 69999999999 99999986
Q ss_pred C
Q 040308 163 K 163 (167)
Q Consensus 163 ~ 163 (167)
+
T Consensus 146 ~ 146 (146)
T cd01989 146 G 146 (146)
T ss_pred c
Confidence 3
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.95 E-value=7.7e-27 Score=156.37 Aligned_cols=140 Identities=16% Similarity=0.138 Sum_probs=100.1
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
|+|++||||+|+|+.+..|+++|..+|+.+ +++++++||..+...... +. .........+...+
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~---~a~l~ll~v~~~~~~~~~--------~~-----~~~~~~~~~~~~~~ 64 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPY---NAKVSLIHVDVNYSDLYT--------GL-----IDVNLGDMQKRISE 64 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhh---CCEEEEEEEccChhhhhh--------hh-----hhcchHHHHHHHHH
Confidence 578999999999999999999999999999 899999999432211100 00 00001111222222
Q ss_pred HHHHHHHHHHHHhhhcCCcEE-EEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 83 ITQAIIDHALKICSEKNVNVK-SEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.. .+.+.+.....|+.+. ..+..|++.++|++++++.++||||||+++ +.+. . +||++++|+++++||||+||
T Consensus 65 ~~---~~~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~~pVLvv~ 138 (144)
T PRK15118 65 ET---HHALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVHVDMLIVP 138 (144)
T ss_pred HH---HHHHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCCCCEEEec
Confidence 22 2333344455677653 455689999999999999999999999996 4343 3 58999999999999999998
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
...
T Consensus 139 ~~~ 141 (144)
T PRK15118 139 LRD 141 (144)
T ss_pred CCc
Confidence 654
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=99.95 E-value=2e-26 Score=152.20 Aligned_cols=140 Identities=33% Similarity=0.453 Sum_probs=106.2
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
||++||||+|+++.+..++++|+.+|+.. +++++++||.+....... ...............
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~---~~~i~~l~v~~~~~~~~~---------------~~~~~~~~~~~~~~~ 62 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRS---GAEITLLHVIPPPPQYSF---------------SAAEDEESEEEAEEE 62 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHH---TCEEEEEEEEESCHCHHH---------------HHHHHHHHHHHHHHH
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhh---CCeEEEEEeecccccccc---------------ccccccccccccchh
Confidence 68999999999999999999999999999 999999999997754411 001111111111111
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...............+......+..|++.++|++++++.++|+||||+++++.+.++++|+++++++++++|||||||
T Consensus 63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 63 EQARQAEAEEAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp HHHHHHHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEEE
T ss_pred hhhhhHHHHHHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEeC
Confidence 111111112233344567777788899999999999999999999999999999999999999999999999999997
No 7
>PRK10116 universal stress protein UspC; Provisional
Probab=99.95 E-value=3.2e-26 Score=152.94 Aligned_cols=140 Identities=19% Similarity=0.268 Sum_probs=106.8
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
|+|++|||++|+++.+..++++|..+|+.+ +++++++|+++....... ......+...+...+
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~---~a~l~ll~v~~~~~~~~~--------------~~~~~~~~~~~~~~~ 63 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPV---NGKISLITLASDPEMYNQ--------------FAAPMLEDLRSVMQE 63 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHh---CCEEEEEEEccCcccchh--------------hhHHHHHHHHHHHHH
Confidence 568999999999999999999999999999 899999999876432110 011122233333333
Q ss_pred HHHHHHHHHHHHhhhcCCcEE-EEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 83 ITQAIIDHALKICSEKNVNVK-SEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..++.++ +.....+++.. ..+..|++.+.|.+++++.++||||||+++++.+.+++ |++++++++++||||+||
T Consensus 64 ~~~~~l~---~~~~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~~pVLvv~ 138 (142)
T PRK10116 64 ETQSFLD---KLIQDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSEVDVLLVP 138 (142)
T ss_pred HHHHHHH---HHHHhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCCCCEEEEe
Confidence 3333333 33445676543 55678999999999999999999999999998888753 789999999999999999
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
..+
T Consensus 139 ~~~ 141 (142)
T PRK10116 139 LTG 141 (142)
T ss_pred CCC
Confidence 754
No 8
>PRK11175 universal stress protein UspE; Provisional
Probab=99.94 E-value=1.6e-25 Score=166.91 Aligned_cols=147 Identities=17% Similarity=0.171 Sum_probs=115.7
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
|||++||||+|+|+.+..|+++|+.+|+.+ +++++++|+.+........ ...........+...+
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~---~a~l~ll~v~~~~~~~~~~------------~~~~~~~~~~~~~~~~ 65 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRN---GGKITAFLPIYDFSYEMTT------------LLSPDEREAMRQGVIS 65 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhc---CCCEEEEEeccCchhhhhc------------ccchhHHHHHHHHHHH
Confidence 579999999999999999999999999999 8999999998654322110 0011112222233333
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEE-ecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVV-IGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~-~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..++.++.+.+.+...+++++..+. .|++.+.|.+++++.++||||+|+++.+.+.+.++||++++++++++||||+||
T Consensus 66 ~~~~~l~~~~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~ 145 (305)
T PRK11175 66 QRTAWIREQAKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVK 145 (305)
T ss_pred HHHHHHHHHHHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEec
Confidence 3455566666666667888888766 589999999999999999999999999999999999999999999999999999
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
...
T Consensus 146 ~~~ 148 (305)
T PRK11175 146 DQD 148 (305)
T ss_pred ccc
Confidence 753
No 9
>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=99.93 E-value=1.3e-24 Score=143.18 Aligned_cols=131 Identities=23% Similarity=0.319 Sum_probs=111.0
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+||||+|+++.+..++++|..+|+.. +++++++|+++.+..... . ......+..++
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~---~~~v~ll~v~~~~~~~~~-----------------~----~~~~~~~~~~~ 56 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQ---NGEIIPLNVIEVPNHSSP-----------------S----QLEVNVQRARK 56 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcC---CCeEEEEEEEecCCCCCc-----------------c----hhHHHHHHHHH
Confidence 69999999999999999999999998 899999999986542210 0 01122345667
Q ss_pred HHHHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 87 IIDHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.++.+.+.+...|+.++..+.. |++.+.|.+++++.++|+||||+++++.+.+.++||++++++++++|||++++
T Consensus 57 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 57 LLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred HHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence 7777788888889998888754 79999999999999999999999999999888999999999999999999986
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.92 E-value=6.7e-24 Score=138.59 Aligned_cols=123 Identities=19% Similarity=0.271 Sum_probs=101.7
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+||||+|+++.+..++++|..+|+.+ +++++++||.+..... ..+..++
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~---~~~l~ll~v~~~~~~~----------------------------~~~~~~~ 49 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRL---KAPWYVVYVETPRLNR----------------------------LSEAERR 49 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHh---CCCEEEEEEecCcccc----------------------------CCHHHHH
Confidence 69999999999999999999999999 8999999998753210 0122334
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CCCEEEEc
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QCPVVVVK 161 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~pVliv~ 161 (167)
.++.+.+.+.+.++.+. .+..|++.+.|.+++++.++|+||||+++++.+.++++||+++++++++ +|||||++
T Consensus 50 ~l~~~~~~~~~~~~~~~-~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 50 RLAEALRLAEELGAEVV-TLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred HHHHHHHHHHHcCCEEE-EEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence 45555566666666543 2355689999999999999999999999999999999999999999999 99999985
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.89 E-value=2.6e-22 Score=149.71 Aligned_cols=147 Identities=18% Similarity=0.240 Sum_probs=106.4
Q ss_pred CCcEEEEeecCChhH-------HHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHH
Q 040308 4 NLGCVIVAVDGGEES-------MDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAI 76 (167)
Q Consensus 4 ~~~~ILv~id~s~~s-------~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (167)
.+++||||+|+++.+ ..++++|..+|+.+. +++++++|+++.......... ........
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~--~a~l~ll~v~~~~~~~~~~~~------------~~~~~~~~ 216 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLN--HAEVHLVNAYPVTPINIAIEL------------PEFDPSVY 216 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCc--CCceEEEEEecCcchhccccc------------cccchhhH
Confidence 468999999998653 679999999998862 579999999875432211000 00011112
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCcE-EEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCC
Q 040308 77 EAHQGRITQAIIDHALKICSEKNVNV-KSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQC 155 (167)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~ 155 (167)
.+..++.. .+.+.++....++.. ..++..|++.+.|.+++++.++||||||+++++.+.++++||++++|+++++|
T Consensus 217 ~~~~~~~~---~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~ 293 (305)
T PRK11175 217 NDAIRGQH---LLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNC 293 (305)
T ss_pred HHHHHHHH---HHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCC
Confidence 22222222 223333444456553 35677899999999999999999999999999999999999999999999999
Q ss_pred CEEEEcCCCCCC
Q 040308 156 PVVVVKGKGTSS 167 (167)
Q Consensus 156 pVliv~~~~~~~ 167 (167)
|||+||+.+..|
T Consensus 294 pVLvv~~~~~~~ 305 (305)
T PRK11175 294 DLLAIKPDGYVS 305 (305)
T ss_pred CEEEEcCCCCCC
Confidence 999999877643
No 12
>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=99.88 E-value=3.2e-21 Score=125.84 Aligned_cols=130 Identities=38% Similarity=0.584 Sum_probs=110.4
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+||||+|+++.+..++++|..+|+.. +++++++|+.+...... . ...+......++
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~---~~~i~~l~v~~~~~~~~-----------------~----~~~~~~~~~~~~ 56 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRL---GAELVLLHVVDPPPSSA-----------------A----ELAELLEEEARA 56 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhc---CCEEEEEEEecCCCCcc-----------------h----hHHHHHHHHHHH
Confidence 58999999999999999999999999 89999999988653320 0 222334445566
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
.++.+...+...++++...+..|++.++|.+++++.++|+||+|+++++.+.+.++|+++++++++++||||++
T Consensus 57 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 57 LLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred HHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence 77777776666789998888899999999999999999999999999999988999999999999999999985
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.88 E-value=9.3e-21 Score=127.47 Aligned_cols=150 Identities=31% Similarity=0.405 Sum_probs=121.6
Q ss_pred CCCCCcEEEEeec-CChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHH
Q 040308 1 MSGNLGCVIVAVD-GGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAH 79 (167)
Q Consensus 1 ~~~~~~~ILv~id-~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (167)
+..++++|++++| +++.+..+++.+..++... +..++++++.+............ ...........
T Consensus 1 ~~~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~---~~~~~~~~v~~~~~~~~~~~~~~----------~~~~~~~~~~~ 67 (154)
T COG0589 1 MPAMYKKILVAVDVGSEAAEKALEEAVALAKRL---GAPLILLVVIDPLEPTALVSVAL----------ADAPIPLSEEE 67 (154)
T ss_pred CccccceEEEEeCCCCHHHHHHHHHHHHHHHhc---CCeEEEEEEeccccccccccccc----------ccchhhhhHHH
Confidence 4678999999999 9999999999999999999 89999999988665432211100 00001222333
Q ss_pred HHHHHHHHHHHHHHHhhhcCCc-EEEEEEecCh-HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCE
Q 040308 80 QGRITQAIIDHALKICSEKNVN-VKSEVVIGDA-KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPV 157 (167)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~g~~-~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pV 157 (167)
.....++..+.+.+.+...++. ++..+..|++ .+.|..++.+.++|+||||+++++.+.+.++||++++++++++|||
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pV 147 (154)
T COG0589 68 LEEEAEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPV 147 (154)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCE
Confidence 4556677788888888888887 5888899988 7999999999999999999999999999999999999999999999
Q ss_pred EEEcCC
Q 040308 158 VVVKGK 163 (167)
Q Consensus 158 liv~~~ 163 (167)
+++|..
T Consensus 148 lvv~~~ 153 (154)
T COG0589 148 LVVRSE 153 (154)
T ss_pred EEEccC
Confidence 999975
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.79 E-value=8e-18 Score=126.83 Aligned_cols=108 Identities=10% Similarity=0.172 Sum_probs=80.9
Q ss_pred CCCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHH
Q 040308 1 MSGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQ 80 (167)
Q Consensus 1 ~~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (167)
+|++|+|||||+|+|+.|.+|+++|+++|+..+. +++++++||.+...... . .+ ..
T Consensus 1 ~~~~ykkILVavDGSe~S~~Al~~AielA~~~g~-~AeL~lL~Vv~~~~~~~-----------------~--~~----~~ 56 (357)
T PRK12652 1 IMMAANRLLVPVADSVTVRQTVAYAVESAEEAAE-TPTVHLVAAASGRAVDP-----------------E--GQ----DE 56 (357)
T ss_pred CCcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCC-CCEEEEEEEecCccccc-----------------c--hh----HH
Confidence 5899999999999999999999999999998411 59999999998543210 0 01 11
Q ss_pred HHHHHHHHHHHHHHhhh------cCCcEEEEEEe--------cChHhHHHHHHHHhCCCEEEEeec
Q 040308 81 GRITQAIIDHALKICSE------KNVNVKSEVVI--------GDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 81 ~~~~~~~~~~~~~~~~~------~~~~~~~~v~~--------g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
.+..++.++++.+.+.+ .|++++..+.. |+++++|+++|++.++||||||..
T Consensus 57 ~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~ 122 (357)
T PRK12652 57 LAAAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPE 122 (357)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCC
Confidence 12223334444444333 58888888866 899999999999999999999975
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.52 E-value=5.6e-13 Score=112.03 Aligned_cols=125 Identities=11% Similarity=0.092 Sum_probs=98.9
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHH
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRIT 84 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (167)
-++||||+++++.+.+++++|..+|.++ +++++++||..+...... .+..
T Consensus 250 ~eriLV~v~~~~~~~~lIr~~~rlA~~~---~a~~~~l~V~~~~~~~~~---------------------------~~~~ 299 (895)
T PRK10490 250 RDAILLCIGHNTGSEKLVRTAARLAARL---GSVWHAVYVETPRLHRLP---------------------------EKKR 299 (895)
T ss_pred CCeEEEEECCCcchHHHHHHHHHHHHhc---CCCEEEEEEecCCcCcCC---------------------------HHHH
Confidence 4789999999999999999999999999 999999999875322110 1112
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEcCC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKGK 163 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~~ 163 (167)
+.+.+.+ +.+++.|.++.. +..++++++|+++|++.+++.||||..+++.+ ++.||+++++++.++ ++|.||+..
T Consensus 300 ~~l~~~~-~lA~~lGa~~~~-~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~ 375 (895)
T PRK10490 300 RAILSAL-RLAQELGAETAT-LSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALD 375 (895)
T ss_pred HHHHHHH-HHHHHcCCEEEE-EeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCC
Confidence 2233333 477778877443 34458999999999999999999999888766 457899999999998 999999744
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.44 E-value=2.8e-12 Score=103.54 Aligned_cols=128 Identities=17% Similarity=0.235 Sum_probs=108.8
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHH
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQ 85 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (167)
.+||||++.++.+.+.+++|..+|.++ +++++++||..+..... .+...
T Consensus 249 e~ilvcI~~~~~~e~liR~a~RlA~~~---~a~~~av~v~~~~~~~~----------------------------~~~~~ 297 (890)
T COG2205 249 ERILVCISGSPGSEKLIRRAARLASRL---HAKWTAVYVETPELHRL----------------------------SEKEA 297 (890)
T ss_pred ceEEEEECCCCchHHHHHHHHHHHHHh---CCCeEEEEEeccccccc----------------------------cHHHH
Confidence 789999999999999999999999999 99999999998765431 12344
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEcCCC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKGKG 164 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~~~ 164 (167)
+.+....+.+++.|-.+.+. ..++.+++|.+||+.+++.-||+|.+.++.+...|.|+.++++++..+ +.|.+++.+.
T Consensus 298 ~~l~~~~~Lae~lGae~~~l-~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~~ 376 (890)
T COG2205 298 RRLHENLRLAEELGAEIVTL-YGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALDA 376 (890)
T ss_pred HHHHHHHHHHHHhCCeEEEE-eCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCCC
Confidence 55666777778888776553 446999999999999999999999999999999999999999999988 9999998754
Q ss_pred C
Q 040308 165 T 165 (167)
Q Consensus 165 ~ 165 (167)
.
T Consensus 377 ~ 377 (890)
T COG2205 377 P 377 (890)
T ss_pred C
Confidence 3
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=98.68 E-value=1.4e-07 Score=57.42 Aligned_cols=84 Identities=20% Similarity=0.171 Sum_probs=70.4
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
|+|++++...|..++.++..++ .. +.+++.+|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~---~~~~~~~~~~------------------------------------------ 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SG---GPEVVALVVV------------------------------------------ 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hc---CCCEEEEEeH------------------------------------------
Confidence 6899999999999999999987 44 5677777665
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceeccc-chhHHHHhcCCCCEEE
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLG-SVSNYCANHAQCPVVV 159 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g-s~~~~i~~~~~~pVli 159 (167)
...+.+.+.+++.++|+|++|++.....+..+.+ ++...+++.++|||+.
T Consensus 35 ----------------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 ----------------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred ----------------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence 4566777788888999999999988888877777 8999999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=98.09 E-value=5.5e-05 Score=63.91 Aligned_cols=149 Identities=16% Similarity=0.170 Sum_probs=88.9
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHH
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQ 85 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (167)
-|||+|+...++-...+..+-........ ...++++|+++......+....- .. .........+ .....+
T Consensus 459 lriL~cv~~~~~v~~li~Lle~s~~t~~s-p~~vy~lhLveL~~r~~~~l~~h----~~----~~~~~~~~~~-~~~~~~ 528 (832)
T PLN03159 459 LRMLVCVHTPRNVPTIINLLEASHPTKRS-PICIYVLHLVELTGRASAMLIVH----NT----RKSGRPALNR-TQAQSD 528 (832)
T ss_pred eeEEEEeccCCcHHHHHHHHHhcCCCCCC-CceEEEEEEEeecCCCccceeee----ec----cccccccccc-cccccc
Confidence 48999999888887777665443333211 56899999988654321110000 00 0000000000 011123
Q ss_pred HHHHHHHHHhhhc-CCcEEEEE---EecChHhHHHHHHHHhCCCEEEEeecCCCccce------ecccchhHHHHhcCCC
Q 040308 86 AIIDHALKICSEK-NVNVKSEV---VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR------MFLGSVSNYCANHAQC 155 (167)
Q Consensus 86 ~~~~~~~~~~~~~-~~~~~~~v---~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~------~~~gs~~~~i~~~~~~ 155 (167)
+..+.++...+.. ++.++... ...+..+.|...|++..+++||++.+++....+ -.++.+.++|++++||
T Consensus 529 ~i~~af~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApC 608 (832)
T PLN03159 529 HIINAFENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPC 608 (832)
T ss_pred HHHHHHHHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCC
Confidence 4444444443332 46666443 224789999999999999999999986543332 2567788999999999
Q ss_pred CEEEEcCCC
Q 040308 156 PVVVVKGKG 164 (167)
Q Consensus 156 pVliv~~~~ 164 (167)
+|-|.=+++
T Consensus 609 sVgIlVDRg 617 (832)
T PLN03159 609 SVGILVDRG 617 (832)
T ss_pred CEEEEEeCC
Confidence 998875433
No 19
>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=97.34 E-value=0.007 Score=42.09 Aligned_cols=94 Identities=20% Similarity=0.230 Sum_probs=66.3
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+|+|++++..+|..++..+..++... +.++.++|+-..... ...+
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~---~~~v~~v~vd~g~~~--------------------------------~~~~ 45 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKL---KIRLIAAHVDHGLRP--------------------------------ESDE 45 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHc---CCCEEEEEeCCCCCh--------------------------------hHHH
Confidence 58999999999999999998988777 678999998663210 0122
Q ss_pred HHHHHHHHhhhcCCcEEEEEEec---------ChH--------hHHHHHHHHhCCCEEEEeecCCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIG---------DAK--------EKVCELVEKLHADLLVMGSHTFG 135 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g---------~~~--------~~I~~~a~~~~~dliV~g~~~~~ 135 (167)
..+.+.+.++..|+++....... +.. ..+.+.+++++++.|+.|++...
T Consensus 46 ~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D 111 (189)
T TIGR02432 46 EAEFVQQFCKKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADD 111 (189)
T ss_pred HHHHHHHHHHHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHH
Confidence 24455566677787766543221 112 56778899999999999987543
No 20
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.32 E-value=0.005 Score=52.41 Aligned_cols=119 Identities=16% Similarity=0.167 Sum_probs=66.4
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCC-CCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGA-IPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
..+|.++.=+.++++.|+.||.++|... +-+++++|............... .+.+... ....... +..++.
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~~p---~v~lTVirf~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~---~~e~~~ 701 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSEHP---GITLTVMRFIPGEDAAPTASQPASSPSDPRI--PTVETDG---KKERQL 701 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhcCC---CeEEEEEEEEccccccccccccccccccccc--ccccccc---hhHHHH
Confidence 4589999999999999999999999987 89999999987533221100000 0000000 0000001 112223
Q ss_pred HHHHHHHHHHHhhhc-CCcEEEEEE-ec-ChHhHHHHHHHHhCCCEEEEeecC
Q 040308 84 TQAIIDHALKICSEK-NVNVKSEVV-IG-DAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~-~~~~~~~v~-~g-~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
-++.++++....... .+.+.-+++ +| +....|....+ ++||+|+|+++
T Consensus 702 D~~~~~ef~~~~~~~~~v~y~E~~V~~~~e~~~~l~~~~~--~ydL~iVGr~~ 752 (832)
T PLN03159 702 DEEYINEFRARNAGNESIVYTEKVVSNGEETVAAIRSMDS--AHDLFIVGRGQ 752 (832)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEecCCHHHHHHHHHHhhc--cCcEEEEecCC
Confidence 445555555554322 244443333 34 34444544444 69999999753
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=97.08 E-value=0.033 Score=38.54 Aligned_cols=94 Identities=18% Similarity=0.253 Sum_probs=61.7
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+|+|++.+..+|...+..+..+.... +.++.++||-...... ...
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~---~~~~~~~~vdh~~~~~--------------------------------s~~ 45 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRN---GIKLIAVHVDHGLREE--------------------------------SDE 45 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTT---TTEEEEEEEE-STSCC--------------------------------HHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhc---CCCeEEEEEecCCCcc--------------------------------cch
Confidence 69999999999999999999999988 7899999998754311 222
Q ss_pred HHHHHHHHhhhcCCcEEEEEEe-----c-Ch--------HhHHHHHHHHhCCCEEEEeecCCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVI-----G-DA--------KEKVCELVEKLHADLLVMGSHTFG 135 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~-----g-~~--------~~~I~~~a~~~~~dliV~g~~~~~ 135 (167)
..+.+.+.+...++++...... + +. .+.+.+.|.+.+++.|++|++.-.
T Consensus 46 ~~~~v~~~~~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD 108 (182)
T PF01171_consen 46 EAEFVEEICEQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLDD 108 (182)
T ss_dssp HHHHHHHHHHHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHH
T ss_pred hHHHHHHHHHhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCCc
Confidence 3455667777788777665433 1 11 245567899999999999988533
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=96.91 E-value=0.034 Score=38.41 Aligned_cols=94 Identities=17% Similarity=0.193 Sum_probs=65.8
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+|+|++++..+|..++..+....... +.++.++|+-..... ...+
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~---~~~v~~v~id~~~~~--------------------------------~~~~ 45 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRL---GLRLVAVHVDHGLRP--------------------------------ESDE 45 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHc---CCcEEEEEecCCCCc--------------------------------hHHH
Confidence 58999999999999999998887776 678999998653210 0123
Q ss_pred HHHHHHHHhhhcCCcEEEE--E-EecCh-----------HhHHHHHHHHhCCCEEEEeecCCC
Q 040308 87 IIDHALKICSEKNVNVKSE--V-VIGDA-----------KEKVCELVEKLHADLLVMGSHTFG 135 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~--v-~~g~~-----------~~~I~~~a~~~~~dliV~g~~~~~ 135 (167)
..+.+.+.+...|+++... . ..+.. ...+.++|++.+++.|+.|++...
T Consensus 46 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD 108 (185)
T cd01992 46 EAAFVADLCAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADD 108 (185)
T ss_pred HHHHHHHHHHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHH
Confidence 4455566667778777654 1 11111 145667889999999999987543
No 23
>PRK12342 hypothetical protein; Provisional
Probab=96.21 E-value=0.087 Score=38.59 Aligned_cols=104 Identities=15% Similarity=0.077 Sum_probs=62.6
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
-.++.+..|++.|++|. .. +.+++++++-++.. ....+++.+.
T Consensus 32 ~iNp~D~~AlE~AlrLk-~~---g~~Vtvls~Gp~~a---------------------------------~~~~l~r~al 74 (254)
T PRK12342 32 KISQFDLNAIEAASQLA-TD---GDEIAALTVGGSLL---------------------------------QNSKVRKDVL 74 (254)
T ss_pred cCChhhHHHHHHHHHHh-hc---CCEEEEEEeCCChH---------------------------------hHHHHHHHHH
Confidence 36788999999999998 67 89999999888531 0111223222
Q ss_pred HHhhhcCCcEEEEEEec-Ch---HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCE
Q 040308 93 KICSEKNVNVKSEVVIG-DA---KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPV 157 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g-~~---~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pV 157 (167)
..-.+.++.+.-....| ++ +..|...+++.++|||+.|......-. |.+--.+......|.
T Consensus 75 amGaD~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~t----gqvg~~lA~~Lg~P~ 139 (254)
T PRK12342 75 SRGPHSLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLYA----QQVGLLLGELLQLPV 139 (254)
T ss_pred HcCCCEEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCCC----CCHHHHHHHHhCCCc
Confidence 33222233333222223 54 678888888889999999976533322 333344444444443
No 24
>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=95.89 E-value=0.068 Score=36.29 Aligned_cols=87 Identities=16% Similarity=0.176 Sum_probs=58.1
Q ss_pred EEEEeecCC-----hhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHH
Q 040308 7 CVIVAVDGG-----EESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQG 81 (167)
Q Consensus 7 ~ILv~id~s-----~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (167)
+|||-++.. +.+..++..|..++... +.+++++.+-+...
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~---g~~v~av~~G~~~~-------------------------------- 45 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEAL---GGEVTAVVLGPAEE-------------------------------- 45 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCT---TSEEEEEEEETCCC--------------------------------
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhc---CCeEEEEEEecchh--------------------------------
Confidence 467777654 88999999999999999 88999998774221
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEec--------ChHhHHHHHHHHhCCCEEEEeecC
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVIG--------DAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g--------~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..+.+++.+..+|..--+.+... ...+.|.+.+++.++|+|++|+..
T Consensus 46 -----~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 46 -----AAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp -----HHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred -----hHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 12223344455675433333221 145678888999999999999754
No 25
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=95.84 E-value=0.087 Score=38.64 Aligned_cols=88 Identities=11% Similarity=0.048 Sum_probs=56.4
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
-.++....|++.|++|..+.+ +.+++++.+-++... ....++.+.
T Consensus 33 ~iN~~D~~AlE~Alrlke~~~--g~~Vtvvs~Gp~~a~---------------------------------~~~~lr~aL 77 (256)
T PRK03359 33 KISQYDLNAIEAACQLKQQAA--EAQVTALSVGGKALT---------------------------------NAKGRKDVL 77 (256)
T ss_pred ccChhhHHHHHHHHHHhhhcC--CCEEEEEEECCcchh---------------------------------hHHHHHHHH
Confidence 357889999999999999871 379999999885311 112233333
Q ss_pred HHhhhcCCcEEEEEEec-C---hHhHHHHHHHHhCCCEEEEeecCCC
Q 040308 93 KICSEKNVNVKSEVVIG-D---AKEKVCELVEKLHADLLVMGSHTFG 135 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g-~---~~~~I~~~a~~~~~dliV~g~~~~~ 135 (167)
.+-.+.++.+.-.-..| + .+..|...+++.++|||+.|.....
T Consensus 78 AmGaD~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D 124 (256)
T PRK03359 78 SRGPDELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSD 124 (256)
T ss_pred HcCCCEEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCcccc
Confidence 33222333333222222 3 3677778888889999999976544
No 26
>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=95.78 E-value=0.26 Score=39.26 Aligned_cols=91 Identities=16% Similarity=0.008 Sum_probs=66.9
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
|..-....+|.+|+..|... +..|+.+++.++..... -........+-+..+.
T Consensus 32 DLRl~DN~aL~~A~~~a~~~---~~~vl~vyi~dp~~~~~------------------------~~~r~~Fl~esL~~L~ 84 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKK---KLPLHVCFCLVDFFLAA------------------------TRRHYFFMLGGLDEVA 84 (454)
T ss_pred chhccCCHHHHHHHHHHHHc---CCCEEEEEEeCCCcccc------------------------cHHHHHHHHHHHHHHH
Confidence 55566778888888877666 56899999998653221 1233445556666777
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+.+.+.|+.+ .+..|++.+.|.+++++.+++.|+....
T Consensus 85 ~~L~~~g~~L--~v~~g~~~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 85 NECERLIIPF--HLLDGPPKELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred HHHHHcCCce--EEeecChHHHHHHHHHHcCCCEEEEecc
Confidence 7777777765 4568999999999999999999999864
No 27
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=95.69 E-value=0.15 Score=34.13 Aligned_cols=68 Identities=24% Similarity=0.285 Sum_probs=50.3
Q ss_pred HHHHHHHhhhcCCcEEEEEEec-ChHhHHHHH---HHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 88 IDHALKICSEKNVNVKSEVVIG-DAKEKVCEL---VEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+...+.+.+.|+.++..+... ...+.+.+| +++.++..||-|..+...+.++ +...++.||+-||-+
T Consensus 18 mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPGm--------vAa~T~lPViGVPv~ 89 (162)
T COG0041 18 MKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPGM--------VAAKTPLPVIGVPVQ 89 (162)
T ss_pred HHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcchh--------hhhcCCCCeEeccCc
Confidence 4555666778899999998886 455555555 5567888899999887767653 455789999999865
No 28
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=95.59 E-value=0.14 Score=37.59 Aligned_cols=86 Identities=17% Similarity=0.319 Sum_probs=56.6
Q ss_pred eecCChhHHHHHHHHHHhcc-ccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHH
Q 040308 11 AVDGGEESMDALRWAIDNLK-LRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIID 89 (167)
Q Consensus 11 ~id~s~~s~~al~~a~~la~-~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (167)
+...++.+..|++.|++|.. .. +.+++++++-++. ++..++
T Consensus 32 ~~~in~~D~~AvEeAlrLke~~~---~~eV~vlt~Gp~~-----------------------------------a~~~lr 73 (260)
T COG2086 32 PLSINPFDLNAVEEALRLKEKGY---GGEVTVLTMGPPQ-----------------------------------AEEALR 73 (260)
T ss_pred CcccChhhHHHHHHHHHhhccCC---CceEEEEEecchh-----------------------------------hHHHHH
Confidence 34456889999999999999 57 8999999998743 222333
Q ss_pred HHHHHhhhcCCcEEEEEEec----ChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 90 HALKICSEKNVNVKSEVVIG----DAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
.+...-.+..+-++-.-..+ ..+..|...+++.+.|||++|...-
T Consensus 74 ~aLAmGaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~ 122 (260)
T COG2086 74 EALAMGADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAI 122 (260)
T ss_pred HHHhcCCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccc
Confidence 32222222223333211222 2477788889999999999997653
No 29
>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=95.52 E-value=0.48 Score=32.52 Aligned_cols=40 Identities=20% Similarity=0.161 Sum_probs=30.3
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+|+|++.+..+|..++..+..+...... +-+++++|+-..
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~-~~~~~~~~~d~~ 40 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPY-GFELEALTVDEG 40 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCC-CeEEEEEEEECC
Confidence 5899999999999888888777654411 347888888764
No 30
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=94.95 E-value=0.36 Score=35.98 Aligned_cols=39 Identities=23% Similarity=0.223 Sum_probs=31.1
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCC
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPT 49 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~ 49 (167)
.+|+|++.+..+|..++..+..+... .++.++||-....
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~-----~~~~a~~Vd~~~~ 60 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR-----IEVEAVHVDHGLR 60 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC-----ceEEEEEecCCCC
Confidence 69999999999999888777776543 3888999987543
No 31
>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=94.73 E-value=0.43 Score=32.23 Aligned_cols=70 Identities=19% Similarity=0.190 Sum_probs=48.9
Q ss_pred HHHHHHHHhhhcCCcEEEEEEec-ChHhHHHHHH---HHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIG-DAKEKVCELV---EKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a---~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+++.+.+++.|++++..+..- ...+.+.+++ ++.+++.+|.+......+.. -+.-.++.||+-||.
T Consensus 13 ~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg--------vva~~t~~PVIgvP~ 84 (156)
T TIGR01162 13 TMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG--------MVAALTPLPVIGVPV 84 (156)
T ss_pred HHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH--------HHHhccCCCEEEecC
Confidence 34556667778899999888765 4455555554 45678888888776555543 355678899999997
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 85 ~~ 86 (156)
T TIGR01162 85 PS 86 (156)
T ss_pred Cc
Confidence 53
No 32
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=94.09 E-value=1.7 Score=31.90 Aligned_cols=96 Identities=16% Similarity=0.151 Sum_probs=60.6
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
.-.+|+|++.+..+|...+..+..+...... +-++..+|+-...... . +
T Consensus 28 ~~~kilVa~SGG~DS~~LL~ll~~l~~~~~~-~~~l~av~vd~g~~~~------------------~-----------~- 76 (258)
T PRK10696 28 EGDRVMVCLSGGKDSYTLLDILLNLQKRAPI-NFELVAVNLDQKQPGF------------------P-----------E- 76 (258)
T ss_pred CCCEEEEEecCCHHHHHHHHHHHHHHHhCCC-CeEEEEEEecCCCCCC------------------C-----------H-
Confidence 3468999999999999888888777655411 3478888875421100 0 0
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe-----------cC---------hHhHHHHHHHHhCCCEEEEeecCCC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI-----------GD---------AKEKVCELVEKLHADLLVMGSHTFG 135 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~-----------g~---------~~~~I~~~a~~~~~dliV~g~~~~~ 135 (167)
+.+.+.|.+.|+++...-.. +. -...+.++|++.++|.|++|++.-.
T Consensus 77 -----~~~~~~~~~lgI~~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD 143 (258)
T PRK10696 77 -----HVLPEYLESLGVPYHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDD 143 (258)
T ss_pred -----HHHHHHHHHhCCCEEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHH
Confidence 01245666777766543221 11 1134557788999999999988643
No 33
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=93.66 E-value=1.6 Score=32.93 Aligned_cols=94 Identities=17% Similarity=0.114 Sum_probs=60.7
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
.+.+++|++.+..+|.-.+..+....... +.++.++|+-....+.
T Consensus 26 ~f~~~vv~~SGGKDS~VLL~La~ka~~~~---~~~~~vl~iDTG~~Fp-------------------------------- 70 (301)
T PRK05253 26 EFENPVMLYSIGKDSSVMLHLARKAFYPG---KLPFPLLHVDTGWKFP-------------------------------- 70 (301)
T ss_pred hCCCEEEEecCCHHHHHHHHHHHHhhccc---CCCeeEEEEeCCCCCH--------------------------------
Confidence 35789999999999999998887765544 4578888887643221
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEE-----ecC--------------hHhHHHHHHHHhCCCEEEEeecCC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVV-----IGD--------------AKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~-----~g~--------------~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
+..+...+.+..+|+++..... .|. -...+.++++++++|.++.|.+.-
T Consensus 71 --Et~ef~d~~a~~~gl~l~v~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrD 138 (301)
T PRK05253 71 --EMIEFRDRRAKELGLELIVHSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRD 138 (301)
T ss_pred --HHHHHHHHHHHHhCCCEEEEeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccc
Confidence 1112222344556666554421 121 124566788888999999998753
No 34
>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=93.59 E-value=0.69 Score=31.10 Aligned_cols=70 Identities=20% Similarity=0.235 Sum_probs=43.7
Q ss_pred HHHHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHh---CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKL---HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~---~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+++.+.+++.|+.++..+..- ...+.+.+++++. +++.+|.++.....+.. -+.-.++.||+-||.
T Consensus 15 ~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpg--------vva~~t~~PVIgvP~ 86 (150)
T PF00731_consen 15 IAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPG--------VVASLTTLPVIGVPV 86 (150)
T ss_dssp HHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHH--------HHHHHSSS-EEEEEE
T ss_pred HHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchh--------hheeccCCCEEEeec
Confidence 34556666777889998887775 4566677776653 56888888776554433 355577899999986
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 87 ~~ 88 (150)
T PF00731_consen 87 SS 88 (150)
T ss_dssp -S
T ss_pred Cc
Confidence 54
No 35
>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=93.46 E-value=1.5 Score=29.68 Aligned_cols=117 Identities=14% Similarity=0.099 Sum_probs=67.7
Q ss_pred CChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 040308 14 GGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALK 93 (167)
Q Consensus 14 ~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (167)
..-....+|..| ... +.++..+++.++...... .. -........+-+..+.+
T Consensus 9 LRl~DN~aL~~A----~~~---~~~v~~vfv~d~~~~~~~-~~--------------------~~~r~~Fl~~sL~~L~~ 60 (165)
T PF00875_consen 9 LRLHDNPALHAA----AQN---GDPVLPVFVFDPEEFHPY-RI--------------------GPRRRRFLLESLADLQE 60 (165)
T ss_dssp -SSTT-HHHHHH----HHT---TSEEEEEEEE-HHGGTTC-SS--------------------CHHHHHHHHHHHHHHHH
T ss_pred CchhhhHHHHHH----HHc---CCCeEEEEEecccccccc-cC--------------------cchHHHHHHHHHHHHHH
Confidence 333455666666 333 578999999997621100 00 02223345555666666
Q ss_pred HhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 94 ICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 94 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.|+.. .+..|++.+.+.+++++.+++.|+.... .+..... ......+.+...++.+..+..
T Consensus 61 ~L~~~g~~L--~v~~g~~~~~l~~l~~~~~~~~V~~~~~-~~~~~~~-rd~~v~~~l~~~~i~~~~~~~ 125 (165)
T PF00875_consen 61 SLRKLGIPL--LVLRGDPEEVLPELAKEYGATAVYFNEE-YTPYERR-RDERVRKALKKHGIKVHTFDD 125 (165)
T ss_dssp HHHHTTS-E--EEEESSHHHHHHHHHHHHTESEEEEE----SHHHHH-HHHHHHHHHHHTTSEEEEE--
T ss_pred HHHhcCcce--EEEecchHHHHHHHHHhcCcCeeEeccc-cCHHHHH-HHHHHHHHHHhcceEEEEECC
Confidence 777777664 6688999999999999999999998855 3333322 223344455555677766654
No 36
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=92.83 E-value=2.6 Score=33.58 Aligned_cols=66 Identities=18% Similarity=0.224 Sum_probs=46.9
Q ss_pred cEEEEeecCChhHHHHHHHHHHhcc-ccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHH
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLK-LRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRIT 84 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~-~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (167)
++|+|++.+..+|...+.....+.. .. +.+++++||-..... ..
T Consensus 16 ~~ilvavSGG~DS~~Ll~~l~~~~~~~~---~~~l~a~hvnhglr~--------------------------------~s 60 (436)
T PRK10660 16 RQILVAFSGGLDSTVLLHLLVQWRTENP---GVTLRAIHVHHGLSP--------------------------------NA 60 (436)
T ss_pred CeEEEEecCCHHHHHHHHHHHHHHHhcC---CCeEEEEEEeCCCCc--------------------------------ch
Confidence 7899999999999988887776652 23 579999999764321 12
Q ss_pred HHHHHHHHHHhhhcCCcEEEEE
Q 040308 85 QAIIDHALKICSEKNVNVKSEV 106 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v 106 (167)
+...+.+.+.|.+.|+++...-
T Consensus 61 ~~~~~~~~~~~~~l~i~~~~~~ 82 (436)
T PRK10660 61 DSWVKHCEQVCQQWQVPLVVER 82 (436)
T ss_pred HHHHHHHHHHHHHcCCcEEEEE
Confidence 2334566778888888776653
No 37
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=92.71 E-value=1 Score=31.36 Aligned_cols=34 Identities=24% Similarity=0.243 Sum_probs=27.0
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
|++|++++-++..+..+.++.-.|.+ . +.+++++
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~---g~~V~vv 34 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTK-R---GYQVTVL 34 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHH-C---CCEEEEE
Confidence 58999999999999998888877754 4 5676655
No 38
>PRK13820 argininosuccinate synthase; Provisional
Probab=92.55 E-value=4 Score=32.09 Aligned_cols=37 Identities=16% Similarity=0.146 Sum_probs=29.7
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCC-eEEEEEEeC
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPG-SFIVLHVQP 46 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~-~l~~l~v~~ 46 (167)
|+++|+|++.+.-+|.-++.++.+ .+ +. +++.+|+..
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e---~~---g~~~Viav~vd~ 38 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKE---KY---GYDEVITVTVDV 38 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHH---hc---CCCEEEEEEEEC
Confidence 468999999999999888887643 35 54 899999875
No 39
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=92.35 E-value=1.7 Score=34.09 Aligned_cols=37 Identities=16% Similarity=0.078 Sum_probs=28.3
Q ss_pred CCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 2 SGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 2 ~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
|...++|++++-++..+..+++..-.|- +. +.++.++
T Consensus 3 ~l~~k~IllgvTGsiaa~k~~~lv~~L~-~~---g~~V~vv 39 (399)
T PRK05579 3 MLAGKRIVLGVSGGIAAYKALELVRRLR-KA---GADVRVV 39 (399)
T ss_pred CCCCCeEEEEEeCHHHHHHHHHHHHHHH-hC---CCEEEEE
Confidence 4456899999999998888888887764 45 5676655
No 40
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=92.23 E-value=4.4 Score=31.43 Aligned_cols=39 Identities=15% Similarity=0.118 Sum_probs=29.8
Q ss_pred CCCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 1 MSGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 1 ~~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
|+..-++|+|++.+.-+|.-++..+.+ . +.+++.+|+..
T Consensus 1 ~~~~~~kVlValSGGVDSsvaa~LL~~----~---G~~V~~v~~~~ 39 (360)
T PRK14665 1 MMEKNKRVLLGMSGGTDSSVAAMLLLE----A---GYEVTGVTFRF 39 (360)
T ss_pred CCCCCCEEEEEEcCCHHHHHHHHHHHH----c---CCeEEEEEEec
Confidence 566778999999999988866655543 4 56888888764
No 41
>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=92.06 E-value=0.79 Score=34.70 Aligned_cols=75 Identities=12% Similarity=0.134 Sum_probs=40.9
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHh-------CCCEEEEeecCCCcccee-cccc-hhHHHHhcCC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKL-------HADLLVMGSHTFGPIKRM-FLGS-VSNYCANHAQ 154 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~-------~~dliV~g~~~~~~~~~~-~~gs-~~~~i~~~~~ 154 (167)
+.++..+........+.+-...+.| +...+|++..+.- .+|+||+++.|.+ .+.+ -|.+ ..-+-+..++
T Consensus 29 ~D~~~~~~~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs-~eDL~~FN~e~varai~~~~ 107 (319)
T PF02601_consen 29 QDFLRTLKRRNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGS-IEDLWAFNDEEVARAIAASP 107 (319)
T ss_pred HHHHHHHHHhCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCCC-hHHhcccChHHHHHHHHhCC
Confidence 3344444443222223333445667 5677777654433 4899999987754 3332 2222 2334556788
Q ss_pred CCEEEE
Q 040308 155 CPVVVV 160 (167)
Q Consensus 155 ~pVliv 160 (167)
+||+.-
T Consensus 108 ~Pvisa 113 (319)
T PF02601_consen 108 IPVISA 113 (319)
T ss_pred CCEEEe
Confidence 998764
No 42
>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=91.33 E-value=5.9 Score=31.35 Aligned_cols=122 Identities=14% Similarity=0.099 Sum_probs=70.1
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
|..-....+|.+|+.. +.+|..++++++.........+ . .. .-........+-++.+.
T Consensus 10 DLRl~DN~aL~~A~~~-------~~~vl~vfi~dp~~~~~~~~~~-----~------~~----~~~~r~~Fl~esL~~L~ 67 (429)
T TIGR02765 10 DLRVHDNPALYKASSS-------SDTLIPLYCFDPRQFKLTHFFG-----F------PK----TGPARGKFLLESLKDLR 67 (429)
T ss_pred CCccccHHHHHHHHhc-------CCeEEEEEEECchHhccccccc-----c------CC----CCHHHHHHHHHHHHHHH
Confidence 4445566677777642 3478999999864322100000 0 00 01222334555566666
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
+.+.+.|+.. .+..|++.+.|.+++++.+++-|+....- +...+. .-..+.+.+....+++..+
T Consensus 68 ~~L~~~g~~L--~v~~G~~~~vl~~L~~~~~~~~V~~~~~~-~~~~~~-rd~~v~~~l~~~~i~~~~~ 131 (429)
T TIGR02765 68 TSLRKLGSDL--LVRSGKPEDVLPELIKELGVRTVFLHQEV-GSEEKS-VERLLQQALARLGIHVEQH 131 (429)
T ss_pred HHHHHcCCCe--EEEeCCHHHHHHHHHHHhCCCEEEEeccC-CHHHHH-HHHHHHHHHHhcCceEEEe
Confidence 6677777765 45789999999999999999999998653 333321 1222333344446665433
No 43
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=90.81 E-value=1.5 Score=37.49 Aligned_cols=43 Identities=21% Similarity=0.174 Sum_probs=36.4
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcc
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIA 51 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~ 51 (167)
.+|.+..=+.++.+.|+.++..++... ...+++++.++.....
T Consensus 615 ~~v~~lF~GG~DDrEALa~~~rm~~~~---~v~lTVirf~~~~~~~ 657 (769)
T KOG1650|consen 615 YKVVVLFLGGKDDREALALAKRMAENP---RVTLTVIRFFPDESKY 657 (769)
T ss_pred eEEEEEecCChhhHHHHHHHHHHhhCC---ceEEEEEEeeccchhh
Confidence 467777788888899999999999988 8999999999866533
No 44
>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=90.27 E-value=5 Score=32.26 Aligned_cols=90 Identities=12% Similarity=0.103 Sum_probs=59.3
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
|..-....||..|+. . +.+|.+++++++...... . .-.......-+-+..+.
T Consensus 10 DLRl~DN~AL~~A~~----~---~~~vl~vfi~dp~~~~~~-----------------~----~~~~r~~Fl~esL~~L~ 61 (471)
T TIGR03556 10 DLRLSDNIGLAAARQ----Q---SAKVVGLFCLDPNILQAD-----------------D----MAPARVAYLIGCLQELQ 61 (471)
T ss_pred CCCcchHHHHHHHHh----c---CCCEEEEEEEchhhhccc-----------------c----CCHHHHHHHHHHHHHHH
Confidence 444456667777763 3 457999999986432210 0 00111234455556666
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+.+.+.|++. .+..|++.+.|.+++++.+++.|+....
T Consensus 62 ~~L~~~G~~L--~v~~G~p~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 62 QRYQQAGSQL--LILQGDPVQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred HHHHHCCCCe--EEEECCHHHHHHHHHHHcCCCEEEEecc
Confidence 6677777765 5678999999999999999999998755
No 45
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=90.10 E-value=1.9 Score=30.39 Aligned_cols=39 Identities=10% Similarity=-0.077 Sum_probs=28.4
Q ss_pred CCCCCcEEEEeecCChhHHH-HHHHHHHhccccCCCCCeEEEEE
Q 040308 1 MSGNLGCVIVAVDGGEESMD-ALRWAIDNLKLRSPAPGSFIVLH 43 (167)
Q Consensus 1 ~~~~~~~ILv~id~s~~s~~-al~~a~~la~~~~~~~~~l~~l~ 43 (167)
||..-++|++++-++-.+.. +++.+-.| ... +.+++++-
T Consensus 1 ~~l~~k~IllgVTGsiaa~k~a~~lir~L-~k~---G~~V~vv~ 40 (196)
T PRK08305 1 MSLKGKRIGFGLTGSHCTYDEVMPEIEKL-VDE---GAEVTPIV 40 (196)
T ss_pred CCCCCCEEEEEEcCHHHHHHHHHHHHHHH-HhC---cCEEEEEE
Confidence 56667899999999998888 57777665 444 46766553
No 46
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=89.97 E-value=3.6 Score=33.16 Aligned_cols=35 Identities=17% Similarity=0.121 Sum_probs=28.1
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEE
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLH 43 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~ 43 (167)
.++|++++-++-.+..+++..-.|.+ . +.+++++-
T Consensus 70 ~k~IllgVtGsIAayka~~lvr~L~k-~---G~~V~Vvm 104 (475)
T PRK13982 70 SKRVTLIIGGGIAAYKALDLIRRLKE-R---GAHVRCVL 104 (475)
T ss_pred CCEEEEEEccHHHHHHHHHHHHHHHh-C---cCEEEEEE
Confidence 58999999999999999998888754 4 56766654
No 47
>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=89.88 E-value=0.79 Score=28.52 Aligned_cols=65 Identities=12% Similarity=0.156 Sum_probs=42.3
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
+.+.+++.+++.|++++.. . -...++.+..+ ++|++++|..-+..+. ...+.+.....||.++++
T Consensus 16 la~km~~~a~~~gi~~~i~--a-~~~~e~~~~~~--~~Dvill~PQv~~~~~------~i~~~~~~~~ipv~~I~~ 80 (99)
T cd05565 16 LANALNKGAKERGVPLEAA--A-GAYGSHYDMIP--DYDLVILAPQMASYYD------ELKKDTDRLGIKLVTTTG 80 (99)
T ss_pred HHHHHHHHHHHCCCcEEEE--E-eeHHHHHHhcc--CCCEEEEcChHHHHHH------HHHHHhhhcCCCEEEeCH
Confidence 3455566777788876643 2 23444556666 8899999976443332 335667777899998874
No 48
>TIGR02039 CysD sulfate adenylyltransferase, small subunit. In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.
Probab=89.84 E-value=7 Score=29.45 Aligned_cols=41 Identities=22% Similarity=0.173 Sum_probs=32.6
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
++++++++.+..+|...+..+....... +..+.++|+-...
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~---~~p~~vl~IDTG~ 59 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPG---PLPFPLLHVDTGW 59 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhccc---CCCeEEEEEecCC
Confidence 5677889999999999999888776654 5678999997644
No 49
>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=89.63 E-value=2.1 Score=29.63 Aligned_cols=33 Identities=18% Similarity=0.101 Sum_probs=24.5
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
+||+|++-++..+..+.+..-.| ++. +.+++++
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L-~~~---g~~V~vi 33 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQL-TKL---GYDVTVL 33 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHH-HHC---CCEEEEE
Confidence 68999999999888888666555 444 5666554
No 50
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=89.49 E-value=1.2 Score=27.43 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=41.9
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
+...+.+.+.+.|++++.. ..+ ..++.+... ++|+|+++..=+..+. .....+...++||.++++..
T Consensus 19 l~~k~~~~~~~~gi~~~v~--a~~-~~~~~~~~~--~~Dvill~pqi~~~~~------~i~~~~~~~~ipv~~I~~~~ 85 (95)
T TIGR00853 19 LVNKMNKAAEEYGVPVKIA--AGS-YGAAGEKLD--DADVVLLAPQVAYMLP------DLKKETDKKGIPVEVINGAQ 85 (95)
T ss_pred HHHHHHHHHHHCCCcEEEE--Eec-HHHHHhhcC--CCCEEEECchHHHHHH------HHHHHhhhcCCCEEEeChhh
Confidence 3455666777788876543 222 333444454 7899999966433222 33556777789999998753
No 51
>PRK10867 signal recognition particle protein; Provisional
Probab=89.47 E-value=7.4 Score=31.03 Aligned_cols=93 Identities=14% Similarity=0.068 Sum_probs=53.7
Q ss_pred EEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHH
Q 040308 9 IVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAII 88 (167)
Q Consensus 9 Lv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (167)
++...++--+.-+...|..+++.. +.++.++..-.... ...
T Consensus 105 ~vG~~GsGKTTtaakLA~~l~~~~---G~kV~lV~~D~~R~------------------------------------aa~ 145 (433)
T PRK10867 105 MVGLQGAGKTTTAGKLAKYLKKKK---KKKVLLVAADVYRP------------------------------------AAI 145 (433)
T ss_pred EECCCCCcHHHHHHHHHHHHHHhc---CCcEEEEEccccch------------------------------------HHH
Confidence 344456666777888888887765 45666664332100 112
Q ss_pred HHHHHHhhhcCCcEEEEEEecChH---hHHHHHHHHhCCCEEEEeecCCCcccee
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAK---EKVCELVEKLHADLLVMGSHTFGPIKRM 140 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~ 140 (167)
+++..++...++++...-...+|. ...++.++..++|+||+-+.++......
T Consensus 146 eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~ 200 (433)
T PRK10867 146 EQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEE 200 (433)
T ss_pred HHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHH
Confidence 333445555676654332223443 3344566777899999999988765443
No 52
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=88.81 E-value=6.5 Score=27.70 Aligned_cols=82 Identities=13% Similarity=0.104 Sum_probs=55.8
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHH
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQ 85 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (167)
.+|.|-+.++-....++--|+. .... ++++.++-.-.+..
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~---~a~i~~Visd~~~A------------------------------------ 40 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKL---DAEIVAVISDKADA------------------------------------ 40 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCC---CcEEEEEEeCCCCC------------------------------------
Confidence 4788999999888888887777 4444 46666654433221
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecC-----hHhHHHHHHHHhCCCEEEEee
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGD-----AKEKVCELVEKLHADLLVMGS 131 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~-----~~~~I~~~a~~~~~dliV~g~ 131 (167)
...+.+++.|++....-..+- ..++|.+..++.++|+||+..
T Consensus 41 ----~~lerA~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAG 87 (200)
T COG0299 41 ----YALERAAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAG 87 (200)
T ss_pred ----HHHHHHHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcc
Confidence 123455677887655433332 578899999999999999964
No 53
>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=88.67 E-value=6 Score=27.17 Aligned_cols=36 Identities=19% Similarity=0.250 Sum_probs=26.3
Q ss_pred EEEEeec---------CChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 7 CVIVAVD---------GGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 7 ~ILv~id---------~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
+|+|.++ .++.+..++..|..++. . +.+++++.+-+
T Consensus 1 ~ilV~~e~~~~~~~~~l~~~~~e~l~~A~~l~~-~---~~~v~~v~~G~ 45 (181)
T cd01985 1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKE-Y---GGEVTALVIGP 45 (181)
T ss_pred CEEEEEEEEcCCCccccCHhhHHHHHHHHHHhh-c---CCeEEEEEECC
Confidence 4677776 56778889999999877 5 56777666544
No 54
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=88.23 E-value=2 Score=34.06 Aligned_cols=54 Identities=15% Similarity=0.304 Sum_probs=33.5
Q ss_pred EEec-ChHhHHHHHHHHhC---CCEEEEeecCCCcccee-cccc-hhHHHHhcCCCCEEEE
Q 040308 106 VVIG-DAKEKVCELVEKLH---ADLLVMGSHTFGPIKRM-FLGS-VSNYCANHAQCPVVVV 160 (167)
Q Consensus 106 v~~g-~~~~~I~~~a~~~~---~dliV~g~~~~~~~~~~-~~gs-~~~~i~~~~~~pVliv 160 (167)
.+.| ....+|++..+..+ +|+||+++.|.+ .+.+ -|.. ..-+-+..+++||+.-
T Consensus 171 ~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS-~eDL~~Fn~e~v~~ai~~~~~Pvis~ 230 (438)
T PRK00286 171 LVQGEGAAASIVAAIERANARGEDVLIVARGGGS-LEDLWAFNDEAVARAIAASRIPVISA 230 (438)
T ss_pred cCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCC-HHHhhccCcHHHHHHHHcCCCCEEEe
Confidence 4667 47777776554433 699999987754 4432 2222 2344556789998864
No 55
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=87.97 E-value=1.7 Score=26.76 Aligned_cols=67 Identities=15% Similarity=0.241 Sum_probs=41.0
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
+.+.+.+.+.+.|++++.. ..+ ..++.+... ++|+|+++..=+..+. ..+..+...++||.++++..
T Consensus 15 ~~~ki~~~~~~~~~~~~v~--~~~-~~~~~~~~~--~~Diil~~Pqv~~~~~------~i~~~~~~~~~pv~~I~~~~ 81 (96)
T cd05564 15 LVKKMKKAAEKRGIDAEIE--AVP-ESELEEYID--DADVVLLGPQVRYMLD------EVKKKAAEYGIPVAVIDMMD 81 (96)
T ss_pred HHHHHHHHHHHCCCceEEE--Eec-HHHHHHhcC--CCCEEEEChhHHHHHH------HHHHHhccCCCcEEEcChHh
Confidence 3456677778888875443 323 223434444 8999999866433232 22344556789999998754
No 56
>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=87.92 E-value=8.6 Score=28.08 Aligned_cols=127 Identities=17% Similarity=0.115 Sum_probs=70.3
Q ss_pred CCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHH
Q 040308 2 SGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQG 81 (167)
Q Consensus 2 ~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (167)
|+.+...=|+..+-.......+.++.+|+.. + --+.-|.-.+....+. ....+-..++..
T Consensus 24 mp~I~saNIACG~HAGDp~~M~~tv~lA~~~---g-V~iGAHPsyPD~~gFG----------------Rr~m~~s~~el~ 83 (242)
T PF03746_consen 24 MPYISSANIACGFHAGDPETMRRTVRLAKEH---G-VAIGAHPSYPDREGFG----------------RRSMDISPEELR 83 (242)
T ss_dssp TTT-SEEEEE-SSSS--HHHHHHHHHHHHHT---T--EEEEE---S-TTTTT-----------------S-----HHHHH
T ss_pred HHHhhhHHHhhcccccCHHHHHHHHHHHHHc---C-CEeccCCCCCCCCCCC----------------CCCCCCCHHHHH
Confidence 4556666678888888889999999999998 4 4445565444332211 222233344455
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEec----------ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVIG----------DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g----------~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
+.....+..+...+...|.++..+--.| ..++.|++.+++.+.+|.++|.. ||...+..+
T Consensus 84 ~~v~yQigaL~~~a~~~g~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a----------gs~~~~~A~ 153 (242)
T PF03746_consen 84 DSVLYQIGALQAIAAAEGVPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA----------GSELEKAAK 153 (242)
T ss_dssp HHHHHHHHHHHHHHHHTT--EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET----------TSHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC----------CcHHHHHHH
Confidence 5555556677788888888877654332 45888999999999999999976 333444555
Q ss_pred cCCCCEE
Q 040308 152 HAQCPVV 158 (167)
Q Consensus 152 ~~~~pVl 158 (167)
+...+++
T Consensus 154 ~~Gl~~~ 160 (242)
T PF03746_consen 154 ELGLPVV 160 (242)
T ss_dssp HCT--EE
T ss_pred HCCCcEE
Confidence 5555543
No 57
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit. Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.
Probab=87.79 E-value=4.6 Score=28.25 Aligned_cols=34 Identities=6% Similarity=-0.040 Sum_probs=24.8
Q ss_pred cEEEEeecCChhHHHHH-HHHHHhccccCCCCCeEEEEE
Q 040308 6 GCVIVAVDGGEESMDAL-RWAIDNLKLRSPAPGSFIVLH 43 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al-~~a~~la~~~~~~~~~l~~l~ 43 (167)
++|++++-++..+..++ +..-.| ... +.+++++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L-~~~---g~~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKL-VDE---GAEVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHH-HhC---cCEEEEEE
Confidence 58999999999999887 555444 555 56766553
No 58
>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=87.77 E-value=7.6 Score=27.28 Aligned_cols=112 Identities=13% Similarity=0.057 Sum_probs=60.8
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
++|.-.+.--.--+.+.|..+... +.++-++..-.... ..
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~----~~~v~lis~D~~R~------------------------------------ga 44 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK----GKKVALISADTYRI------------------------------------GA 44 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT----T--EEEEEESTSST------------------------------------HH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc----cccceeecCCCCCc------------------------------------cH
Confidence 344555666666677777776654 25666665432110 12
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHH---HHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc-CCCCEEEE
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKV---CELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH-AQCPVVVV 160 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~-~~~pVliv 160 (167)
.++++.+++..++++...-...++.+.+ ++..+..++|+|++-+.|++......+.... .++.. .+..+++|
T Consensus 45 ~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~-~~~~~~~~~~~~LV 120 (196)
T PF00448_consen 45 VEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELK-KLLEALNPDEVHLV 120 (196)
T ss_dssp HHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHH-HHHHHHSSSEEEEE
T ss_pred HHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHH-HHhhhcCCccceEE
Confidence 4555566666677754432222454444 4455556899999999998877654433333 23333 34545544
No 59
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=86.74 E-value=15 Score=29.64 Aligned_cols=105 Identities=17% Similarity=0.245 Sum_probs=61.7
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
.+++.++.+.--...+.+|..+-+.+ ++.++-..+ ... .++
T Consensus 361 dviltyg~s~vV~~ill~A~~~~k~f-----rVvVVDSRP--~~E--------------------------------G~~ 401 (556)
T KOG1467|consen 361 DVLLTYGSSSVVNMILLEAKELGKKF-----RVVVVDSRP--NLE--------------------------------GRK 401 (556)
T ss_pred CEEEEecchHHHHHHHHHHHHhCcce-----EEEEEeCCC--Ccc--------------------------------hHH
Confidence 57788888887777777777776655 454443222 211 222
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC---Cccceecccchh-HHHHhcCCCCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF---GPIKRMFLGSVS-NYCANHAQCPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~-~~i~~~~~~pVliv~~ 162 (167)
+ .+.+...|+++.+....+ ...|. ...+-|++|.+.- +.+-. -.|... .-+.++.++|||++=.
T Consensus 402 ~----lr~Lv~~GinctYv~I~a--~syim-----~evtkvfLGahailsNG~vys-R~GTa~valvAna~nVPVlVCCE 469 (556)
T KOG1467|consen 402 L----LRRLVDRGINCTYVLINA--ASYIM-----LEVTKVFLGAHAILSNGAVYS-RVGTACVALVANAFNVPVLVCCE 469 (556)
T ss_pred H----HHHHHHcCCCeEEEEehh--HHHHH-----HhcceeeechhhhhcCcchhh-hcchHHHHHHhcccCCCEEEEec
Confidence 2 334456799998876553 23333 3677999998852 22211 123333 3344667899999854
No 60
>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=86.66 E-value=1.3 Score=28.84 Aligned_cols=33 Identities=12% Similarity=0.034 Sum_probs=23.5
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
+||++++-++.....+.++...|.+. +.++.++
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~----g~~v~vv 33 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA----GWEVRVV 33 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT----TSEEEEE
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC----CCEEEEE
Confidence 68999999999988877777776654 3565554
No 61
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=86.56 E-value=13 Score=28.85 Aligned_cols=38 Identities=16% Similarity=0.184 Sum_probs=27.8
Q ss_pred CCCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEe
Q 040308 1 MSGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQ 45 (167)
Q Consensus 1 ~~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~ 45 (167)
|....++|+|++.+.-+|.-++..+ +.. +.+++.+|+.
T Consensus 1 ~~~~~~kVlVa~SGGvDSsv~a~lL----~~~---G~eV~av~~~ 38 (362)
T PRK14664 1 MKESKKRVLVGMSGGIDSTATCLML----QEQ---GYEIVGVTMR 38 (362)
T ss_pred CCCCCCEEEEEEeCCHHHHHHHHHH----HHc---CCcEEEEEec
Confidence 4556689999999998887666543 234 5678888884
No 62
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=86.54 E-value=4.3 Score=33.59 Aligned_cols=71 Identities=14% Similarity=0.126 Sum_probs=49.3
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEec-ChH---hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIG-DAK---EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+.+.+.+.+.|++++..+..- ... .++.+.+++.+++++|.++.....+.+ -+.-++.+||+-||
T Consensus 424 ~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~--------~~a~~t~~pvi~vp 495 (577)
T PLN02948 424 PTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPG--------MVASMTPLPVIGVP 495 (577)
T ss_pred HHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchH--------HHhhccCCCEEEcC
Confidence 345666777788899888877664 333 344445566788988888776655554 35567899999999
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
.+.
T Consensus 496 ~~~ 498 (577)
T PLN02948 496 VKT 498 (577)
T ss_pred CCC
Confidence 753
No 63
>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=86.40 E-value=3.6 Score=32.74 Aligned_cols=54 Identities=19% Similarity=0.311 Sum_probs=32.4
Q ss_pred EEec-ChHhHHHHHHH----HhCCCEEEEeecCCCcccee-cccc-hhHHHHhcCCCCEEEE
Q 040308 106 VVIG-DAKEKVCELVE----KLHADLLVMGSHTFGPIKRM-FLGS-VSNYCANHAQCPVVVV 160 (167)
Q Consensus 106 v~~g-~~~~~I~~~a~----~~~~dliV~g~~~~~~~~~~-~~gs-~~~~i~~~~~~pVliv 160 (167)
.+.| .....|+...+ ..++|+||+++.|.+ .+.+ .|.. ..-+-+..+++||+.-
T Consensus 165 ~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs-~eDL~~Fn~e~~~rai~~~~~Pvis~ 225 (432)
T TIGR00237 165 LVQGEGAVQSIVESIELANTKNECDVLIVGRGGGS-LEDLWSFNDEKVARAIFLSKIPIISA 225 (432)
T ss_pred cccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCC-HHHhhhcCcHHHHHHHHcCCCCEEEe
Confidence 4667 46666665443 234799999977644 4432 2222 2234457789999864
No 64
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=86.35 E-value=7.2 Score=29.41 Aligned_cols=76 Identities=12% Similarity=0.155 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEEecC-hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVVIGD-AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+.++++.+.+++.+..+..+..... -+..+.+.+...++|.||.+... +.+ ..+++.+...-.-|+-++|
T Consensus 17 ~~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GGD-GTv-----~evingl~~~~~~~LgilP 90 (301)
T COG1597 17 KAKKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGGD-GTV-----NEVANGLAGTDDPPLGILP 90 (301)
T ss_pred chhhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecCc-chH-----HHHHHHHhcCCCCceEEec
Confidence 3566777788888889988888876664 67888888777799999998554 222 2344544444333377777
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
...
T Consensus 91 ~GT 93 (301)
T COG1597 91 GGT 93 (301)
T ss_pred CCc
Confidence 543
No 65
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=85.26 E-value=5.4 Score=24.46 Aligned_cols=73 Identities=14% Similarity=0.120 Sum_probs=46.8
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEec-ChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIG-DAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.....+.+.++++|....++-..+ .... .|-.... ++|+||+=+.--+.-. -..+.+..+..+.|++.++.
T Consensus 10 ~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~~----~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHNA----MWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChHH----HHHHHHHHHHcCCcEEEECC
Confidence 345667777788888776662222 2222 3666676 8999999866433221 23556777888899999985
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
.+
T Consensus 84 ~~ 85 (97)
T PF10087_consen 84 RG 85 (97)
T ss_pred CC
Confidence 43
No 66
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=85.20 E-value=2.3 Score=26.71 Aligned_cols=68 Identities=10% Similarity=0.084 Sum_probs=41.4
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+++.+++.|++++.. ..+ ..++.+.....++|+|++|..=+... .....+...-++||.++++.
T Consensus 17 la~k~k~~~~e~gi~~~i~--a~~-~~e~~~~~~~~~~DvIll~PQi~~~~------~~i~~~~~~~~ipv~~I~~~ 84 (104)
T PRK09590 17 MAKKTTEYLKEQGKDIEVD--AIT-ATEGEKAIAAAEYDLYLVSPQTKMYF------KQFEEAGAKVGKPVVQIPPQ 84 (104)
T ss_pred HHHHHHHHHHHCCCceEEE--Eec-HHHHHHhhccCCCCEEEEChHHHHHH------HHHHHHhhhcCCCEEEeCHH
Confidence 3444566667788875532 223 33455555555799999996533222 23355666678999998753
No 67
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=84.29 E-value=12 Score=29.44 Aligned_cols=34 Identities=12% Similarity=0.203 Sum_probs=26.7
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
-++|++++-++..+..+++..-.|. .. +.+++++
T Consensus 3 ~k~IllgiTGSiaa~~~~~ll~~L~-~~---g~~V~vv 36 (390)
T TIGR00521 3 NKKILLGVTGGIAAYKTVELVRELV-RQ---GAEVKVI 36 (390)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHH-hC---CCEEEEE
Confidence 4799999999999998888887764 45 5676655
No 68
>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=84.22 E-value=1 Score=28.05 Aligned_cols=24 Identities=21% Similarity=0.469 Sum_probs=20.7
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
.-.++|.++++++++||+|+|...
T Consensus 49 ~d~~~l~~~a~~~~idlvvvGPE~ 72 (100)
T PF02844_consen 49 TDPEELADFAKENKIDLVVVGPEA 72 (100)
T ss_dssp T-HHHHHHHHHHTTESEEEESSHH
T ss_pred CCHHHHHHHHHHcCCCEEEECChH
Confidence 558899999999999999999753
No 69
>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=84.22 E-value=3.1 Score=27.39 Aligned_cols=63 Identities=14% Similarity=0.109 Sum_probs=43.2
Q ss_pred EEEEEEe--cChHhHHHHHHHHhCCCEEEEeecCCC----ccceecccchhHHHHhcC-CCCEEEEcCCC
Q 040308 102 VKSEVVI--GDAKEKVCELVEKLHADLLVMGSHTFG----PIKRMFLGSVSNYCANHA-QCPVVVVKGKG 164 (167)
Q Consensus 102 ~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~~~----~~~~~~~gs~~~~i~~~~-~~pVliv~~~~ 164 (167)
..+.... +...+.|.+++++.+++.+|+|.+-.. .......-.+++.+-... ++||..+-..-
T Consensus 28 l~~i~~~~~~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DEr~ 97 (135)
T PF03652_consen 28 LETIPRRNREKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDERL 97 (135)
T ss_dssp EEEEEECCCCCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEECSC
T ss_pred eEEEECCCCchHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECCCh
Confidence 3444433 468999999999999999999976321 111112345667777777 89999987654
No 70
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=84.21 E-value=2.4 Score=28.07 Aligned_cols=54 Identities=19% Similarity=0.148 Sum_probs=37.0
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCC-ccc---eecccchhHHHHhcCCCCEEEEcCCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFG-PIK---RMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~-~~~---~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
..+.|.+++++.+++.||+|-+-.. +.. ....-.+++.+-...++||..+-..-
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr~ 99 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDERL 99 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 4788999999999999999955321 111 11233566777666789998886543
No 71
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=84.19 E-value=20 Score=28.66 Aligned_cols=93 Identities=12% Similarity=0.066 Sum_probs=52.9
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
+++..-++--+.-+...|..+.... +.++.++..-.... ..
T Consensus 103 ~~vG~~GsGKTTtaakLA~~l~~~~---g~kV~lV~~D~~R~------------------------------------~a 143 (428)
T TIGR00959 103 LMVGLQGSGKTTTCGKLAYYLKKKQ---GKKVLLVACDLYRP------------------------------------AA 143 (428)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhC---CCeEEEEeccccch------------------------------------HH
Confidence 3444456666777788887776445 45666664332100 01
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChH---hHHHHHHHHhCCCEEEEeecCCCccce
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAK---EKVCELVEKLHADLLVMGSHTFGPIKR 139 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~ 139 (167)
.+++..++...++++.......+|. ...++.+...++|+||+.+.++.....
T Consensus 144 ~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~ 198 (428)
T TIGR00959 144 IEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQIDE 198 (428)
T ss_pred HHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccCH
Confidence 2234445555666654432222443 334555666789999999998776544
No 72
>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=83.79 E-value=15 Score=26.90 Aligned_cols=36 Identities=19% Similarity=0.221 Sum_probs=27.7
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
.+++++|++.+--+|.-++..+... +.++..+|+..
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~-------g~~v~av~~~~ 46 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA-------GTEVLAITVVS 46 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh-------CCCEEEEEecC
Confidence 3578999999999998777766553 34688888864
No 73
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=82.99 E-value=12 Score=27.84 Aligned_cols=91 Identities=15% Similarity=0.216 Sum_probs=56.0
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
+|=|.+.....+..-++.|-++.+.+ +.. .+.|+..|.++. .+.+.
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Y---g~~-~I~h~tyPdnf~------------------------------~e~Et 49 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKY---GDV-MIKHVTYPDNFM------------------------------SEQET 49 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHH---HHH-EEEEEE--TTGG------------------------------GCHHH
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHh---Ccc-eEEEEeCCCccc------------------------------chHHH
Confidence 46677777778888899999999999 554 888888877654 23556
Q ss_pred HHHHHHHHhhhcCCcEEEEEEe-cC-hHhHHHHHHHHhCCCEEEEeecC
Q 040308 87 IIDHALKICSEKNVNVKSEVVI-GD-AKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~-g~-~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
...++..++.+..+ ..++.. +. -.-+-++-+++...|+|.+....
T Consensus 50 tIskI~~lAdDp~m--KaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~ 96 (275)
T PF12683_consen 50 TISKIVSLADDPDM--KAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEP 96 (275)
T ss_dssp HHHHHHGGGG-TTE--EEEEEE-SS---HHHHHHHHHH-TTSEEEESS-
T ss_pred HHHHHHHhccCCCc--cEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCC
Confidence 66666676655444 445444 32 24445566778899999998653
No 74
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=82.47 E-value=14 Score=26.37 Aligned_cols=66 Identities=14% Similarity=0.261 Sum_probs=44.7
Q ss_pred HHhhhcCCcEEEEEEec---ChH---hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 93 KICSEKNVNVKSEVVIG---DAK---EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g---~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+.++.+... -.| +|. ....+..++.++|.||+++....... .+-++.++..+..|.+|+...
T Consensus 25 ErAdRedi~vrVv-gsgaKM~Pe~veaav~~~~e~~~pDfvi~isPNpaaPG----P~kARE~l~~s~~PaiiigDa 96 (277)
T COG1927 25 ERADREDIEVRVV-GSGAKMDPECVEAAVTEMLEEFNPDFVIYISPNPAAPG----PKKAREILSDSDVPAIIIGDA 96 (277)
T ss_pred hhcccCCceEEEe-ccccccChHHHHHHHHHHHHhcCCCEEEEeCCCCCCCC----chHHHHHHhhcCCCEEEecCC
Confidence 3444556665443 223 333 44557788899999999987654332 346789999999999999754
No 75
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=82.35 E-value=19 Score=27.22 Aligned_cols=104 Identities=20% Similarity=0.165 Sum_probs=0.0
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHH
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQA 86 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (167)
.++....+|......+..|..-.+++ ++++.--.|...
T Consensus 121 ~~IlTh~~S~~v~~~l~~A~~~~k~~-----~V~VtESRP~~e------------------------------------- 158 (301)
T COG1184 121 DVILTHSFSKTVLEVLKTAADRGKRF-----KVIVTESRPRGE------------------------------------- 158 (301)
T ss_pred CEEEEecCcHHHHHHHHHhhhcCCce-----EEEEEcCCCcch-------------------------------------
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecC---CCccceecccchhHHHHhcCCCCEEEE
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHT---FGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~---~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
-..+.+.+.++|+++..++.. ++-.+.+ .+|.+++|++. -+.+-...-.+...-..++...|++++
T Consensus 159 -G~~~ak~L~~~gI~~~~I~Ds-----a~~~~~~--~vd~VivGad~I~~nG~lvnkiGT~~lA~~A~e~~~Pf~v~ 227 (301)
T COG1184 159 -GRIMAKELRQSGIPVTVIVDS-----AVGAFMS--RVDKVLVGADAILANGALVNKIGTSPLALAARELRVPFYVV 227 (301)
T ss_pred -HHHHHHHHHHcCCceEEEech-----HHHHHHH--hCCEEEECccceecCCcEEeccchHHHHHHHHHhCCCEEEE
No 76
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=82.34 E-value=14 Score=25.50 Aligned_cols=81 Identities=20% Similarity=0.171 Sum_probs=54.2
Q ss_pred HHHHHHHHHhccccCCCCCeEEEEEEeC--CCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040308 19 MDALRWAIDNLKLRSPAPGSFIVLHVQP--PPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKICS 96 (167)
Q Consensus 19 ~~al~~a~~la~~~~~~~~~l~~l~v~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (167)
..-+..++++|+.. +++...+|... ..... . .+...+...+.++.+.+.+.
T Consensus 70 ~~~~~~~i~~a~~l---g~~~i~~~~g~~~~~~~~--------------------~----~~~~~~~~~~~l~~l~~~a~ 122 (213)
T PF01261_consen 70 LEYLKKAIDLAKRL---GAKYIVVHSGRYPSGPED--------------------D----TEENWERLAENLRELAEIAE 122 (213)
T ss_dssp HHHHHHHHHHHHHH---TBSEEEEECTTESSSTTS--------------------S----HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh---CCCceeecCcccccccCC--------------------C----HHHHHHHHHHHHHHHHhhhh
Confidence 66788999999999 89998888552 11100 0 12344555667777888888
Q ss_pred hcCCcEEEEEEecCh---H---hHHHHHHHHhCCCE
Q 040308 97 EKNVNVKSEVVIGDA---K---EKVCELVEKLHADL 126 (167)
Q Consensus 97 ~~~~~~~~~v~~g~~---~---~~I~~~a~~~~~dl 126 (167)
+.|+.+..+...+.. . +.+.+++++.+.+-
T Consensus 123 ~~gv~i~lE~~~~~~~~~~~~~~~~~~~l~~~~~~~ 158 (213)
T PF01261_consen 123 EYGVRIALENHPGPFSETPFSVEEIYRLLEEVDSPN 158 (213)
T ss_dssp HHTSEEEEE-SSSSSSSEESSHHHHHHHHHHHTTTT
T ss_pred hhcceEEEecccCccccchhhHHHHHHHHhhcCCCc
Confidence 889877666544433 2 88888888777554
No 77
>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=82.18 E-value=16 Score=26.04 Aligned_cols=81 Identities=17% Similarity=0.238 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHhh-hcCCcEEEEEEecC------------hHhHHHHHHHHh-CCCEEEEeecCCCccceecc-cchhHH
Q 040308 84 TQAIIDHALKICS-EKNVNVKSEVVIGD------------AKEKVCELVEKL-HADLLVMGSHTFGPIKRMFL-GSVSNY 148 (167)
Q Consensus 84 ~~~~~~~~~~~~~-~~~~~~~~~v~~g~------------~~~~I~~~a~~~-~~dliV~g~~~~~~~~~~~~-gs~~~~ 148 (167)
+...++.+.+.+. ..+.+++......+ ..+.|++..+.. ..|.|++-..-...-...|+ +-+.+.
T Consensus 108 a~~~l~~~~~~l~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~e 187 (204)
T PF04459_consen 108 AYPFLKPLVEKLNRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLEE 187 (204)
T ss_pred HHHHHHHHHHHHhccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHHH
Confidence 4455555555552 23566666544322 367777766643 44899987654444333443 667899
Q ss_pred HHhcCCCCEEEEcCCC
Q 040308 149 CANHAQCPVVVVKGKG 164 (167)
Q Consensus 149 i~~~~~~pVliv~~~~ 164 (167)
+.+..++||.+|+...
T Consensus 188 l~~~lg~~v~vv~~~~ 203 (204)
T PF04459_consen 188 LEERLGVPVIVVRGPG 203 (204)
T ss_pred HHHHhCCcEEEeCCCC
Confidence 9999999999998765
No 78
>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=82.11 E-value=16 Score=28.12 Aligned_cols=69 Identities=17% Similarity=0.176 Sum_probs=41.9
Q ss_pred HHHHHHHhhhcCCcEEEEEEecCh----HhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDA----KEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+++.+.+.+.++.+.+.+..|++ .+.+.+.+++.++|.|| +|.... . .++..+......|++.||.
T Consensus 38 ~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs~--~------D~aK~ia~~~~~p~i~VPT 109 (349)
T cd08550 38 RPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGGKT--L------DTAKAVADRLDKPIVIVPT 109 (349)
T ss_pred HHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCcHH--H------HHHHHHHHHcCCCEEEeCC
Confidence 455566666667766555545542 45566778888999877 553221 1 2333343445789999997
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 110 ta 111 (349)
T cd08550 110 IA 111 (349)
T ss_pred cc
Confidence 54
No 79
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=81.70 E-value=25 Score=28.10 Aligned_cols=96 Identities=13% Similarity=0.125 Sum_probs=62.3
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
.+|.+-++--.-.+...|..+-+ . +.++-++..-... -..
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lkk-~---~~kvllVaaD~~R------------------------------------pAA 143 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLKK-K---GKKVLLVAADTYR------------------------------------PAA 143 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHHH-c---CCceEEEecccCC------------------------------------hHH
Confidence 45666777767777777777777 5 5566555432211 012
Q ss_pred HHHHHHHhhhcCCcEEEEEEecCh---HhHHHHHHHHhCCCEEEEeecCCCccceeccc
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDA---KEKVCELVEKLHADLLVMGSHTFGPIKRMFLG 143 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~---~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g 143 (167)
.++++....+.++++-.....-+| ++.=++.+++..+|+||+.+-||.....-++.
T Consensus 144 ~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~ 202 (451)
T COG0541 144 IEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMD 202 (451)
T ss_pred HHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHH
Confidence 455667777778776554222244 46667788889999999999998888765543
No 80
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=81.66 E-value=20 Score=26.86 Aligned_cols=83 Identities=12% Similarity=0.154 Sum_probs=52.1
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
.+.||.|-+.++.++..++-.+.. .... ++++.++-.-.+.
T Consensus 83 ~~~ki~vl~Sg~g~nl~~l~~~~~-~g~l---~~~i~~visn~~~----------------------------------- 123 (280)
T TIGR00655 83 KLKRVAILVSKEDHCLGDLLWRWY-SGEL---DAEIALVISNHED----------------------------------- 123 (280)
T ss_pred CCcEEEEEEcCCChhHHHHHHHHH-cCCC---CcEEEEEEEcChh-----------------------------------
Confidence 356889999999888888777754 2333 3455444222210
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe----cChHhHHHHHHHHhCCCEEEEeec
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI----GDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~----g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+...+++.|+++...-.. .....++.+..++.++|++|+...
T Consensus 124 -------~~~~A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 124 -------LRSLVERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred -------HHHHHHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 112356778887554321 123567888899999999999854
No 81
>PRK11914 diacylglycerol kinase; Reviewed
Probab=81.03 E-value=14 Score=27.73 Aligned_cols=70 Identities=16% Similarity=0.150 Sum_probs=40.4
Q ss_pred HHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 89 DHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
+++.+.+.+.++.+....... .-+.++.+.+.+.++|+||+.... +.+.. +++.+. ..+.|+-++|....
T Consensus 29 ~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GGD-GTi~e-----vv~~l~-~~~~~lgiiP~GT~ 99 (306)
T PRK11914 29 ERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVVGGD-GVISN-----ALQVLA-GTDIPLGIIPAGTG 99 (306)
T ss_pred HHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEECCc-hHHHH-----HhHHhc-cCCCcEEEEeCCCc
Confidence 344445566677665544332 346666666666678977765333 33332 334443 45789999997543
No 82
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=80.86 E-value=9.6 Score=29.96 Aligned_cols=115 Identities=16% Similarity=0.168 Sum_probs=64.6
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
.-++|||++.++-.+.+++..+-.|-+. ++++.++-.-....+-
T Consensus 3 ~~k~ill~v~gsiaayk~~~l~r~L~~~----ga~v~vvmt~~a~~fv-------------------------------- 46 (392)
T COG0452 3 EGKRILLGVTGSIAAYKSVELVRLLRRS----GAEVRVVMTESARKFI-------------------------------- 46 (392)
T ss_pred CCceEEEEecCchhhhhHHHHHHHHhhC----CCeeEEEcchhhhhhc--------------------------------
Confidence 3469999999999988888777665554 4777776443322211
Q ss_pred HHHHHHHHH-HHhhhcCCcEEEEEEecChHhHH--HHHHHHhCCCEEEEeecCCCcccee---cccchhHHHHhcCCCCE
Q 040308 84 TQAIIDHAL-KICSEKNVNVKSEVVIGDAKEKV--CELVEKLHADLLVMGSHTFGPIKRM---FLGSVSNYCANHAQCPV 157 (167)
Q Consensus 84 ~~~~~~~~~-~~~~~~~~~~~~~v~~g~~~~~I--~~~a~~~~~dliV~g~~~~~~~~~~---~~gs~~~~i~~~~~~pV 157 (167)
.... +.+.+..+.. ..+......+ +++++ .+|++++.......+.++ +-...+...+..+.+|+
T Consensus 47 -----~p~~~~~~s~~~v~t---~~~~~~~~~~~HI~l~~--~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~~p~ 116 (392)
T COG0452 47 -----TPLTFQALSGNPVYT---LLDEELTGSVEHIELAR--WADLLLVAPATANTIAKLAVGIADNLSTTTLLAAKAPL 116 (392)
T ss_pred -----CcccHHHhhCCCccc---cccccccccccHhhhhh--ccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhcCcE
Confidence 1111 1222222221 2222222222 33444 899999987766666542 22233334555667799
Q ss_pred EEEcCCC
Q 040308 158 VVVKGKG 164 (167)
Q Consensus 158 liv~~~~ 164 (167)
++.|.-.
T Consensus 117 ~~aPamn 123 (392)
T COG0452 117 VLAPAMN 123 (392)
T ss_pred EEecCcC
Confidence 9998643
No 83
>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=80.76 E-value=7.9 Score=28.75 Aligned_cols=48 Identities=27% Similarity=0.407 Sum_probs=37.6
Q ss_pred HHHHHHHHHhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecC
Q 040308 86 AIIDHALKICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..++.+.+..++.++++.-. +.+..-.+.|..+.++..+|+||+..|.
T Consensus 115 ~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 115 EYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 45666777777778776644 5666889999999999999999997654
No 84
>PLN00200 argininosuccinate synthase; Provisional
Probab=80.68 E-value=26 Score=27.72 Aligned_cols=39 Identities=21% Similarity=0.368 Sum_probs=31.2
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+|+++|+|++.+.-+|.-++.++.+ .+ +.+++.+++-..
T Consensus 3 ~~~~kVvva~SGGlDSsvla~~L~e---~~---G~eViav~id~G 41 (404)
T PLN00200 3 GKLNKVVLAYSGGLDTSVILKWLRE---NY---GCEVVCFTADVG 41 (404)
T ss_pred CCCCeEEEEEeCCHHHHHHHHHHHH---hh---CCeEEEEEEECC
Confidence 4678999999999999888877755 35 568999998764
No 85
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=80.62 E-value=22 Score=26.70 Aligned_cols=40 Identities=18% Similarity=0.355 Sum_probs=28.1
Q ss_pred HhhhcCCcEEEEEEe----cChHhHHHHHHHHhCCCEEEEeecC
Q 040308 94 ICSEKNVNVKSEVVI----GDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 94 ~~~~~~~~~~~~v~~----g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
.+++.|+++...-.. .+...++.+..++.++|++|+....
T Consensus 132 lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 132 LVERFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred HHHHhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence 367778887653221 2345678888999999999998643
No 86
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=80.57 E-value=10 Score=23.92 Aligned_cols=66 Identities=11% Similarity=-0.016 Sum_probs=41.6
Q ss_pred hhhcCCcEEEEEEecC-hHhHHHHHHHH-hCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 95 CSEKNVNVKSEVVIGD-AKEKVCELVEK-LHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~-~~~~I~~~a~~-~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
+++.|++++....... -...|.+..++ .++|+||--..+...-...--|....+.....++|++.-
T Consensus 38 L~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T~ 105 (112)
T cd00532 38 LADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTTP 105 (112)
T ss_pred HHHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEEC
Confidence 3457888776543211 23668899999 999999986553331111123556677777778998753
No 87
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=80.51 E-value=23 Score=26.97 Aligned_cols=41 Identities=20% Similarity=0.231 Sum_probs=32.7
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
+++++++..+..+|.-.+..+...+... +..+-++||-...
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~---~~~~pvl~VDTG~ 77 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPT---RPPFPLLHVDTTW 77 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhccc---CCCeeEEEeCCCC
Confidence 5678899999999999999888876555 5678899986643
No 88
>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA. The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.
Probab=80.48 E-value=13 Score=25.79 Aligned_cols=33 Identities=9% Similarity=0.013 Sum_probs=24.7
Q ss_pred EEEEeecCCh-hHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 7 CVIVAVDGGE-ESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 7 ~ILv~id~s~-~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
||++++-++- .-...+++...++++. +.++.++
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~---g~eV~vv 34 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRY---GDEIDVF 34 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhc---CCEEEEE
Confidence 6889999984 4455788888888777 6776655
No 89
>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=80.36 E-value=6.9 Score=29.17 Aligned_cols=49 Identities=22% Similarity=0.403 Sum_probs=38.9
Q ss_pred HHHHHHHHHHhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecC
Q 040308 85 QAIIDHALKICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
...++.+.+..++.++++.-. +.+.+-.+.|.++.++..+|+||+..|.
T Consensus 115 ~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 164 (287)
T PF05582_consen 115 EEYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGHD 164 (287)
T ss_pred HHHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCch
Confidence 456777777778888877654 5556789999999999999999997654
No 90
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=79.97 E-value=12 Score=23.16 Aligned_cols=67 Identities=22% Similarity=0.360 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe-----------c-ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI-----------G-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~-----------g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
.+..++++..++...|+.+-..+.. | .-.++|.+.++..++|+||.... -++.+. ..+-+
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~-Lsp~Q~-------rNLe~ 77 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE-LSPSQQ-------RNLEK 77 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC-CCHHHH-------HHHHH
Confidence 4556777778888888655433222 3 24889999999999999999854 343332 34444
Q ss_pred cCCCCEE
Q 040308 152 HAQCPVV 158 (167)
Q Consensus 152 ~~~~pVl 158 (167)
..+|+|+
T Consensus 78 ~~~~~V~ 84 (95)
T PF13167_consen 78 ALGVKVI 84 (95)
T ss_pred HHCCeee
Confidence 4466664
No 91
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=79.97 E-value=15 Score=24.38 Aligned_cols=37 Identities=24% Similarity=0.328 Sum_probs=26.2
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+|+|++.+..+|...+..+....... .++.++|+-..
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~----~~~~~v~~dtg 37 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL----KPVPVIFLDTG 37 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc----cCceEEEeCCC
Confidence 57899999999998888776654321 26777777553
No 92
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=79.03 E-value=15 Score=26.55 Aligned_cols=79 Identities=10% Similarity=0.003 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEe-----cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCC
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVI-----GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCP 156 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~-----g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~p 156 (167)
......++.+.+.+++.|.++...-.. ++..+.|..+.++.+++-|++-..+--.+.+ ..+.......||
T Consensus 45 ~l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~-----~l~~~~~~~~i~ 119 (224)
T PF04244_consen 45 VLFFSAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQ-----RLESLAQQLGIP 119 (224)
T ss_dssp HHHHHHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHH-----HHHH----SSS-
T ss_pred HHHHHHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHH-----HHHhhhcccCCc
Confidence 345667788888888899999887555 3668899999999999999988776544443 445677788899
Q ss_pred EEEEcCCCC
Q 040308 157 VVVVKGKGT 165 (167)
Q Consensus 157 Vliv~~~~~ 165 (167)
+-+++....
T Consensus 120 ~~~~~~~~F 128 (224)
T PF04244_consen 120 LEVLEDPHF 128 (224)
T ss_dssp EEEE--TTS
T ss_pred eEEeCCCCc
Confidence 999987643
No 93
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=78.69 E-value=8.3 Score=30.67 Aligned_cols=75 Identities=17% Similarity=0.279 Sum_probs=40.6
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEec-ChHhHHHHH---HHH-hCCCEEEEeecCCCccceec-c-cchhHHHHhcCCCCE
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIG-DAKEKVCEL---VEK-LHADLLVMGSHTFGPIKRMF-L-GSVSNYCANHAQCPV 157 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~---a~~-~~~dliV~g~~~~~~~~~~~-~-gs~~~~i~~~~~~pV 157 (167)
+.++..+...+....+-+-...+.| +...+|++. +++ ..+|+||+|+.|.+ ++.+. | .-...+-+..|+.||
T Consensus 150 rDIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGS-iEDLW~FNdE~vaRAi~~s~iPv 228 (440)
T COG1570 150 RDILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGGS-IEDLWAFNDEIVARAIAASRIPV 228 (440)
T ss_pred HHHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcch-HHHHhccChHHHHHHHHhCCCCe
Confidence 3344444444333333333334566 566777654 333 34999999977644 55431 2 122334556788998
Q ss_pred EEE
Q 040308 158 VVV 160 (167)
Q Consensus 158 liv 160 (167)
+--
T Consensus 229 ISA 231 (440)
T COG1570 229 ISA 231 (440)
T ss_pred Eee
Confidence 753
No 94
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=78.53 E-value=19 Score=24.71 Aligned_cols=39 Identities=10% Similarity=-0.023 Sum_probs=25.5
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
||++.+-++..+..+-+.+..+.+...| +.+|.+....+
T Consensus 2 r~V~vtld~~~~~al~~aa~~l~~~~~p-~l~l~~~~~~e 40 (164)
T PF11965_consen 2 RFVIVTLDEHYNSALYRAAARLNRDHCP-GLELSVFAAAE 40 (164)
T ss_pred EEEEEeCchhhhHHHHHHHHHHhhccCC-CeEEEEEeHHH
Confidence 4566666666777777777777777545 66666665443
No 95
>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=78.19 E-value=21 Score=25.16 Aligned_cols=34 Identities=18% Similarity=0.055 Sum_probs=24.8
Q ss_pred EeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 10 VAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 10 v~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
++.-.++.+..++..+..+++.. +.+++++.+-.
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~---g~~v~av~~G~ 62 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKY---GGEVTVVSMGP 62 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhc---CCEEEEEEECC
Confidence 34445677888999999998877 67777766544
No 96
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=77.81 E-value=22 Score=25.10 Aligned_cols=65 Identities=8% Similarity=0.062 Sum_probs=38.2
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEe----ecCCCccceecccchhHHHHhcCC-CCEEEEcC
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMG----SHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKG 162 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g----~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~ 162 (167)
+...+...+..++. +..-+-.++.+..+....+|++++. -...++. ..++.+.+..+ ++|+++-.
T Consensus 16 l~~~L~~~~~~~~v-v~~~~~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~------~~i~~i~~~~p~~~iivlt~ 85 (207)
T PRK15411 16 LTGYLLSRGVKKRE-INDIETVDDLAIACDSLRPSVVFINEDCFIHDASNS------QRIKQIINQHPNTLFIVFMA 85 (207)
T ss_pred HHHHHHhCCCcceE-EEecCCHHHHHHHHhccCCCEEEEeCcccCCCCChH------HHHHHHHHHCCCCeEEEEEC
Confidence 34444433433332 3333445555667777789999999 3333221 36677777666 89888844
No 97
>TIGR01826 CofD_related conserved hypothetical protein, cofD-related. This model represents a subfamily of conserved hypothetical proteins that forms a sister group to the family of CofD, (TIGR01819), LPPG:Fo 2-phospho-L-lactate transferase, an enzyme of cytochrome F420 biosynthesis. Both this family and TIGR01819 are within the scope of the pfam model pfam01933.
Probab=77.49 E-value=6.5 Score=29.84 Aligned_cols=51 Identities=20% Similarity=0.356 Sum_probs=35.5
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC--CCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT--FGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~--~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+..+.++..+ ++|+||+|... .+-+..++...+.+ .+++++||++.|.+-
T Consensus 161 ~a~~~al~AI~--~ADlIvlgPGSlyTSIiPnLlv~gI~e-AI~~s~a~kV~v~N~ 213 (310)
T TIGR01826 161 PALREAVEAIR--EADLIILGPGSLYTSIIPNLLVPEIAE-ALRESKAPKVYVCNL 213 (310)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhchhcCchhHHH-HHHhCCCCEEEEeCC
Confidence 45677888888 99999999664 23333444544555 556789999988764
No 98
>cd07044 CofD_YvcK Family of CofD-like proteins and proteins related to YvcK. CofD is a 2-phospho-L-lactate transferase that catalyzes the last step in the biosynthesis of coenzyme F(420)-0 (F(420) without polyglutamate) by transferring the lactyl phosphate moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0). F420 is a hydride carrier, important for energy metabolism of methanogenic archaea, as well as for the biosynthesis of other natural products, like tetracycline in Streptomyces. F420 and some of its precursors are also utilized as cofactors for enzymes, like DNA photolyase in Mycobacterium tuberculosis. YvcK from Bacillus subtilis is a member of a family of mostly uncharacterized proteins and has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and pentose phosphate pathway. Both families appear to have a conserved phosphate binding site, but ha
Probab=77.06 E-value=3.9 Score=31.00 Aligned_cols=50 Identities=18% Similarity=0.281 Sum_probs=34.3
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC--CCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT--FGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~--~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+..+.++..+ ++|+||+|... .+-+..++...+.+ .+++++||++.|.+
T Consensus 163 ~~~~~~l~AI~--~ADlIvlgPGSlyTSI~P~Llv~gi~e-Ai~~s~a~kV~V~n 214 (309)
T cd07044 163 SPSREVLEAIE--KADNIVIGPGSLYTSILPNISVPGIRE-ALKKTXAKKVYVSN 214 (309)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhhhhcCcHhHHH-HHHhcCCCeEEECC
Confidence 45677888888 89999999664 23333344444444 56678999998875
No 99
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=76.91 E-value=17 Score=26.46 Aligned_cols=54 Identities=13% Similarity=0.279 Sum_probs=39.9
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
....+|.+.+.+.+.|.|.+|-...-..+. .-.+.++|-..++.||++.|....
T Consensus 28 ~~~~ei~~~~~~~GTDaImIGGS~gvt~~~--~~~~v~~ik~~~~lPvilfP~~~~ 81 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIGGSDGVTEEN--VDNVVEAIKERTDLPVILFPGSPS 81 (240)
T ss_pred cccHHHHHHHHHcCCCEEEECCcccccHHH--HHHHHHHHHhhcCCCEEEecCChh
Confidence 456788999999999999999664322222 345667777789999999997654
No 100
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=76.85 E-value=38 Score=27.37 Aligned_cols=90 Identities=16% Similarity=0.129 Sum_probs=59.5
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
|..-....+|.+|..-.... ++++++.++.... ..-........+-++.+.
T Consensus 11 DLR~~DN~aL~~A~~~~~~~------~~~vfi~~~~~~~-----------------------~~~~~~~~Fl~~sL~~L~ 61 (461)
T COG0415 11 DLRLTDNAALAAACQSGQPV------IIAVFILDPEQLG-----------------------HASPRHAAFLLQSLQALQ 61 (461)
T ss_pred ccccCChHHHHHHHhcCCCc------eEEEEEechhhcc-----------------------ccCHHHHHHHHHHHHHHH
Confidence 55556677888887754433 3667777654322 001223344555566777
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecC
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
+.+.+.|++. .+..|++.+.+.+++++.+++-|+-...-
T Consensus 62 ~~L~~~gi~L--~v~~~~~~~~l~~~~~~~~~~~v~~n~~~ 100 (461)
T COG0415 62 QSLAELGIPL--LVREGDPEQVLPELAKQLAATTVFWNRDY 100 (461)
T ss_pred HHHHHcCCce--EEEeCCHHHHHHHHHHHhCcceEEeeeee
Confidence 7777777764 56889999999999999998777776553
No 101
>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=76.15 E-value=6.3 Score=25.78 Aligned_cols=55 Identities=16% Similarity=0.085 Sum_probs=37.2
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecCCCc----cceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHTFGP----IKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~~~~----~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
...+.|.+++++.+++.||+|-+-... ......-.+++.+-...++||..+-..-
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr~ 93 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDERL 93 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCc
Confidence 457889999999999999999543211 1111223466677666789999887553
No 102
>PRK02929 L-arabinose isomerase; Provisional
Probab=75.98 E-value=29 Score=28.36 Aligned_cols=67 Identities=13% Similarity=0.162 Sum_probs=42.6
Q ss_pred HHHHHHhhhcC-CcEEEEEEec--ChHhHHHHHHHHhC----CCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 89 DHALKICSEKN-VNVKSEVVIG--DAKEKVCELVEKLH----ADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 89 ~~~~~~~~~~~-~~~~~~v~~g--~~~~~I~~~a~~~~----~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
+++.+.+...+ +.++.. ..+ +-.++|.+.+++.+ +|.||+-.+..++-+ ..-.+++..++|||+..
T Consensus 32 ~~i~~~l~~~~~~~~~vv-~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------~~i~~~~~l~~PvL~~~ 104 (499)
T PRK02929 32 EEIVDGLNASGKLPVKIV-LKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPAK------MWIRGLSALQKPLLHLH 104 (499)
T ss_pred HHHHHHhcccCCCCeEEE-EcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchHH------HHHHHHHHcCCCEEEEe
Confidence 33344434332 445544 222 34666666666666 999999988766544 33456888999999987
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 105 ~ 105 (499)
T PRK02929 105 T 105 (499)
T ss_pred c
Confidence 6
No 103
>PRK08185 hypothetical protein; Provisional
Probab=75.91 E-value=13 Score=27.89 Aligned_cols=58 Identities=14% Similarity=-0.066 Sum_probs=43.8
Q ss_pred EEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 106 VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 106 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+..-.....+++.|++.+..+|+..+.+.-.....-+......+..++++||.+-=..
T Consensus 20 ~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vPV~lHLDH 77 (283)
T PRK08185 20 VADSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSPVPFVIHLDH 77 (283)
T ss_pred eCCHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCCCCEEEECCC
Confidence 3444789999999999999999998876533323336778888999999998775443
No 104
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=75.86 E-value=6.6 Score=27.42 Aligned_cols=35 Identities=11% Similarity=0.106 Sum_probs=29.0
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
|++|++++.++-.+..+++..-.|.+.. +.+++++
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~---g~~V~vv 35 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVG---EIETHLV 35 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhc---CCeEEEE
Confidence 5799999999999999999998887655 5676655
No 105
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=75.84 E-value=31 Score=25.93 Aligned_cols=40 Identities=15% Similarity=0.316 Sum_probs=28.2
Q ss_pred HHhhhcCCcEEEEEEe----cChHhHHHHHHHHhCCCEEEEeec
Q 040308 93 KICSEKNVNVKSEVVI----GDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~----g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+.+++.|+++...-.. ......+.+..++.++|++|+...
T Consensus 135 ~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 178 (289)
T PRK13010 135 PLAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARY 178 (289)
T ss_pred HHHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehh
Confidence 5567778887653211 224567889999999999999854
No 106
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=75.79 E-value=11 Score=26.72 Aligned_cols=45 Identities=22% Similarity=0.278 Sum_probs=30.3
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHh---CCCEEEEeecC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKL---HADLLVMGSHT 133 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~---~~dliV~g~~~ 133 (167)
+.+++.+.+.|+.-...+..|+..+.+-++..+. .+|+|++-+..
T Consensus 84 ~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K 131 (205)
T PF01596_consen 84 EIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDADK 131 (205)
T ss_dssp HHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTG
T ss_pred HHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEcccc
Confidence 3444555566654445567788888887777754 69999999865
No 107
>PF09043 Lys-AminoMut_A: D-Lysine 5,6-aminomutase alpha subunit; InterPro: IPR015130 This domain is found in proteins involved in the 1,2 rearrangement of the terminal amino group of DL-lysine and of L-beta-lysine, using adenosylcobalamin (AdoCbl) and pyridoxal-5'-phosphate as cofactors. The structure is predominantly a PLP-binding TIM barrel domain, with several additional alpha-helices and beta-strands at the N and C termini. These helices and strands form an intertwined accessory clamp structure that wraps around the sides of the TIM barrel and extends up toward the Ado ligand of the Cbl cofactor, providing most of the interactions observed between the protein and the Ado ligand of the Cbl, suggesting that its role is mainly in stabilising AdoCbl in the precatalytic resting state. ; PDB: 3KP1_A 3KOW_A 3KOZ_A 3KOY_B 3KOX_A 3KP0_C 1XRS_A.
Probab=75.77 E-value=29 Score=27.70 Aligned_cols=48 Identities=13% Similarity=0.168 Sum_probs=27.0
Q ss_pred CcEEEEEEecChHhHHHH--HHHHhCCCEEE-EeecCCCccceecccchhH
Q 040308 100 VNVKSEVVIGDAKEKVCE--LVEKLHADLLV-MGSHTFGPIKRMFLGSVSN 147 (167)
Q Consensus 100 ~~~~~~v~~g~~~~~I~~--~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~ 147 (167)
.-+..++..|++.+.|.+ .|..+++|.|- +-+.+.+.+..+..|.+++
T Consensus 147 P~iy~iVAtG~iyeDi~qaraAA~~GAD~IaVIRttgQSllDyvp~GaT~e 197 (509)
T PF09043_consen 147 PVIYVIVATGNIYEDIRQARAAARQGADIIAVIRTTGQSLLDYVPEGATTE 197 (509)
T ss_dssp SEEEEEE-SS-HHHHHHHHHHHHHTT-SEEEE-BSTTGGG-SS-B-S--S-
T ss_pred CeEEEEEecCchHHHHHHHHHHHHcCCCEEEEecccchhhhccccCCCCCC
Confidence 345566788999999985 57788999874 4556666666655564443
No 108
>cd07186 CofD_like LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis. CofD is a 2-phospho-L-lactate transferase that catalyzes the last step in the biosynthesis of coenzyme F(420)-0 (F(420) without polyglutamate) by transferring the lactyl phosphate moiety of lactyl(2)diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin ribitol (F0). F420 is a hydride carrier, important for energy metabolism of methanogenic archaea, as well as for the biosynthesis of other natural products, like tetracycline in Streptomyces. F420 and some of its precursors are also utilized as cofactors for enzymes, like DNA photolyase in Mycobacterium tuberculosis.
Probab=75.39 E-value=11 Score=28.43 Aligned_cols=51 Identities=24% Similarity=0.320 Sum_probs=34.7
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+..+.++..+ ++|+||+|... .+.+-..+.-.-..+.+++++.|++.|-+
T Consensus 172 ~~~p~vl~AI~--~AD~IVlGPgsp~TSI~P~LlVpgI~eAL~~s~A~vV~Vsp 223 (303)
T cd07186 172 RPAPEVLEAIE--DADLVIIGPSNPVTSIGPILALPGIREALRDKKAPVVAVSP 223 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhccchhHHHHHHhCCCCEEEEcC
Confidence 46778888888 89999999664 22233333334455567788888887754
No 109
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=74.78 E-value=16 Score=24.35 Aligned_cols=74 Identities=15% Similarity=0.120 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
...+.+.+.+.+.+.+.|+++++.... |...+.|.+... ++|-+|+...+.+..+- -....+...++|++=
T Consensus 25 ~tl~~i~~~~~~~a~~~g~~v~~~QSN~EGelid~I~~a~~--~~dgiIINpga~thtS~-----Ai~DAl~~~~~P~vE 97 (140)
T PF01220_consen 25 TTLEDIEQKCKETAAELGVEVEFFQSNHEGELIDWIHEARD--DVDGIIINPGAYTHTSI-----AIRDALKAISIPVVE 97 (140)
T ss_dssp SHHHHHHHHHHHHHHHTTEEEEEEE-SSHHHHHHHHHHHTC--TTSEEEEE-GGGGHT-H-----HHHHHHHCCTS-EEE
T ss_pred CCHHHHHHHHHHHHHHCCCeEEEEecCCHHHHHHHHHHHHh--hCCEEEEccchhccccH-----HHHHHHHcCCCCEEE
Confidence 345566677777888888777765422 344444444444 59999998665433321 235577788899987
Q ss_pred EcC
Q 040308 160 VKG 162 (167)
Q Consensus 160 v~~ 162 (167)
|+-
T Consensus 98 VHi 100 (140)
T PF01220_consen 98 VHI 100 (140)
T ss_dssp EES
T ss_pred EEc
Confidence 763
No 110
>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=74.36 E-value=26 Score=24.37 Aligned_cols=34 Identities=29% Similarity=0.404 Sum_probs=23.9
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
|+|++.+..+|..++..+... . +.+++.+|+...
T Consensus 1 vvva~SGG~DS~~ll~ll~~~---~---~~~v~~v~vd~g 34 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDA---L---GDRVLAVTATSP 34 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHH---h---CCcEEEEEeCCC
Confidence 578888888888777666443 2 337888888653
No 111
>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=74.15 E-value=31 Score=28.04 Aligned_cols=49 Identities=14% Similarity=0.171 Sum_probs=34.7
Q ss_pred ChHhHHHHHHHHh----CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 110 DAKEKVCELVEKL----HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 110 ~~~~~I~~~a~~~----~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
+-.+++.+..++. ++|.||+-.+..++-. ..-.+++..++|||+.....
T Consensus 49 ~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------~~i~~~~~l~~PvL~~~~q~ 101 (484)
T cd03557 49 TTPDEILAVCREANADDNCAGVITWMHTFSPAK------MWIAGLTALQKPLLHLHTQF 101 (484)
T ss_pred CCHHHHHHHHHHccccCCccEEEEccCCCchHH------HHHHHHHHcCCCEEEEccCC
Confidence 3456666666653 5999999988766543 33456888899999986553
No 112
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=74.12 E-value=19 Score=26.99 Aligned_cols=57 Identities=11% Similarity=0.115 Sum_probs=42.2
Q ss_pred EecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcCC
Q 040308 107 VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 107 ~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
..-.....+++.|++.+..+|+..+.+.-...+ -.+......+.+++++||.+-=..
T Consensus 26 ~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~~~~~~~A~~~~VPValHLDH 83 (284)
T PRK12857 26 NNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKASVPVALHLDH 83 (284)
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 344789999999999999999988775432222 235566788889999999876443
No 113
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=74.11 E-value=9.9 Score=22.82 Aligned_cols=64 Identities=16% Similarity=0.157 Sum_probs=37.7
Q ss_pred HhhhcCCcEEEEE-EecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEE
Q 040308 94 ICSEKNVNVKSEV-VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 94 ~~~~~~~~~~~~v-~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
++++.|++++..+ ..+.-...+.+..++.++|+||--....+..... -|...++.+-..++|++
T Consensus 25 ~L~~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~~-d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 25 FLREAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLYPLGAQPHE-DGKALRRAAENIDIPGA 89 (90)
T ss_pred HHHHCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCCcCcceecc-CcHHHHHHHHHcCCCee
Confidence 3445688775432 1122124689999999999999876531211111 24456667766677764
No 114
>PF03575 Peptidase_S51: Peptidase family S51; InterPro: IPR005320 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S51 (clan PC(S)). The type example being dipeptidase E (alpha-aspartyl dipeptidase) from Escherichia coli. The family contains alpha-aspartyl dipeptidases (dipeptidase E) and cyanophycinases. The three-dimensional structure of Salmonella typhimurium aspartyl dipeptidase, peptidase E has been determine at 1.2-A resolution. The structure of this 25kDa enzyme consists of two mixed beta-sheets forming a V, flanked by six alpha-helices. The active site contains a Ser-His-Glu catalytic triad and is the first example of a serine peptidase/protease with a glutamate in the catalytic triad. The active site Ser is located on a strand-helix motif reminiscent of that found in alpha/beta-hydrolases, but the polypeptide fold and the organisation of the catalytic triad differ from those of the known serine proteases. This enzyme appears to represent a new example of convergent evolution of peptidase activity []. Alpha-aspartyl dipeptidase hydrolyses dipeptides containing N-terminal aspartate residues, asp-|-xaa. It does not act on peptides with N-terminal Glu, Asn or Gln, nor does it cleave isoaspartyl peptides. In the cyanobacteria, cyanophycinase is an exopeptidase that catalyses the hydrolytic cleavage of multi-l-arginyl-poly-l-aspartic acid (cyanophycin; a water- insoluble reserve polymer) into aspartate-arginine dipeptides.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3EN0_B 1FYE_A 1FY2_A 3L4E_A.
Probab=74.09 E-value=3.2 Score=27.78 Aligned_cols=62 Identities=11% Similarity=0.102 Sum_probs=37.2
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
.+++.+.+++.|++++..-......+.+.+..+ ++|.|.++-.....+-+.+.++-....++
T Consensus 2 ~~~~~~~f~~~g~~v~~l~~~~~~~~~~~~~i~--~ad~I~~~GG~~~~l~~~l~~t~l~~~i~ 63 (154)
T PF03575_consen 2 VEKFRKAFRKLGFEVDQLDLSDRNDADILEAIR--EADAIFLGGGDTFRLLRQLKETGLDEAIR 63 (154)
T ss_dssp HHHHHHHHHHCT-EEEECCCTSCGHHHHHHHHH--HSSEEEE--S-HHHHHHHHHHTTHHHHHH
T ss_pred HHHHHHHHHHCCCEEEEEeccCCChHHHHHHHH--hCCEEEECCCCHHHHHHHHHhCCHHHHHH
Confidence 456777788889886665444545567777777 89999998665444444444444444443
No 115
>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=73.99 E-value=19 Score=22.66 Aligned_cols=47 Identities=11% Similarity=0.110 Sum_probs=33.3
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCcc
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPI 137 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 137 (167)
-+...++..|.++.. .-..-+.+++++.+.+.++|+|.+........
T Consensus 18 ~~~~~l~~~G~~V~~-lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~ 64 (119)
T cd02067 18 IVARALRDAGFEVID-LGVDVPPEEIVEAAKEEDADAIGLSGLLTTHM 64 (119)
T ss_pred HHHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccccccH
Confidence 445666777877622 12335888999999999999999987744434
No 116
>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=73.74 E-value=18 Score=25.48 Aligned_cols=67 Identities=13% Similarity=0.103 Sum_probs=42.1
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC---CCEEEE
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ---CPVVVV 160 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~---~pVliv 160 (167)
+...++..|.++.. +-.+-|.+++++.+.+.++|+|.+.......... +....+.+-...+ ++|++-
T Consensus 102 v~~~l~~~G~~vi~-lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~--~~~~i~~lr~~~~~~~~~i~vG 171 (201)
T cd02070 102 VATMLEANGFEVID-LGRDVPPEEFVEAVKEHKPDILGLSALMTTTMGG--MKEVIEALKEAGLRDKVKVMVG 171 (201)
T ss_pred HHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccccccHHH--HHHHHHHHHHCCCCcCCeEEEE
Confidence 34566677866521 1234589999999999999999999765444443 3445554544432 445443
No 117
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=73.65 E-value=26 Score=25.87 Aligned_cols=67 Identities=18% Similarity=0.298 Sum_probs=44.6
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHH---HHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCEL---VEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
...+.+.+...|+.+..+..-||-.+.|.+. +.+ ++|+||.. .|-++...- -+.+.+.+..+.|+.+
T Consensus 23 a~~la~~L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~-r~D~vI~t-GGLGPT~DD---iT~e~vAka~g~~lv~ 92 (255)
T COG1058 23 AAFLADELTELGVDLARITTVGDNPDRIVEALREASE-RADVVITT-GGLGPTHDD---LTAEAVAKALGRPLVL 92 (255)
T ss_pred HHHHHHHHHhcCceEEEEEecCCCHHHHHHHHHHHHh-CCCEEEEC-CCcCCCccH---hHHHHHHHHhCCCccc
Confidence 3455677788999999998888766666654 444 49998886 344444432 2566677777776654
No 118
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=73.45 E-value=19 Score=26.97 Aligned_cols=71 Identities=11% Similarity=0.131 Sum_probs=47.4
Q ss_pred HHhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcCC
Q 040308 93 KICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 93 ~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+.+..+-.. +..-....++++.|++.+..+|+.-+.+.-...+ -.+......+.+++++||.+-=..
T Consensus 11 ~~A~~~~yaV~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~a~~~~VPValHLDH 83 (284)
T PRK12737 11 KKAQAEGYAVPAFNIHNLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIVAIAEVAARKYNIPLALHLDH 83 (284)
T ss_pred HHHHHcCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 3344444333333 3444789999999999999999987765432222 235667788899999999875443
No 119
>PRK13054 lipid kinase; Reviewed
Probab=73.39 E-value=36 Score=25.49 Aligned_cols=68 Identities=16% Similarity=0.156 Sum_probs=39.3
Q ss_pred HHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc---CCCCEEEEcCCC
Q 040308 91 ALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH---AQCPVVVVKGKG 164 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~---~~~pVliv~~~~ 164 (167)
+...+.+.++.++..... ..-+.++.+.+...++|.||+.... +.+.. +++.++.. ..+|+-++|...
T Consensus 23 ~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~GGD-GTl~e-----vv~~l~~~~~~~~~~lgiiP~GT 94 (300)
T PRK13054 23 AVGLLREEGHTLHVRVTWEKGDAARYVEEALALGVATVIAGGGD-GTINE-----VATALAQLEGDARPALGILPLGT 94 (300)
T ss_pred HHHHHHHcCCEEEEEEecCCCcHHHHHHHHHHcCCCEEEEECCc-cHHHH-----HHHHHHhhccCCCCcEEEEeCCc
Confidence 334456677776654433 2345666666555678877765443 33433 44555543 358999999654
No 120
>PRK13059 putative lipid kinase; Reviewed
Probab=73.32 E-value=36 Score=25.46 Aligned_cols=70 Identities=14% Similarity=0.087 Sum_probs=37.2
Q ss_pred HHHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc-CCCCEEEEcCCC
Q 040308 88 IDHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH-AQCPVVVVKGKG 164 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~-~~~pVliv~~~~ 164 (167)
.+++.+.+.+.+.++...... +.-. +....+.+.++|.||+... -+.+. .+++.++.. .++|+-++|...
T Consensus 21 ~~~i~~~l~~~g~~~~~~~~~~~~~~-~~~~~~~~~~~d~vi~~GG-DGTv~-----evv~gl~~~~~~~~lgviP~GT 92 (295)
T PRK13059 21 LDKVIRIHQEKGYLVVPYRISLEYDL-KNAFKDIDESYKYILIAGG-DGTVD-----NVVNAMKKLNIDLPIGILPVGT 92 (295)
T ss_pred HHHHHHHHHHCCcEEEEEEccCcchH-HHHHHHhhcCCCEEEEECC-ccHHH-----HHHHHHHhcCCCCcEEEECCCC
Confidence 344556666777665543222 2222 2333333456787765533 23343 345666543 468999999654
No 121
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=72.97 E-value=31 Score=24.96 Aligned_cols=73 Identities=19% Similarity=0.139 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+...+.+.+.++|..+......+++. ...++.....++|-||+......... ...+ .+.....||+++-
T Consensus 14 ~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~-----~~i~-~~~~~~iPvV~~~ 87 (282)
T cd06318 14 FAALTEAAKAHAKALGYELISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV-----PAVA-AAKAAGVPVVVVD 87 (282)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH-----HHHH-HHHHCCCCEEEec
Confidence 34556666677777887765543334543 34556667779999999753221111 1122 3345688998885
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 88 ~ 88 (282)
T cd06318 88 S 88 (282)
T ss_pred C
Confidence 4
No 122
>PRK06801 hypothetical protein; Provisional
Probab=72.96 E-value=23 Score=26.58 Aligned_cols=70 Identities=9% Similarity=0.010 Sum_probs=49.0
Q ss_pred HhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcCC
Q 040308 94 ICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 94 ~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+.+.+.-+-.. +..-.....+++.|++.+..+|+..+.+.....+ ..+......+..++++||.+-=..
T Consensus 12 ~A~~~~yaV~Afn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lHlDH 83 (286)
T PRK06801 12 HARKHGYALGAFNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLVEAVKFEAARHDIPVVLNLDH 83 (286)
T ss_pred HHHHCCceEEEEeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 334444333332 3344789999999999999999998776544333 346778888999999998875443
No 123
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=72.95 E-value=32 Score=24.72 Aligned_cols=46 Identities=22% Similarity=0.207 Sum_probs=25.8
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCcc
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPI 137 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~ 137 (167)
...+.+...+..-...+..|+..+.++...+ ++|++++..+.+...
T Consensus 84 ~~~~~l~~~~~~~~vEfvvg~~~e~~~~~~~--~iDF~vVDc~~~d~~ 129 (218)
T PF07279_consen 84 EYKKALGEAGLSDVVEFVVGEAPEEVMPGLK--GIDFVVVDCKREDFA 129 (218)
T ss_pred HHHHHHhhccccccceEEecCCHHHHHhhcc--CCCEEEEeCCchhHH
Confidence 3344444455432223344766666665555 888888887754433
No 124
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=72.50 E-value=48 Score=26.54 Aligned_cols=54 Identities=9% Similarity=0.113 Sum_probs=32.4
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHh---HHHHHHHHhCCCEEEEeecCCCccceecc
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKE---KVCELVEKLHADLLVMGSHTFGPIKRMFL 142 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~~ 142 (167)
+++..+.+..++++.......+|.+ .-++.++..++|+|++-+.|+......++
T Consensus 145 eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm 201 (429)
T TIGR01425 145 DQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLF 201 (429)
T ss_pred HHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHH
Confidence 3334455555666644333345533 33455566689999999998876655443
No 125
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=71.89 E-value=29 Score=25.55 Aligned_cols=72 Identities=14% Similarity=0.105 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.++.+.+.+.+++.|+++......+++ ....++.....++|.+|++........ ..-..+...++|++++..
T Consensus 42 ~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~------~~l~~~~~~~ipvV~~~~ 115 (295)
T PRK10653 42 VSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVG------NAVKMANQANIPVITLDR 115 (295)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH------HHHHHHHHCCCCEEEEcc
Confidence 345566667777788776554333343 334455556678998888754322111 112455667899998854
No 126
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=71.68 E-value=28 Score=26.09 Aligned_cols=71 Identities=17% Similarity=0.138 Sum_probs=48.2
Q ss_pred HHhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcCC
Q 040308 93 KICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 93 ~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+.+.-+-.. +..-...+.+++.|++.+..+|+..+.+.-.... .+++.......+++++||.+-=..
T Consensus 11 ~~A~~~~yaV~Afn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~vpv~lHlDH 83 (281)
T PRK06806 11 KKANQENYGVGAFSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIGPLMVAAAKQAKVPVAVHFDH 83 (281)
T ss_pred HHHHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHHHHHHHHHHHCCCCEEEECCC
Confidence 3344445443333 3444789999999999999999988765433222 245677788899999998875443
No 127
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=71.64 E-value=22 Score=29.25 Aligned_cols=67 Identities=16% Similarity=0.231 Sum_probs=44.5
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHH---HHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCEL---VEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
++.+.+...+.+++...+..+..+...+.+... ....++|+||-. |+++..|=.+.++||+-++-
T Consensus 24 ~l~~~~~~i~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~ 91 (538)
T PRK15424 24 RLFELFRDISLEFDHLANITPIQLGFEKAVTYIRKRLATERCDAIIAA------------GSNGAYLKSRLSVPVILIKP 91 (538)
T ss_pred HHHHHHHHHHHhcCCCceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC------------chHHHHHHhhCCCCEEEecC
Confidence 456666677777776666665565544444333 444578888732 66777777888999999986
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 92 s~ 93 (538)
T PRK15424 92 SG 93 (538)
T ss_pred CH
Confidence 54
No 128
>PRK13055 putative lipid kinase; Reviewed
Probab=71.59 E-value=43 Score=25.60 Aligned_cols=73 Identities=12% Similarity=0.136 Sum_probs=43.6
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEec--ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc-CCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIG--DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH-AQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~-~~~pVliv~~ 162 (167)
+...++.+.+.+.++.++...... .-+.++.+.+.+.++|.||+.... +.+.. +++.++.. ...|+-++|.
T Consensus 20 ~~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~GGD-GTl~e-----vvngl~~~~~~~~LgiiP~ 93 (334)
T PRK13055 20 KNVADILDILEQAGYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAGGD-GTINE-----VVNGIAPLEKRPKMAIIPA 93 (334)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEECCC-CHHHH-----HHHHHhhcCCCCcEEEECC
Confidence 344556677777888777654442 345666766666678887766433 32332 44455432 3477888886
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 94 GT 95 (334)
T PRK13055 94 GT 95 (334)
T ss_pred Cc
Confidence 54
No 129
>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=71.42 E-value=11 Score=26.71 Aligned_cols=50 Identities=16% Similarity=0.213 Sum_probs=30.9
Q ss_pred HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 114 KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
.+...+.+.+.|.+.+|.+.. ....-+..+...+=+++++||++.|....
T Consensus 15 ~ia~~v~~~gtDaI~VGGS~g--vt~~~~~~~v~~ik~~~~lPvilfp~~~~ 64 (205)
T TIGR01769 15 KIAKNAKDAGTDAIMVGGSLG--IVESNLDQTVKKIKKITNLPVILFPGNVN 64 (205)
T ss_pred HHHHHHHhcCCCEEEEcCcCC--CCHHHHHHHHHHHHhhcCCCEEEECCCcc
Confidence 344566667799999985521 11111334455554557899999987653
No 130
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=71.06 E-value=28 Score=23.31 Aligned_cols=72 Identities=10% Similarity=0.041 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEE--ecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVV--IGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~--~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+.+.+.|+.+++... +|...+.|.+... ++|-||+...+.+..+- -....+...++|++=|+
T Consensus 28 l~~i~~~~~~~a~~~g~~~~~~QSN~EGelId~i~~a~~--~~dgiIINpga~THtSi-----Al~DAl~~~~~P~VEVH 100 (146)
T PRK13015 28 LADVEALCRAAAEALGLEVEFRQSNHEGELIDWIHEARG--DVAGIVINPGAYTHTSV-----AIRDALAALELPVIEVH 100 (146)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhh--cCCEEEEcchHHhhhHH-----HHHHHHHcCCCCEEEEE
Confidence 444556666777777887776643 2556666665533 68999998655433221 22456677889998776
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
-
T Consensus 101 i 101 (146)
T PRK13015 101 I 101 (146)
T ss_pred c
Confidence 3
No 131
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=70.98 E-value=15 Score=27.78 Aligned_cols=132 Identities=14% Similarity=0.086 Sum_probs=61.5
Q ss_pred EeecCChhHH--HHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 10 VAVDGGEESM--DALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 10 v~id~s~~s~--~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
+.+++...+- -++..+...|.. ...+++||-.................-+..+..+.....+-+...+.-+..
T Consensus 26 ~vL~G~~GsGKS~~L~q~~~~A~~-----~~wiVl~vp~a~~~~~~~~~~~~~~~~~~~~~qP~~a~~~L~~~~~~N~~~ 100 (309)
T PF10236_consen 26 YVLTGERGSGKSVLLAQAVHYARE-----NGWIVLYVPSAQDWVNGTTDYAPSPYNPGLYDQPMYAAKWLKKFLKANEEL 100 (309)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHh-----CCEEEEEcCCHHHHhhCCeeEeeCCCCCCeeecHHHHHHHHHHHHHHhHHH
Confidence 3444444432 245566666664 489999997764433221111111111122223334444444444443344
Q ss_pred HHHHHHHhhhcCCcEE--EEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEc
Q 040308 88 IDHALKICSEKNVNVK--SEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVK 161 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~--~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~ 161 (167)
++.+. ....+.+. .....|.+..++++.+- .... ...-.++.+.+.+...+. +|||+.=
T Consensus 101 L~~i~---~s~~~~~~~~~~~~~g~tL~dLv~~g~-----------~~~~-~a~~~~~~l~~EL~~~~~~~PVL~av 162 (309)
T PF10236_consen 101 LKKIK---LSKDYKWSKRESTPKGSTLLDLVEQGI-----------NDPK-YAWDVFQALIRELKAQSKRPPVLVAV 162 (309)
T ss_pred HHhcc---ccccccccccccCCCCCCHHHHHHhhc-----------ccch-hHHHHHHHHHHHHHhcccCCceEEEe
Confidence 44322 11122222 22334555555555433 2111 111235667788888998 9999863
No 132
>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=70.84 E-value=39 Score=24.79 Aligned_cols=61 Identities=16% Similarity=0.052 Sum_probs=33.9
Q ss_pred HHHHHHhhhcCCc-EEEEEEec---ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 89 DHALKICSEKNVN-VKSEVVIG---DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 89 ~~~~~~~~~~~~~-~~~~v~~g---~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
+.+.+.+++.|.. ++...... ...+++.+... ++|.|+++-.....+.+.+.++-...+++
T Consensus 46 ~~~~~~~~~lG~~~v~~l~i~~r~~a~~~~~~~~l~--~ad~I~~~GGnq~~l~~~l~~t~l~~~l~ 110 (250)
T TIGR02069 46 ERYITIFSRLGVKEVKILDVREREDASDENAIALLS--NATGIFFTGGDQLRITSLLGDTPLLDRLR 110 (250)
T ss_pred HHHHHHHHHcCCceeEEEecCChHHccCHHHHHHHh--hCCEEEEeCCCHHHHHHHHcCCcHHHHHH
Confidence 3344555667763 44443321 12345666666 89999998766555554444554444443
No 133
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=70.62 E-value=23 Score=26.60 Aligned_cols=58 Identities=14% Similarity=0.194 Sum_probs=43.3
Q ss_pred EEecChHhHHHHHHHHhCCCEEEEeecCCCcccee-cccchhHHHHhcCCCCEEEEcCC
Q 040308 106 VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRM-FLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 106 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~-~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+..-....++++.|++.+..+|+.-+.+.-...+. .+......+.+++++||.+-=..
T Consensus 25 ~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~VPV~lHLDH 83 (284)
T PRK09195 25 IHNLETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYHHPLALHLDH 83 (284)
T ss_pred eCCHHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 44457899999999999999999887654322222 45677888999999998875443
No 134
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=70.48 E-value=40 Score=24.73 Aligned_cols=46 Identities=15% Similarity=0.167 Sum_probs=33.7
Q ss_pred HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 115 VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 115 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
.....++.++|++|+.+....... ..-++.++.....|++|+....
T Consensus 52 ~~~~~~~~~pDf~i~isPN~a~PG----P~~ARE~l~~~~iP~IvI~D~p 97 (277)
T PRK00994 52 VKKMLEEWKPDFVIVISPNPAAPG----PKKAREILKAAGIPCIVIGDAP 97 (277)
T ss_pred HHHHHHhhCCCEEEEECCCCCCCC----chHHHHHHHhcCCCEEEEcCCC
Confidence 334557779999999987543222 2467899999999999997644
No 135
>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=70.32 E-value=38 Score=24.45 Aligned_cols=63 Identities=17% Similarity=0.173 Sum_probs=37.9
Q ss_pred HHHHHhhhcCCcEEEEEEe--cChHhHHHHHH---HHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 90 HALKICSEKNVNVKSEVVI--GDAKEKVCELV---EKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a---~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
...+| ...+.++.+...+ ....+++...+ ++.++|+|||..-|.+.-.+ +.+-+.+++||++-
T Consensus 141 ~~~kW-~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r-------~~~~~~~g~PVlLs 208 (221)
T PF07302_consen 141 QAEKW-QPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMR-------DIVQRALGKPVLLS 208 (221)
T ss_pred HHHHH-HhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHH-------HHHHHHhCCCEEeH
Confidence 33344 3444455444433 12245555544 45689999999988775544 44556788999874
No 136
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=69.97 E-value=22 Score=23.82 Aligned_cols=72 Identities=14% Similarity=0.103 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+.+...|+.+++.... |...+.|.+... ++|-||+.....+..+- -....+...++|++=|+
T Consensus 28 l~~i~~~~~~~a~~~g~~v~~~QSN~EGelId~I~~a~~--~~dgiiINpga~THtSi-----Al~DAl~~~~~P~VEVH 100 (146)
T PRK05395 28 LADIEALLEEEAAELGVELEFFQSNHEGELIDRIHEARD--GADGIIINPGAYTHTSV-----ALRDALAAVSIPVIEVH 100 (146)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccc--CCcEEEECchHHHHHHH-----HHHHHHHcCCCCEEEEe
Confidence 4445566667777788887776432 455555555433 78999998655432221 22456677789988776
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
-
T Consensus 101 i 101 (146)
T PRK05395 101 L 101 (146)
T ss_pred c
Confidence 3
No 137
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=69.65 E-value=22 Score=21.49 Aligned_cols=67 Identities=16% Similarity=0.174 Sum_probs=40.2
Q ss_pred HHHHHhhhcCC-cEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CCCEEEEcCCC
Q 040308 90 HALKICSEKNV-NVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QCPVVVVKGKG 164 (167)
Q Consensus 90 ~~~~~~~~~~~-~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~pVliv~~~~ 164 (167)
.+...+...|+ .+. .. .-.++..+..++..+|+++++..-.. ... -.+.+.+-+.. .+|++++-...
T Consensus 13 ~l~~~l~~~~~~~v~---~~-~~~~~~~~~~~~~~~d~iiid~~~~~-~~~---~~~~~~i~~~~~~~~ii~~t~~~ 81 (112)
T PF00072_consen 13 LLEKLLERAGYEEVT---TA-SSGEEALELLKKHPPDLIIIDLELPD-GDG---LELLEQIRQINPSIPIIVVTDED 81 (112)
T ss_dssp HHHHHHHHTTEEEEE---EE-SSHHHHHHHHHHSTESEEEEESSSSS-SBH---HHHHHHHHHHTTTSEEEEEESST
T ss_pred HHHHHHHhCCCCEEE---EE-CCHHHHHHHhcccCceEEEEEeeecc-ccc---cccccccccccccccEEEecCCC
Confidence 33444445555 222 22 33666667778889999999976444 222 24556665544 48988886543
No 138
>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=69.65 E-value=25 Score=28.10 Aligned_cols=61 Identities=8% Similarity=0.084 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEee
Q 040308 71 AFTAAIEAHQGRITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGS 131 (167)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~ 131 (167)
+....+++..-+..+++++++.+.++..|..+.+.-...+..+.|.+.+++.+..-||.|.
T Consensus 36 ~~~~~ik~~~~~~ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~k 96 (432)
T TIGR00273 36 ELVKEIKLKVLENLDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSK 96 (432)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 3445555666667888999999998888877765433346677788999998999999983
No 139
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.63 E-value=25 Score=27.87 Aligned_cols=59 Identities=8% Similarity=0.086 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChH---hHHHHHHHHhCCCEEEEeecCCCccceeccc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAK---EKVCELVEKLHADLLVMGSHTFGPIKRMFLG 143 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g 143 (167)
....+++.+++.+.++++-....+-+|+ .+=++-.++.++|+||+.+.++..-+..++.
T Consensus 142 agAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfe 203 (483)
T KOG0780|consen 142 AGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFE 203 (483)
T ss_pred cchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHH
Confidence 3456777888888888877655555554 3444567788999999999887766655443
No 140
>PF01933 UPF0052: Uncharacterised protein family UPF0052; InterPro: IPR002882 This entry contains LPPG:Fo 2-phospho-L-lactate transferase (CofD) and related sequences of unknown function belong to unidentified protein family UPF0052. CofD catalyses the fourth step in the biosynthesis of coenzyme F420, which is the transfer of the 2-phospholactate moiety from lactyl (2) diphospho-(5')guanosine (LPPG) to 7,8-didemethyl-8-hydroxy-5-deazariboflavin (FO) with the formation of the L-lactyl phosphodiester of 7,8-didemethyl-8-hydroxy-5-deazariboflavin (F420-0) and GMP. F420 is a flavin derivative found in methanogens, Mycobacteria, and several other lineages. This enzyme is characterised so far in Methanocaldococcus jannaschii (Methanococcus jannaschii) [] but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. ; PDB: 2HZB_A 2O2Z_C 3CGW_A 3C3E_D 3C3D_D 2PPV_A 2P0Y_A 2Q7X_B.
Probab=69.29 E-value=7.3 Score=29.44 Aligned_cols=61 Identities=21% Similarity=0.331 Sum_probs=34.4
Q ss_pred CcEEEEEEec-----ChHhHHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 100 VNVKSEVVIG-----DAKEKVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 100 ~~~~~~v~~g-----~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..++.....| .+..+.++..+ ++|+||+|... .+.+-..+.-.-....+++++||++.|.+
T Consensus 157 ~~I~~v~~~~~~~~~~~~p~~l~AI~--~AD~IiigPgs~~TSI~P~L~v~gi~~Ai~~s~a~kV~V~n 223 (300)
T PF01933_consen 157 PPIRRVFLEGAPEEAKANPEALEAIE--EADLIIIGPGSLYTSIIPNLLVPGIREAIRESKAPKVYVSN 223 (300)
T ss_dssp S-EEEEEEECTSTT--B-HHHHHHHH--H-SEEEE-SS-CCCCCHHHHTSHHHHHHHHHSSSEEEEE-S
T ss_pred CcccEEEEecCccccCCCHHHHHHHH--hCCEEEEcCCCchhhhcccccchhHHHHHHhCCCCEEEEcC
Confidence 3455444442 35677888888 89999999654 22233333333455577777899998865
No 141
>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=69.11 E-value=7.7 Score=29.87 Aligned_cols=49 Identities=29% Similarity=0.423 Sum_probs=36.9
Q ss_pred hHhHHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcCCCCEEEE
Q 040308 111 AKEKVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..+.|+.++++.++|++|.|.-= .+.. +.--|.++..|-.+..+|++.-
T Consensus 68 a~~~i~~mv~~~~pD~viaGPaFnagrY-G~acg~v~~aV~e~~~IP~vta 117 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPAFNAGRY-GVACGEVAKAVQEKLGIPVVTA 117 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCCcCCchH-HHHHHHHHHHHHHhhCCCEEEE
Confidence 47788899999999999999531 2222 2346778888888999999853
No 142
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=69.10 E-value=25 Score=21.89 Aligned_cols=62 Identities=11% Similarity=0.135 Sum_probs=39.7
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
+.+.|+.++.......-...|.+..++.++|+||-...+... .--|-..++..-..++|++.
T Consensus 39 l~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~~~~~---~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 39 LQEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPSGKRA---IRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred HHHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCCCCcc---CccHHHHHHHHHHhCCCEEe
Confidence 445688766553332334778999999999999987543321 11244556666667888874
No 143
>cd07187 YvcK_like family of mostly uncharacterized proteins similar to B.subtilis YvcK. One member of this protein family, YvcK from Bacillus subtilis, has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and the pentose phosphate pathway. In general, this family of mostly uncharacterized proteins is related to the CofD-like protein family. CofD has been characterized as a 2-phospho-L-lactate transferase involved in F420 biosynthesis. This family appears to have the same conserved phosphate binding site as the other family in this hierarchy, but a different substrate binding site.
Probab=69.08 E-value=8.6 Score=29.19 Aligned_cols=50 Identities=20% Similarity=0.381 Sum_probs=34.7
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC--CCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT--FGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~--~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+..+.++..+ ++|+||+|... .+-+..++...+.+ .+++++||++.|.+
T Consensus 164 ~~~~~a~~AI~--~AD~Iv~gPGSlyTSI~P~Llv~gI~e-Ai~~s~a~kV~v~N 215 (308)
T cd07187 164 KANPEALEAIE--EADLIVYGPGSLYTSILPNLLVKGIAE-AIRASKAPKVYICN 215 (308)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHH-HHHhCCCCEEEEec
Confidence 45678888888 99999999664 23333444444555 55788899988875
No 144
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=69.02 E-value=37 Score=23.87 Aligned_cols=71 Identities=15% Similarity=0.098 Sum_probs=40.4
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+.+.+.+.+.+.|+.+...-..+++ ....++.+...++|.+|+......... .-..+.+.++|++.+...
T Consensus 16 ~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~-------~~~~l~~~~ip~v~~~~~ 88 (264)
T cd01537 16 QVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT-------IVKLARKAGIPVVLVDRD 88 (264)
T ss_pred HHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh-------HHHHhhhcCCCEEEeccC
Confidence 34445555555577776554443443 334444444558999988754322111 134557778999988544
No 145
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=68.99 E-value=31 Score=22.93 Aligned_cols=63 Identities=16% Similarity=0.077 Sum_probs=38.0
Q ss_pred hhhc-CCcEEEEEEecC-hHhHHHHHHHHhCCCEEEEee--cCCCccceecccchhHHHHhcCCCCEEE
Q 040308 95 CSEK-NVNVKSEVVIGD-AKEKVCELVEKLHADLLVMGS--HTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 95 ~~~~-~~~~~~~v~~g~-~~~~I~~~a~~~~~dliV~g~--~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
+++. |++++..+.... -...|.+..++..+|+||--. .++..... -|....+..-..++|++-
T Consensus 45 L~~~~Gi~v~~vi~~~~gg~~~i~~~I~~g~i~lVInt~dp~~~~~~~~--D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 45 IQEATGLDVTRLLSGPLGGDQQIGALIAEGKIDMLIFFRDPLTAQPHDP--DVKALLRLADVWNIPVAT 111 (142)
T ss_pred HHhccCCeeEEEEcCCCCCchhHHHHHHcCceeEEEEecCCCCCCcccc--hHHHHHHHHHHcCCCEEc
Confidence 3445 888876633300 136799999999999998865 33322111 233555556566777764
No 146
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=68.86 E-value=4.7 Score=24.59 Aligned_cols=65 Identities=20% Similarity=0.286 Sum_probs=37.8
Q ss_pred HHhhhcCCcEEEEEE-ecCh-Hh----HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEE
Q 040308 93 KICSEKNVNVKSEVV-IGDA-KE----KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~-~g~~-~~----~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
+.+.+.|+++...+. .+.+ .. .+.+..++.++||||--......... --|...++.+...++|++
T Consensus 24 ~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~~~~-~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 24 KFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSDQEH-TDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHHHHT-HHHHHHHHHHHHTTSHEE
T ss_pred HHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCccccc-CCcHHHHHHHHHcCCCCc
Confidence 445678888544432 2333 22 39999999999988887665332221 135566777777777764
No 147
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=68.58 E-value=42 Score=24.22 Aligned_cols=58 Identities=16% Similarity=0.142 Sum_probs=43.2
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHH
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCA 150 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~ 150 (167)
..+..++.|+..-..+.-+.|.+.+..+.. ..|+|.+=+-.+++-.+.|+.++.++|-
T Consensus 101 ~i~~Ik~~G~kaGv~lnP~Tp~~~i~~~l~--~vD~VllMsVnPGfgGQ~Fi~~~l~Ki~ 158 (220)
T COG0036 101 TIQLIKELGVKAGLVLNPATPLEALEPVLD--DVDLVLLMSVNPGFGGQKFIPEVLEKIR 158 (220)
T ss_pred HHHHHHHcCCeEEEEECCCCCHHHHHHHHh--hCCEEEEEeECCCCcccccCHHHHHHHH
Confidence 334445667777666666889999999999 8898888777777777777777766653
No 148
>PRK00779 ornithine carbamoyltransferase; Provisional
Probab=68.53 E-value=49 Score=25.06 Aligned_cols=41 Identities=15% Similarity=0.307 Sum_probs=26.9
Q ss_pred cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 109 GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 109 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
|.-....+...... +|+||+-+...+ ..+.+..++++||+=
T Consensus 85 gEsl~Dt~~~l~~~-~D~iv~R~~~~~---------~~~~~a~~~~vPVIN 125 (304)
T PRK00779 85 GEPIEDTARVLSRY-VDAIMIRTFEHE---------TLEELAEYSTVPVIN 125 (304)
T ss_pred CcCHHHHHHHHHHh-CCEEEEcCCChh---------HHHHHHHhCCCCEEe
Confidence 44444455555555 999999865432 456677888999763
No 149
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=68.37 E-value=21 Score=25.78 Aligned_cols=45 Identities=20% Similarity=0.174 Sum_probs=28.9
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
..++++++..+.+.++... +.|....+-+..+.+.++|.+|+|+.
T Consensus 157 KI~~l~~~~~~~~~~~~Ie-VDGGI~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 157 KLRAIRKKIDALGKPIRLE-IDGGVKADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred HHHHHHHHHHhcCCCeeEE-EECCCCHHHHHHHHHcCCCEEEEChh
Confidence 3344555555555554433 55666666666777779999999964
No 150
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=68.23 E-value=24 Score=25.98 Aligned_cols=64 Identities=11% Similarity=0.012 Sum_probs=40.0
Q ss_pred hhhcCCcEE-EEEEecChHhHHH-HHHHHhCCCEEEEeecCCC-ccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 95 CSEKNVNVK-SEVVIGDAKEKVC-ELVEKLHADLLVMGSHTFG-PIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 95 ~~~~~~~~~-~~v~~g~~~~~I~-~~a~~~~~dliV~g~~~~~-~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
|.+.|++-+ .....|....+.. .+.++.++|.||.=..|.. ++...+ ...++..+||+++.+..
T Consensus 167 ~~~~G~~~~~iia~~gPfs~e~n~al~~~~~i~~lVtK~SG~~Gg~~eKi------~AA~~lgi~vivI~RP~ 233 (256)
T TIGR00715 167 ALKLGFPSDRIIAMRGPFSEELEKALLREYRIDAVVTKASGEQGGELEKV------KAAEALGINVIRIARPQ 233 (256)
T ss_pred HHHcCCChhcEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCCccchHHHH------HHHHHcCCcEEEEeCCC
Confidence 334444322 3345666655555 5678889999998766543 333322 56678899999997654
No 151
>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=68.12 E-value=34 Score=23.03 Aligned_cols=33 Identities=24% Similarity=0.337 Sum_probs=24.8
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
+++|.+.+-.+|.-++..+.. . +.+++.+|+..
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~----~---~~~v~~~~~~~ 33 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKK----E---GYEVHALSFDY 33 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHH----c---CCcEEEEEEEC
Confidence 578999999998877766654 3 34788888865
No 152
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=68.04 E-value=30 Score=25.64 Aligned_cols=71 Identities=15% Similarity=0.102 Sum_probs=39.2
Q ss_pred HHHHHHHHHhhh--cCCcEEEEEEecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSE--KNVNVKSEVVIGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~--~~~~~~~~v~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+.+ .++.+......+++.. ++++.+...++|-+|+......... .... -+...++||+++-
T Consensus 16 ~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~-----~~~~-~~~~~giPvV~~~ 89 (303)
T cd01539 16 LVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQ-----TVIN-KAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHH-----HHHH-HHHHCCCCEEEeC
Confidence 344555555555 5555544433334433 4555566779998888643321111 2223 3456789999884
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 90 ~ 90 (303)
T cd01539 90 R 90 (303)
T ss_pred C
Confidence 3
No 153
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=67.96 E-value=39 Score=25.11 Aligned_cols=73 Identities=15% Similarity=0.014 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.....+.+.+.+.+.|+.+...-..+++. ..+++.....++|-||+......... ...+ -+...++||+++-
T Consensus 13 ~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~-----~~l~-~~~~~~iPvV~~d 86 (302)
T TIGR02634 13 WQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLS-----NAVQ-EAKDEGIKVVAYD 86 (302)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHH-----HHHH-HHHHCCCeEEEec
Confidence 33445566666777777664433333433 34566666778998888754322111 1223 2455678888874
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 87 ~ 87 (302)
T TIGR02634 87 R 87 (302)
T ss_pred C
Confidence 3
No 154
>PRK13337 putative lipid kinase; Reviewed
Probab=67.87 E-value=49 Score=24.82 Aligned_cols=70 Identities=11% Similarity=0.105 Sum_probs=39.0
Q ss_pred HHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc-CCCCEEEEcCCC
Q 040308 89 DHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH-AQCPVVVVKGKG 164 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~-~~~pVliv~~~~ 164 (167)
.++.+.+.+.+++++....+ ..-+.++.+.+.+.++|+||+.... +.+. .+++.++.. ...|+-++|...
T Consensus 22 ~~~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~GGD-GTl~-----~vv~gl~~~~~~~~lgiiP~GT 93 (304)
T PRK13337 22 PDVLQKLEQAGYETSAHATTGPGDATLAAERAVERKFDLVIAAGGD-GTLN-----EVVNGIAEKENRPKLGIIPVGT 93 (304)
T ss_pred HHHHHHHHHcCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEEcCC-CHHH-----HHHHHHhhCCCCCcEEEECCcC
Confidence 34445566777776655433 3445556655555567877665333 3233 244444432 346888988654
No 155
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=67.78 E-value=55 Score=25.36 Aligned_cols=70 Identities=20% Similarity=0.270 Sum_probs=40.8
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecCh----HhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDA----KEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+++.+.+...++.+.+....+++ .+++.+.+++.++|.|| +|.... ..++..+......|++.||
T Consensus 44 ~~~~v~~~l~~~~~~~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGsv--------~D~aK~iA~~~~~p~i~IP 115 (366)
T PRK09423 44 VGDRVEASLKEAGLTVVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGGGKT--------LDTAKAVADYLGVPVVIVP 115 (366)
T ss_pred HHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecChHH--------HHHHHHHHHHcCCCEEEeC
Confidence 4455666666667665443344543 44566677788999877 442221 1233333334478999999
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
...
T Consensus 116 Tta 118 (366)
T PRK09423 116 TIA 118 (366)
T ss_pred Ccc
Confidence 753
No 156
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=67.68 E-value=35 Score=24.45 Aligned_cols=73 Identities=16% Similarity=0.126 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+.+.+++.+.+.|+++......+++ ..+.++.+...++|-+|+......... ...+. ++..++||+.+.
T Consensus 14 ~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~-----~~~~~-~~~~~ipvV~~~ 87 (267)
T cd06322 14 YIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIR-----AAIAK-AKKAGIPVITVD 87 (267)
T ss_pred HHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhH-----HHHHH-HHHCCCCEEEEc
Confidence 3445566666677778776554333343 334555556679999999644222111 12233 456679999885
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 88 ~ 88 (267)
T cd06322 88 I 88 (267)
T ss_pred c
Confidence 4
No 157
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=67.51 E-value=22 Score=25.79 Aligned_cols=45 Identities=13% Similarity=0.158 Sum_probs=29.2
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
..+++++...+.+.++... ..|....+-+..+.+-++|.+|+|+.
T Consensus 165 KI~~lr~~~~~~~~~~~Ie-VDGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 165 RVIQVENRLGNRRVEKLIS-IDGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHHHhcCCCceEE-EECCCCHHHHHHHHHCCCCEEEEChh
Confidence 3444555555566665443 55666666666677779999999964
No 158
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=67.51 E-value=42 Score=25.24 Aligned_cols=73 Identities=15% Similarity=0.099 Sum_probs=49.6
Q ss_pred HHHhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce--ecccchhHHHHhcCCCCEEEEcCCC
Q 040308 92 LKICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR--MFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 92 ~~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
.+.+++.+.-+-.. +..-+..++|++.|++.+..+||=.+.+.-.+-. ..+-..+..++.+.++||.+--..+
T Consensus 10 l~~Ake~~yAvpAfN~~nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~~~~~~v~~~a~~~~vPV~lHlDHg 85 (286)
T COG0191 10 LDKAKENGYAVPAFNINNLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGADSLAHMVKALAEKYGVPVALHLDHG 85 (286)
T ss_pred HHHHHHcCCceeeeeecCHHHHHHHHHHHHHhCCCEEEEecccHHHHhchHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 33444445433333 3334789999999999999999998877543333 3344577788888999998865544
No 159
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=67.41 E-value=54 Score=25.85 Aligned_cols=49 Identities=20% Similarity=0.187 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
.+.+.+.+.+-+.+.|+.++..-.......+|++.+. +++-+|+|+..-
T Consensus 260 T~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI~~~i~--~a~~~vvGsPT~ 308 (388)
T COG0426 260 TEKMAQAIAEGLMKEGVDVEVINLEDADPSEIVEEIL--DAKGLVVGSPTI 308 (388)
T ss_pred HHHHHHHHHHHhhhcCCceEEEEcccCCHHHHHHHHh--hcceEEEecCcc
Confidence 4566677777788889999888777778889999988 899999998863
No 160
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. 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=67.36 E-value=55 Score=25.15 Aligned_cols=72 Identities=17% Similarity=0.194 Sum_probs=42.7
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh----HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA----KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~----~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+++.+.+.+.++.+.+....+++ .+++.+.+++.++|.||- -.|.+... ++..+......|++.||
T Consensus 36 ~~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIa-vGGGS~iD------~aK~ia~~~~~P~iaIP 108 (351)
T cd08170 36 LVGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVIG-IGGGKTLD------TAKAVADYLGAPVVIVP 108 (351)
T ss_pred HHHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEE-ecCchhhH------HHHHHHHHcCCCEEEeC
Confidence 45566667777778776544455544 445666677889997653 33323221 23333333468999999
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
...
T Consensus 109 TTa 111 (351)
T cd08170 109 TIA 111 (351)
T ss_pred Ccc
Confidence 654
No 161
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=67.35 E-value=11 Score=29.48 Aligned_cols=20 Identities=10% Similarity=0.358 Sum_probs=11.4
Q ss_pred HhHHHHHHHHhCCCEEEEee
Q 040308 112 KEKVCELVEKLHADLLVMGS 131 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~ 131 (167)
..++++.|.+.++|+||++.
T Consensus 29 f~~~l~~a~~~~vD~vliAG 48 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAG 48 (390)
T ss_pred HHHHHHHHHHccCCEEEEcc
Confidence 44555555555666666653
No 162
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=67.00 E-value=47 Score=24.29 Aligned_cols=72 Identities=17% Similarity=0.050 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+++.+.+.+.+.|+.+...-..+++. ..+++.+...++|-||+.......... ..+ .+.+.++||+.+-.
T Consensus 15 ~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~-----~l~-~l~~~~ipvV~~~~ 88 (288)
T cd01538 15 IRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALAS-----AVE-KAADAGIPVIAYDR 88 (288)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHH-----HHH-HHHHCCCCEEEECC
Confidence 3455666677777787766554433443 355555566799999887532221111 122 34456799988854
No 163
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=66.81 E-value=57 Score=26.87 Aligned_cols=66 Identities=24% Similarity=0.346 Sum_probs=41.4
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHH---HHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCEL---VEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+.+.+.+++-..+..+..|+..+.+... ....++|+||-. |+++..|-.+.++||+-++-.
T Consensus 15 l~~~~~~i~~~~~~~~~~~v~~~~~~~~~~~a~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~s 82 (526)
T TIGR02329 15 LFDLFRDIAPEFDHRANITPIQLGFEDAVREIRQRLGAERCDVVVAG------------GSNGAYLKSRLSLPVIVIKPT 82 (526)
T ss_pred HHHHHHHHHHhCCCCceEEEEeccHHHHHHHHHHHHHhCCCcEEEEC------------chHHHHHHHhCCCCEEEecCC
Confidence 44444555555553344556677765555533 445578887732 567777777889999998865
Q ss_pred C
Q 040308 164 G 164 (167)
Q Consensus 164 ~ 164 (167)
.
T Consensus 83 ~ 83 (526)
T TIGR02329 83 G 83 (526)
T ss_pred h
Confidence 4
No 164
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=66.78 E-value=44 Score=23.79 Aligned_cols=69 Identities=10% Similarity=0.041 Sum_probs=39.2
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+++.|..+.......++. ..+++.....++|.||+........ .. -..+...+.|++++-
T Consensus 16 ~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~------~~-~~~~~~~~ipvV~~~ 86 (266)
T cd06282 16 ECVQGIQEEARAAGYSLLLATTDYDAEREADAVETLLRQRVDGLILTVADAATS------PA-LDLLDAERVPYVLAY 86 (266)
T ss_pred HHHHHHHHHHHHCCCEEEEeeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCch------HH-HHHHhhCCCCEEEEe
Confidence 455566666677787766554333433 2445555566899999864322111 11 234556688887763
No 165
>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=66.54 E-value=35 Score=25.62 Aligned_cols=57 Identities=7% Similarity=0.094 Sum_probs=42.8
Q ss_pred EecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcCC
Q 040308 107 VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 107 ~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
..-...+++++.|++.+..+|+.-+.+.-...+ ..+......+.+++++||.+-=..
T Consensus 24 ~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValHLDH 81 (282)
T TIGR01858 24 HNLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIVALCSAASTTYNMPLALHLDH 81 (282)
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 444789999999999999999988775432222 235678888999999999876443
No 166
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=66.40 E-value=32 Score=22.90 Aligned_cols=72 Identities=15% Similarity=0.107 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+.+.+.|+++++.... |...+.|.+... ++|-||+-..+.+..+- -....+....+|++=|+
T Consensus 26 l~~i~~~l~~~a~~~g~~v~~~QSN~Egelid~I~~a~~--~~dgiIINpga~THtSv-----Ai~DAl~~~~~P~VEVH 98 (140)
T cd00466 26 LADIEALLRELAAELGVEVEFFQSNHEGELIDWIHEARD--GADGIIINPGAYTHTSI-----ALRDALAAVSIPVIEVH 98 (140)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHHhhc--cCcEEEEcchHHHHHHH-----HHHHHHHcCCCCEEEEe
Confidence 4445566667777778887776432 455666655533 68999998655432221 22456677789988776
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
-
T Consensus 99 i 99 (140)
T cd00466 99 I 99 (140)
T ss_pred c
Confidence 3
No 167
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=66.30 E-value=32 Score=24.93 Aligned_cols=46 Identities=20% Similarity=0.273 Sum_probs=29.1
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+..++++++..+.+.++... +.|....+-+..+.+-++|.+|+|+.
T Consensus 154 ~KI~~lr~~~~~~~~~~~Ie-VDGGI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 154 DKIAELKALRERNGLEYLIE-VDGSCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHHHHHhcCCCeEEE-EECCCCHHHHHHHHHcCCCEEEEChH
Confidence 33445555555666665444 45655555555666669999999964
No 168
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=66.24 E-value=43 Score=23.56 Aligned_cols=39 Identities=0% Similarity=-0.033 Sum_probs=29.3
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
.|.+...........++.+++-++.. ++++.++++.+..
T Consensus 5 ~I~gs~r~~G~t~~l~~~~~~g~~~~---G~E~~~i~v~~~~ 43 (207)
T COG0655 5 GINGSPRSNGNTAKLAEAVLEGAEEA---GAEVEIIRLPEKN 43 (207)
T ss_pred EEEecCCCCCcHHHHHHHHHHHHHHc---CCEEEEEEecCCC
Confidence 34444444556788899999999988 8999999998753
No 169
>PRK14057 epimerase; Provisional
Probab=66.23 E-value=28 Score=25.68 Aligned_cols=46 Identities=15% Similarity=0.086 Sum_probs=29.5
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+..++++++..+.+..+... +.|....+-+..+.+-++|.+|+|+.
T Consensus 178 ~KI~~lr~~~~~~~~~~~Ie-VDGGI~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 178 ERVAQLLCLLGDKREGKIIV-IDGSLTQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred HHHHHHHHHHHhcCCCceEE-EECCCCHHHHHHHHHCCCCEEEEChH
Confidence 33445555555566654443 56666666666666679999999964
No 170
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=66.13 E-value=22 Score=28.30 Aligned_cols=74 Identities=4% Similarity=-0.036 Sum_probs=38.2
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc-CCC-CEEEEcC
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH-AQC-PVVVVKG 162 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~-~~~-pVliv~~ 162 (167)
.+++..++...++++.......+..+.|..+.+..++|+|++.+.|++......+... ..++.. .+. .+|++..
T Consensus 285 vEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL-~~~lk~~~PdevlLVLsA 360 (436)
T PRK11889 285 VQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEM-IETMGQVEPDYICLTLSA 360 (436)
T ss_pred HHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHH-HHHHhhcCCCeEEEEECC
Confidence 3444455555676665432222334434333333479999999998876554333333 234432 232 3455543
No 171
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=66.12 E-value=17 Score=23.07 Aligned_cols=39 Identities=15% Similarity=0.287 Sum_probs=31.4
Q ss_pred hCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 122 LHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 122 ~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+++.||+|+...+.+. ++.-+...+++-.|-|.+.|..
T Consensus 60 e~~E~ivvGTG~~G~l~---l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 60 EGPEVIVVGTGQSGMLE---LSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred cCCcEEEEecCceeEEE---eCHHHHHHHHhcCCeEEEeCCH
Confidence 59999999988766554 4678888899999999988853
No 172
>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=66.09 E-value=38 Score=26.25 Aligned_cols=69 Identities=13% Similarity=0.104 Sum_probs=46.8
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-cee---------------cccchhHHHHhcCCCCE
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-KRM---------------FLGSVSNYCANHAQCPV 157 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~---------------~~gs~~~~i~~~~~~pV 157 (167)
+.+.+.-+-.. +..-...+.+++.|++.+..+|+.-+.+.... ... .+......+..++++||
T Consensus 11 A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPV 90 (345)
T cd00946 11 AKENGFAIPAVNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEHYGVPV 90 (345)
T ss_pred HHHCCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCE
Confidence 34444333322 34457899999999999999999987763221 211 35667788889999998
Q ss_pred EEEcCC
Q 040308 158 VVVKGK 163 (167)
Q Consensus 158 liv~~~ 163 (167)
.+-=..
T Consensus 91 alHLDH 96 (345)
T cd00946 91 VLHTDH 96 (345)
T ss_pred EEECCC
Confidence 775443
No 173
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to 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=65.98 E-value=38 Score=27.11 Aligned_cols=47 Identities=23% Similarity=0.285 Sum_probs=32.2
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
...+.+.++..++|.||+-....+.- +..-..++..++|||+.....
T Consensus 52 ~~~~~~~~~~~~~d~ii~~~~tf~~~------~~~~~~~~~~~~Pvll~a~~~ 98 (452)
T cd00578 52 ARKAAEEFNEANCDGLIVWMHTFGPA------KMWIAGLSELRKPVLLLATQF 98 (452)
T ss_pred HHHHHHHHhhcCCcEEEEcccccccH------HHHHHHHHhcCCCEEEEeCCC
Confidence 55566777777999999976654433 223345677899999986544
No 174
>TIGR02088 LEU3_arch isopropylmalate/isohomocitrate dehydrogenases. This family is closely related to both the LeuB genes found in TIGR00169 and the mitochondrial eukaryotic isocitrate dehydratases found in TIGR00175. All of these are included within the broader subfamily model, pfam00180.
Probab=65.92 E-value=25 Score=26.92 Aligned_cols=27 Identities=26% Similarity=0.235 Sum_probs=21.8
Q ss_pred CChhHHHHHHHHHHhccccCCCCCeEEEEE
Q 040308 14 GGEESMDALRWAIDNLKLRSPAPGSFIVLH 43 (167)
Q Consensus 14 ~s~~s~~al~~a~~la~~~~~~~~~l~~l~ 43 (167)
..+.+++.+++|+++|++. +.+|+++|
T Consensus 139 tr~~~eRi~r~AF~~A~~r---~~~Vt~v~ 165 (322)
T TIGR02088 139 TREGSERIARFAFNLAKER---NRKVTCVH 165 (322)
T ss_pred cHHHHHHHHHHHHHHHHHc---CCcEEEEe
Confidence 3467899999999999988 66766665
No 175
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=65.90 E-value=79 Score=26.43 Aligned_cols=37 Identities=16% Similarity=0.089 Sum_probs=29.3
Q ss_pred cCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 98 KNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 98 ~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
.+...-..+-.|....+-++++++.+.|+||+.+|..
T Consensus 126 ~~~~LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~~ 162 (575)
T PRK11070 126 RGAQLIVTVDNGISSHAGVAHAHALGIPVLVTDHHLP 162 (575)
T ss_pred cCCCEEEEEcCCcCCHHHHHHHHHCCCCEEEECCCCC
Confidence 3555555567788888888999999999999998854
No 176
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=65.62 E-value=38 Score=25.47 Aligned_cols=58 Identities=5% Similarity=0.078 Sum_probs=42.6
Q ss_pred EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-ceecccchhHHHHhcCCCCEEEEcCC
Q 040308 106 VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-KRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 106 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+..-...+++++.|++.+..+|+..+.+.-.. ....+......+.+++++||.+-=..
T Consensus 25 ~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValHLDH 83 (286)
T PRK12738 25 IHNAETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIYALCSAYSTTYNMPLALHLDH 83 (286)
T ss_pred eCCHHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 34457899999999999999999876643221 22235677888899999999876443
No 177
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=65.47 E-value=25 Score=26.17 Aligned_cols=73 Identities=4% Similarity=-0.029 Sum_probs=36.1
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CC-CEEEEcC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QC-PVVVVKG 162 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~-pVliv~~ 162 (167)
+++...+...++++.......+..+.+....+..++|+|++-+.|+.......+..... ++... +. .+|++..
T Consensus 120 ~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~-~~~~~~~~~~~LVl~a 194 (270)
T PRK06731 120 QQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIE-TMGQVEPDYICLTLSA 194 (270)
T ss_pred HHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHH-HHhhhCCCeEEEEEcC
Confidence 34445555556554332111223333333333357999999999887655433333332 33322 22 2556654
No 178
>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=65.31 E-value=72 Score=25.75 Aligned_cols=115 Identities=13% Similarity=0.005 Sum_probs=67.4
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
|+.-....+|..|+. . + .+..|+|.++...... . ..........+-+..+.
T Consensus 7 DLRl~DN~aL~~A~~----~---~-~vlpvyi~dp~~~~~~----------------~-----~~~~~~~fl~~sL~~L~ 57 (475)
T TIGR02766 7 DLRVEDNPALAAAAR----A---G-PVIPVFVWAPEEEGQY----------------Y-----PGRVSRWWLKQSLAHLD 57 (475)
T ss_pred CCCcchHHHHHHHHh----C---C-CEEEEEEechHHhccc----------------c-----ccHHHHHHHHHHHHHHH
Confidence 334445667766642 3 4 7999999886432110 0 00122224555667777
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
+.+.+.|.+..+. ..|++.+.|.+++++.+++-|..... ....... .-..+.+.+....+.+..
T Consensus 58 ~~L~~~G~~L~v~-~~g~~~~~l~~l~~~~~i~~v~~~~~-~~~~~~~-rd~~v~~~l~~~gi~~~~ 121 (475)
T TIGR02766 58 QSLRSLGTCLVTI-RSTDTVAALLDCVRSTGATRLFFNHL-YDPVSLV-RDHRAKEVLTAQGISVQS 121 (475)
T ss_pred HHHHHcCCceEEE-eCCCHHHHHHHHHHHcCCCEEEEecc-cCHHHHH-HHHHHHHHHHHcCCEEEE
Confidence 7777778776442 25899999999999999999988766 3333322 223344455444554433
No 179
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=65.30 E-value=45 Score=23.97 Aligned_cols=72 Identities=11% Similarity=0.006 Sum_probs=39.9
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+.+.+.+.|+++......+++.+ ..++.+...++|.+|++......... . -..+...++||+++-.
T Consensus 15 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~-----~-l~~~~~~~ipvV~~~~ 88 (277)
T cd06319 15 QIMGRGVKSKAKALGYDAVELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAVT-----L-LKLAAQAKIPVVIADI 88 (277)
T ss_pred HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHH-----H-HHHHHHCCCCEEEEec
Confidence 34566666667777877654333334432 33333445689999887543211111 1 1345567899988753
No 180
>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=65.17 E-value=54 Score=24.26 Aligned_cols=60 Identities=18% Similarity=0.288 Sum_probs=33.1
Q ss_pred hhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecC---CCccceecccchhHH-HHhcCCCCEEEEcC
Q 040308 96 SEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHT---FGPIKRMFLGSVSNY-CANHAQCPVVVVKG 162 (167)
Q Consensus 96 ~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~---~~~~~~~~~gs~~~~-i~~~~~~pVliv~~ 162 (167)
.+.|+++.... ...+..+.+. ++|.+++|+.. .+.+-.. .|+..-. +.++.++||+++-+
T Consensus 155 ~~~gi~v~~i~-----d~~~~~~m~~-~vd~VliGad~v~~nG~v~nk-~Gt~~~a~~Ak~~~vPv~v~~~ 218 (282)
T PF01008_consen 155 AEAGIPVTLIP-----DSAVGYVMPR-DVDKVLIGADAVLANGGVVNK-VGTLQLALAAKEFNVPVYVLAE 218 (282)
T ss_dssp HHTT-EEEEE------GGGHHHHHHC-TESEEEEE-SEEETTS-EEEE-TTHHHHHHHHHHTT-EEEEE--
T ss_pred hhcceeEEEEe-----chHHHHHHHH-hCCeeEEeeeEEecCCCEeeh-hhHHHHHHHHHhhCCCEEEEcc
Confidence 34677766542 2345556663 49999999975 2323332 4555544 44777899999843
No 181
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=65.17 E-value=42 Score=23.92 Aligned_cols=74 Identities=20% Similarity=0.146 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHhhhcCCcEEEE-EEecChHhH--HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 84 TQAIIDHALKICSEKNVNVKSE-VVIGDAKEK--VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~-v~~g~~~~~--I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
.....+.+.+.+++.|..+... -..+++..+ .++.+-..++|.||+.......... ..++ +....+||+.+
T Consensus 13 ~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~-----~l~~-~~~~gIpvv~~ 86 (257)
T PF13407_consen 13 WQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAP-----FLEK-AKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHH-----HHHH-HHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHH-----HHHH-HhhcCceEEEE
Confidence 3445566667777788887775 344455333 3345556689999999776554443 2333 55668999998
Q ss_pred cCC
Q 040308 161 KGK 163 (167)
Q Consensus 161 ~~~ 163 (167)
-..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 554
No 182
>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=64.99 E-value=61 Score=24.87 Aligned_cols=69 Identities=14% Similarity=0.150 Sum_probs=40.2
Q ss_pred HHHHHHHhhhcCCcEEEE-EEecCh----HhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 88 IDHALKICSEKNVNVKSE-VVIGDA----KEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~-v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+++.+.+.+.++.+... ...+++ .+.+.+.+++.++|.|| +|...- . .++..+.....+|++.||
T Consensus 38 ~~~v~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs~--~------D~aK~ia~~~~~p~i~VP 109 (345)
T cd08171 38 KDKIKAALEQSGIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGKA--I------DTVKVLADKLGKPVFTFP 109 (345)
T ss_pred HHHHHHHHHHCCCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcHH--H------HHHHHHHHHcCCCEEEec
Confidence 555566666677766533 233443 44556677788999888 553221 1 233333333478999999
Q ss_pred CCC
Q 040308 162 GKG 164 (167)
Q Consensus 162 ~~~ 164 (167)
...
T Consensus 110 Tt~ 112 (345)
T cd08171 110 TIA 112 (345)
T ss_pred Ccc
Confidence 654
No 183
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=64.90 E-value=56 Score=24.37 Aligned_cols=50 Identities=10% Similarity=0.026 Sum_probs=32.5
Q ss_pred HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CCCEEEEcCC
Q 040308 114 KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QCPVVVVKGK 163 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~pVliv~~~ 163 (167)
+..+.+++.++|-+++-........+--+-..-..|+..+ ++||++....
T Consensus 87 ~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~iYn~P 137 (288)
T cd00954 87 ELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAASLPMIIYHIP 137 (288)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEeCc
Confidence 3446788999999998766443322211223446678888 7999998543
No 184
>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=64.84 E-value=53 Score=24.34 Aligned_cols=51 Identities=16% Similarity=0.076 Sum_probs=33.6
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.-+..+.+++.++|-|++.........+--+-..-+.|+..+++||++...
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~~~pi~lYn~ 134 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEATDLPVILYNV 134 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 344446788899999988876543322211224556788888999999854
No 185
>PRK05406 LamB/YcsF family protein; Provisional
Probab=64.65 E-value=54 Score=24.11 Aligned_cols=103 Identities=15% Similarity=0.021 Sum_probs=60.9
Q ss_pred eecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHH
Q 040308 11 AVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDH 90 (167)
Q Consensus 11 ~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (167)
+..+-.......+.++.+|+.. +-. +.-|.-.+....+. ....+-..+++.+.....+..
T Consensus 35 ACG~HAGDp~~M~~tv~lA~~~---gV~-IGAHPgypD~~gFG----------------RR~m~~s~~el~~~v~yQigA 94 (246)
T PRK05406 35 ACGFHAGDPAVMRRTVRLAKEN---GVA-IGAHPGYPDLEGFG----------------RRNMDLSPEELYALVLYQIGA 94 (246)
T ss_pred hccccCCCHHHHHHHHHHHHHc---CCe-EccCCCCCccCCCC----------------CCCCCCCHHHHHHHHHHHHHH
Confidence 3444555667788889999988 333 34444333322211 111111123333444444566
Q ss_pred HHHHhhhcCCcEEEEEEe----------cChHhHHHHHHHHhCCCEEEEeecC
Q 040308 91 ALKICSEKNVNVKSEVVI----------GDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~----------g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
+...++..|.++..+--. ...++.|++.++..+.+|++++..+
T Consensus 95 L~~~a~~~g~~l~hVKPHGALYN~~~~d~~~a~av~~ai~~~~~~l~l~~~~~ 147 (246)
T PRK05406 95 LQAIARAAGGRVSHVKPHGALYNMAAKDPALADAVAEAVAAVDPSLILVGLAG 147 (246)
T ss_pred HHHHHHHcCCeeEEeCccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 677778888777665322 2468888898998899999998654
No 186
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=64.59 E-value=46 Score=23.32 Aligned_cols=34 Identities=26% Similarity=0.389 Sum_probs=25.3
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+++|.+.+-.+|.-++..+.+ . +-+++.++...+
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~---G~~v~~l~~~~~ 34 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----E---GHEVVALLNLTP 34 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----c---CCEEEEEEEEec
Confidence 478889999999888877766 3 457777776654
No 187
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=64.17 E-value=41 Score=24.83 Aligned_cols=62 Identities=18% Similarity=0.236 Sum_probs=37.0
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC---CccceecccchhHHHH-hcCCCCEEEEcC
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF---GPIKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
+.+.+.|+++... .. .. +..+.. ++|.+++|+..- +.+-. -.|+..-.++ ++.++||+++-.
T Consensus 128 ~~L~~~GI~vtli-~D-sa---~~~~m~--~vd~VlvGAd~V~~nG~v~n-kvGT~~~Al~A~~~~vPv~V~~~ 193 (253)
T PRK06372 128 KLLVKSGIDVVLL-TD-AS---MCEAVL--NVDAVIVGSDSVLYDGGLIH-KNGTFPLALCARYLKKPFYSLTI 193 (253)
T ss_pred HHHHHCCCCEEEE-eh-hH---HHHHHH--hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEEee
Confidence 3345578887543 22 21 222334 699999999863 22222 2466555555 777899998754
No 188
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.09 E-value=15 Score=26.82 Aligned_cols=22 Identities=23% Similarity=0.516 Sum_probs=9.7
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGD 110 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~ 110 (167)
.++.+.+.+.+.++ ...+..||
T Consensus 27 ~l~~l~~~~~~~~~--D~lli~GD 48 (253)
T TIGR00619 27 FLDDLLEFAKAEQI--DALLVAGD 48 (253)
T ss_pred HHHHHHHHHHHcCC--CEEEECCc
Confidence 34444444444433 33444444
No 189
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=64.04 E-value=40 Score=22.47 Aligned_cols=72 Identities=15% Similarity=0.127 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+.+.+.|+++++.... |...+.|.+... ++|-||+...+.+..+- -....+....+|++=|+
T Consensus 26 l~di~~~~~~~a~~~g~~v~~~QSN~EGelId~i~~a~~--~~dgiIINpga~THtSi-----Al~DAl~~~~~P~vEVH 98 (141)
T TIGR01088 26 LEEIVEIIETFAAQLNVELEFFQSNSEGQLIDKIHEAEG--QYDGIIINPGALTHTSV-----ALRDALAAVSLPVVEVH 98 (141)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeeCcHHHHHHHHHhccc--cCCEEEEcChHHhhhHH-----HHHHHHHcCCCCEEEEE
Confidence 4445566667777778877765432 445555554433 58999998655433221 22456677789988775
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
-
T Consensus 99 i 99 (141)
T TIGR01088 99 L 99 (141)
T ss_pred c
Confidence 3
No 190
>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=63.76 E-value=13 Score=26.37 Aligned_cols=47 Identities=26% Similarity=0.310 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEee
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGS 131 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~ 131 (167)
.-+..+++.+...+.+..+... +.|....+-+..+.+-++|.+|.|+
T Consensus 149 ~~~KI~~l~~~~~~~~~~~~I~-vDGGI~~~~~~~~~~aGad~~V~Gs 195 (201)
T PF00834_consen 149 VLEKIRELRKLIPENGLDFEIE-VDGGINEENIKQLVEAGADIFVAGS 195 (201)
T ss_dssp HHHHHHHHHHHHHHHTCGSEEE-EESSESTTTHHHHHHHT--EEEESH
T ss_pred HHHHHHHHHHHHHhcCCceEEE-EECCCCHHHHHHHHHcCCCEEEECH
Confidence 3444566667777767666554 5666666666666677999999996
No 191
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=63.74 E-value=27 Score=26.52 Aligned_cols=46 Identities=22% Similarity=0.286 Sum_probs=31.5
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecCC--CccceecccchhHHHHhcCCCCEEEE
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHTF--GPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
.+..+.++..+ ++|+||+|.... +-...+.+..+.+.+ ++.||+.|
T Consensus 174 ~a~p~vl~AI~--~AD~IiiGPgnp~TSI~P~L~v~gi~eAL---~~a~vV~V 221 (303)
T PRK13606 174 KPAPGVLEAIE--EADAVIIGPSNPVTSIGPILAVPGIREAL---TEAPVVAV 221 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHhhchhccchhHHHHH---hCCCEEEE
Confidence 46778888888 899999997642 323334455566666 77888844
No 192
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=63.61 E-value=68 Score=24.88 Aligned_cols=133 Identities=16% Similarity=0.131 Sum_probs=65.1
Q ss_pred cEEEEeec-CC-hhHHHHHHHHHHhccccC-CCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 6 GCVIVAVD-GG-EESMDALRWAIDNLKLRS-PAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 6 ~~ILv~id-~s-~~s~~al~~a~~la~~~~-~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
++++|.+. .| +....+++||..+++... .++.-++++.+....+.... |+.....++......+ -+
T Consensus 47 ~rllvIvGPCSIhd~~~a~eyA~rLk~l~~~~~d~l~ivmR~y~eKPRTt~--------GWKGli~DP~ld~sf~---i~ 115 (344)
T TIGR00034 47 DRLLVVIGPCSIHDPEAAIEYATRLKALREELKDDLEIVMRVYFEKPRTTV--------GWKGLINDPDLNGSFR---IN 115 (344)
T ss_pred CCeEEEecCCCCCCHHHHHHHHHHHHHHHHhhhcceEEEEEeccccCCCcc--------ccccccCCCCcCCCCC---HH
Confidence 45555554 33 345678888877766540 00122446666554433221 0000000111000000 02
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..-++.+++.-...+.|+++-+++.+-...+-+.++.. ..-+|++.... .+...+....+|||.+=.
T Consensus 116 ~GL~~~R~ll~~i~~~GlPvatE~ld~~~~~y~~Dlis-----w~aIGARt~es-------q~hRelaSgl~~PVgfKn 182 (344)
T TIGR00034 116 HGLRIARKLLLDLVNLGLPIAGEFLDMISPQYLADLFS-----WGAIGARTTES-------QVHRELASGLSCPVGFKN 182 (344)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEecCcCcHHHHHHHHh-----hccccCccccC-------HHHHHHHhCCCCceEecC
Confidence 22233333333346789999888887665555543333 44777764221 133667778889988744
No 193
>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=63.29 E-value=28 Score=22.01 Aligned_cols=44 Identities=20% Similarity=0.348 Sum_probs=30.7
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEcCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKGK 163 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~~ 163 (167)
......+.+++.++..||+-+.. |.++..+.+.-| |||+.+-+.
T Consensus 4 ia~aa~~~A~~~~ak~Ivv~T~s---------G~ta~~isk~RP~~pIiavt~~ 48 (117)
T PF02887_consen 4 IARAAVELAEDLNAKAIVVFTES---------GRTARLISKYRPKVPIIAVTPN 48 (117)
T ss_dssp HHHHHHHHHHHHTESEEEEE-SS---------SHHHHHHHHT-TSSEEEEEESS
T ss_pred HHHHHHHHHHhcCCCEEEEECCC---------chHHHHHHhhCCCCeEEEEcCc
Confidence 35567788888888888887653 556777776655 999888553
No 194
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=63.20 E-value=35 Score=24.59 Aligned_cols=44 Identities=23% Similarity=0.244 Sum_probs=28.9
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
.+++++++..+.+ ++... ..|....+-+..+.+-++|.+|+|+.
T Consensus 156 Ki~~lr~~~~~~~-~~~Ie-VDGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 156 KIRELRAMIDERL-DILIE-VDGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHHHhcccC-CeEEE-EeCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 3444555555444 44333 56777777777777789999999983
No 195
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=63.12 E-value=69 Score=24.79 Aligned_cols=116 Identities=11% Similarity=0.105 Sum_probs=64.6
Q ss_pred HHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 040308 20 DALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKICSEKN 99 (167)
Q Consensus 20 ~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (167)
..+.+..+-+++. ++...-++++..+... ..+++.....+.++.+.|..+|
T Consensus 106 ~~~~~sve~a~~~---GAdAVk~lv~~~~d~~--------------------------~~~~~~~~~~l~rv~~ec~~~g 156 (340)
T PRK12858 106 LLDNWSVRRIKEA---GADAVKLLLYYRPDED--------------------------DAINDRKHAFVERVGAECRAND 156 (340)
T ss_pred ccccccHHHHHHc---CCCEEEEEEEeCCCcc--------------------------hHHHHHHHHHHHHHHHHHHHcC
Confidence 3445555556666 6777777776643211 1223455567788888999999
Q ss_pred CcEEEEE-Ee--c-----------ChHhHHHH----HHH-HhCCCEEEEeecCCC-cccee-----ccc-----chhHHH
Q 040308 100 VNVKSEV-VI--G-----------DAKEKVCE----LVE-KLHADLLVMGSHTFG-PIKRM-----FLG-----SVSNYC 149 (167)
Q Consensus 100 ~~~~~~v-~~--g-----------~~~~~I~~----~a~-~~~~dliV~g~~~~~-~~~~~-----~~g-----s~~~~i 149 (167)
+++=..+ .. | ...+.|.. +++ +.++|++=+-..... ..++. ..+ ..-..+
T Consensus 157 iPlllE~l~y~~~~~~~~~~~~a~~~p~~V~~a~r~~~~~elGaDvlKve~p~~~~~veg~~~~~~~~~~~~~~~~f~~~ 236 (340)
T PRK12858 157 IPFFLEPLTYDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFVEGFDGFEEAYTQEEAFKLFREQ 236 (340)
T ss_pred CceEEEEeccCCCccccccccccccCHHHHHHHHHHHhhhccCCeEEEeeCCCCcccccccccccccccHHHHHHHHHHH
Confidence 7764432 11 1 11223333 333 578998888765432 11210 000 234567
Q ss_pred HhcCCCCEEEEcCCC
Q 040308 150 ANHAQCPVVVVKGKG 164 (167)
Q Consensus 150 ~~~~~~pVliv~~~~ 164 (167)
...+++|+++.-...
T Consensus 237 ~~a~~~P~vvlsgG~ 251 (340)
T PRK12858 237 SDATDLPFIFLSAGV 251 (340)
T ss_pred HhhCCCCEEEECCCC
Confidence 778999999986543
No 196
>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=62.99 E-value=35 Score=25.51 Aligned_cols=69 Identities=14% Similarity=0.080 Sum_probs=46.9
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcCC
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+..+-.. +..-...+.+++.|++.+..+|+--+.+.-.... ..+......+..++.+||.+-=..
T Consensus 8 A~~~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~~~~~~~a~~~~VPV~lHLDH 78 (276)
T cd00947 8 AREGGYAVGAFNINNLETLKAILEAAEETRSPVILQISEGAIKYAGLELLVAMVKAAAERASVPVALHLDH 78 (276)
T ss_pred HHHCCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 34444333322 3444789999999999999999987765433222 245667788888999999876443
No 197
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=62.98 E-value=35 Score=25.89 Aligned_cols=62 Identities=11% Similarity=0.200 Sum_probs=36.8
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCc---cceecccchhHHHH-hcCCCCEEEEcC
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGP---IKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~---~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
+.+.|+++.... ++ .+....+...+|.+++|+..-.. +-.. .|+..-.++ ++.++||+++-+
T Consensus 174 L~~~gI~vtlI~--Ds---a~~~~m~~~~vd~VlvGAd~v~~nG~v~nk-~GT~~lA~~Ak~~~vPv~V~a~ 239 (303)
T TIGR00524 174 LMQDGIDVTLIT--DS---MAAYFMQKGEIDAVIVGADRIARNGDVANK-IGTYQLAVLAKEFRIPFFVAAP 239 (303)
T ss_pred HHHCCCCEEEEC--hh---HHHHHccccCCCEEEEcccEEecCCCEeEh-hhHHHHHHHHHHhCCCEEEecc
Confidence 445677765532 12 22233344589999999876322 2222 465555555 777899999843
No 198
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=62.94 E-value=62 Score=24.20 Aligned_cols=76 Identities=12% Similarity=0.111 Sum_probs=42.6
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhH--HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEK--VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~--I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
++++.+.+.+. ..+.+-.-+-..+..+. ..+.+++.++|-+++-.+......+--+-..-..|+..++.||++..-
T Consensus 61 ~~~~~~~~~~~-~~~~viagvg~~~t~~ai~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~~lPv~iYn~ 138 (293)
T PRK04147 61 QVLEIVAEEAK-GKVKLIAQVGSVNTAEAQELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSADNPMIVYNI 138 (293)
T ss_pred HHHHHHHHHhC-CCCCEEecCCCCCHHHHHHHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhCCCCEEEEeC
Confidence 33444444433 22443333322244444 346788899999999876543322211223445678888999999953
No 199
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=62.89 E-value=35 Score=24.30 Aligned_cols=73 Identities=18% Similarity=0.113 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+.+.+.+.+.+.|+.+.......++. ...++.+...++|-||++........ ... ..+...++|++.+-
T Consensus 14 ~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~-----~~l-~~l~~~~ipvv~~~ 87 (268)
T cd06323 14 FVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVV-----PAV-KAANEAGIPVFTID 87 (268)
T ss_pred HHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH-----HHH-HHHHHCCCcEEEEc
Confidence 33445555666666777765433333443 24455556668999888743211000 111 23456689998884
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 88 ~ 88 (268)
T cd06323 88 R 88 (268)
T ss_pred c
Confidence 4
No 200
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=62.88 E-value=24 Score=25.88 Aligned_cols=56 Identities=18% Similarity=0.155 Sum_probs=39.0
Q ss_pred EEEEecChHhHHH-HHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 104 SEVVIGDAKEKVC-ELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 104 ~~v~~g~~~~~I~-~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
.....|....+.. .+.++.++|.||.=..|..++... -...+...+||+++++...
T Consensus 174 iia~~GPfs~e~n~al~~~~~i~~lVtK~SG~~g~~eK------i~AA~~lgi~vivI~RP~~ 230 (249)
T PF02571_consen 174 IIAMQGPFSKELNRALFRQYGIDVLVTKESGGSGFDEK------IEAARELGIPVIVIKRPPE 230 (249)
T ss_pred EEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHH------HHHHHHcCCeEEEEeCCCC
Confidence 3345566666665 467888999999877765544433 2467888999999976543
No 201
>PF01884 PcrB: PcrB family; InterPro: IPR008205 This entry represents geranylgeranylglyceryl phosphate (GGGP) synthase, which is a prenyltransferase that catalyses the transfer of the geranylgeranyl moiety of geranylgeranyl diphosphate (GGPP) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P). This reaction is the first ether-bond-formation step in the biosynthesis of archaeal membrane lipids. This entry also matches putative glycerol-1-phosphate prenyltransferases that may catalyse the transfer of a prenyl moiety to sn-glycerol-1-phosphate (G1P) []. Some of the prokaryotic proteins in this family are related to pcrB. The Staphylococcus aureus chromosomal gene pcrA encodes a protein with significant similarity (40% identity) to two Escherichia coli helicases: the helicase II encoded by the uvrD gene and the Rep helicase. PcrB gene seems to belong to an operon containing at least one other gene, pcrBA, downstream from pcrB []. The PcrB proteins often contain an FMN binding site although the function of these proteins is still unknown.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 1VIZ_A 2F6X_B 2F6U_B 3VKD_A 3VKA_A 3VK5_B 3VKC_B 3VKB_B.
Probab=62.82 E-value=20 Score=25.99 Aligned_cols=51 Identities=18% Similarity=0.279 Sum_probs=32.6
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
..+..++.+.+...|.|++|... .+.-+..+...+-+..+.||++.|....
T Consensus 20 ~~~~~~~~~~~~gtDai~VGGS~----~~~~~d~vv~~ik~~~~lPvilfPg~~~ 70 (230)
T PF01884_consen 20 NPEEALEAACESGTDAIIVGGSD----TGVTLDNVVALIKRVTDLPVILFPGSPS 70 (230)
T ss_dssp -HHHHHHHHHCTT-SEEEEE-ST----HCHHHHHHHHHHHHHSSS-EEEETSTCC
T ss_pred CcHHHHHHHHhcCCCEEEECCCC----CccchHHHHHHHHhcCCCCEEEeCCChh
Confidence 45666677777899999999775 1222344555555668899999987643
No 202
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=62.61 E-value=15 Score=28.05 Aligned_cols=50 Identities=22% Similarity=0.395 Sum_probs=34.7
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC--CCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT--FGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~--~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+..+.++..+ ++|+||+|... .+-+..+++....+ .++++..|++.+.+
T Consensus 178 ~a~~eaveAI~--~AD~IviGPgSl~TSIlP~Lllp~I~e-aLr~~~ap~i~v~n 229 (323)
T COG0391 178 SAAPEAVEAIK--EADLIVIGPGSLFTSILPILLLPGIAE-ALRETVAPIVYVCN 229 (323)
T ss_pred CCCHHHHHHHH--hCCEEEEcCCccHhhhchhhchhHHHH-HHHhCCCCEEEecc
Confidence 45778888888 99999999764 23334445565666 45558888887754
No 203
>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=62.50 E-value=36 Score=21.29 Aligned_cols=43 Identities=9% Similarity=0.011 Sum_probs=29.6
Q ss_pred HHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecC
Q 040308 89 DHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..+...+++.|.++.. ... ...+++.+.+.+.++|+|.+....
T Consensus 18 ~~la~~l~~~G~~v~~--~d~~~~~~~l~~~~~~~~pd~V~iS~~~ 61 (121)
T PF02310_consen 18 LYLAAYLRKAGHEVDI--LDANVPPEELVEALRAERPDVVGISVSM 61 (121)
T ss_dssp HHHHHHHHHTTBEEEE--EESSB-HHHHHHHHHHTTCSEEEEEESS
T ss_pred HHHHHHHHHCCCeEEE--ECCCCCHHHHHHHHhcCCCcEEEEEccC
Confidence 3444555666776553 333 346999999999999999998743
No 204
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=62.30 E-value=72 Score=24.78 Aligned_cols=132 Identities=18% Similarity=0.147 Sum_probs=67.5
Q ss_pred cEEEEeec-CC-hhHHHHHHHHHHhccccC-CCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 6 GCVIVAVD-GG-EESMDALRWAIDNLKLRS-PAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 6 ~~ILv~id-~s-~~s~~al~~a~~la~~~~-~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
++++|.+. .| +....+++||..++.... ..+.-++++.+....+... +.. .....++....... .+
T Consensus 52 ~rllvI~GPCSIed~e~a~eyA~~Lk~l~~~~~d~l~ivmR~y~~KPRTs-~g~-------kGl~~DP~ldgs~~---i~ 120 (349)
T PRK09261 52 DRLLVVVGPCSIHDPKAALEYARRLAKLREELKDKLEIVMRVYFEKPRTT-VGW-------KGLINDPDLDGSFD---IN 120 (349)
T ss_pred CCeEEEEcCCcCCCHHHHHHHHHHHHHHHhhhhcceEEEEEeccccCCCC-CCC-------cCCCcCcCcccccc---HH
Confidence 44555554 33 445668888888766540 0012245666655443322 111 11111111111000 01
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..-++++++.-...+.|+++-+++.+-...+.+.++ +|.+-+|++.... .....++...++||.+=
T Consensus 121 ~GL~~~R~ll~~~~e~GlpvatE~ld~~~~~y~~dl-----vs~~~IGARt~es-------q~hr~~asg~~~PVg~K 186 (349)
T PRK09261 121 DGLRIARKLLLDINELGLPAATEFLDPITPQYIADL-----ISWGAIGARTTES-------QVHRELASGLSCPVGFK 186 (349)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEecccccHHHHHhh-----cceeeeccchhcC-------HHHHHHhcCCCCeeEec
Confidence 122233333323567899998888886555444443 6688999875432 23356777888999873
No 205
>TIGR00169 leuB 3-isopropylmalate dehydrogenase. This model will not find all isopropylmalate dehydrogenases; the enzyme from Sulfolobus sp. strain 7 is more similar to mitochondrial NAD-dependent isocitrate dehydrogenases than to other known isopropylmalate dehydrogenases and was omitted to improve the specificity of the model. It scores below the cutoff and below some enzymes known not to be isopropylmalate dehydrogenase.
Probab=62.13 E-value=42 Score=26.03 Aligned_cols=28 Identities=14% Similarity=0.039 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 16 EESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 16 ~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
..+++.+++|+++|++. +.+|+++|=-+
T Consensus 163 ~~~eRI~r~AF~~A~~r---~~~Vt~v~KaN 190 (349)
T TIGR00169 163 PEIERIARVAFEMARKR---RKKVTSVDKAN 190 (349)
T ss_pred HHHHHHHHHHHHHHHHc---CCcEEEEECCc
Confidence 56899999999999988 66777776433
No 206
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=62.12 E-value=27 Score=25.58 Aligned_cols=48 Identities=21% Similarity=0.246 Sum_probs=32.1
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
+..+.+.+..+...+|-||+..+..+.-... .....+-+.++.|||+=
T Consensus 164 ~~~~~v~dtver~~aDaVI~tG~~TG~~~d~---~el~~a~~~~~~pvlvG 211 (263)
T COG0434 164 SLEEAVKDTVERGLADAVIVTGSRTGSPPDL---EELKLAKEAVDTPVLVG 211 (263)
T ss_pred CHHHHHHHHHHccCCCEEEEecccCCCCCCH---HHHHHHHhccCCCEEEe
Confidence 6667777778889999999876554433321 23355666777888874
No 207
>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=61.88 E-value=63 Score=23.97 Aligned_cols=73 Identities=14% Similarity=0.185 Sum_probs=38.3
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecC-hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEcCC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGD-AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKGK 163 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~-~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~~ 163 (167)
+..+++.+.+.+.++.+........ -...+.+.+.+.++|.||+.... +.+. .+++.+..... .|+-++|..
T Consensus 19 ~~~~~i~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~ivv~GGD-GTl~-----~v~~~l~~~~~~~~lgiiP~G 92 (293)
T TIGR00147 19 KPLREVIMLLREEGMEIHVRVTWEKGDAARYVEEARKFGVDTVIAGGGD-GTIN-----EVVNALIQLDDIPALGILPLG 92 (293)
T ss_pred HHHHHHHHHHHHCCCEEEEEEecCcccHHHHHHHHHhcCCCEEEEECCC-ChHH-----HHHHHHhcCCCCCcEEEEcCc
Confidence 3344556666777877665544332 23344444444567877764332 3233 24455554333 466678864
Q ss_pred C
Q 040308 164 G 164 (167)
Q Consensus 164 ~ 164 (167)
.
T Consensus 93 t 93 (293)
T TIGR00147 93 T 93 (293)
T ss_pred C
Confidence 3
No 208
>KOG3180 consensus Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=61.78 E-value=56 Score=23.29 Aligned_cols=48 Identities=27% Similarity=0.384 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhhhcCCcEEEE---EEec-ChHhHHHHHHHHhCCCEEEEeec
Q 040308 85 QAIIDHALKICSEKNVNVKSE---VVIG-DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~---v~~g-~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+..++.+...-.+.++.++.. ..+. ..++.+...++..+.||+++|-.
T Consensus 72 ~~ilRt~LA~Gadr~~hv~~~~~~~lepl~vAKiLk~~vekek~~lVllGKQ 123 (254)
T KOG3180|consen 72 QEILRTALAKGADRGVHVEVVGAEELEPLHVAKILKKLVEKEKSDLVLLGKQ 123 (254)
T ss_pred HHHHHHHHhccCCceeEEecCchhhccchHHHHHHHHHHHhhcCCEEEEccc
Confidence 344554444444455555533 1122 45677778899999999999964
No 209
>PLN02828 formyltetrahydrofolate deformylase
Probab=61.73 E-value=65 Score=24.03 Aligned_cols=87 Identities=11% Similarity=0.115 Sum_probs=54.0
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHH
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRI 83 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (167)
...||.|-+.++.++..++-++..- ... ++++.++-.-.+....
T Consensus 69 ~~~riavlvSg~g~nl~~ll~~~~~-g~l---~~eI~~ViSn~~~~~~-------------------------------- 112 (268)
T PLN02828 69 PKYKIAVLASKQDHCLIDLLHRWQD-GRL---PVDITCVISNHERGPN-------------------------------- 112 (268)
T ss_pred CCcEEEEEEcCCChhHHHHHHhhhc-CCC---CceEEEEEeCCCCCCC--------------------------------
Confidence 3468999999999999998887653 334 4565555433321100
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeecC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..+.+.+++.|+++...-.. .+..+.+++..+ ++|++|+....
T Consensus 113 -----a~~~~~A~~~gIP~~~~~~~~~~~~e~~~~~~l~--~~DliVLAgym 157 (268)
T PLN02828 113 -----THVMRFLERHGIPYHYLPTTKENKREDEILELVK--GTDFLVLARYM 157 (268)
T ss_pred -----chHHHHHHHcCCCEEEeCCCCCCCHHHHHHHHHh--cCCEEEEeeeh
Confidence 13334557788887654332 223456777666 69999998643
No 210
>PRK08194 tartrate dehydrogenase; Provisional
Probab=61.27 E-value=33 Score=26.64 Aligned_cols=28 Identities=14% Similarity=0.122 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 16 EESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 16 ~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
..+++.+++|+++|++. +.+|+++|=-+
T Consensus 161 ~~~eRI~r~Af~~A~~r---~~~Vt~v~KaN 188 (352)
T PRK08194 161 KGTERAMRYAFELAAKR---RKHVTSATKSN 188 (352)
T ss_pred HHHHHHHHHHHHHHHHc---CCcEEEEeCcc
Confidence 56899999999999987 67888887443
No 211
>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=61.09 E-value=64 Score=23.79 Aligned_cols=79 Identities=13% Similarity=0.116 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..++++.+.+... ..+.+-..+-..+. .-+..+.+++.++|-+++..........--+-..-..|+..++.|+++..
T Consensus 52 r~~l~~~~~~~~~-~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~~~pi~iYn 130 (281)
T cd00408 52 RKEVIEAVVEAVA-GRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADASDLPVILYN 130 (281)
T ss_pred HHHHHHHHHHHhC-CCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEE
Confidence 3344444444433 23443333322233 34444678889999999987654333222223344667778899999985
Q ss_pred CC
Q 040308 162 GK 163 (167)
Q Consensus 162 ~~ 163 (167)
..
T Consensus 131 ~P 132 (281)
T cd00408 131 IP 132 (281)
T ss_pred Cc
Confidence 44
No 212
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=61.01 E-value=40 Score=25.31 Aligned_cols=69 Identities=12% Similarity=0.063 Sum_probs=46.3
Q ss_pred HhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEEcC
Q 040308 94 ICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 94 ~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.-+-.. +..-...+.+++.|++.+..+|+..+.+.-...+ ..+......+.+++.+||.+-=.
T Consensus 12 ~A~~~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~~~~~~~A~~~~vPV~lHLD 82 (283)
T PRK07998 12 RIQEKHVLAGAFNTTNLETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIYEIVKRHADKMDVPVSLHLD 82 (283)
T ss_pred HHHHCCCEEEEEeeCCHHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHHHHHHHHHHHCCCCEEEECc
Confidence 344444333333 2333689999999999999999988765432222 23566778888999999987543
No 213
>PRK00766 hypothetical protein; Provisional
Probab=60.96 E-value=31 Score=24.33 Aligned_cols=58 Identities=24% Similarity=0.300 Sum_probs=40.7
Q ss_pred CCcEEEEEEec-ChHhHHHHHHHH----hCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 99 NVNVKSEVVIG-DAKEKVCELVEK----LHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 99 ~~~~~~~v~~g-~~~~~I~~~a~~----~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
|+-+....+.| |..+.|.++.+. .+..+|.+..-..+++.=. -.+.+-+++..||++|
T Consensus 42 Gv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNvv----D~~~l~~~tg~PVI~V 104 (194)
T PRK00766 42 GVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNVV----DIEELYRETGLPVIVV 104 (194)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEEe----cHHHHHHHHCCCEEEE
Confidence 45556666777 799999999876 3445666665555555422 4467888999999999
No 214
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=60.92 E-value=73 Score=24.37 Aligned_cols=69 Identities=17% Similarity=0.218 Sum_probs=39.4
Q ss_pred HHHHHHHHhhhcCCcEEEEEEec---ChHhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIG---DAKEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g---~~~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
+.+++.+.+.+.+ .+...+... +..+.+.+.+++.++|.|| +|...- ..++..+.....+|++.||.
T Consensus 40 ~~~~v~~~l~~~~-~~~~~~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs~--------~D~aK~~a~~~~~p~i~iPT 110 (339)
T cd08173 40 AGKKVEALLEDEG-EVDVVIVEDATYEEVEKVESSARDIGADFVIGVGGGRV--------IDVAKVAAYKLGIPFISVPT 110 (339)
T ss_pred HHHHHHHHHHhcC-CeEEEEeCCCCHHHHHHHHHHhhhcCCCEEEEeCCchH--------HHHHHHHHHhcCCCEEEecC
Confidence 3445555555556 544433222 2355666777778899877 553221 23444444455799999997
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 111 T~ 112 (339)
T cd08173 111 AA 112 (339)
T ss_pred cc
Confidence 54
No 215
>PRK13057 putative lipid kinase; Reviewed
Probab=60.77 E-value=53 Score=24.38 Aligned_cols=70 Identities=13% Similarity=0.142 Sum_probs=39.6
Q ss_pred HHHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 88 IDHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
.+++.+.+++.++++...... ..-+..+.+.+ ..++|+||+.... +.+. .+++.+. ..+.|+-++|...-
T Consensus 15 ~~~i~~~l~~~g~~~~~~~t~~~~~a~~~~~~~-~~~~d~iiv~GGD-GTv~-----~v~~~l~-~~~~~lgiiP~GT~ 85 (287)
T PRK13057 15 LAAARAALEAAGLELVEPPAEDPDDLSEVIEAY-ADGVDLVIVGGGD-GTLN-----AAAPALV-ETGLPLGILPLGTA 85 (287)
T ss_pred HHHHHHHHHHcCCeEEEEecCCHHHHHHHHHHH-HcCCCEEEEECch-HHHH-----HHHHHHh-cCCCcEEEECCCCc
Confidence 345566667778776655443 23344444443 3467877765332 3233 3445554 45789999996543
No 216
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=60.77 E-value=29 Score=23.24 Aligned_cols=38 Identities=13% Similarity=0.039 Sum_probs=17.0
Q ss_pred CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 123 HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 123 ~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
++|++|+...+. .......+...-.++....+||++|-
T Consensus 99 ~~D~viid~~g~-~~~~~~~~~~~~dl~~~~~~~vilV~ 136 (166)
T TIGR00347 99 KYDFVLVEGAGG-LCVPITEEYTTADLIKLLQLPVILVV 136 (166)
T ss_pred cCCEEEEEcCCc-cccCCCCCCcHHHHHHHhCCCEEEEE
Confidence 566666655431 11111112122335555566666654
No 217
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=60.56 E-value=20 Score=28.44 Aligned_cols=28 Identities=18% Similarity=0.200 Sum_probs=17.4
Q ss_pred cChHhHHHHHHHHhCCCEEEEeecCCCc
Q 040308 109 GDAKEKVCELVEKLHADLLVMGSHTFGP 136 (167)
Q Consensus 109 g~~~~~I~~~a~~~~~dliV~g~~~~~~ 136 (167)
|+-.+.+++.+++.++.++.+.+.+...
T Consensus 102 GdDi~~v~~~~~~~~~~vi~v~t~gf~g 129 (427)
T cd01971 102 GDDVGAVVSEFQEGGAPIVYLETGGFKG 129 (427)
T ss_pred hcCHHHHHHHhhhcCCCEEEEECCCcCc
Confidence 5545556555566677777777766443
No 218
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=60.47 E-value=61 Score=23.36 Aligned_cols=47 Identities=9% Similarity=0.126 Sum_probs=37.6
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..+.+...+.+.+.|..+...-+.-.+.+.|..... +.|.|.+|...
T Consensus 48 ~~Yv~k~~~~l~~lg~~v~~L~l~~~~~~~Ie~~l~--~~d~IyVgGGN 94 (224)
T COG3340 48 DFYVEKVRNALAKLGLEVSELHLSKPPLAAIENKLM--KADIIYVGGGN 94 (224)
T ss_pred HHHHHHHHHHHHHcCCeeeeeeccCCCHHHHHHhhh--hccEEEECCch
Confidence 345666777788889888877777788999999888 89999998543
No 219
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=60.42 E-value=68 Score=23.85 Aligned_cols=48 Identities=13% Similarity=0.122 Sum_probs=31.5
Q ss_pred HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 115 VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 115 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
+.+.+++.++|-+++..........--+-..-..|...++.||++...
T Consensus 85 ~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~~pi~lYn~ 132 (285)
T TIGR00674 85 LTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEVDLPIILYNV 132 (285)
T ss_pred HHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 446788899999999876543322211223445677888999999854
No 220
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=60.01 E-value=51 Score=22.53 Aligned_cols=44 Identities=18% Similarity=0.296 Sum_probs=29.6
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
...+|++.+++.++|+|++|-..+. ++.+ +.+...+.+.+|++.
T Consensus 87 ~~~~i~~~I~~~~pdiv~vglG~Pk--QE~~----~~~~~~~l~~~v~~~ 130 (171)
T cd06533 87 EEEEIIERINASGADILFVGLGAPK--QELW----IARHKDRLPVPVAIG 130 (171)
T ss_pred hHHHHHHHHHHcCCCEEEEECCCCH--HHHH----HHHHHHHCCCCEEEE
Confidence 3455889999999999999976432 3332 345555667776664
No 221
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is
Probab=59.98 E-value=8.3 Score=22.76 Aligned_cols=60 Identities=15% Similarity=0.076 Sum_probs=35.7
Q ss_pred cEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 101 NVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 101 ~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+...++.|+.+..=.. ...++|++|++........... ...........++.+++....
T Consensus 17 ~i~~i~LfGS~arg~~~--~~SDiDl~vi~~~~~~~~~~~~-~~~~~~~~~~~~vDi~~~~~~ 76 (93)
T cd05403 17 GVEKVYLFGSYARGDAR--PDSDIDLLVIFDDPLDPLELAR-LLEELELLLGRPVDLVVLNAL 76 (93)
T ss_pred CccEEEEEeeeecCCCC--CCCCeeEEEEeCCCCCHHHHHH-HHHHHHHHhCCcEEEEECCcc
Confidence 56777889987776555 3449999999987655443221 111122334445666665543
No 222
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=59.82 E-value=57 Score=23.45 Aligned_cols=72 Identities=15% Similarity=0.111 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEe--cChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVI--GDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~--g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..+.+.+.+.+++.|.++...... +++. ...++.....++|-||+......... ...+ .+...++||+.+
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~-----~~~~-~~~~~~iPvV~~ 88 (275)
T cd06320 15 RSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLV-----PAVE-RAKKKGIPVVNV 88 (275)
T ss_pred HHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhH-----HHHH-HHHHCCCeEEEE
Confidence 345566666667778776654332 2432 34455556668998888644222111 1223 345678999988
Q ss_pred cC
Q 040308 161 KG 162 (167)
Q Consensus 161 ~~ 162 (167)
..
T Consensus 89 ~~ 90 (275)
T cd06320 89 ND 90 (275)
T ss_pred CC
Confidence 54
No 223
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=59.35 E-value=17 Score=23.78 Aligned_cols=40 Identities=18% Similarity=0.070 Sum_probs=33.9
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
-.+|+|.-|..+.|....+.++.-+... +.++..+...+.
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~---G~~V~~~g~~~t 79 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRAN---GVDVIDIGLVPT 79 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHT---TEEEEEEEEB-H
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhc---ccccccccccCc
Confidence 4789999999999999999999999999 899999986553
No 224
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=59.34 E-value=62 Score=23.04 Aligned_cols=40 Identities=8% Similarity=0.121 Sum_probs=26.4
Q ss_pred HHhhhcCCcEEEEEEec-----ChHhHHHHHHHHhCCCEEEEeec
Q 040308 93 KICSEKNVNVKSEVVIG-----DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g-----~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+.+.+.|+++...-... ...+++++..++.++|++|+...
T Consensus 43 ~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~Dliv~agy 87 (207)
T PLN02331 43 EYARENGIPVLVYPKTKGEPDGLSPDELVDALRGAGVDFVLLAGY 87 (207)
T ss_pred HHHHHhCCCEEEeccccCCCcccchHHHHHHHHhcCCCEEEEeCc
Confidence 45567788765432211 12467888889999999999643
No 225
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=59.26 E-value=27 Score=23.29 Aligned_cols=53 Identities=15% Similarity=0.157 Sum_probs=37.2
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCCc----cceecccchhHHHHhcCCCCEEEEcCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFGP----IKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~~----~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
..+.|.+.+++.+++.||+|-+-... ......-.+++.+-.+.++||..+-..
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~~L~~r~~lpv~l~DER 97 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAERLKKRFNLPVVLWDER 97 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHHHHHHhcCCCEEEEcCc
Confidence 57889999999999999999764211 111123346677777788999887654
No 226
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=59.21 E-value=63 Score=23.12 Aligned_cols=72 Identities=15% Similarity=0.080 Sum_probs=38.9
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+.+.+++.|+.+......+++.. ..++..-..++|-||+......... ...+ -+...++||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~-----~~i~-~~~~~~ipvV~~~~ 88 (273)
T cd06305 15 QAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLK-----PWVK-RALDAGIPVVAFDV 88 (273)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhH-----HHHH-HHHHcCCCEEEecC
Confidence 34455566666777877665433334432 3334444458998888643221111 1122 34556788888754
No 227
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=59.19 E-value=95 Score=25.12 Aligned_cols=93 Identities=16% Similarity=0.130 Sum_probs=58.6
Q ss_pred cCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHAL 92 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (167)
|..-....+|..|+..+ +..+..++|+++...... . ..........+-+..+.
T Consensus 11 DLRl~DN~aL~~A~~~~------~~~vlpvyv~dp~~~~~~-----------------~----~~~~r~~Fl~esL~~L~ 63 (472)
T PRK10674 11 DLRLHDNLALAAACRDP------SARVLALFIATPAQWAAH-----------------D----MAPRQAAFINAQLNALQ 63 (472)
T ss_pred CCCcchHHHHHHHHhCC------CCCEEEEEEECchhhccC-----------------C----CCHHHHHHHHHHHHHHH
Confidence 55556677777776421 236999999987432210 0 01222334555566667
Q ss_pred HHhhhcCCcEEEEEE--ecChHhHHHHHHHHhCCCEEEEeec
Q 040308 93 KICSEKNVNVKSEVV--IGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~--~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+.+.+.|++.-...- .|++.+.+.+++++.+++-|+....
T Consensus 64 ~~L~~~g~~L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 64 IALAEKGIPLLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred HHHHHcCCceEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 777777877643322 3678999999999999999988754
No 228
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=58.71 E-value=17 Score=24.49 Aligned_cols=49 Identities=20% Similarity=0.367 Sum_probs=19.4
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc-------CCCCEEEEcCC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH-------AQCPVVVVKGK 163 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~-------~~~pVliv~~~ 163 (167)
.+.+.++..++++|+|++|..+.. .+.+.. ....++.. .++||.+|...
T Consensus 52 ~~~l~~~i~~~kP~vI~v~g~~~~--s~~l~~-~v~~~v~~~~~~~~~~~i~V~~v~~~ 107 (150)
T PF14639_consen 52 MERLKKFIEKHKPDVIAVGGNSRE--SRKLYD-DVRDIVEELDEDEQMPPIPVVIVDDE 107 (150)
T ss_dssp HHHHHHHHHHH--SEEEE--SSTH--HHHHHH-HHHHHHHHTTB-TTS-B--EEE---T
T ss_pred HHHHHHHHHHcCCeEEEEcCCChh--HHHHHH-HHHHHHHHhhhcccCCCceEEEECcH
Confidence 455566777778888888543322 111222 22233322 25888887754
No 229
>PHA02546 47 endonuclease subunit; Provisional
Probab=58.54 E-value=31 Score=26.48 Aligned_cols=14 Identities=14% Similarity=0.399 Sum_probs=5.9
Q ss_pred HHHHHHHHhhhcCC
Q 040308 87 IIDHALKICSEKNV 100 (167)
Q Consensus 87 ~~~~~~~~~~~~~~ 100 (167)
.++++.+.+.+.++
T Consensus 27 ~l~~ii~~a~~~~v 40 (340)
T PHA02546 27 FIKQAIEYSKAHGI 40 (340)
T ss_pred HHHHHHHHHHHcCC
Confidence 34444444444433
No 230
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=58.53 E-value=46 Score=24.22 Aligned_cols=73 Identities=15% Similarity=0.079 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
...+.+.+.+.+.+.|..+-.....++.. .++++.....++|-||+-........ ... ..+....+||+++-
T Consensus 15 ~~~~~~gi~~~a~~~gy~~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~-----~~~-~~~~~~~iPvV~~d 88 (280)
T cd06315 15 ILGVGEGVREAAKAIGWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ-----AEL-ELAQKAGIPVVGWH 88 (280)
T ss_pred HHHHHHHHHHHHHHcCcEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH-----HHH-HHHHHCCCCEEEec
Confidence 33556666677777776654432333433 35677778889999999643211111 111 33456789999985
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 89 ~ 89 (280)
T cd06315 89 A 89 (280)
T ss_pred C
Confidence 4
No 231
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=58.29 E-value=24 Score=26.24 Aligned_cols=43 Identities=21% Similarity=0.295 Sum_probs=32.5
Q ss_pred HHHHHhhhcCCcEEEEEEec----ChHhHHHHHHHHhCCCEEEEeec
Q 040308 90 HALKICSEKNVNVKSEVVIG----DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g----~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
.++.....+|+++...-... ...+.+++..+++++|+||+...
T Consensus 129 dl~~~v~~~~IPfhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY 175 (287)
T COG0788 129 DLRPLVERFDIPFHHIPVTKENKAEAEARLLELLEEYGADLVVLARY 175 (287)
T ss_pred HHHHHHHHcCCCeeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh
Confidence 45566677888888775543 24667889999999999999864
No 232
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=58.21 E-value=67 Score=23.09 Aligned_cols=73 Identities=12% Similarity=0.064 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.....+.+.+.+++.|+++...-..++. ...+++.+...++|-||+.......... .. .-+...+.||+++-
T Consensus 14 ~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~-----~i-~~~~~~~iPvV~~~ 87 (273)
T cd06309 14 RTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDP-----VL-KEAKAAGIPVILVD 87 (273)
T ss_pred HHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchH-----HH-HHHHHCCCCEEEEe
Confidence 3455666777777788776654333333 3344555666789999886533211111 12 23456678998886
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 88 ~ 88 (273)
T cd06309 88 R 88 (273)
T ss_pred c
Confidence 4
No 233
>PRK00861 putative lipid kinase; Reviewed
Probab=57.51 E-value=78 Score=23.64 Aligned_cols=58 Identities=9% Similarity=0.166 Sum_probs=33.7
Q ss_pred CcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 100 VNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 100 ~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
++++...... .-+.++.+.+.+.++|+||+.... +.+.. +++.++ ...+|+-++|...
T Consensus 33 ~~~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~GGD-GTl~e-----vv~~l~-~~~~~lgviP~GT 91 (300)
T PRK00861 33 MDLDIYLTTPEIGADQLAQEAIERGAELIIASGGD-GTLSA-----VAGALI-GTDIPLGIIPRGT 91 (300)
T ss_pred CceEEEEccCCCCHHHHHHHHHhcCCCEEEEECCh-HHHHH-----HHHHHh-cCCCcEEEEcCCc
Confidence 4555444333 446677766666678887765332 33433 344454 3468899998754
No 234
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=56.92 E-value=63 Score=23.41 Aligned_cols=71 Identities=15% Similarity=-0.003 Sum_probs=40.5
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.++..|+.+......+++. .+.++.+...++|-||+......... ...++ +...++||+++-.
T Consensus 16 ~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~-----~~i~~-~~~~~iPvV~~~~ 88 (272)
T cd06313 16 QGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLT-----EAVQK-AIARGIPVIDMGT 88 (272)
T ss_pred HHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhH-----HHHHH-HHHCCCcEEEeCC
Confidence 355556666667787776654444443 33445556678999999643211111 12232 3445889998854
No 235
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=56.34 E-value=72 Score=22.88 Aligned_cols=72 Identities=17% Similarity=0.110 Sum_probs=39.9
Q ss_pred HHHHHHHHHHhhhc---CCcEEEEEEec--Ch--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCE
Q 040308 85 QAIIDHALKICSEK---NVNVKSEVVIG--DA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPV 157 (167)
Q Consensus 85 ~~~~~~~~~~~~~~---~~~~~~~v~~g--~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pV 157 (167)
..+.+.+.+.+.+. |..++..+... +. ....++.+...++|-||+.......... .. ..+...++||
T Consensus 15 ~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~-----~l-~~~~~~~iPv 88 (272)
T cd06300 15 AQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNP-----VI-EEACEAGIPV 88 (272)
T ss_pred HHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHH-----HH-HHHHHCCCeE
Confidence 34455555555566 76555555432 32 2344444555699999997643221211 22 2445668999
Q ss_pred EEEcC
Q 040308 158 VVVKG 162 (167)
Q Consensus 158 liv~~ 162 (167)
+++-.
T Consensus 89 v~~~~ 93 (272)
T cd06300 89 VSFDG 93 (272)
T ss_pred EEEec
Confidence 98854
No 236
>PRK03670 competence damage-inducible protein A; Provisional
Probab=56.14 E-value=79 Score=23.28 Aligned_cols=66 Identities=20% Similarity=0.235 Sum_probs=38.4
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH---hCCCEEEEeecCCCccceecccchhHHHHhcCCCCEE
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEK---LHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~---~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
..+.+.+...|+++......+|-.+.|.+..++ ..+|+||+. .|-++... .-+.+.+.+..+.|+.
T Consensus 23 ~~la~~L~~~G~~v~~~~iV~Dd~~~I~~~l~~a~~~~~DlVItt-GGlGpt~d---D~T~eava~a~g~~l~ 91 (252)
T PRK03670 23 AFIAQKLTEKGYWVRRITTVGDDVEEIKSVVLEILSRKPEVLVIS-GGLGPTHD---DVTMLAVAEALGRELV 91 (252)
T ss_pred HHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhhCCCCEEEEC-CCccCCCC---CchHHHHHHHhCCCCc
Confidence 345566777898887766666666666665443 247888876 33333332 2244555555555543
No 237
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=56.12 E-value=82 Score=23.47 Aligned_cols=66 Identities=11% Similarity=0.088 Sum_probs=36.9
Q ss_pred HHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc---CCCCEEEEcCCC
Q 040308 93 KICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH---AQCPVVVVKGKG 164 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~---~~~pVliv~~~~ 164 (167)
+.+.+.+++++..... ..-+.++.+.+.+.++|.||+... -+.+.. +++.++.+ .++|+-++|...
T Consensus 21 ~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~GG-DGTi~e-----v~ngl~~~~~~~~~~lgiiP~GT 90 (293)
T TIGR03702 21 GDLRDEGIQLHVRVTWEKGDAQRYVAEALALGVSTVIAGGG-DGTLRE-----VATALAQIRDDAAPALGLLPLGT 90 (293)
T ss_pred HHHHHCCCeEEEEEecCCCCHHHHHHHHHHcCCCEEEEEcC-ChHHHH-----HHHHHHhhCCCCCCcEEEEcCCc
Confidence 3456667776655332 234666766655566787765433 233433 44555532 346888988654
No 238
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=56.06 E-value=58 Score=21.72 Aligned_cols=78 Identities=21% Similarity=0.209 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHhhhcCC---cEEEEEEec--ChHhHHHHHHHHhCCCEEE-Eee--cCCCccceecccchhHHHHh--
Q 040308 82 RITQAIIDHALKICSEKNV---NVKSEVVIG--DAKEKVCELVEKLHADLLV-MGS--HTFGPIKRMFLGSVSNYCAN-- 151 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~---~~~~~v~~g--~~~~~I~~~a~~~~~dliV-~g~--~~~~~~~~~~~gs~~~~i~~-- 151 (167)
+..+.+++.+.+.+...|+ +++..-+-| +..-.+..+++..++|-+| +|. +|.+.-.......+++.+++
T Consensus 16 ~i~~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI~G~T~H~~~v~~~v~~gl~~ls 95 (144)
T PF00885_consen 16 EITDRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVIRGETDHFEYVANAVSRGLMDLS 95 (144)
T ss_dssp HHHHHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE--SSTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEeccccCCCchHHHHHHHHHHHHHHHHh
Confidence 4567778888888888887 777777777 5667777778877788765 563 55554444555556655553
Q ss_pred -cCCCCEEE
Q 040308 152 -HAQCPVVV 159 (167)
Q Consensus 152 -~~~~pVli 159 (167)
+...||..
T Consensus 96 l~~~~PV~~ 104 (144)
T PF00885_consen 96 LEYGIPVIF 104 (144)
T ss_dssp HHHTSEEEE
T ss_pred ccCCccEEE
Confidence 33566653
No 239
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=56.05 E-value=30 Score=21.20 Aligned_cols=44 Identities=14% Similarity=0.129 Sum_probs=27.8
Q ss_pred HHHHHHhhhcCCcEEEEEEecC-hHhHHH-HHHHHhCCCEEEEeecCC
Q 040308 89 DHALKICSEKNVNVKSEVVIGD-AKEKVC-ELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~-~~~~I~-~~a~~~~~dliV~g~~~~ 134 (167)
+.+++.+++.|+++........ +...+- +... .+|+||+-....
T Consensus 19 ~~L~~aa~~~g~~~~ve~~~~~g~~~~l~~~~i~--~Ad~vi~~~~~~ 64 (96)
T cd05569 19 EALEKAAKKLGWEIKVETQGSLGIENELTAEDIA--EADAVILAADVP 64 (96)
T ss_pred HHHHHHHHHCCCeEEEEEecCcCccCcCCHHHHh--hCCEEEEecCCC
Confidence 4556777788888776655543 333333 3444 899999987643
No 240
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=56.03 E-value=69 Score=24.89 Aligned_cols=70 Identities=13% Similarity=0.076 Sum_probs=47.3
Q ss_pred HhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCC-CCEEEEcCC
Q 040308 94 ICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQ-CPVVVVKGK 163 (167)
Q Consensus 94 ~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~-~pVliv~~~ 163 (167)
.+.+.+.-+-.. +..-....++++.|++.+..+|+..+.+.....+ .++......+..+++ +||.+-=..
T Consensus 12 ~A~~~~yaV~AfN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~v~~~ae~~~~VPVaLHLDH 84 (347)
T PRK13399 12 HAAENGYGVPAFNVNNMEQILAIMEAAEATDSPVILQASRGARKYAGDAMLRHMVLAAAEMYPDIPICLHQDH 84 (347)
T ss_pred HHHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhcCCCcEEEECCC
Confidence 334444333322 3445789999999999999999998776443333 245667778888885 998875443
No 241
>PRK12569 hypothetical protein; Provisional
Probab=56.00 E-value=53 Score=24.12 Aligned_cols=103 Identities=11% Similarity=-0.000 Sum_probs=59.8
Q ss_pred eecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHH
Q 040308 11 AVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDH 90 (167)
Q Consensus 11 ~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (167)
+..+-.......+.++.+|+.. +-. +.-|.-.+....+. ....+-..++..+.....+..
T Consensus 38 ACG~HAGDp~~M~~tv~lA~~~---~V~-IGAHPsyPD~~gFG----------------Rr~m~~s~~el~~~v~yQiga 97 (245)
T PRK12569 38 ATGFHAGDPNIMRRTVELAKAH---GVG-IGAHPGFRDLVGFG----------------RRHINASPQELVNDVLYQLGA 97 (245)
T ss_pred hccccCCCHHHHHHHHHHHHHc---CCE-eccCCCCCcCCCCC----------------CCCCCCCHHHHHHHHHHHHHH
Confidence 3344455667788899999988 333 34444333322211 111111122333334444566
Q ss_pred HHHHhhhcCCcEEEEEEe----------cChHhHHHHHHHHhCCCEEEEeecC
Q 040308 91 ALKICSEKNVNVKSEVVI----------GDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~----------g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
+...++..|.++..+--. ...++.|++.+++.+.+|++++..+
T Consensus 98 L~~~~~~~g~~l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~~ 150 (245)
T PRK12569 98 LREFARAHGVRLQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMDG 150 (245)
T ss_pred HHHHHHHcCCeeEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 677777788777665322 2468889999998899999988553
No 242
>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=55.96 E-value=96 Score=24.20 Aligned_cols=37 Identities=22% Similarity=0.250 Sum_probs=28.0
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
.-.++||.+.+--+|.-++..+.. . +.+++.+|+...
T Consensus 171 ~~~kvlvllSGGiDS~vaa~ll~k----r---G~~V~av~~~~~ 207 (371)
T TIGR00342 171 TQGKVLALLSGGIDSPVAAFMMMK----R---GCRVVAVHFFNE 207 (371)
T ss_pred cCCeEEEEecCCchHHHHHHHHHH----c---CCeEEEEEEeCC
Confidence 347899999999888876655533 4 678999998753
No 243
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=55.95 E-value=62 Score=24.24 Aligned_cols=57 Identities=9% Similarity=-0.017 Sum_probs=41.1
Q ss_pred EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-c-eecccchhHHHHhcCC-CCEEEEcC
Q 040308 106 VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-K-RMFLGSVSNYCANHAQ-CPVVVVKG 162 (167)
Q Consensus 106 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~i~~~~~-~pVliv~~ 162 (167)
+..-...+.+++.|++.+..+|+.-+.+.-.. . ...+......+..+++ +||.+--.
T Consensus 23 ~~n~e~~~avi~aAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~~a~~~~~vpv~lhlD 82 (282)
T TIGR01859 23 FNNLEWTQAILEAAEEENSPVIIQVSEGAIKYMGGYKMAVAMVKTLIERMSIVPVALHLD 82 (282)
T ss_pred ECCHHHHHHHHHHHHHhCCCEEEEcCcchhhccCcHHHHHHHHHHHHHHCCCCeEEEECC
Confidence 34447899999999999999999877654322 1 1235667778888888 89887643
No 244
>TIGR02089 TTC tartrate dehydrogenase. Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate. These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in TIGR00169 and TIGR02088, respectively.
Probab=55.90 E-value=47 Score=25.84 Aligned_cols=28 Identities=11% Similarity=0.094 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 16 EESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 16 ~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
..+++.+++|+++|++. ..+|+++|=-+
T Consensus 164 ~~~eRi~r~Af~~A~~r---r~kVt~v~KaN 191 (352)
T TIGR02089 164 KGVERIMRFAFELAQKR---RKHLTSATKSN 191 (352)
T ss_pred HHHHHHHHHHHHHHHHc---CCCEEEEeCCc
Confidence 67899999999999888 67888887444
No 245
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=55.84 E-value=73 Score=22.80 Aligned_cols=71 Identities=15% Similarity=0.091 Sum_probs=39.4
Q ss_pred HHHHHHHHHhhh-cCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSE-KNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~-~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+.+ .|+.+......+++. ...++.+...++|-+|+......... ... ..+.+.++|++.+-.
T Consensus 16 ~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-----~~~-~~l~~~~iPvv~~~~ 89 (272)
T cd06301 16 LLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATA-----PIV-KAANAAGIPLVYVNR 89 (272)
T ss_pred HHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhH-----HHH-HHHHHCCCeEEEecC
Confidence 344455555555 666655543334443 23444455668999998754322111 122 335677899998854
No 246
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=55.77 E-value=50 Score=23.73 Aligned_cols=53 Identities=21% Similarity=0.200 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEee
Q 040308 78 AHQGRITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGS 131 (167)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~ 131 (167)
|......-+.++++++...+.+..+...+ .|....+-+..+.+.++|.+|+|+
T Consensus 144 q~fi~~~lekI~~l~~~~~~~~~~~~I~v-dGGI~~eni~~l~~aGAd~vVvGS 196 (220)
T PRK08883 144 QSFIPHTLDKLRAVRKMIDESGRDIRLEI-DGGVKVDNIREIAEAGADMFVAGS 196 (220)
T ss_pred ceecHhHHHHHHHHHHHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEeH
No 247
>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=55.62 E-value=56 Score=21.38 Aligned_cols=42 Identities=21% Similarity=0.218 Sum_probs=30.2
Q ss_pred HHhhhcCCcEEEEEEec--ChHhHHHHHHHHhCCCEEEEeecCCCcc
Q 040308 93 KICSEKNVNVKSEVVIG--DAKEKVCELVEKLHADLLVMGSHTFGPI 137 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~ 137 (167)
..++..|.++ +.-| -+.+++++.|.++++|+|.+.+--.+..
T Consensus 21 ~~L~~~GfeV---idLG~~v~~e~~v~aa~~~~adiVglS~L~t~~~ 64 (128)
T cd02072 21 HAFTEAGFNV---VNLGVLSPQEEFIDAAIETDADAILVSSLYGHGE 64 (128)
T ss_pred HHHHHCCCEE---EECCCCCCHHHHHHHHHHcCCCEEEEeccccCCH
Confidence 3555667664 2234 5889999999999999999987544444
No 248
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=55.38 E-value=41 Score=22.04 Aligned_cols=49 Identities=12% Similarity=0.195 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecC-----------------hHhHHHHHHHHhCCCEEEEeecCC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGD-----------------AKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~-----------------~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
.+.+.+.+.+.+.+.|++++..-..+. -.+++.+... .+|.||++++-.
T Consensus 16 t~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~--~aD~iI~~sP~y 81 (152)
T PF03358_consen 16 TRKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLK--EADGIIFASPVY 81 (152)
T ss_dssp HHHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHH--HSSEEEEEEEEB
T ss_pred HHHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhcee--cCCeEEEeecEE
Confidence 445566666666666777766644431 2344455555 999999998753
No 249
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=55.37 E-value=1e+02 Score=26.96 Aligned_cols=85 Identities=16% Similarity=0.157 Sum_probs=56.3
Q ss_pred cCChhHHHHHHHHHHhccccC--CCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHH
Q 040308 13 DGGEESMDALRWAIDNLKLRS--PAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDH 90 (167)
Q Consensus 13 d~s~~s~~al~~a~~la~~~~--~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (167)
-+|-...+|+-.++......+ +....++++|+-| +++..+.++..
T Consensus 46 TGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsP---------------------------------LkALn~Di~~r 92 (814)
T COG1201 46 TGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISP---------------------------------LKALNNDIRRR 92 (814)
T ss_pred CCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCc---------------------------------HHHHHHHHHHH
Confidence 455556666555554333331 0034699999988 34556666777
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+..+....|+++ .++.||..+.=-..-....+|+||....
T Consensus 93 L~~~~~~~G~~v--~vRhGDT~~~er~r~~~~PPdILiTTPE 132 (814)
T COG1201 93 LEEPLRELGIEV--AVRHGDTPQSEKQKMLKNPPHILITTPE 132 (814)
T ss_pred HHHHHHHcCCcc--ceecCCCChHHhhhccCCCCcEEEeChh
Confidence 777777888887 6788987777776666678888887643
No 250
>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=55.03 E-value=53 Score=25.43 Aligned_cols=53 Identities=23% Similarity=0.308 Sum_probs=31.9
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEE---EEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLL---VMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dli---V~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.|+++-+++.+--.. ++-.||| .+|++... ..+...++....|||.+=.+
T Consensus 132 i~~~GlP~atE~ld~~~~--------qY~~DliSwgaIGARt~e-------sq~hre~ASgls~PVgfKN~ 187 (348)
T PRK12756 132 INELGLPTATEFLDMVTG--------QYIADLISWGAIGARTTE-------SQIHREMASALSCPVGFKNG 187 (348)
T ss_pred HHHcCCceeehhcccccH--------HHHHHHHhhhhhcccccc-------CHHHHHHHhcCCCceEecCC
Confidence 357788887776665222 3335666 56655321 12346777888899887443
No 251
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=54.55 E-value=76 Score=23.91 Aligned_cols=70 Identities=9% Similarity=0.017 Sum_probs=46.6
Q ss_pred HhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-ce-ecccchhHHHHhcC--CCCEEEEcCC
Q 040308 94 ICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-KR-MFLGSVSNYCANHA--QCPVVVVKGK 163 (167)
Q Consensus 94 ~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~-~~~gs~~~~i~~~~--~~pVliv~~~ 163 (167)
.+.+.+.-+-.. +..-.....+++.|++.+..+|+..+.+.-.. .+ ..+.........++ .+||.+-=..
T Consensus 12 ~A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~~~~~~~~~~~a~~~~~~VPV~lHLDH 86 (288)
T TIGR00167 12 DAKEEGYAIPAFNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGLGAISAMVKAMSEAYPYGVPVALHLDH 86 (288)
T ss_pred HHHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCHHHHHHHHHHHHHhccCCCcEEEECCC
Confidence 334444333333 34457899999999999999999877654332 21 23566777788888 8998875433
No 252
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=54.54 E-value=31 Score=27.40 Aligned_cols=11 Identities=18% Similarity=0.160 Sum_probs=6.2
Q ss_pred CCeEEEEEEeC
Q 040308 36 PGSFIVLHVQP 46 (167)
Q Consensus 36 ~~~l~~l~v~~ 46 (167)
..-+.++|--.
T Consensus 23 ~~~~~i~Hgp~ 33 (426)
T cd01972 23 RDAVVVQHGPI 33 (426)
T ss_pred CCeEEEEeCCc
Confidence 45566666533
No 253
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=54.53 E-value=53 Score=25.75 Aligned_cols=30 Identities=13% Similarity=0.147 Sum_probs=22.8
Q ss_pred CChhHHHHHHHHHHhccccCCCCC-eEEEEEEeC
Q 040308 14 GGEESMDALRWAIDNLKLRSPAPG-SFIVLHVQP 46 (167)
Q Consensus 14 ~s~~s~~al~~a~~la~~~~~~~~-~l~~l~v~~ 46 (167)
....+++.+++|+++|++. +. +|+++|=-+
T Consensus 182 Tr~~~eRIar~AF~~A~~r---~~k~Vt~v~KaN 212 (372)
T PLN00118 182 TRQASLRVAEYAFHYAKTH---GRKRVSAIHKAN 212 (372)
T ss_pred CHHHHHHHHHHHHHHHHHc---CCCeEEEEECCc
Confidence 3467899999999999988 44 588876433
No 254
>PF03054 tRNA_Me_trans: tRNA methyl transferase; InterPro: IPR004506 tRNA-specific 2-thiouridylase catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.; GO: 0016740 transferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 2DET_A 2DER_A 2DEU_A 2HMA_A.
Probab=54.48 E-value=97 Score=24.17 Aligned_cols=36 Identities=28% Similarity=0.187 Sum_probs=22.2
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
++|+|++++--+|.- |+.|.+.. +-+++.+|...-.
T Consensus 1 ~kV~vamSGGVDSsv----aA~LLk~~---G~~V~Gv~m~~~~ 36 (356)
T PF03054_consen 1 KKVLVAMSGGVDSSV----AAALLKEQ---GYDVIGVTMRNWD 36 (356)
T ss_dssp -EEEEE--SSHHHHH----HHHHHHHC---T-EEEEEEEE-SS
T ss_pred CeEEEEccCCHHHHH----HHHHHHhh---cccceEEEEEEec
Confidence 589999998877653 33455556 7799999886643
No 255
>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=54.43 E-value=57 Score=21.52 Aligned_cols=40 Identities=23% Similarity=0.306 Sum_probs=23.4
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEe
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMG 130 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 130 (167)
+.+.+++.|.++......+|-.+.|.+..++ .++|+||..
T Consensus 32 l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 32 LAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred HHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 3455566787766654444444445544332 279999986
No 256
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=54.38 E-value=24 Score=20.59 Aligned_cols=28 Identities=21% Similarity=0.149 Sum_probs=21.8
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhcccc
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLR 32 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~ 32 (167)
.++|++++|.....+.+..+....+...
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~ 73 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPL 73 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG--
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhh
Confidence 4889999999999888888888866554
No 257
>TIGR00930 2a30 K-Cl cotransporter.
Probab=54.35 E-value=1.6e+02 Score=26.35 Aligned_cols=43 Identities=16% Similarity=0.144 Sum_probs=26.2
Q ss_pred CCCEEEEeecCCCcc--ceecccchhHHHHhcCCCCEEEEcCCCCC
Q 040308 123 HADLLVMGSHTFGPI--KRMFLGSVSNYCANHAQCPVVVVKGKGTS 166 (167)
Q Consensus 123 ~~dliV~g~~~~~~~--~~~~~gs~~~~i~~~~~~pVliv~~~~~~ 166 (167)
+++|||+.-..+..- .....-...+-+.+.. .|+|+|+...++
T Consensus 903 ~a~lv~~~lp~p~~~~~~~~~Ym~~l~~lt~~l-~p~llvrGn~~~ 947 (953)
T TIGR00930 903 DAALVVLSLPVPRKGSISDELYMAWLEVLSEDL-PPVLLVRGNHRN 947 (953)
T ss_pred CCcEEEEeCCCCCCCCCCHHHHHHHHHHHhcCC-CCeEEEecCCce
Confidence 889999987643321 2222223445444444 699999987753
No 258
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=54.22 E-value=54 Score=20.80 Aligned_cols=59 Identities=10% Similarity=0.030 Sum_probs=38.4
Q ss_pred cCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeec--CCCccceecccchhHHHHhcCCCCEEE
Q 040308 98 KNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSH--TFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 98 ~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~--~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
.|+.++.. .. ..-...|.+..++..+|+||--.. ++.... --|...++.....++|++-
T Consensus 44 ~Gi~v~~v-k~~~~~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~--~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 44 TGLTVNRM-KSGPLGGDQQIGALIAEGEIDAVIFFRDPLTAQPHE--PDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred hCCcEEEE-ecCCCCchhHHHHHHHcCceeEEEEcCCCCCCCccc--ccHHHHHHHHHHcCCCEEE
Confidence 68888776 43 122367999999999999988755 333211 1255666666677787764
No 259
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=54.17 E-value=1e+02 Score=23.84 Aligned_cols=62 Identities=13% Similarity=0.210 Sum_probs=38.0
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC---CccceecccchhHHHH-hcCCCCEEEEcC
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF---GPIKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
+.+.|+++... .++..- ...++..+|.+++|+.+- +.+-. -.|+..-.++ ++.++|++++-+
T Consensus 202 L~~~GI~vtlI--~Dsav~---~~m~~~~vd~VivGAd~v~~nG~v~n-kiGT~~lA~~Ak~~~vPfyV~a~ 267 (331)
T TIGR00512 202 LVQEGIPATLI--TDSMAA---HLMKHGEVDAVIVGADRIAANGDTAN-KIGTYQLAVLAKHHGVPFYVAAP 267 (331)
T ss_pred HHHCCCCEEEE--cccHHH---HHhcccCCCEEEEcccEEecCCCEee-hhhHHHHHHHHHHhCCCEEEecc
Confidence 34678887643 222222 333455899999999763 22222 2566555555 777899999844
No 260
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=54.13 E-value=78 Score=22.62 Aligned_cols=71 Identities=17% Similarity=0.048 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+.+.|+.+......+++. .+.++.+...++|-||+......... ... ..+...++||+++-.
T Consensus 17 ~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~-----~~l-~~~~~~~iPvV~~~~ 89 (275)
T cd06317 17 TYNKAFQAAAEEDGVEVIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYI-----PGL-RKAKQAGIPVVITNS 89 (275)
T ss_pred HHHHHHHHHHHhcCCEEEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCccccH-----HHH-HHHHHCCCcEEEeCC
Confidence 444555555556677665543333443 23444455668999988653221111 122 334667899988743
No 261
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=54.10 E-value=57 Score=23.19 Aligned_cols=58 Identities=19% Similarity=0.206 Sum_probs=44.6
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhH
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSN 147 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~ 147 (167)
..++.+..++.|..+-..+.-|.+.+.|..++. ..|++.+=+-.+++-.+.|.-+.-.
T Consensus 101 ~~~lv~~ir~~Gmk~G~alkPgT~Ve~~~~~~~--~~D~vLvMtVePGFGGQkFme~mm~ 158 (224)
T KOG3111|consen 101 PAELVEKIREKGMKVGLALKPGTPVEDLEPLAE--HVDMVLVMTVEPGFGGQKFMEDMMP 158 (224)
T ss_pred HHHHHHHHHHcCCeeeEEeCCCCcHHHHHHhhc--cccEEEEEEecCCCchhhhHHHHHH
Confidence 455666677889888888888999999999999 8898887776667666666554443
No 262
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=54.04 E-value=83 Score=22.90 Aligned_cols=53 Identities=15% Similarity=0.219 Sum_probs=36.6
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIK 138 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 138 (167)
+.+..+.+.+.+.|+.++.+..+ =+..+.|..++....+|+|=+-+...+.+.
T Consensus 123 ~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQIKtPDLGgi~ 176 (248)
T PF07476_consen 123 EALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQIKTPDLGGIN 176 (248)
T ss_dssp HHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE-GGGGSSTH
T ss_pred HHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEecCCCccchh
Confidence 34566677778889888776544 388999999999999999999887766554
No 263
>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=53.99 E-value=55 Score=20.84 Aligned_cols=47 Identities=13% Similarity=0.154 Sum_probs=33.1
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccc
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIK 138 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 138 (167)
+...++..|.++... -...|.+++++.+.+.++|.|++.........
T Consensus 19 ~~~~l~~~G~~vi~l-G~~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~ 65 (122)
T cd02071 19 IARALRDAGFEVIYT-GLRQTPEEIVEAAIQEDVDVIGLSSLSGGHMT 65 (122)
T ss_pred HHHHHHHCCCEEEEC-CCCCCHHHHHHHHHHcCCCEEEEcccchhhHH
Confidence 345566777765332 22268899999999999999999877544333
No 264
>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group..
Probab=53.98 E-value=49 Score=20.20 Aligned_cols=34 Identities=26% Similarity=0.208 Sum_probs=24.6
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
|+|++.+..+|.-.+..+..+ +.++.++|+-...
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~-------~~~~~~~~~~~~~ 34 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKL-------GYQVIAVTVDHGI 34 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHh-------CCCEEEEEEcCCC
Confidence 578999999998777666553 3468888886643
No 265
>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=53.80 E-value=97 Score=23.60 Aligned_cols=37 Identities=24% Similarity=0.185 Sum_probs=27.7
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
++++|++.+.-+|.-++..+.. .. +.+++.+|+-...
T Consensus 17 ~kVvValSGGVDSsvla~ll~~---~~---G~~v~av~vd~G~ 53 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHR---AI---GDRLTCVFVDHGL 53 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHH---Hh---CCCEEEEEEeCCC
Confidence 6899999999888766655543 24 5689999998743
No 266
>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=53.62 E-value=1e+02 Score=24.07 Aligned_cols=70 Identities=13% Similarity=0.109 Sum_probs=46.6
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-ce----------------ecccchhHHHHhcCCCC
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-KR----------------MFLGSVSNYCANHAQCP 156 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~----------------~~~gs~~~~i~~~~~~p 156 (167)
+.+.+.-+-.. +..-....++++.|++.+..+|+..+.+.-.. .+ ..+......+..++++|
T Consensus 22 A~~~~yAVgAfNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~v~~~Ae~a~VP 101 (357)
T TIGR01520 22 AKENNFAIPAINCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGAHHVHSIAEHYGVP 101 (357)
T ss_pred HHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHHHHHHHHHHHCCCC
Confidence 34444333322 34457899999999999999999987754221 11 01456778888899999
Q ss_pred EEEEcCCC
Q 040308 157 VVVVKGKG 164 (167)
Q Consensus 157 Vliv~~~~ 164 (167)
|.+-=..+
T Consensus 102 ValHLDHg 109 (357)
T TIGR01520 102 VVLHTDHC 109 (357)
T ss_pred EEEECCCC
Confidence 98764433
No 267
>PLN02476 O-methyltransferase
Probab=53.57 E-value=50 Score=24.73 Aligned_cols=48 Identities=17% Similarity=0.168 Sum_probs=33.5
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHH---HhCCCEEEEeecC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVE---KLHADLLVMGSHT 133 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~---~~~~dliV~g~~~ 133 (167)
+..+.+++.+++.|+.-...+..|+..+.+-++.. ...+|+|++...+
T Consensus 154 e~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K 204 (278)
T PLN02476 154 NSLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADK 204 (278)
T ss_pred HHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCH
Confidence 34455566666778765566788988877766543 2479999999875
No 268
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=53.52 E-value=43 Score=22.79 Aligned_cols=70 Identities=9% Similarity=0.062 Sum_probs=32.1
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCc-c---ceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGP-I---KRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~-~---~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
+++.|++.-.-+...++.+....+++++++.++-++...... . ..-..-...+.+++..+-||||.=..+
T Consensus 28 L~~L~LKTII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~~ild~~n~PvLiHC~~G 101 (164)
T PF03162_consen 28 LERLGLKTIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALEIILDPRNYPVLIHCNHG 101 (164)
T ss_dssp HHHHT-SEEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHHHHH-GGG-SEEEE-SSS
T ss_pred HHHCCCceEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHHHHhCCCCCCEEEEeCCC
Confidence 344566644444444567777789999999999998765443 1 111122233456677789999975444
No 269
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=53.45 E-value=78 Score=22.37 Aligned_cols=72 Identities=21% Similarity=0.107 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+.+.+.+.|+.+...-..+++. ...++.....++|.||+......... .. -..++..++|++.+-.
T Consensus 15 ~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~-----~~-~~~l~~~~ip~V~~~~ 88 (267)
T cd01536 15 QAMNKGAEAAAKELGVELIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALT-----PA-LKKANAAGIPVVTVDS 88 (267)
T ss_pred HHHHHHHHHHHHhcCceEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHH-----HH-HHHHHHCCCcEEEecC
Confidence 3445555555666677766654444443 23444444458999988754221111 11 2344566799988754
No 270
>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=53.45 E-value=21 Score=28.32 Aligned_cols=48 Identities=19% Similarity=0.323 Sum_probs=35.2
Q ss_pred HhHHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcCCCCEEEE
Q 040308 112 KEKVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
.+.|++++++.++|++|.|.-= .+.. +..-|.++..|-.+.++|++.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrY-G~acg~va~aV~e~~~IP~vta 113 (431)
T TIGR01917 65 KAKVLEMIKGANPDIFIAGPAFNAGRY-GMAAGAITKAVQDELGIKAFTA 113 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccH-HHHHHHHHHHHHHhhCCCeEEE
Confidence 4778999999999999999531 2222 2345677777888889998753
No 271
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=53.43 E-value=33 Score=24.23 Aligned_cols=38 Identities=18% Similarity=0.128 Sum_probs=17.9
Q ss_pred CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 123 HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 123 ~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
++|.+|+-..+. .......+-....++...++||++|-
T Consensus 103 ~~D~viIEg~gg-~~~~~~~~~~~adl~~~l~~pvilV~ 140 (222)
T PRK00090 103 QYDLVLVEGAGG-LLVPLTEDLTLADLAKQLQLPVILVV 140 (222)
T ss_pred hCCEEEEECCCc-eeccCCCCCcHHHHHHHhCCCEEEEE
Confidence 566666654431 11111122233445566666666653
No 272
>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=53.43 E-value=43 Score=19.38 Aligned_cols=35 Identities=31% Similarity=0.204 Sum_probs=26.7
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
.++|.++.|..+....+.+......... +..+.++
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~---g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKL---GLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHC---CCeEEEE
Confidence 4899999999998888887777777766 5555443
No 273
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=53.30 E-value=71 Score=24.86 Aligned_cols=45 Identities=18% Similarity=0.171 Sum_probs=26.9
Q ss_pred HHHHHHHhhhcCCcEEEE-EEecCh----HhHHHHHHHHhCCCEEE-Eeec
Q 040308 88 IDHALKICSEKNVNVKSE-VVIGDA----KEKVCELVEKLHADLLV-MGSH 132 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~-v~~g~~----~~~I~~~a~~~~~dliV-~g~~ 132 (167)
.+++.+.+.+.|+.+... -...++ .+.+.+.+++.++|.|| +|..
T Consensus 43 ~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiGGG 93 (374)
T cd08189 43 LDKVLEALEGAGIEYAVYDGVPPDPTIENVEAGLALYRENGCDAILAVGGG 93 (374)
T ss_pred HHHHHHHHHhcCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 344555566667665432 122233 55667778888999888 5543
No 274
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=53.28 E-value=22 Score=28.29 Aligned_cols=48 Identities=17% Similarity=0.340 Sum_probs=35.2
Q ss_pred HhHHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcCCCCEEEE
Q 040308 112 KEKVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
.+.|++++++.++|++|.|.-= .+.. +..-|.++..|-.+.++|++.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrY-G~acg~va~aV~e~~~IP~vt~ 113 (431)
T TIGR01918 65 VARVLEMLKDKEPDIFIAGPAFNAGRY-GVACGEICKVVQDKLNVPAVTS 113 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccH-HHHHHHHHHHHHHhhCCCeEEE
Confidence 4778999999999999999531 2222 2345677777888889998753
No 275
>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=53.21 E-value=66 Score=21.51 Aligned_cols=82 Identities=11% Similarity=0.065 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHhhhcCCcEEEEEEec--ChHhHHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcCCCCEE
Q 040308 82 RITQAIIDHALKICSEKNVNVKSEVVIG--DAKEKVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
....+.+....++.+..|.++...+..+ ...+.+.+......+|-++.-... .......-.......++++.+..++
T Consensus 15 ~~~~e~l~~A~~La~~~g~~v~av~~G~~~~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lV 94 (164)
T PF01012_consen 15 PVSLEALEAARRLAEALGGEVTAVVLGPAEEAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLV 94 (164)
T ss_dssp HHHHHHHHHHHHHHHCTTSEEEEEEEETCCCHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEE
T ss_pred HHHHHHHHHHHHHHhhcCCeEEEEEEecchhhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEE
Confidence 3455667777777777777776665543 345555566666788866665433 2222222345667778888888888
Q ss_pred EEcCC
Q 040308 159 VVKGK 163 (167)
Q Consensus 159 iv~~~ 163 (167)
+++..
T Consensus 95 l~~~t 99 (164)
T PF01012_consen 95 LFGST 99 (164)
T ss_dssp EEESS
T ss_pred EEcCc
Confidence 88864
No 276
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=52.88 E-value=1e+02 Score=23.48 Aligned_cols=61 Identities=21% Similarity=0.285 Sum_probs=36.3
Q ss_pred HhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC---CccceecccchhHHHH-hcCCCCEEEEcC
Q 040308 94 ICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF---GPIKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 94 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
.+.+.|+++.... ++.. ..... .+|.+++|+..- +.+-. ..|+..-.++ ++.++||+++-+
T Consensus 166 ~L~~~GI~vtlI~--Dsav---~~~m~--~vd~VivGAd~v~~nG~v~n-kiGT~~~A~~Ak~~~vPv~V~a~ 230 (310)
T PRK08535 166 ELAEYGIPVTLIV--DSAV---RYFMK--DVDKVVVGADAITANGAVIN-KIGTSQIALAAHEARVPFMVAAE 230 (310)
T ss_pred HHHHCCCCEEEEe--hhHH---HHHHH--hCCEEEECccEEecCCCEEe-HHhHHHHHHHHHHhCCCEEEecc
Confidence 3456688876542 2222 22334 599999999863 22222 2465554444 777899999843
No 277
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=52.85 E-value=1.1e+02 Score=27.94 Aligned_cols=49 Identities=10% Similarity=0.157 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe--cChHhHHHHHHHHhCCCEEEEeecC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI--GDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
+++..+.+++.+...+|+++...+. .+-.++|++-.++..+|+| +|+|+
T Consensus 656 A~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIv-IGTHr 706 (1139)
T COG1197 656 AQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIV-IGTHR 706 (1139)
T ss_pred HHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEE-EechH
Confidence 5667778888888889888877544 4678889999999999965 57664
No 278
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=52.79 E-value=77 Score=23.92 Aligned_cols=57 Identities=11% Similarity=0.010 Sum_probs=40.6
Q ss_pred EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-c-eecccchhHHHHhcC--CCCEEEEcC
Q 040308 106 VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-K-RMFLGSVSNYCANHA--QCPVVVVKG 162 (167)
Q Consensus 106 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~i~~~~--~~pVliv~~ 162 (167)
+..-...+.+++.|++.+..+|+.-+.+.... . -..+......+..+. .+||.+-=.
T Consensus 25 ~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~~~~~~~~~~~a~~~~~~vPV~lHLD 85 (293)
T PRK07315 25 TNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGYKVCKNLIENLVESMGITVPVAIHLD 85 (293)
T ss_pred ECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCcEEEECC
Confidence 34447899999999999999999887754332 2 123456677888888 678876533
No 279
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=52.79 E-value=82 Score=22.64 Aligned_cols=72 Identities=15% Similarity=0.130 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEec-ChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIG-DAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g-~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+.+.+.+.+.+.|+.+......+ ++.. ..++.+...++|.+|+-........ ...+ .+...++||+++-
T Consensus 16 ~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~-----~~l~-~~~~~~ipvV~~~ 89 (271)
T cd06312 16 TVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIAAKPDGIVVTIPDPDALD-----PAIK-RAVAAGIPVISFN 89 (271)
T ss_pred HHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhH-----HHHH-HHHHCCCeEEEeC
Confidence 3445555666666787776654444 4432 3444455568998888653211111 1222 3455679999885
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 90 ~ 90 (271)
T cd06312 90 A 90 (271)
T ss_pred C
Confidence 4
No 280
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=52.53 E-value=95 Score=23.12 Aligned_cols=76 Identities=13% Similarity=0.089 Sum_probs=42.8
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
++++.+.+.+. ..+.+-..+-..+. .-+..+.+++.++|-+++.........+--+-..-..|+..++.||++...
T Consensus 58 ~~~~~~~~~~~-~~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~~pv~lYn~ 135 (292)
T PRK03170 58 ELIRAVVEAVN-GRVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEATDLPIILYNV 135 (292)
T ss_pred HHHHHHHHHhC-CCCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 34444444432 22444333333333 333446788899999999766533322211223456678888999999854
No 281
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=52.31 E-value=71 Score=24.68 Aligned_cols=30 Identities=10% Similarity=0.133 Sum_probs=22.4
Q ss_pred ChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 15 GEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 15 s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
...+++.+++|+++|++.+ ..+|+++|=-+
T Consensus 146 r~~~eRi~r~Af~~A~~r~--~~~Vt~v~KaN 175 (334)
T PRK08997 146 RKGAERIVRFAYELARKEG--RKKVTAVHKAN 175 (334)
T ss_pred HHHHHHHHHHHHHHHHhcC--CCeEEEEeCCC
Confidence 3678999999999998882 24588876433
No 282
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=52.29 E-value=67 Score=22.45 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=10.8
Q ss_pred hCCCEEEEeecCC
Q 040308 122 LHADLLVMGSHTF 134 (167)
Q Consensus 122 ~~~dliV~g~~~~ 134 (167)
..+|.||+|+...
T Consensus 68 ~~aD~ii~gsPty 80 (200)
T PRK03767 68 ADYDAIIFGTPTR 80 (200)
T ss_pred HhCCEEEEEeccc
Confidence 3899999998764
No 283
>PRK14974 cell division protein FtsY; Provisional
Probab=52.27 E-value=84 Score=24.26 Aligned_cols=53 Identities=9% Similarity=0.024 Sum_probs=32.2
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHh---HHHHHHHHhCCCEEEEeecCCCccceec
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKE---KVCELVEKLHADLLVMGSHTFGPIKRMF 141 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~ 141 (167)
+++..++...|+++......+++.. ..+++++..++|+|++-+.++......+
T Consensus 185 eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~~l 240 (336)
T PRK14974 185 EQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMHTDANL 240 (336)
T ss_pred HHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccCCcHHH
Confidence 3445555666776644333345554 3344566678999999998877644433
No 284
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=52.23 E-value=21 Score=24.50 Aligned_cols=48 Identities=21% Similarity=0.291 Sum_probs=29.4
Q ss_pred HHHhCCCEEEEeecCCCccceecccc----hhHHHHh--cCCCCEEEEcCCCCC
Q 040308 119 VEKLHADLLVMGSHTFGPIKRMFLGS----VSNYCAN--HAQCPVVVVKGKGTS 166 (167)
Q Consensus 119 a~~~~~dliV~g~~~~~~~~~~~~gs----~~~~i~~--~~~~pVliv~~~~~~ 166 (167)
..-..+|++++..-..+.......|- +++.++. +..+||+|+|.....
T Consensus 84 lqlGkYD~llvaPaTsNTvAKIa~GIADtLVTNAVaqa~Kg~VPvyivP~D~k~ 137 (187)
T COG1036 84 LQLGKYDFLLVAPATSNTVAKIAYGIADTLVTNAVAQAGKGKVPVYIVPVDYKE 137 (187)
T ss_pred eecccccEEEEcccccchHHHHHhhhHHHHHHHHHHHhcCCCCcEEEecccccC
Confidence 34457999999866555454433221 3444443 456999999976543
No 285
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=52.07 E-value=1e+02 Score=23.34 Aligned_cols=79 Identities=13% Similarity=0.083 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CCCEEEE
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QCPVVVV 160 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~pVliv 160 (167)
.+++.+.+.+.+. ..+.+-..+-..+. +-+..+.+++.++|-+++-.........--+-..-..|...+ +.||++.
T Consensus 63 r~~v~~~~~~~~~-grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lPv~iY 141 (309)
T cd00952 63 KQAFVATVVETVA-GRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAIAIY 141 (309)
T ss_pred HHHHHHHHHHHhC-CCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCcEEEE
Confidence 3344444444432 23554444433344 444447788999998888766433222211223346678888 5999998
Q ss_pred cCC
Q 040308 161 KGK 163 (167)
Q Consensus 161 ~~~ 163 (167)
.-.
T Consensus 142 n~P 144 (309)
T cd00952 142 ANP 144 (309)
T ss_pred cCc
Confidence 543
No 286
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=51.97 E-value=83 Score=25.24 Aligned_cols=75 Identities=16% Similarity=0.115 Sum_probs=46.6
Q ss_pred HHHHHHHHhhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce--ecccchh------H---HHHhcCC
Q 040308 87 IIDHALKICSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR--MFLGSVS------N---YCANHAQ 154 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~------~---~i~~~~~ 154 (167)
-.++++-.+.+.+++.... +....-.+.|...+++.++|++|+.+-+.-.... .--||++ . ++.+..+
T Consensus 131 S~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~ 210 (456)
T COG1066 131 SLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKN 210 (456)
T ss_pred CHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcC
Confidence 3455555556666544433 3444668999999999999999999865322221 1234333 2 3455667
Q ss_pred CCEEEEc
Q 040308 155 CPVVVVK 161 (167)
Q Consensus 155 ~pVliv~ 161 (167)
+++++|-
T Consensus 211 i~~fiVG 217 (456)
T COG1066 211 IAIFIVG 217 (456)
T ss_pred CeEEEEE
Confidence 8888874
No 287
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=51.93 E-value=88 Score=22.56 Aligned_cols=61 Identities=10% Similarity=0.072 Sum_probs=41.6
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHH
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCA 150 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~ 150 (167)
..++.+.+++.|+..-..+.-+.+.+.+..+.. ..|+|.+=+-.+++-.+.|..+..++|-
T Consensus 99 ~~~~l~~Ir~~g~k~GlalnP~T~~~~i~~~l~--~vD~VlvMtV~PGf~GQ~fi~~~l~KI~ 159 (223)
T PRK08745 99 VHRTIQLIKSHGCQAGLVLNPATPVDILDWVLP--ELDLVLVMSVNPGFGGQAFIPSALDKLR 159 (223)
T ss_pred HHHHHHHHHHCCCceeEEeCCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHHH
Confidence 344555666778777666666789999999998 7887666555556666666665555543
No 288
>TIGR00930 2a30 K-Cl cotransporter.
Probab=51.89 E-value=1.8e+02 Score=26.10 Aligned_cols=96 Identities=22% Similarity=0.176 Sum_probs=58.5
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHH
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQ 85 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (167)
-++||.+.........++++-.+.+.. .-.++.||.+.+... ..++.+
T Consensus 576 PqiLvl~~~p~~~~~Ll~f~~~l~~~~----gl~i~~~v~~~~~~~----------------------------~~~~~~ 623 (953)
T TIGR00930 576 PQCLVLTGPPVCRPALLDFASQFTKGK----GLMICGSVIQGPRLE----------------------------CVKEAQ 623 (953)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHhccCC----cEEEEEEEecCchhh----------------------------hHHHHH
Confidence 368999988888888999999998644 567777887743110 111122
Q ss_pred HHHHHHHHHhhhcCCcEEEE-EEecChHhHHHHHHHH-----hCCCEEEEeecC
Q 040308 86 AIIDHALKICSEKNVNVKSE-VVIGDAKEKVCELVEK-----LHADLLVMGSHT 133 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-v~~g~~~~~I~~~a~~-----~~~dliV~g~~~ 133 (167)
...++..++++..+++-=.. +...+..+.+....+. .++..|+||.+.
T Consensus 624 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~ 677 (953)
T TIGR00930 624 AAEAKIQTWLEKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKK 677 (953)
T ss_pred HHHHHHHHHHHHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCcc
Confidence 22333444445555543333 3334677777776653 357788998764
No 289
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=51.88 E-value=84 Score=22.30 Aligned_cols=68 Identities=15% Similarity=0.154 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+.+.+.+.+++.|..+.......++ ...+++.....++|-+|+........ ..+ .+ ....||+++.
T Consensus 15 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~-------~~~-~~-~~~ipvv~~~ 84 (267)
T cd06284 15 SEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT-------ALT-AL-AKLPPIVQAC 84 (267)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH-------HHH-HH-hcCCCEEEEe
Confidence 445566666667778777554443444 34556667777999888743321100 112 22 3478988874
No 290
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=51.57 E-value=34 Score=27.41 Aligned_cols=11 Identities=9% Similarity=0.012 Sum_probs=7.2
Q ss_pred CCeEEEEEEeC
Q 040308 36 PGSFIVLHVQP 46 (167)
Q Consensus 36 ~~~l~~l~v~~ 46 (167)
..-++++|--.
T Consensus 58 ~d~~~lvHGp~ 68 (456)
T TIGR01283 58 TDAAHLVHGPI 68 (456)
T ss_pred CCEEEEEeCch
Confidence 56777777544
No 291
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=51.32 E-value=63 Score=20.67 Aligned_cols=70 Identities=10% Similarity=0.112 Sum_probs=39.5
Q ss_pred HHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCC-CEEEEeecCCCccceecccchhHHHHhcC---CCCEEEEcCC
Q 040308 89 DHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHA-DLLVMGSHTFGPIKRMFLGSVSNYCANHA---QCPVVVVKGK 163 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~-dliV~g~~~~~~~~~~~~gs~~~~i~~~~---~~pVliv~~~ 163 (167)
+.+.+.+...+..++...... +..+.+.......+. |.||+.... +.+. .+++.++... .+|+-++|..
T Consensus 18 ~~v~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GGD-GTl~-----~vv~~l~~~~~~~~~~l~iiP~G 91 (130)
T PF00781_consen 18 KKVEPALRAAGIDYEVIETESAGHAEALARILALDDYPDVIVVVGGD-GTLN-----EVVNGLMGSDREDKPPLGIIPAG 91 (130)
T ss_dssp HHHHHHHHHTTCEEEEEEESSTTHHHHHHHHHHHTTS-SEEEEEESH-HHHH-----HHHHHHCTSTSSS--EEEEEE-S
T ss_pred HHHHHHHHHcCCceEEEEEeccchHHHHHHHHhhccCccEEEEEcCc-cHHH-----HHHHHHhhcCCCccceEEEecCC
Confidence 555566666777776665554 677777775555555 677665442 2232 2344444333 2489999865
Q ss_pred C
Q 040308 164 G 164 (167)
Q Consensus 164 ~ 164 (167)
.
T Consensus 92 T 92 (130)
T PF00781_consen 92 T 92 (130)
T ss_dssp S
T ss_pred C
Confidence 4
No 292
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=51.31 E-value=1.2e+02 Score=23.73 Aligned_cols=69 Identities=16% Similarity=0.093 Sum_probs=45.7
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-ce---ec------------ccchhHHHHhcCCCCE
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-KR---MF------------LGSVSNYCANHAQCPV 157 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~---~~------------~gs~~~~i~~~~~~pV 157 (167)
+.+.+.-+-.. +..-...+.|++.|++.+..+|+..+.+.... .. .. +......+.+++++||
T Consensus 16 A~~~~yAV~AfNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPV 95 (350)
T PRK09197 16 AKENGFALPAVNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGAKHVHEVAEHYGVPV 95 (350)
T ss_pred HHHCCceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCE
Confidence 34444333332 34447899999999999999999887653322 10 11 4456788889999998
Q ss_pred EEEcCC
Q 040308 158 VVVKGK 163 (167)
Q Consensus 158 liv~~~ 163 (167)
.+-=..
T Consensus 96 alHLDH 101 (350)
T PRK09197 96 ILHTDH 101 (350)
T ss_pred EEECCC
Confidence 876443
No 293
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=51.31 E-value=50 Score=25.98 Aligned_cols=17 Identities=18% Similarity=0.259 Sum_probs=8.9
Q ss_pred chhHHHHhcCCCCEEEE
Q 040308 144 SVSNYCANHAQCPVVVV 160 (167)
Q Consensus 144 s~~~~i~~~~~~pVliv 160 (167)
.+++.|+..+++|++|.
T Consensus 178 ~~vk~V~~av~vPLIL~ 194 (389)
T TIGR00381 178 KVLEDVLQAVDVPIVIG 194 (389)
T ss_pred HHHHHHHHhCCCCEEEe
Confidence 34455555555555554
No 294
>PRK12361 hypothetical protein; Provisional
Probab=51.16 E-value=1.3e+02 Score=24.82 Aligned_cols=72 Identities=8% Similarity=0.106 Sum_probs=38.8
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
+..+++.+.+.+. .+++...... .-+.++.+.+.+.++|+||+.... +.+.. +++.+. +.++|+-++|...
T Consensus 260 ~~~~~i~~~L~~~-~~~~v~~t~~~~~a~~la~~~~~~~~d~Viv~GGD-GTl~e-----v~~~l~-~~~~~lgiiP~GT 331 (547)
T PRK12361 260 EYGEQIQRELKAY-FDLTVKLTTPEISAEALAKQARKAGADIVIACGGD-GTVTE-----VASELV-NTDITLGIIPLGT 331 (547)
T ss_pred HHHHHHHHHHhcC-CceEEEECCCCccHHHHHHHHHhcCCCEEEEECCC-cHHHH-----HHHHHh-cCCCCEEEecCCc
Confidence 4445555555443 4444333322 335666666656677877664332 33333 344443 4578999998654
Q ss_pred C
Q 040308 165 T 165 (167)
Q Consensus 165 ~ 165 (167)
-
T Consensus 332 g 332 (547)
T PRK12361 332 A 332 (547)
T ss_pred h
Confidence 3
No 295
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=51.05 E-value=1.2e+02 Score=23.71 Aligned_cols=68 Identities=13% Similarity=0.131 Sum_probs=43.8
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+++.+...+ +++. +........-++.+++..+|+|.|.-.-.. ... -.+.+.+++..++||+++-.-
T Consensus 16 ~i~~~l~~~~-~i~v-v~~a~ng~~a~~~~~~~~PDVi~ld~emp~-mdg---l~~l~~im~~~p~pVimvssl 83 (350)
T COG2201 16 VISDILNSDP-DIEV-VGTARNGREAIDKVKKLKPDVITLDVEMPV-MDG---LEALRKIMRLRPLPVIMVSSL 83 (350)
T ss_pred HHHHHHhcCC-CeEE-EEecCCHHHHHHHHHhcCCCEEEEeccccc-ccH---HHHHHHHhcCCCCcEEEEecc
Confidence 3345555444 2322 333444666678888889999999965322 222 236688999999999998653
No 296
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=50.98 E-value=91 Score=25.05 Aligned_cols=60 Identities=15% Similarity=0.112 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 73 TAAIEAHQGRITQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
..+.++..-+....+++++.+.+++.|.++.+.-...+..+-|-+.+.+.+.+.||.+-.
T Consensus 52 ~~eik~~~lenLd~~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKS 111 (459)
T COG1139 52 AREIKLHVLENLDEYLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKS 111 (459)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecc
Confidence 344445555667888888899999999887665333355555567888899999999854
No 297
>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=50.96 E-value=24 Score=26.52 Aligned_cols=54 Identities=19% Similarity=0.175 Sum_probs=40.4
Q ss_pred EecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCEEEE
Q 040308 107 VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 107 ~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pVliv 160 (167)
..-.....+++.|++.+..+|+.-+.+...... ..+......+.+++++||.+-
T Consensus 25 ~n~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~~~~~~~~~~~~a~~~~vPValH 79 (287)
T PF01116_consen 25 YNLETARAVIEAAEELNSPVILQISPSEVKYMGLEYLAAMVKAAAEEASVPVALH 79 (287)
T ss_dssp SSHHHHHHHHHHHHHTTS-EEEEEEHHHHHHHHHHHHHHHHHHHHHHSTSEEEEE
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEcchhhhhhhhHHHHHHHHHHHHHHcCCCEEee
Confidence 334789999999999999999988765433332 245678888999999999764
No 298
>PRK10481 hypothetical protein; Provisional
Probab=50.95 E-value=93 Score=22.53 Aligned_cols=60 Identities=12% Similarity=0.132 Sum_probs=37.0
Q ss_pred HHHhhhcCCcEEEEEEec--ChHhHHHHHHH---HhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 92 LKICSEKNVNVKSEVVIG--DAKEKVCELVE---KLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 92 ~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~---~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
+++.. .|.++....... ...+.+.+.++ +.++|+||++..+.+. . ....+-+....||+.
T Consensus 147 ~kw~~-~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~-~------~~~~le~~lg~PVI~ 211 (224)
T PRK10481 147 QKWQV-LQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ-R------HRDLLQKALDVPVLL 211 (224)
T ss_pred HHHHh-cCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH-H------HHHHHHHHHCcCEEc
Confidence 34433 376655443221 33446666666 5689999999988664 1 235566777888875
No 299
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=50.92 E-value=42 Score=26.63 Aligned_cols=12 Identities=25% Similarity=0.517 Sum_probs=9.7
Q ss_pred CCCCEEEEcCCC
Q 040308 153 AQCPVVVVKGKG 164 (167)
Q Consensus 153 ~~~pVliv~~~~ 164 (167)
..+||+++++..
T Consensus 109 ~~iPVf~I~GNH 120 (405)
T TIGR00583 109 VAIPVFSIHGNH 120 (405)
T ss_pred CCCCEEEEcCCC
Confidence 579999998764
No 300
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=50.88 E-value=57 Score=20.44 Aligned_cols=63 Identities=19% Similarity=0.225 Sum_probs=38.9
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
+..++.++..|..++..- -+..++.++.. ++|++.+|..-+-. -...++++....+||-+++.
T Consensus 19 ~Km~~aA~~kg~~~~I~A---~s~~e~~~~~~--~~DvvLlGPQv~y~------~~~~~~~~~~~giPV~vI~~ 81 (102)
T COG1440 19 TKMKKAAESKGKDVTIEA---YSETELSEYID--NADVVLLGPQVRYM------LKQLKEAAEEKGIPVEVIDM 81 (102)
T ss_pred HHHHHHHHhCCCceEEEE---echhHHHHhhh--cCCEEEEChHHHHH------HHHHHHHhcccCCCeEEeCH
Confidence 444455555676654432 23445555555 99999999653221 23456677777889988874
No 301
>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=50.87 E-value=1.2e+02 Score=23.95 Aligned_cols=34 Identities=21% Similarity=0.363 Sum_probs=26.4
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+|+|++.+.-+|.-++.++.+ . +.+++.+|+...
T Consensus 1 kVvla~SGGlDSsvll~~l~e----~---g~~V~av~id~G 34 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLRE----K---GYEVIAYTADVG 34 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHH----c---CCEEEEEEEecC
Confidence 588999999888888877654 3 468999999653
No 302
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=50.84 E-value=1e+02 Score=23.11 Aligned_cols=38 Identities=16% Similarity=0.244 Sum_probs=26.0
Q ss_pred hhhcCCcEEEEEEe-c---ChHhHHHHHHHHhCCCEEEEeec
Q 040308 95 CSEKNVNVKSEVVI-G---DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 95 ~~~~~~~~~~~v~~-g---~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+++.|+++...... . +....+.+..++.++|++|+...
T Consensus 133 A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 133 AAWHGIPFHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred HHHhCCCEEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 56778887653211 1 23456788889999999999754
No 303
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=50.79 E-value=26 Score=24.27 Aligned_cols=37 Identities=19% Similarity=0.236 Sum_probs=15.7
Q ss_pred CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 123 HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 123 ~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
++|++++-.-+... .....+.+...+++..++||++|
T Consensus 99 ~~D~vlVEGag~~~-~~~~~~~~n~dia~~L~a~vIlV 135 (199)
T PF13500_consen 99 EYDVVLVEGAGGLM-VPIFSGDLNADIAKALGAPVILV 135 (199)
T ss_dssp TTCEEEEEESSSTT-SECCTTEEHHHHHHHHT-EEEEE
T ss_pred cCCEEEEeCCcccC-cccccChHHHHHHHHcCCCEEEE
Confidence 45555554333222 22233334444555555555555
No 304
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=50.79 E-value=78 Score=22.19 Aligned_cols=59 Identities=10% Similarity=0.027 Sum_probs=38.4
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH 152 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~ 152 (167)
+...++..|.++... -.+-|.+.+++.+++.++|+|.+.......... +....+.+-..
T Consensus 104 v~~~l~~~G~~vi~L-G~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~--~~~~i~~l~~~ 162 (197)
T TIGR02370 104 VVTMLRANGFDVIDL-GRDVPIDTVVEKVKKEKPLMLTGSALMTTTMYG--QKDINDKLKEE 162 (197)
T ss_pred HHHHHHhCCcEEEEC-CCCCCHHHHHHHHHHcCCCEEEEccccccCHHH--HHHHHHHHHHc
Confidence 334556667665332 223589999999999999999999765554443 24455544443
No 305
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=50.73 E-value=91 Score=22.38 Aligned_cols=69 Identities=10% Similarity=0.110 Sum_probs=39.7
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+++.|+.+.......+..+.+.+.....++|-||+-..... . ...+ -+...++||+++..
T Consensus 27 ~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~--~-----~~~~-~~~~~~ipvV~~~~ 95 (275)
T cd06295 27 SLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ--D-----PLPE-RLAETGLPFVVWGR 95 (275)
T ss_pred HHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC--h-----HHHH-HHHhCCCCEEEECC
Confidence 34455556667777776554333333556666666678997777432211 1 1122 34567889988854
No 306
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=50.69 E-value=66 Score=20.77 Aligned_cols=42 Identities=24% Similarity=0.347 Sum_probs=23.0
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEe
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMG 130 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 130 (167)
..+.+++++.|.++.......+-.+.|.+..++ ..+|+||..
T Consensus 21 ~~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dliitt 64 (135)
T smart00852 21 PALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADLVITT 64 (135)
T ss_pred HHHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEc
Confidence 344556677787665554344434444433322 268988875
No 307
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=50.64 E-value=1.2e+02 Score=23.53 Aligned_cols=34 Identities=21% Similarity=0.142 Sum_probs=25.4
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
++|+|++.+--+|.-++..+. .. +.+++.+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~----~~---G~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLK----EQ---GYEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHH----Hc---CCcEEEEEEeC
Confidence 389999999988887665443 34 45788888875
No 308
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=50.56 E-value=54 Score=24.05 Aligned_cols=53 Identities=15% Similarity=0.160 Sum_probs=35.9
Q ss_pred EEecChHhHHH-HHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 106 VVIGDAKEKVC-ELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 106 v~~g~~~~~I~-~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
...|....+.. .+.++.++|.||.=..|..++...+ ...+...+||+++.+..
T Consensus 172 am~gPfs~e~n~aL~~~~~i~~lVtK~SG~~g~~eKi------~AA~~lgi~vivI~RP~ 225 (248)
T PRK08057 172 ALRGPFSLELERALLRQHRIDVVVTKNSGGAGTEAKL------EAARELGIPVVMIARPA 225 (248)
T ss_pred EeeCCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHHH------HHHHHcCCeEEEEeCCC
Confidence 34465555555 4677889999998766654333332 56788899999997654
No 309
>KOG2805 consensus tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=50.22 E-value=1.2e+02 Score=23.46 Aligned_cols=39 Identities=26% Similarity=0.236 Sum_probs=26.5
Q ss_pred CCCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 1 MSGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 1 ~~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
||.++.+++|++.+.-+|.- |+.|.+.. +-.++.+|-..
T Consensus 1 ~p~~~~~VvvamSgGVDSsV----aa~Ll~~~---g~~v~gv~M~n 39 (377)
T KOG2805|consen 1 MPEKPDRVVVAMSGGVDSSV----AARLLAAR---GYNVTGVFMKN 39 (377)
T ss_pred CCcccceEEEEecCCchHHH----HHHHHHhc---CCCeeEEeeec
Confidence 68899999999988866543 23444444 45777776544
No 310
>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=50.02 E-value=73 Score=24.67 Aligned_cols=69 Identities=22% Similarity=0.174 Sum_probs=45.7
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeec-CCCccce----------------ecccchhHHHHhcCCCC
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSH-TFGPIKR----------------MFLGSVSNYCANHAQCP 156 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~-~~~~~~~----------------~~~gs~~~~i~~~~~~p 156 (167)
+.+.+.-+-.. +..-....++++.|++.+..+|+..+. +...... ..+...+..+..++.+|
T Consensus 8 A~~~~yAV~AfN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~VP 87 (340)
T cd00453 8 AKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVP 87 (340)
T ss_pred HHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHHHHHHHHHHHCCCC
Confidence 34444333333 334478899999999999999998877 3312111 23556777888899999
Q ss_pred EEEEcCC
Q 040308 157 VVVVKGK 163 (167)
Q Consensus 157 Vliv~~~ 163 (167)
|.+-=..
T Consensus 88 V~lHLDH 94 (340)
T cd00453 88 VILHTDH 94 (340)
T ss_pred EEEEcCC
Confidence 9876443
No 311
>PRK08392 hypothetical protein; Provisional
Probab=49.97 E-value=79 Score=22.39 Aligned_cols=68 Identities=12% Similarity=-0.057 Sum_probs=43.4
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCP 156 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~p 156 (167)
..+++.+.+.+.|+.+|.-....-|...+++.+++.+. -+++|+..+.+..=..+ ..+..+++++..+
T Consensus 138 ~~~~i~~~~~~~g~~lEiNt~~~~p~~~~l~~~~~~G~-~~~igSDAH~~~~vg~~-~~a~~~~~~~g~~ 205 (215)
T PRK08392 138 ELKEILDLAEAYGKAFEISSRYRVPDLEFIRECIKRGI-KLTFASDAHRPEDVGNV-SWSLKVFKKAGGK 205 (215)
T ss_pred HHHHHHHHHHHhCCEEEEeCCCCCCCHHHHHHHHHcCC-EEEEeCCCCChHHCCcH-HHHHHHHHHcCCC
Confidence 44556667777786665544445677889999998886 58999876543221011 3556677777654
No 312
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=49.87 E-value=61 Score=24.75 Aligned_cols=71 Identities=8% Similarity=-0.028 Sum_probs=39.7
Q ss_pred HHHHHHHHhhhcCCcEEEEE-EecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 87 IIDHALKICSEKNVNVKSEV-VIGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v-~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+.+.+++.|+.+.... ..++..+ .+++.....++|-||+.......+. ...+. +....+||+.+-..
T Consensus 41 ~~~Gi~~aa~~~G~~v~~~~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~-----~~l~~-a~~~gIpVV~~d~~ 114 (336)
T PRK15408 41 GGNGAKEAGKELGVDVTYDGPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLC-----PALKR-AMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHH-----HHHHH-HHHCCCeEEEeCCC
Confidence 34444555667787765421 2234433 3455566679999999643322222 22232 45668999988543
No 313
>PRK00919 GMP synthase subunit B; Validated
Probab=49.87 E-value=1.1e+02 Score=23.23 Aligned_cols=37 Identities=24% Similarity=0.205 Sum_probs=28.9
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
++++|++.+.-+|.-++..+.. .. +.+++.+|+-...
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~---~l---G~~v~aV~vD~G~ 58 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR---AI---GDRLTPVFVDTGL 58 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH---Hh---CCeEEEEEEECCC
Confidence 6899999999888877766544 34 5689999998754
No 314
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=49.79 E-value=74 Score=24.52 Aligned_cols=64 Identities=13% Similarity=0.188 Sum_probs=38.9
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC---CccceecccchhHHHH-hcCCCCEEEEcC
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF---GPIKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
..+.+.|+++... .++ .+-.+....++|.+++|..+- +.+-. -.|+..-.++ ++.++||+++-+
T Consensus 190 ~eL~~~GI~vtlI--~Ds---a~~~~M~~~~Vd~VivGAd~I~aNG~v~N-KiGT~~lAl~Ak~~~VPfyV~a~ 257 (329)
T PRK06371 190 WELAQEGIDHAII--ADN---AAGYFMRKKEIDLVIVGADRIASNGDFAN-KIGTYEKAVLAKVNGIPFYVAAP 257 (329)
T ss_pred HHHHHCCCCEEEE--ccc---HHHHHhhhcCCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEecc
Confidence 3445568887653 222 222344455899999999863 22222 2566555555 677799999854
No 315
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=49.78 E-value=51 Score=25.99 Aligned_cols=25 Identities=24% Similarity=0.422 Sum_probs=11.8
Q ss_pred cChHhHHHHHHH-HhCCCEEEEeecC
Q 040308 109 GDAKEKVCELVE-KLHADLLVMGSHT 133 (167)
Q Consensus 109 g~~~~~I~~~a~-~~~~dliV~g~~~ 133 (167)
|+=.+.+++.++ +.++.++.+.+.+
T Consensus 102 GdDi~~v~~~~~~~~~~~vi~v~t~g 127 (410)
T cd01968 102 GDDIDAVCKTASEKFGIPVIPVHSPG 127 (410)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCC
Confidence 433444444333 3355555555544
No 316
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=49.76 E-value=54 Score=19.45 Aligned_cols=49 Identities=4% Similarity=-0.037 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
.......+.+.+.+.|+.+.......++.+.+-..-...-+=.||+|..
T Consensus 14 ~~~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~~~a~~~g~p~~iiiG~~ 62 (94)
T PF03129_consen 14 IIEYAQELANKLRKAGIRVELDDSDKSLGKQIKYADKLGIPFIIIIGEK 62 (94)
T ss_dssp HHHHHHHHHHHHHHTTSEEEEESSSSTHHHHHHHHHHTTESEEEEEEHH
T ss_pred HHHHHHHHHHHHHHCCCEEEEECCCCchhHHHHHHhhcCCeEEEEECch
Confidence 3345556666777788887776644567777766666666667777854
No 317
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=49.60 E-value=69 Score=22.15 Aligned_cols=42 Identities=7% Similarity=0.165 Sum_probs=26.7
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
.++|++.+++.++|+|++|-..+. ++.+. .+.....+.+|++
T Consensus 89 ~~~i~~~I~~s~~dil~VglG~Pk--QE~~~----~~~~~~~~~~v~~ 130 (177)
T TIGR00696 89 RKAALAKIARSGAGIVFVGLGCPK--QEIWM----RNHRHLKPDAVMI 130 (177)
T ss_pred HHHHHHHHHHcCCCEEEEEcCCcH--hHHHH----HHhHHhCCCcEEE
Confidence 467889999999999999966432 22222 2344444566654
No 318
>PRK09875 putative hydrolase; Provisional
Probab=49.54 E-value=78 Score=23.87 Aligned_cols=50 Identities=6% Similarity=0.054 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCC--CEEEEeecC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHA--DLLVMGSHT 133 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~--dliV~g~~~ 133 (167)
.++.++.........|.++.++.-.++...++++.+++.+. +-||+|+-.
T Consensus 137 E~kvl~Aaa~a~~~TG~pi~~Ht~~~~~g~e~l~il~e~Gvd~~rvvi~H~d 188 (292)
T PRK09875 137 EEKVFIAAALAHNQTGRPISTHTSFSTMGLEQLALLQAHGVDLSRVTVGHCD 188 (292)
T ss_pred HHHHHHHHHHHHHHHCCcEEEcCCCccchHHHHHHHHHcCcCcceEEEeCCC
Confidence 34444444555556677777665556556666777777666 778888765
No 319
>PF02610 Arabinose_Isome: L-arabinose isomerase; InterPro: IPR003762 The Escherichia coli araBAD operon consists of three genes encoding three enzymes that convert L-arabinose to D-xylulose-5 phosphate. L-arabinose isomerase (AraA) 5.3.1.4 from EC catalyses the conversion of L-arabinose to L-ribulose as the first step in the pathway of L-arabinose utilization as a carbon source [].; GO: 0008733 L-arabinose isomerase activity, 0008152 metabolic process; PDB: 4F2D_A 2AJT_C 2HXG_C.
Probab=49.43 E-value=1.3e+02 Score=23.60 Aligned_cols=46 Identities=22% Similarity=0.286 Sum_probs=25.5
Q ss_pred hHHHHHHH-HhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 113 EKVCELVE-KLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 113 ~~I~~~a~-~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
..+...+. +.+++.||+=-+..++-+-+ -..++..++|++.+.-..
T Consensus 61 ~~~~~~an~~~~c~gvi~wMhTfSpakmw------I~gl~~l~kPllhl~tQ~ 107 (359)
T PF02610_consen 61 TRVCKEANADEDCDGVITWMHTFSPAKMW------IPGLQRLQKPLLHLHTQP 107 (359)
T ss_dssp HHHHHHHHH-TTEEEEEEEESS---THHH------HHHHHH--S-EEEEE--S
T ss_pred HHHHHHhhccCCccEEeehhhhhccHHHH------HHHHHHhCCCeEEeeccc
Confidence 33334443 35888999888877766544 367888999999987543
No 320
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=49.34 E-value=55 Score=23.61 Aligned_cols=20 Identities=30% Similarity=0.312 Sum_probs=12.0
Q ss_pred HhHHHHHHHHhCCCEEEEee
Q 040308 112 KEKVCELVEKLHADLLVMGS 131 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~ 131 (167)
.+.+++.+++.++|+||+.-
T Consensus 20 le~l~~~~~~~~~D~vv~~G 39 (224)
T cd07388 20 LEKLVGLAPETGADAIVLIG 39 (224)
T ss_pred HHHHHHHHhhcCCCEEEECC
Confidence 45556666556677666653
No 321
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=49.33 E-value=1.1e+02 Score=23.04 Aligned_cols=131 Identities=18% Similarity=0.121 Sum_probs=71.2
Q ss_pred CCCCCcEEEEee----cC-ChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHH
Q 040308 1 MSGNLGCVIVAV----DG-GEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAA 75 (167)
Q Consensus 1 ~~~~~~~ILv~i----d~-s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (167)
||++++.|+.++ +. ..-+..+++.-++..... + +..+.+.-.......
T Consensus 1 ~~~~~~Gvi~a~vTPF~~dg~vD~~a~~~lv~~li~~---G--v~gi~~~GttGE~~~---------------------- 53 (299)
T COG0329 1 MMAKFKGVIPALVTPFDEDGSVDEEALRRLVEFLIAA---G--VDGLVVLGTTGESPT---------------------- 53 (299)
T ss_pred CCcccCcceeccccCCCCCCCcCHHHHHHHHHHHHHc---C--CCEEEECCCCccchh----------------------
Confidence 566777777665 21 235677777777776655 3 344443332221110
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC
Q 040308 76 IEAHQGRITQAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA 153 (167)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~ 153 (167)
-..++..+.++.+.+.... .+++-.-+-..+. +-++.+.+++.++|-+++-.+-.....+--+-..-..|+..+
T Consensus 54 ---Ls~eEr~~v~~~~v~~~~g-rvpviaG~g~~~t~eai~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~ 129 (299)
T COG0329 54 ---LTLEERKEVLEAVVEAVGG-RVPVIAGVGSNSTAEAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAV 129 (299)
T ss_pred ---cCHHHHHHHHHHHHHHHCC-CCcEEEecCCCcHHHHHHHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhc
Confidence 0012223334444444321 2343222222233 445557899999999999877654444322233446788889
Q ss_pred CCCEEEEcC
Q 040308 154 QCPVVVVKG 162 (167)
Q Consensus 154 ~~pVliv~~ 162 (167)
+.|+++..-
T Consensus 130 ~lPvilYN~ 138 (299)
T COG0329 130 DLPVILYNI 138 (299)
T ss_pred CCCEEEEeC
Confidence 999999864
No 322
>PF00180 Iso_dh: Isocitrate/isopropylmalate dehydrogenase; InterPro: IPR024084 Isocitrate dehydrogenase (IDH) [, ] is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate. IDH is either dependent on NAD+ (1.1.1.41 from EC) or on NADP+ (1.1.1.42 from EC). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated. 3-isopropylmalate dehydrogenase (1.1.1.85 from EC) (IMDH) [, ] catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate. Tartrate dehydrogenase (1.1.1.93 from EC) [] catalyses the reduction of tartrate to oxaloglycolate. These enzymes are evolutionary related. To this family also belongs the enzyme tartrate dehydrogenase, which shows strong homology to prokaryotic isopropylmalate dehydrogenases and, to a lesser extent, isocitrate dehydrogenase []. This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described []. ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1WAL_A 1CNZ_B 2D4V_C 1CM7_A 4AOY_D 3FMX_X 3FLK_C 1A05_A 1X0L_B 4F7I_D ....
Probab=49.33 E-value=86 Score=24.30 Aligned_cols=29 Identities=21% Similarity=0.234 Sum_probs=23.7
Q ss_pred hhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 16 EESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 16 ~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
+.+++.+++|+++|+..+ ..+|+++|=.+
T Consensus 160 ~~~eRi~r~AF~~A~~r~--~k~Vt~v~KaN 188 (348)
T PF00180_consen 160 EGIERIARFAFEYARKRG--RKKVTVVHKAN 188 (348)
T ss_dssp HHHHHHHHHHHHHHHHTT--TSEEEEEESTT
T ss_pred chhhHHHHHHHHHHHHhC--CceEEEEeccc
Confidence 568999999999999984 57888887544
No 323
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=49.13 E-value=35 Score=26.73 Aligned_cols=26 Identities=23% Similarity=0.363 Sum_probs=13.6
Q ss_pred cChHhHHHHHHH-HhCCCEEEEeecCC
Q 040308 109 GDAKEKVCELVE-KLHADLLVMGSHTF 134 (167)
Q Consensus 109 g~~~~~I~~~a~-~~~~dliV~g~~~~ 134 (167)
|+-.+.+++.++ +.++.+|.+.+.+.
T Consensus 103 GdDi~~v~~~~~~~~~~~vi~v~t~gf 129 (406)
T cd01967 103 GDDIEAVAKEASKELGIPVIPVNCEGF 129 (406)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCe
Confidence 443444444433 44566666666554
No 324
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=49.09 E-value=1e+02 Score=22.51 Aligned_cols=71 Identities=11% Similarity=-0.011 Sum_probs=39.4
Q ss_pred HHHHHHHHHhhhcCCcEEEE-EEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSE-VVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+.+.|..+... ...+++. ...++.+...++|-||+......... ...+ -+...++||+++-.
T Consensus 16 ~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~l~~~~~~~~dgiii~~~~~~~~~-----~~i~-~~~~~~iPvV~~~~ 89 (294)
T cd06316 16 AQVRGAKDEFAKLGIEVVATTDAQFDPAKQVADIETTISQKPDIIISIPVDPVSTA-----AAYK-KVAEAGIKLVFMDN 89 (294)
T ss_pred HHHHHHHHHHHHcCCEEEEecCCCCCHHHHHHHHHHHHHhCCCEEEEcCCCchhhh-----HHHH-HHHHcCCcEEEecC
Confidence 34555566677778776533 2223443 23444455668999988643322111 2223 34556899998854
No 325
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=49.08 E-value=99 Score=22.30 Aligned_cols=69 Identities=13% Similarity=0.219 Sum_probs=40.9
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHH--hcCCCCEEEEcCCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCA--NHAQCPVVVVKGKG 164 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~--~~~~~pVliv~~~~ 164 (167)
+.+.+...+...|..+.+. ..| ++..+.++.. +|+|++...-+. ..++ .....+= .....||+++-...
T Consensus 12 i~~~l~~~L~~~g~~v~~~-~~~---~~a~~~~~~~-~dlviLD~~lP~-~dG~---~~~~~iR~~~~~~~PIi~Lta~~ 82 (229)
T COG0745 12 LAELLKEYLEEEGYEVDVA-ADG---EEALEAAREQ-PDLVLLDLMLPD-LDGL---ELCRRLRAKKGSGPPIIVLTARD 82 (229)
T ss_pred HHHHHHHHHHHCCCEEEEE-CCH---HHHHHHHhcC-CCEEEEECCCCC-CCHH---HHHHHHHhhcCCCCcEEEEECCC
Confidence 3445556667778765443 222 6666777766 999999976442 2222 1222222 34668899987653
No 326
>PHA02031 putative DnaG-like primase
Probab=49.05 E-value=41 Score=25.02 Aligned_cols=37 Identities=19% Similarity=0.125 Sum_probs=31.0
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEe
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQ 45 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~ 45 (167)
++|+++.|+.....+|...|+.++... +.++.++.+-
T Consensus 207 ~~Vil~fDgD~AG~~Aa~ra~~~l~~~---~~~v~vv~lP 243 (266)
T PHA02031 207 PRVLIFLDGDPAGVDGSAGAMRRLRPL---LIEGQVIITP 243 (266)
T ss_pred CCEEEEeCCCHHHHHHHHHHHHHHHHc---CCceEEEECC
Confidence 789999999999999999999998877 6666665553
No 327
>PF02729 OTCace_N: Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; InterPro: IPR006132 This entry contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and may also play a role in trimerization of the molecules []. The carboxyl-terminal, aspartate/ornithine-binding domain is is described by IPR006131 from INTERPRO. ; GO: 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 2P2G_D 2I6U_A 2YFK_B 3D6N_B 3SDS_A 3GD5_A 3R7L_B 3R7F_A 3R7D_A ....
Probab=48.96 E-value=19 Score=23.91 Aligned_cols=40 Identities=23% Similarity=0.478 Sum_probs=28.2
Q ss_pred cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEE
Q 040308 109 GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 109 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
|...+...+..... +|+||+-....+ ..+.+..++.|||+
T Consensus 81 ~Esl~Dtar~ls~~-~D~iv~R~~~~~---------~~~~~a~~~~vPVI 120 (142)
T PF02729_consen 81 GESLEDTARVLSRY-VDAIVIRHPSHG---------ALEELAEHSSVPVI 120 (142)
T ss_dssp SSEHHHHHHHHHHH-CSEEEEEESSHH---------HHHHHHHHCSSEEE
T ss_pred CCCHHHHHHHHHHh-hheEEEEeccch---------HHHHHHHhccCCeE
Confidence 45566666666666 999999855432 44678888999996
No 328
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=48.95 E-value=34 Score=25.00 Aligned_cols=17 Identities=29% Similarity=0.309 Sum_probs=11.4
Q ss_pred HHHhcCCCCEEEEcCCC
Q 040308 148 YCANHAQCPVVVVKGKG 164 (167)
Q Consensus 148 ~i~~~~~~pVliv~~~~ 164 (167)
+.+...+||+++||.+.
T Consensus 83 ~~L~~~~~p~~~vPG~~ 99 (255)
T PF14582_consen 83 RILGELGVPVFVVPGNM 99 (255)
T ss_dssp HHHHCC-SEEEEE--TT
T ss_pred HHHHhcCCcEEEecCCC
Confidence 46778899999999764
No 329
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=48.94 E-value=28 Score=23.17 Aligned_cols=46 Identities=15% Similarity=0.046 Sum_probs=26.7
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.++++++++|.|++.-.... -.. + ...-+.+++.+|.|.++|
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~~-~~~--i-~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWSE-EEQ--I-KRIIEELENHGVRVRVVP 175 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS--HHH--H-HHHHHHHHTTT-EEEE--
T ss_pred HHHHHHHHHhCCCCEEEEEcCccC-HHH--H-HHHHHHHHhCCCEEEEeC
Confidence 588999999999999999966432 221 1 122346677789999987
No 330
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=48.73 E-value=98 Score=23.45 Aligned_cols=71 Identities=15% Similarity=0.024 Sum_probs=39.0
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
...+.+.+.+.+.|+.+......+++ ....++.....++|-||+......... ... ..+.+..+||+++-.
T Consensus 42 ~~~~gi~~~a~~~g~~l~i~~~~~~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~-----~~l-~~~~~~~iPvV~id~ 114 (330)
T PRK10355 42 KDRDIFVKKAESLGAKVFVQSANGNEETQMSQIENMINRGVDVLVIIPYNGQVLS-----NVI-KEAKQEGIKVLAYDR 114 (330)
T ss_pred HHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhHH-----HHH-HHHHHCCCeEEEECC
Confidence 44455566666777776554333343 334445555678998888643211111 112 334566788888854
No 331
>cd01981 Pchlide_reductase_B Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=48.50 E-value=36 Score=27.00 Aligned_cols=26 Identities=4% Similarity=0.147 Sum_probs=11.7
Q ss_pred cChHhHHHHHHH-HhCCCEEEEeecCC
Q 040308 109 GDAKEKVCELVE-KLHADLLVMGSHTF 134 (167)
Q Consensus 109 g~~~~~I~~~a~-~~~~dliV~g~~~~ 134 (167)
|+-.+.+.+.++ +.++.++.+.+.+.
T Consensus 101 GdDi~~v~~~~~~~~~~~vi~v~t~gf 127 (430)
T cd01981 101 QEDLQNFVRAAGLSSKSPVLPLDVNHY 127 (430)
T ss_pred hhCHHHHHHHhhhccCCCeEEecCCCc
Confidence 433344443333 33555555555543
No 332
>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=48.45 E-value=1.1e+02 Score=22.79 Aligned_cols=50 Identities=14% Similarity=0.018 Sum_probs=32.5
Q ss_pred hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 113 EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 113 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
-++.+.+++.++|-+++-.........--+-..-..|...+++||++...
T Consensus 84 i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~~~pi~lYn~ 133 (289)
T cd00951 84 IAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLGVIVYNR 133 (289)
T ss_pred HHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEeC
Confidence 34447788899999999766443222211123345677888999999863
No 333
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=48.15 E-value=1.1e+02 Score=23.94 Aligned_cols=63 Identities=13% Similarity=0.106 Sum_probs=37.9
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCcccee--cccchhHHHH-hcCCCCEEEEcC
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRM--FLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~--~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
+.+.|+++... .++. +-.+..+..+|.+++|+.+-...... -.|+..-.++ ++.++|++++-+
T Consensus 223 L~~~GIpvtlI--~Dsa---~~~~m~~~~Vd~VivGAD~I~~NG~v~NKiGTy~lA~~Ak~~~vPfyV~ap 288 (363)
T PRK05772 223 LMEEGIKVTLI--TDTA---VGLVMYKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHELGIPFYALAP 288 (363)
T ss_pred HHHCCCCEEEE--ehhH---HHHHHhhcCCCEEEECccEEecCCCEeehhhhHHHHHHHHHhCCCEEEEcc
Confidence 45568887653 2222 22333445899999999863222211 2566665555 777799999854
No 334
>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=48.07 E-value=73 Score=21.00 Aligned_cols=68 Identities=13% Similarity=0.067 Sum_probs=39.9
Q ss_pred HHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEcC
Q 040308 92 LKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKG 162 (167)
Q Consensus 92 ~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~ 162 (167)
...++..|.++-.. -..-+.+++++.+.++++|+|.+.+.-.+.... +..+.+.+-.+.. .+++++-.
T Consensus 22 ~~~l~~~GfeVi~L-G~~v~~e~~v~aa~~~~adiVglS~l~~~~~~~--~~~~~~~l~~~gl~~~~vivGG 90 (134)
T TIGR01501 22 DHAFTNAGFNVVNL-GVLSPQEEFIKAAIETKADAILVSSLYGHGEID--CKGLRQKCDEAGLEGILLYVGG 90 (134)
T ss_pred HHHHHHCCCEEEEC-CCCCCHHHHHHHHHHcCCCEEEEecccccCHHH--HHHHHHHHHHCCCCCCEEEecC
Confidence 34556677664221 112589999999999999999998765433322 3344554433321 34444443
No 335
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=48.02 E-value=1.2e+02 Score=22.97 Aligned_cols=61 Identities=18% Similarity=0.237 Sum_probs=36.7
Q ss_pred HhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCC---ccceecccchhHHHH-hcCCCCEEEEcC
Q 040308 94 ICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFG---PIKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 94 ~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~---~~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
.+.+.|+++.... ++ .+..... .+|.+++|+.+-. .+-. -.|+..-.++ ++..+||+++-+
T Consensus 161 ~L~~~gI~vtlI~--Ds---a~~~~m~--~vd~VivGad~v~~nG~v~n-kiGT~~lA~~Ak~~~vPv~V~a~ 225 (301)
T TIGR00511 161 ELRDYGIPVTLIV--DS---AVRYFMK--EVDHVVVGADAITANGALIN-KIGTSQLALAAREARVPFMVAAE 225 (301)
T ss_pred HHHHCCCCEEEEe--hh---HHHHHHH--hCCEEEECccEEecCCCEEE-HHhHHHHHHHHHHhCCCEEEEcc
Confidence 4456788876542 22 2222334 5999999998632 2222 2465554444 777899999843
No 336
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=47.95 E-value=1.2e+02 Score=22.78 Aligned_cols=76 Identities=11% Similarity=-0.008 Sum_probs=41.3
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CCCEEEEcCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QCPVVVVKGK 163 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~pVliv~~~ 163 (167)
+.+.+.+... ..+++-..+-..+.. -+..+.+++.++|-+++..........--+-..-..|...+ +.||++....
T Consensus 59 ~~~~~~~~~~-~~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~lpv~lYn~P 137 (290)
T TIGR00683 59 IFRIAKDEAK-DQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGLNMIVYSIP 137 (290)
T ss_pred HHHHHHHHhC-CCCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCCCEEEEeCc
Confidence 3444444432 234443333333443 34447788999999999776433322211122334566666 6999998643
No 337
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=47.75 E-value=76 Score=22.91 Aligned_cols=46 Identities=15% Similarity=0.226 Sum_probs=30.5
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH---hCCCEEEEeec
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEK---LHADLLVMGSH 132 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~---~~~dliV~g~~ 132 (167)
..+.+++.+.+.|+.-...+..|+..+.+-++..+ ..+|+|++...
T Consensus 105 ~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 105 AYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred HHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 34455555566676545567788877766665443 47999999865
No 338
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=47.70 E-value=1.4e+02 Score=23.51 Aligned_cols=59 Identities=19% Similarity=0.191 Sum_probs=35.1
Q ss_pred hhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCc-----cceecccchhHHHHhcCCCCEEE
Q 040308 96 SEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGP-----IKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 96 ~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~-----~~~~~~gs~~~~i~~~~~~pVli 159 (167)
.+.++.+...+ + ....++.+.+.+.++|+|++-.+..+. ...+ . ...++.++.++||+.
T Consensus 129 r~a~VtvkiRl--~~~~~~e~a~~l~eAGad~I~ihgrt~~q~~~sg~~~p--~-~l~~~i~~~~IPVI~ 193 (369)
T TIGR01304 129 RDSGVITAVRV--SPQNAREIAPIVVKAGADLLVIQGTLVSAEHVSTSGEP--L-NLKEFIGELDVPVIA 193 (369)
T ss_pred HhcceEEEEec--CCcCHHHHHHHHHHCCCCEEEEeccchhhhccCCCCCH--H-HHHHHHHHCCCCEEE
Confidence 33444444433 3 357788899999999999986432111 0111 1 234566777899985
No 339
>TIGR00829 FRU PTS system, fructose-specific, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several PTS components of unknown specificities. The fructose components of this family phosphorylate fructose on the 1-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIB domain of the fructose PTS transporters.
Probab=47.66 E-value=45 Score=19.98 Aligned_cols=46 Identities=13% Similarity=0.068 Sum_probs=25.4
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
+.+++.+.+.|+++........-.+.-+..-.-..+|+||+.....
T Consensus 18 e~L~~aA~~~G~~i~VE~qg~~g~~~~lt~~~i~~Ad~viia~d~~ 63 (85)
T TIGR00829 18 EALEKAAKKRGWEVKVETQGSVGAQNALTAEDIAAADGVILAADRE 63 (85)
T ss_pred HHHHHHHHHCCCeEEEEecCCcCccCCCCHHHHHhCCEEEEeccCC
Confidence 3444566677877766654433222223222223899999986643
No 340
>PLN02858 fructose-bisphosphate aldolase
Probab=47.59 E-value=1.3e+02 Score=28.19 Aligned_cols=95 Identities=16% Similarity=0.034 Sum_probs=59.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHH
Q 040308 70 PAFTAAIEAHQGRITQAIIDHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNY 148 (167)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ 148 (167)
........+.+....+-.++++.+.+.+.+.-+-..-.. -...+.+++.|++.+..+|+..+.+.-...+.-+......
T Consensus 1084 ~~tL~~~~~~l~~~~~v~~~~~l~~A~~~~yav~afn~~n~e~~~avi~aAe~~~sPvIl~~~~~~~~~~~~~~~~~~~~ 1163 (1378)
T PLN02858 1084 STALAEVVKSWARPARSSTKELLLNAEKGGYAVGAFNVYNLEGIEAVVAAAEAEKSPAILQVHPGALKQGGIPLVSCCIA 1163 (1378)
T ss_pred hHHHHHHHHHhcCcCCccHHHHHHHHHHCCcEEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCHHHHHHHHH
Confidence 333333344444444444555555566666544444333 4789999999999999999988765432222224556777
Q ss_pred HHhcCCCCEEEEcCCC
Q 040308 149 CANHAQCPVVVVKGKG 164 (167)
Q Consensus 149 i~~~~~~pVliv~~~~ 164 (167)
+.+++.+||.+-=..+
T Consensus 1164 ~a~~~~vpV~lHLDHg 1179 (1378)
T PLN02858 1164 AAEQASVPITVHFDHG 1179 (1378)
T ss_pred HHHHCCCCEEEECCCC
Confidence 8889999998764443
No 341
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=47.40 E-value=1e+02 Score=23.95 Aligned_cols=68 Identities=15% Similarity=0.130 Sum_probs=46.1
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCC-CCEEEEcC
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQ-CPVVVVKG 162 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~-~pVliv~~ 162 (167)
+.+.+.-+-.. +..-...+++++.|++.+.-+|+.-+.+...... .++......+..+++ +||-+-=.
T Consensus 13 A~~~~yAVgAfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValHLD 83 (347)
T PRK09196 13 AAEHGYGVPAFNVNNLEQVQAIMEAADETDSPVILQASAGARKYAGEPFLRHLILAAVEEYPHIPVVMHQD 83 (347)
T ss_pred HHHcCceEEEeeeCCHHHHHHHHHHHHHhCCCEEEECCccHhhhCCHHHHHHHHHHHHHhCCCCcEEEECC
Confidence 34444333322 3445789999999999999999988776433222 245667777887886 89877543
No 342
>PRK08576 hypothetical protein; Provisional
Probab=47.10 E-value=1.5e+02 Score=23.88 Aligned_cols=33 Identities=33% Similarity=0.389 Sum_probs=24.0
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
+++|++.+..+|..++..+... . ..+.++++-.
T Consensus 236 rVvVafSGGKDStvLL~La~k~---~----~~V~aV~iDT 268 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKA---F----GDVTAVYVDT 268 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHh---C----CCCEEEEeCC
Confidence 8999999999999887666543 2 2467777644
No 343
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=47.05 E-value=1.2e+02 Score=22.74 Aligned_cols=76 Identities=12% Similarity=0.107 Sum_probs=44.0
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhH--HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC-CCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEK--VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA-QCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~--I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~-~~pVliv~~ 162 (167)
++++.+.+... ..+++-..+-..+..+. ..+.+++.++|-+++...-.....+--+-..-..|+..+ +.||++..-
T Consensus 57 ~l~~~~~~~~~-g~~pvi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lpv~iYn~ 135 (294)
T TIGR02313 57 QAIENAIDQIA-GRIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFPIIIYNI 135 (294)
T ss_pred HHHHHHHHHhC-CCCcEEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCCEEEEeC
Confidence 33444444332 23554333333344444 447788899999999987543332221223445688888 799999853
No 344
>PRK08005 epimerase; Validated
Probab=47.03 E-value=1e+02 Score=21.99 Aligned_cols=61 Identities=8% Similarity=-0.032 Sum_probs=41.7
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHH
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCA 150 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~ 150 (167)
..+..+.+++.|..+-..+.-+.+.+.+..+.. ..|+|.+=+-.+++-.+.|.....++|-
T Consensus 95 ~~~~l~~Ik~~G~k~GlAlnP~Tp~~~i~~~l~--~vD~VlvMsV~PGf~GQ~f~~~~~~KI~ 155 (210)
T PRK08005 95 PSEILADIRAIGAKAGLALNPATPLLPYRYLAL--QLDALMIMTSEPDGRGQQFIAAMCEKVS 155 (210)
T ss_pred HHHHHHHHHHcCCcEEEEECCCCCHHHHHHHHH--hcCEEEEEEecCCCccceecHHHHHHHH
Confidence 334455566778777666666789999999988 7787766555566666666665555554
No 345
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=46.88 E-value=99 Score=21.68 Aligned_cols=69 Identities=14% Similarity=0.076 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+...|+.+.......++ ....++.+...++|.||+.....+... -..+...++||+.+-.
T Consensus 16 ~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~--------~~~~~~~~ipvv~~~~ 86 (264)
T cd06267 16 ELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL--------LEELAALGIPVVLVDR 86 (264)
T ss_pred HHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH--------HHHHHHcCCCEEEecc
Confidence 34444455555567666654444443 234444555668998888755433211 2345667888887744
No 346
>PRK00211 sulfur relay protein TusC; Validated
Probab=46.76 E-value=30 Score=22.17 Aligned_cols=38 Identities=5% Similarity=0.049 Sum_probs=24.1
Q ss_pred CcEEEEeecCChhHH----HHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 5 LGCVIVAVDGGEESM----DALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 5 ~~~ILv~id~s~~s~----~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
|++|++.+..+|+.. .+++.|+..+. + +.++.++..-+
T Consensus 1 M~ki~~i~~~~Pyg~~~~~eaLd~ala~~a-~---~~~v~vff~~D 42 (119)
T PRK00211 1 MKRIAFVFRQAPHGTASGREGLDALLATSA-F---TEDIGVFFIDD 42 (119)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHHHHHhc-c---cCCeeEEEEhh
Confidence 578999998776654 44555544333 3 34777777655
No 347
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=46.72 E-value=1.1e+02 Score=21.99 Aligned_cols=71 Identities=21% Similarity=0.253 Sum_probs=38.5
Q ss_pred HHHHHHHHHhhhc-CCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEK-NVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~-~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+.+. |+.+......+++ ..+.++.+...++|.||+......... ..... +...++||+++-.
T Consensus 16 ~~~~~i~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~-----~~~~~-~~~~~ipvV~~~~ 89 (270)
T cd06308 16 AMNDEIQREASNYPDVELIIADAADDNSKQVADIENFIRQGVDLLIISPNEAAPLT-----PVVEE-AYRAGIPVILLDR 89 (270)
T ss_pred HHHHHHHHHHHhcCCcEEEEEcCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhch-----HHHHH-HHHCCCCEEEeCC
Confidence 3444555555554 6666544333444 333445555678999998753322111 12233 3456899998854
No 348
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=46.69 E-value=89 Score=24.10 Aligned_cols=32 Identities=22% Similarity=0.260 Sum_probs=21.9
Q ss_pred ChhHHHHHHHHHHhccccCC--CCCeEEEEEEeC
Q 040308 15 GEESMDALRWAIDNLKLRSP--APGSFIVLHVQP 46 (167)
Q Consensus 15 s~~s~~al~~a~~la~~~~~--~~~~l~~l~v~~ 46 (167)
...+++.+++|+++|++..+ ...+|+++|=.+
T Consensus 139 r~~~~Ri~r~Af~~A~~r~~~~~~k~Vt~v~KaN 172 (330)
T PRK14025 139 RKASERIFRFAFEMAKRRKKMGKEGKVTCAHKAN 172 (330)
T ss_pred HHHHHHHHHHHHHHHHhccccCCCCeEEEEECCC
Confidence 35689999999999987610 024688776433
No 349
>PF00793 DAHP_synth_1: DAHP synthetase I family; InterPro: IPR006218 Members of the 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthetase family catalyse the first step in aromatic amino acid biosynthesis from chorismate. Class I includes bacterial and yeast enzymes; class II includes higher plants and various microorganisms (see IPR002480 from INTERPRO) []. The first step in the common pathway leading to the biosynthesis of aromatic compounds is the stereospecific condensation of phosphoenolpyruvate (PEP) and D-erythrose-4-phosphate (E4P) giving rise to 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP). This reaction is catalyzed by DAHP synthase, a metal-activated enzyme, which in microorganisms is the target for negative-feedback regulation by pathway intermediates or by end products. In Escherichia coli there are three DAHP synthetase isoforms, each specifically inhibited by one of the three aromatic amino acids. The crystal structure of the phenylalanine-regulated form of DAHP synthetase shows the fold as is a (beta/alpha)8 barrel with several additional beta strands and alpha helices []. ; GO: 0009058 biosynthetic process; PDB: 3FS2_B 3STF_B 3FYP_D 3QQ1_A 3QPZ_C 3FYO_D 3STC_A 2QKF_D 3STE_C 3QQ0_A ....
Probab=46.61 E-value=1.2e+02 Score=22.63 Aligned_cols=59 Identities=20% Similarity=0.183 Sum_probs=34.4
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+...+.|+++-+.+.+-...+.+ ++ -+|++-+|++.-... .....+-++++||.+=++.
T Consensus 82 ~v~~~~glpv~tEv~~~~~~~~~---~d--~vd~lqIgAr~~~n~-------~ll~~as~~~~pV~~K~g~ 140 (270)
T PF00793_consen 82 EVKEGLGLPVATEVLDPEQAEYV---AD--LVDWLQIGARLMENQ-------DLLEAASGTGKPVGFKNGT 140 (270)
T ss_dssp HHHHHHT-EEEEEESSGGGHHHH---HT--TESEEEE-GGGTTCH-------HHHHHHHCTSSEEEEEE-T
T ss_pred HHHhhhCCeeeEEecCcccHHHH---Hh--cCcEEEECcchhcCH-------HHHHHhccCCCeEEeccCC
Confidence 33344488888877765444433 33 488999998743221 2235566788999876543
No 350
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1.
Probab=46.55 E-value=80 Score=24.37 Aligned_cols=29 Identities=14% Similarity=0.187 Sum_probs=22.1
Q ss_pred ChhHHHHHHHHHHhccccCCCCC-eEEEEEEeC
Q 040308 15 GEESMDALRWAIDNLKLRSPAPG-SFIVLHVQP 46 (167)
Q Consensus 15 s~~s~~al~~a~~la~~~~~~~~-~l~~l~v~~ 46 (167)
...+++.+++|+++|++. +. +|+++|=-+
T Consensus 144 r~~~eRi~r~Af~~A~~r---~~k~Vt~v~KaN 173 (333)
T TIGR00175 144 RDKSERIARYAFEYARKN---GRKKVTAVHKAN 173 (333)
T ss_pred HHHHHHHHHHHHHHHHhc---CCCeEEEEECCc
Confidence 356889999999999887 44 588876433
No 351
>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=46.35 E-value=63 Score=19.27 Aligned_cols=55 Identities=20% Similarity=0.252 Sum_probs=31.6
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCCc--cceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFGP--IKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~~--~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
..+.|.+..++.+++.|.+|..+.-. ....+.-.+.+.+-++.++||.+......
T Consensus 39 ~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~~~l~~~l~~~~~~pv~~~nDa~s 95 (99)
T smart00732 39 DAARLKKLIKKYQPDLIVIGLPLNMNGTASRETEEAFAELLKERFNLPVVLVDERLA 95 (99)
T ss_pred HHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHHHHHHHHHHHhhCCcEEEEeCCcc
Confidence 45566666666678888888665321 00001123334444567899999876543
No 352
>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=46.32 E-value=92 Score=21.13 Aligned_cols=35 Identities=23% Similarity=0.235 Sum_probs=27.3
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
+++|++.+.-+|.-++..+.+ . +.+++.+|+-...
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~----~---g~~v~av~~d~g~ 35 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMK----R---GIEVDALHFNSGP 35 (177)
T ss_pred CEEEEecCChhHHHHHHHHHH----c---CCeEEEEEEeCCC
Confidence 588999999999877776655 3 5689999998754
No 353
>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=46.30 E-value=82 Score=20.59 Aligned_cols=57 Identities=7% Similarity=0.033 Sum_probs=37.1
Q ss_pred HHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 91 ALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
+...++..|.++.. ... .+.+++++.+.+.++|.|++.+...+.... +..+.+.+-.
T Consensus 22 v~~~l~~~GfeVi~--lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~--~~~~~~~L~~ 79 (132)
T TIGR00640 22 IATAYADLGFDVDV--GPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTL--VPALRKELDK 79 (132)
T ss_pred HHHHHHhCCcEEEE--CCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHH--HHHHHHHHHh
Confidence 33555666766422 222 578899999999999999998775444432 3455565544
No 354
>PF01207 Dus: Dihydrouridine synthase (Dus); InterPro: IPR001269 Members of this family catalyse the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archae. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. Dus 1 (P53759 from SWISSPROT) from Saccharomyces cerevisiae (Baker's yeast) acts on pre-tRNA-Phe, while Dus 2 (P53720 from SWISSPROT) acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active as a single subunit, requiring NADPH or NADH, and is stimulated by the presence of FAD []. Some family members may be targeted to the mitochondria and even have a role in mitochondria []. ; GO: 0017150 tRNA dihydrouridine synthase activity, 0050660 flavin adenine dinucleotide binding, 0008033 tRNA processing, 0055114 oxidation-reduction process; PDB: 1VHN_A 3B0P_A 3B0V_D 3B0U_Y.
Probab=46.28 E-value=1.3e+02 Score=22.82 Aligned_cols=73 Identities=11% Similarity=0.065 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecC--h---HhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCCCCE
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGD--A---KEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQCPV 157 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~--~---~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~~pV 157 (167)
..++++.+.+. .++++...++.|. . ..++++.+.+.+++.|.+-.+.+....+ ..-=.....+....++||
T Consensus 110 ~~~iv~~~~~~---~~~pvsvKiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~~i~~i~~~~~ipv 186 (309)
T PF01207_consen 110 LAEIVKAVRKA---VPIPVSVKIRLGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGPADWEAIAEIKEALPIPV 186 (309)
T ss_dssp HHHHHHHHHHH----SSEEEEEEESECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS---HHHHHHCHHC-TSEE
T ss_pred hhHHHHhhhcc---cccceEEecccccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcccchHHHHHHhhccccee
Confidence 34444444433 3456666665552 2 4566777788899999997764322211 111123445666777777
Q ss_pred EE
Q 040308 158 VV 159 (167)
Q Consensus 158 li 159 (167)
+.
T Consensus 187 i~ 188 (309)
T PF01207_consen 187 IA 188 (309)
T ss_dssp EE
T ss_pred EE
Confidence 64
No 355
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=45.92 E-value=69 Score=19.89 Aligned_cols=48 Identities=21% Similarity=0.314 Sum_probs=35.4
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
.+.-++.++...+-+||+.+.-+...++ -.++-..-+++||+..+...
T Consensus 24 ~k~tiK~lk~gkaKliiiAsN~P~~~k~-----~ieyYAkLs~ipV~~y~Gt~ 71 (100)
T COG1911 24 SKRTIKSLKLGKAKLIIIASNCPKELKE-----DIEYYAKLSDIPVYVYEGTS 71 (100)
T ss_pred hHHHHHHHHcCCCcEEEEecCCCHHHHH-----HHHHHHHHcCCcEEEecCCc
Confidence 4556677788889999999876654443 45677777899999988654
No 356
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=45.88 E-value=1.3e+02 Score=22.62 Aligned_cols=76 Identities=17% Similarity=0.183 Sum_probs=44.4
Q ss_pred HHHHHHHHhhhcCCcEEEEEEe--c------------ChHhHHHHHHHHhCCCEEEE--ee-cCCCccceecccchhHHH
Q 040308 87 IIDHALKICSEKNVNVKSEVVI--G------------DAKEKVCELVEKLHADLLVM--GS-HTFGPIKRMFLGSVSNYC 149 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~--g------------~~~~~I~~~a~~~~~dliV~--g~-~~~~~~~~~~~gs~~~~i 149 (167)
...++.+.+...|+.++..+-. | .-.++..++.++.++|.|.+ |+ ++...-...+--...+.|
T Consensus 116 ~t~~v~~~a~~~gv~Ve~ElG~~gg~ed~~~g~~~~~t~~eea~~f~~~tgvD~Lavs~Gt~hg~~~~~~~l~~e~L~~i 195 (282)
T TIGR01859 116 LTKKVVEIAHAKGVSVEAELGTLGGIEDGVDEKEAELADPDEAEQFVKETGVDYLAAAIGTSHGKYKGEPGLDFERLKEI 195 (282)
T ss_pred HHHHHHHHHHHcCCEEEEeeCCCcCccccccccccccCCHHHHHHHHHHHCcCEEeeccCccccccCCCCccCHHHHHHH
Confidence 3455566667778777755422 1 13455677777789999994 54 211111111212345677
Q ss_pred HhcCCCCEEEEcC
Q 040308 150 ANHAQCPVVVVKG 162 (167)
Q Consensus 150 ~~~~~~pVliv~~ 162 (167)
....++|+...-.
T Consensus 196 ~~~~~iPlv~hGg 208 (282)
T TIGR01859 196 KELTNIPLVLHGA 208 (282)
T ss_pred HHHhCCCEEEECC
Confidence 7777899877653
No 357
>PRK05920 aromatic acid decarboxylase; Validated
Probab=45.87 E-value=57 Score=23.21 Aligned_cols=36 Identities=11% Similarity=0.142 Sum_probs=27.0
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEE
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLH 43 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~ 43 (167)
|.+||++++-++-.+..+++..-.|.+ . +.+++++-
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~-~---g~~V~vi~ 37 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLA-A---DYEVHLVI 37 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHH-C---CCEEEEEE
Confidence 568999999999988888877777654 3 45655553
No 358
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=45.69 E-value=1.1e+02 Score=21.91 Aligned_cols=75 Identities=16% Similarity=0.065 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+++.+.+.+.+.|+.+.......++ ..+.++.....++|.+|+........... ....+ -+...++||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~--~~~~~-~~~~~~ipvV~~~~ 91 (273)
T cd01541 15 PSIIRGIESVLSEKGYSLLLASTNNDPERERKCLENMLSQGIDGLIIEPTKSALPNPN--IDLYL-KLEKLGIPYVFINA 91 (273)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecccccccccc--HHHHH-HHHHCCCCEEEEec
Confidence 345556667777778777554333344 33445556667899999864321111100 01122 23566789988854
No 359
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=45.65 E-value=41 Score=27.53 Aligned_cols=14 Identities=7% Similarity=0.124 Sum_probs=8.6
Q ss_pred CCeEEEEEEeCCCC
Q 040308 36 PGSFIVLHVQPPPT 49 (167)
Q Consensus 36 ~~~l~~l~v~~~~~ 49 (167)
..-+.++|.-.-..
T Consensus 24 ~~~~~i~H~p~Gc~ 37 (513)
T CHL00076 24 KNVHAIMHAPLGDD 37 (513)
T ss_pred CCcEEEeeCCCCch
Confidence 55677777655443
No 360
>PRK09271 flavodoxin; Provisional
Probab=45.65 E-value=43 Score=22.46 Aligned_cols=11 Identities=36% Similarity=0.646 Sum_probs=7.9
Q ss_pred CCCEEEEeecC
Q 040308 123 HADLLVMGSHT 133 (167)
Q Consensus 123 ~~dliV~g~~~ 133 (167)
++|+|++|+..
T Consensus 51 ~~d~vilgt~T 61 (160)
T PRK09271 51 DYDLYLLGTWT 61 (160)
T ss_pred cCCEEEEECcc
Confidence 67888888753
No 361
>PRK09222 isocitrate dehydrogenase; Validated
Probab=45.53 E-value=78 Score=25.79 Aligned_cols=29 Identities=14% Similarity=0.156 Sum_probs=22.8
Q ss_pred ChhHHHHHHHHHHhccccCCCC-CeEEEEEEeC
Q 040308 15 GEESMDALRWAIDNLKLRSPAP-GSFIVLHVQP 46 (167)
Q Consensus 15 s~~s~~al~~a~~la~~~~~~~-~~l~~l~v~~ 46 (167)
.+.+++.++||+++|++. + .+|+++|=-+
T Consensus 148 r~~~eRI~r~AFe~A~~r---~rkkVt~v~KaN 177 (482)
T PRK09222 148 RPGSEKIIRYAFEYARAN---GRKKVTCLTKDN 177 (482)
T ss_pred HHHHHHHHHHHHHHHHhc---CCCeEEEEECCC
Confidence 367899999999999988 5 4688887433
No 362
>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]
Probab=45.53 E-value=49 Score=26.42 Aligned_cols=76 Identities=12% Similarity=0.160 Sum_probs=36.9
Q ss_pred EeecCChhHHHH--HHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 10 VAVDGGEESMDA--LRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 10 v~id~s~~s~~a--l~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
+.+|+.+.+-+. +..|...|. +.+..++|+-..........+...-.+-...+..+.....+-+...+.-+..
T Consensus 182 ~vL~Ge~GtGKSiaL~qa~h~a~-----~~~wlIlhip~a~~w~~~~~~~~y~~~~kg~~dqP~~a~~~L~~fkk~N~~~ 256 (461)
T KOG3928|consen 182 FVLDGEPGTGKSIALAQAVHYAA-----DQKWLILHIPYAELWTNGRKDYSYDSDLKGLWDQPLYAKKILKNFKKTNEPA 256 (461)
T ss_pred EEEeCCCCCchhhHHHHHHHHHh-----cCCeEEEECCcHHHhhhccccccccccccccccChhHHHHHHHHHHhhccHH
Confidence 445666655444 444555544 4589999997765543321111100011112233445555555555555555
Q ss_pred HHH
Q 040308 88 IDH 90 (167)
Q Consensus 88 ~~~ 90 (167)
++.
T Consensus 257 L~~ 259 (461)
T KOG3928|consen 257 LKK 259 (461)
T ss_pred HHH
Confidence 553
No 363
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=45.11 E-value=1.5e+02 Score=23.25 Aligned_cols=48 Identities=19% Similarity=0.195 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhh--hcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 85 QAIIDHALKICS--EKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 85 ~~~~~~~~~~~~--~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
+++.+.+.+-++ ..|++++..-........+..... ++|.||+|+...
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~--~~d~ii~GspT~ 311 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVF--KSKAILVGSSTI 311 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHH--hCCEEEEECCCc
Confidence 344444444544 456766554344444556665555 799999998764
No 364
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=45.02 E-value=1.1e+02 Score=21.77 Aligned_cols=70 Identities=10% Similarity=0.097 Sum_probs=40.1
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+.+.+++.|+.+......++. ..+.++.....++|.||+....... ...+ -+...+.||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-------~~~~-~~~~~~ipvV~i~~ 86 (270)
T cd06296 15 SEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVERLSARRTDGVILVTPELTS-------AQRA-ALRRTGIPFVVVDP 86 (270)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHHHHHcCCCEEEEecCCCCh-------HHHH-HHhcCCCCEEEEec
Confidence 345555666666778776555444433 3344555666789988876543221 1223 34556789888854
No 365
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=44.79 E-value=1.5e+02 Score=23.05 Aligned_cols=57 Identities=16% Similarity=0.088 Sum_probs=40.7
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEec-ChHhHHH---HHHHHhCCCEEEEeecCCCccceecc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIG-DAKEKVC---ELVEKLHADLLVMGSHTFGPIKRMFL 142 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g-~~~~~I~---~~a~~~~~dliV~g~~~~~~~~~~~~ 142 (167)
....+++..|.++.|+.+-..- .| ||+..+. +.|+..++|+|++.+-||-..+.-++
T Consensus 180 AaAiEQL~~w~er~gv~vI~~~-~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM 240 (340)
T COG0552 180 AAAIEQLEVWGERLGVPVISGK-EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLM 240 (340)
T ss_pred HHHHHHHHHHHHHhCCeEEccC-CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHH
Confidence 3456677788888888775543 45 7776554 56788999999999988766665444
No 366
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=44.72 E-value=1e+02 Score=23.89 Aligned_cols=68 Identities=12% Similarity=0.198 Sum_probs=37.7
Q ss_pred HHHHHHhhhcCCcEEEEEEec-C------hHhHHHHHHHHhCC----CEEE-EeecCCCccceecccchhHHHH--hcCC
Q 040308 89 DHALKICSEKNVNVKSEVVIG-D------AKEKVCELVEKLHA----DLLV-MGSHTFGPIKRMFLGSVSNYCA--NHAQ 154 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g-~------~~~~I~~~a~~~~~----dliV-~g~~~~~~~~~~~~gs~~~~i~--~~~~ 154 (167)
+.+.+.+...++.+...+..+ . ..+.+.+.+.+.++ |+|| +|...-. .++..+. ..-.
T Consensus 43 ~~v~~~l~~~g~~~~~~v~~~~e~~~s~~~v~~~~~~l~~~~~~r~~d~IVaiGGG~v~--------D~ak~~A~~~~rg 114 (354)
T cd08199 43 KKLREYFAHHNIPLTILVLRAGEAAKTMDTVLKIVDALDAFGISRRREPVLAIGGGVLT--------DVAGLAASLYRRG 114 (354)
T ss_pred HHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCCEEEEECCcHHH--------HHHHHHHHHhcCC
Confidence 555566666777776544332 1 24445555556666 8888 5533222 2222222 3447
Q ss_pred CCEEEEcCCC
Q 040308 155 CPVVVVKGKG 164 (167)
Q Consensus 155 ~pVliv~~~~ 164 (167)
+|++.||...
T Consensus 115 ~p~i~VPTT~ 124 (354)
T cd08199 115 TPYVRIPTTL 124 (354)
T ss_pred CCEEEEcCcc
Confidence 8999999753
No 367
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=44.65 E-value=61 Score=18.63 Aligned_cols=43 Identities=9% Similarity=-0.119 Sum_probs=32.0
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCC
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPP 48 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~ 48 (167)
.-||+|.+.-........|++-|+.-|... -..|..+.|++..
T Consensus 4 hvYK~IelvGtSp~S~d~Ai~~Ai~RA~~t---~~~l~wfeV~~~r 46 (71)
T COG3360 4 HVYKKIELVGTSPTSIDAAIANAIARAADT---LDNLDWFEVVETR 46 (71)
T ss_pred ceEEEEEEEecCCccHHHHHHHHHHHHHhh---hhcceEEEEEeec
Confidence 456777665555556778899999988887 6788888888744
No 368
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=44.59 E-value=1.2e+02 Score=21.87 Aligned_cols=70 Identities=14% Similarity=0.074 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEec--Ch--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIG--DA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g--~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..+...+.+.+++.|+++......+ +. ....++.....++|-||+......... ... -+....+||+++
T Consensus 15 ~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~------~~~-~~~~~giPvV~~ 87 (268)
T cd06306 15 LSVNYGMVEEAKRLGVSLKLLEAGGYPNLAKQIAQLEDCAAWGADAILLGAVSPDGLN------EIL-QQVAASIPVIAL 87 (268)
T ss_pred HHHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHH------HHH-HHHHCCCCEEEe
Confidence 3455566666777787765543222 22 223455555679999998754322111 112 245678999987
Q ss_pred c
Q 040308 161 K 161 (167)
Q Consensus 161 ~ 161 (167)
-
T Consensus 88 ~ 88 (268)
T cd06306 88 V 88 (268)
T ss_pred c
Confidence 3
No 369
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=44.54 E-value=56 Score=22.75 Aligned_cols=10 Identities=20% Similarity=0.544 Sum_probs=5.2
Q ss_pred EEEEeecCCC
Q 040308 126 LLVMGSHTFG 135 (167)
Q Consensus 126 liV~g~~~~~ 135 (167)
.++.|.+...
T Consensus 80 ~~~~GNHD~~ 89 (223)
T cd00840 80 FIIAGNHDSP 89 (223)
T ss_pred EEecCCCCCc
Confidence 3455666543
No 370
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain 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. Not all members of this family contain the conserved binding motif.
Probab=44.46 E-value=78 Score=19.76 Aligned_cols=67 Identities=13% Similarity=0.082 Sum_probs=42.1
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC--CCEEEE
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ--CPVVVV 160 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~--~pVliv 160 (167)
.+...+++.|.++... ....+.+.+.+.+.+.++|+|.+......... .-.....+.+..+ +++++-
T Consensus 18 ~~~~~l~~~G~~v~~l-~~~~~~~~~~~~i~~~~pdiV~iS~~~~~~~~---~~~~~~~~~~~~p~~~~ivvG 86 (125)
T cd02065 18 IVAIALRDNGFEVIDL-GVDVPPEEIVEAAKEEDADVVGLSALSTTHME---AMKLVIEALKELGIDIPVVVG 86 (125)
T ss_pred HHHHHHHHCCCEEEEc-CCCCCHHHHHHHHHHcCCCEEEEecchHhHHH---HHHHHHHHHHhcCCCCeEEEe
Confidence 3344566777776543 22357788888888899999999876544321 1234455666665 555554
No 371
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=43.87 E-value=82 Score=22.72 Aligned_cols=48 Identities=19% Similarity=0.257 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEe-cChHhHHHHHHHHhCCCEEEEeecC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVI-GDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
.+..+.+++.+++.|+.-...+.. |+..+.+.+ -....+|+|+|-+.+
T Consensus 94 ~e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~-~~~~~fDliFIDadK 142 (219)
T COG4122 94 EERAEIARENLAEAGVDDRIELLLGGDALDVLSR-LLDGSFDLVFIDADK 142 (219)
T ss_pred HHHHHHHHHHHHHcCCcceEEEEecCcHHHHHHh-ccCCCccEEEEeCCh
Confidence 344556667777888766555666 688888877 334599999999764
No 372
>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=43.29 E-value=1.4e+02 Score=22.52 Aligned_cols=35 Identities=23% Similarity=0.183 Sum_probs=26.1
Q ss_pred EEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 7 CVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 7 ~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+++|++.+.-+|.-++..+.. .. +.+++.+|+-..
T Consensus 1 kVlVa~SGGVDSsvla~ll~~---~l---G~~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHK---AI---GDRLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHH---Hh---CCcEEEEEecCC
Confidence 588999999888877666654 24 567999999664
No 373
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=43.29 E-value=93 Score=22.84 Aligned_cols=46 Identities=15% Similarity=0.206 Sum_probs=32.3
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH----hCCCEEEEeecC
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEK----LHADLLVMGSHT 133 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~----~~~dliV~g~~~ 133 (167)
.+.+++.+.+.|+.-...+..|+..+.+-++..+ ..+|+|++-+.+
T Consensus 117 ~~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK 166 (247)
T PLN02589 117 YELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADK 166 (247)
T ss_pred HHHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCCH
Confidence 3445566667776655667889888777776543 489999998764
No 374
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=43.25 E-value=1.2e+02 Score=21.59 Aligned_cols=38 Identities=13% Similarity=0.011 Sum_probs=24.6
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
..++.+... ++|.|+++-.....+.+.+.++-..+.++
T Consensus 74 ~~~~~~~l~--~ad~I~~~GG~~~~~~~~l~~t~l~~~l~ 111 (217)
T cd03145 74 DPEVVARLR--DADGIFFTGGDQLRITSALGGTPLLDALR 111 (217)
T ss_pred CHHHHHHHH--hCCEEEEeCCcHHHHHHHHcCChHHHHHH
Confidence 455666676 89999998776555555555555545444
No 375
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.24 E-value=1.2e+02 Score=21.67 Aligned_cols=70 Identities=9% Similarity=0.044 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+.+.+.+.+++.|..+.......++ ....++...+.++|-+|+-..... .. .....++..++||+++-
T Consensus 15 ~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~-~~------~~~~~~~~~~ipvV~i~ 86 (269)
T cd06281 15 AQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRSFEQRRMDGIIIAPGDER-DP------ELVDALASLDLPIVLLD 86 (269)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCC-cH------HHHHHHHhCCCCEEEEe
Confidence 344555556666667665443333333 334555566667777776432111 11 11223445567877774
No 376
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=43.17 E-value=1.8e+02 Score=23.68 Aligned_cols=71 Identities=14% Similarity=0.095 Sum_probs=43.3
Q ss_pred HHHHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc------CCCCEEEEc
Q 040308 89 DHALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH------AQCPVVVVK 161 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~------~~~pVliv~ 161 (167)
+.+...+...++.++...... .-+.++.+.+...++|.||+.... +.+.. +++.++.. .++|+-++|
T Consensus 133 ~~v~~~L~~~gi~~~v~~T~~~ghA~~la~~~~~~~~D~VV~vGGD-GTlnE-----VvNGL~~~~~~~~~~~~pLGiIP 206 (481)
T PLN02958 133 DVVKPLLEDADIQLTIQETKYQLHAKEVVRTMDLSKYDGIVCVSGD-GILVE-----VVNGLLEREDWKTAIKLPIGMVP 206 (481)
T ss_pred HHHHHHHHHcCCeEEEEeccCccHHHHHHHHhhhcCCCEEEEEcCC-CHHHH-----HHHHHhhCccccccccCceEEec
Confidence 345666777888877665443 446667666655678877665332 33433 44555533 358999999
Q ss_pred CCCC
Q 040308 162 GKGT 165 (167)
Q Consensus 162 ~~~~ 165 (167)
....
T Consensus 207 aGTg 210 (481)
T PLN02958 207 AGTG 210 (481)
T ss_pred CcCc
Confidence 7654
No 377
>PRK05568 flavodoxin; Provisional
Probab=43.06 E-value=90 Score=20.14 Aligned_cols=43 Identities=23% Similarity=0.211 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
++.+.+.+.+...|+.++..-....... .. .++|.||+|++-.
T Consensus 17 ~~a~~i~~~~~~~g~~v~~~~~~~~~~~----~~--~~~d~iilgsp~y 59 (142)
T PRK05568 17 AMANLIAEGAKENGAEVKLLNVSEASVD----DV--KGADVVALGSPAM 59 (142)
T ss_pred HHHHHHHHHHHHCCCeEEEEECCCCCHH----HH--HhCCEEEEECCcc
Confidence 3444444555566776655433322111 23 3899999998754
No 378
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=42.91 E-value=1.6e+02 Score=22.89 Aligned_cols=33 Identities=18% Similarity=0.178 Sum_probs=25.0
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEe
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQ 45 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~ 45 (167)
++|+|++.+--+|.-++..+.+ . +-+++.+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~---G~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----Q---GYEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----c---CCeEEEEEEE
Confidence 4799999999888876665544 4 4688888884
No 379
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=42.67 E-value=1.2e+02 Score=21.26 Aligned_cols=13 Identities=23% Similarity=0.368 Sum_probs=10.8
Q ss_pred hCCCEEEEeecCC
Q 040308 122 LHADLLVMGSHTF 134 (167)
Q Consensus 122 ~~~dliV~g~~~~ 134 (167)
.++|.||+|+...
T Consensus 67 ~~aD~ii~GSPty 79 (197)
T TIGR01755 67 ADYDAIIFGTPTR 79 (197)
T ss_pred HHCCEEEEEeccc
Confidence 3899999999764
No 380
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=42.62 E-value=1.3e+02 Score=21.66 Aligned_cols=71 Identities=11% Similarity=0.018 Sum_probs=41.9
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEe-cCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVI-GDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~-g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+...+.+.+.+.|+.+...... ++. ....++.....++|-+|+......... ...+.+ .. ++||+++-
T Consensus 14 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~-----~~l~~~-~~-~ipvV~~~ 86 (271)
T cd06314 14 KIAEAGVKAAGKELGVDVEFVVPQQGTVNAQLRMLEDLIAEGVDGIAISPIDPKAVI-----PALNKA-AA-GIKLITTD 86 (271)
T ss_pred HHHHHHHHHHHHHcCCeEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEecCChhHhH-----HHHHHH-hc-CCCEEEec
Confidence 445666667777778776654322 233 445556677779999999754321111 222333 35 89999985
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 87 ~ 87 (271)
T cd06314 87 S 87 (271)
T ss_pred C
Confidence 4
No 381
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=42.53 E-value=79 Score=23.63 Aligned_cols=92 Identities=18% Similarity=0.158 Sum_probs=54.9
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
++++=-.+-.+..-+..++.-.+.. ++++.--..+.+...+..+.. . .++-
T Consensus 47 ~viAGPCsvEs~E~i~~~A~~vk~~---Ga~~lRGgafKPRTSPYsFQG-----------------------l---ge~g 97 (286)
T COG2876 47 RVIAGPCSVESEEQVRETAESVKAA---GAKALRGGAFKPRTSPYSFQG-----------------------L---GEEG 97 (286)
T ss_pred EEEecCcccCCHHHHHHHHHHHHHc---chhhccCCcCCCCCCcccccc-----------------------c---CHHH
Confidence 3444444555666666666767767 677766666666554433211 1 1234
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecC
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
+..+.+....+|..+.++++.-.-.+.+.++ +|+|=+|++.
T Consensus 98 L~~l~~a~~~~Gl~vvtEvm~~~~~e~~~~y-----~DilqvGARN 138 (286)
T COG2876 98 LKLLKRAADETGLPVVTEVMDVRDVEAAAEY-----ADILQVGARN 138 (286)
T ss_pred HHHHHHHHHHcCCeeEEEecCHHHHHHHHhh-----hhHHHhcccc
Confidence 4555566677899998888875545544444 5677777764
No 382
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=42.43 E-value=1.3e+02 Score=21.59 Aligned_cols=72 Identities=19% Similarity=0.141 Sum_probs=39.0
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEE--ecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 85 QAIIDHALKICSEKNVNVKSEVV--IGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~--~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..+...+++.+.+.|..+..... .+++.+ .+++.....++|-||+......... .... -+...++|++++
T Consensus 15 ~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~-----~~l~-~~~~~~ipvV~~ 88 (273)
T cd06310 15 QAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALV-----PPLK-EAKDAGIPVVLI 88 (273)
T ss_pred HHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHHHHhCCCEEEEcCCChhhhH-----HHHH-HHHHCCCCEEEe
Confidence 34555666666667877655432 234432 3444455668999998643221111 1222 334567899888
Q ss_pred cC
Q 040308 161 KG 162 (167)
Q Consensus 161 ~~ 162 (167)
-.
T Consensus 89 ~~ 90 (273)
T cd06310 89 DS 90 (273)
T ss_pred cC
Confidence 43
No 383
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=42.28 E-value=43 Score=26.26 Aligned_cols=50 Identities=16% Similarity=0.150 Sum_probs=25.2
Q ss_pred HHHHHHHHHhhhcCCcEEEEE------EecChHhHHHHHHH-HhCCCEEEEeecCCC
Q 040308 86 AIIDHALKICSEKNVNVKSEV------VIGDAKEKVCELVE-KLHADLLVMGSHTFG 135 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v------~~g~~~~~I~~~a~-~~~~dliV~g~~~~~ 135 (167)
++.+.+.+..++++..+-.++ ..|+-.+.+.+.++ +.+..+|.+-+.+..
T Consensus 74 ~L~~aI~ei~~~~~P~~I~V~sTCv~e~IGDDi~~v~~~~~~~~~~pvi~v~t~gf~ 130 (396)
T cd01979 74 ELDRVVTQIKRDRNPSVIFLIGSCTTEVIKMDLEGAAPRLSAEIGVPILVASASGLD 130 (396)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCHHHHHhcCHHHHHHHHhhcCCCcEEEeeCCCcc
Confidence 344444455555543332222 22555566665544 446777777665543
No 384
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=42.18 E-value=53 Score=26.01 Aligned_cols=13 Identities=8% Similarity=0.005 Sum_probs=7.4
Q ss_pred HHHHhcCCCCEEE
Q 040308 147 NYCANHAQCPVVV 159 (167)
Q Consensus 147 ~~i~~~~~~pVli 159 (167)
..++...++.|+-
T Consensus 94 ~~~l~~~gi~vl~ 106 (407)
T PRK10966 94 RDLLAFLNTTVIA 106 (407)
T ss_pred HHHHHHCCcEEEe
Confidence 4566666655553
No 385
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=42.11 E-value=1.2e+02 Score=21.48 Aligned_cols=68 Identities=15% Similarity=0.176 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+.+.+.+.|..+......+++ ...+++.+...++|-||+...... .. -+...++||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~----------~~-~~~~~gipvv~~~~ 83 (265)
T cd06291 15 SELARAVEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG----------IE-EYENIDLPIVSFDR 83 (265)
T ss_pred HHHHHHHHHHHHHCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC----------HH-HHhcCCCCEEEEeC
Confidence 345555666777778776544333333 335556667778999888654211 12 33466789988865
Q ss_pred C
Q 040308 163 K 163 (167)
Q Consensus 163 ~ 163 (167)
.
T Consensus 84 ~ 84 (265)
T cd06291 84 Y 84 (265)
T ss_pred C
Confidence 3
No 386
>PRK03673 hypothetical protein; Provisional
Probab=42.00 E-value=1.8e+02 Score=23.16 Aligned_cols=67 Identities=16% Similarity=0.272 Sum_probs=41.6
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
..+...+.+.|+++......+|-.+.|.+..++ ..+|+||+. .|-++... .-+.+.+.+...+|+..
T Consensus 24 ~~la~~L~~~G~~v~~~~~v~D~~~~i~~~l~~a~~~~DlVI~t-GGlGpt~d---D~t~~avA~a~g~~L~~ 92 (396)
T PRK03673 24 AWLADFFFHQGLPLSRRNTVGDNLDALVAILRERSQHADVLIVN-GGLGPTSD---DLSALAAATAAGEGLVL 92 (396)
T ss_pred HHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhccCCEEEEc-CCCCCCCc---ccHHHHHHHHcCCCcee
Confidence 344566778899988887777766667665443 268987775 33333332 22455666666676653
No 387
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=41.92 E-value=1.2e+02 Score=23.71 Aligned_cols=30 Identities=13% Similarity=0.069 Sum_probs=22.3
Q ss_pred ChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 15 GEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 15 s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
...+++.+++|+++|+..+ ..+|+++|=-+
T Consensus 167 r~~~eRIar~AF~~A~~r~--rkkVt~v~KaN 196 (360)
T PLN00123 167 KFCSERIAKYAFEYAYLNN--RKKVTAVHKAN 196 (360)
T ss_pred HHHHHHHHHHHHHHHHhcC--CCcEEEEECCc
Confidence 4678999999999997761 34688887433
No 388
>PF05913 DUF871: Bacterial protein of unknown function (DUF871); InterPro: IPR008589 This family consists of several conserved hypothetical proteins from bacteria and archaea. The function of this family is unknown though a number are annotated as outer surface proteins.; PDB: 2P0O_A 1X7F_A.
Probab=41.83 E-value=1.5e+02 Score=23.18 Aligned_cols=94 Identities=11% Similarity=0.036 Sum_probs=48.6
Q ss_pred EEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHH
Q 040308 8 VIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAI 87 (167)
Q Consensus 8 ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (167)
+-|.++-|--+..-++........+ ..+..+|-+.|.....- ..+.
T Consensus 112 ~~I~LNASti~~~~l~~L~~~~~~~----~~i~a~HNfYPr~~TGL------------------------------s~~~ 157 (357)
T PF05913_consen 112 IKIELNASTITEEELDELIKYGANF----SNIIACHNFYPRPYTGL------------------------------SEEF 157 (357)
T ss_dssp SEEEEETTT--CCHHHHHCCTT--G----GGEEEE---B-STT-SB-------------------------------HHH
T ss_pred CEEEEECCCCChHHHHHHHHhcCCH----HHeEEEecccCCCCCCC------------------------------CHHH
Confidence 5677777764555555554443333 58999999888765522 3345
Q ss_pred HHHHHHHhhhcCCcEEEEEEec--------------------ChHhHHHHHHHHhCCCEEEEeecCCC
Q 040308 88 IDHALKICSEKNVNVKSEVVIG--------------------DAKEKVCELVEKLHADLLVMGSHTFG 135 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g--------------------~~~~~I~~~a~~~~~dliV~g~~~~~ 135 (167)
..+..+++.++|+++..-|-.. +|..+..++.....+|-|++|-...+
T Consensus 158 f~~~n~~~k~~gi~~~AFI~g~~~~rGPl~~GLPTlE~hR~~~p~~aa~~L~~~~~iD~V~IGD~~~s 225 (357)
T PF05913_consen 158 FIEKNQLLKEYGIKTAAFIPGDENKRGPLYEGLPTLEKHRNLPPYAAALELFALGLIDDVIIGDPFAS 225 (357)
T ss_dssp HHHHHHHHHHTT-EEEEEE--SSS-BTTT-S--BSBGGGTTS-HHHHHHHHHHTTT--EEEE-SC---
T ss_pred HHHHHHHHHHCCCcEEEEecCCCcccCCccCCCCccHHHcCCCHHHHHHHHHhcCCCCEEEECCCcCC
Confidence 5566677778887776554322 34666777777777999999977544
No 389
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=41.65 E-value=1.3e+02 Score=21.49 Aligned_cols=69 Identities=12% Similarity=0.058 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+++.+.+.|..+.......+. ...+.+.....++|-||+...... . ..+ .+...++||+.+-.
T Consensus 18 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~---~-----~~~-~l~~~~ipvV~~~~ 88 (268)
T cd06277 18 SEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIST---E-----YIK-EIKELGIPFVLVDH 88 (268)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCCh---H-----HHH-HHhhcCCCEEEEcc
Confidence 344555566666677665544333232 223455555678898888653211 1 123 34556788888754
No 390
>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=41.55 E-value=1.1e+02 Score=20.65 Aligned_cols=24 Identities=17% Similarity=0.325 Sum_probs=18.9
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
..+.|.+.+++.++|+|++|....
T Consensus 71 ~a~al~~~i~~~~p~~Vl~~~t~~ 94 (168)
T cd01715 71 YAPALVALAKKEKPSHILAGATSF 94 (168)
T ss_pred HHHHHHHHHHhcCCCEEEECCCcc
Confidence 356677888888899999997754
No 391
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=41.31 E-value=1.1e+02 Score=23.92 Aligned_cols=44 Identities=14% Similarity=0.262 Sum_probs=26.8
Q ss_pred HHHHHHHhhhcCCcEEEEE-EecCh----HhHHHHHHHHhCCCEEE-Eee
Q 040308 88 IDHALKICSEKNVNVKSEV-VIGDA----KEKVCELVEKLHADLLV-MGS 131 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v-~~g~~----~~~I~~~a~~~~~dliV-~g~ 131 (167)
.+++.+.+.+.++.+.... ..++| .+.+.+.+++.++|.|| +|.
T Consensus 40 ~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 89 (375)
T cd08194 40 VDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGG 89 (375)
T ss_pred HHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 4455566666677654331 22333 45666778888999887 553
No 392
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=41.29 E-value=1.3e+02 Score=21.42 Aligned_cols=72 Identities=13% Similarity=0.174 Sum_probs=39.6
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+++.+.+.+.+.|.++.......++.+ ..++.....++|-||+-....... ....+....++||+++..
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-------~~~~l~~~~~ipvV~i~~ 87 (269)
T cd06275 15 AEVVRGVEQYCYRQGYNLILCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQP-------LLAMLERYRHIPMVVMDW 87 (269)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCChH-------HHHHHHhcCCCCEEEEec
Confidence 34556666666677776654433334433 344556667889888864322110 112233345789988854
Q ss_pred C
Q 040308 163 K 163 (167)
Q Consensus 163 ~ 163 (167)
.
T Consensus 88 ~ 88 (269)
T cd06275 88 G 88 (269)
T ss_pred c
Confidence 3
No 393
>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=41.21 E-value=1.7e+02 Score=22.80 Aligned_cols=69 Identities=16% Similarity=0.129 Sum_probs=46.9
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCC-CCEEEEcCC
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQ-CPVVVVKGK 163 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~-~pVliv~~~ 163 (167)
+.+.+.-+-.. +..-....+|++.|++.+..+|+..+.+.-...+ -++......+..+++ +||.+-=..
T Consensus 11 A~~~~yAV~AfN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~~~~~ae~~~~VPValHLDH 82 (347)
T TIGR01521 11 AAEFGYGVPAFNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAGAPFLRHLILAAIEEYPHIPVVMHQDH 82 (347)
T ss_pred HHHcCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhCCCCcEEEECCC
Confidence 34444333322 3444789999999999999999998776433322 245667788888886 999876443
No 394
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=41.21 E-value=1.3e+02 Score=22.06 Aligned_cols=71 Identities=17% Similarity=0.101 Sum_probs=39.0
Q ss_pred HHHHHHHHHhhhcCCcEEEE-EEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSE-VVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~-v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+.+.|+.+... ....++ ....++.+...++|-||+.......+ ....+. +...++||+++-.
T Consensus 16 ~i~~gi~~~a~~~g~~v~~~~~~~~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~-----~~~~~~-~~~~~iPvV~v~~ 89 (298)
T cd06302 16 RMEEGAKEAAKELGVDAIYVGPTTADAAGQVQIIEDLIAQGVDAIAVVPNDPDAL-----EPVLKK-AREAGIKVVTHDS 89 (298)
T ss_pred HHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHhcCCCEEEEecCCHHHH-----HHHHHH-HHHCCCeEEEEcC
Confidence 45566666667778776643 222333 23344445556899988864221111 122233 4567899988853
No 395
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=41.10 E-value=1.3e+02 Score=21.44 Aligned_cols=66 Identities=15% Similarity=0.151 Sum_probs=41.2
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEE
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVV 159 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVli 159 (167)
+...++..|.++... -.+-|.+.+++.+.+.++|+|.+.......... +..+.+.+-.... ++|++
T Consensus 108 v~~~l~~~G~~Vi~L-G~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~--~~~~i~~L~~~~~~~~i~v 174 (213)
T cd02069 108 VGVILSNNGYEVIDL-GVMVPIEKILEAAKEHKADIIGLSGLLVPSLDE--MVEVAEEMNRRGIKIPLLI 174 (213)
T ss_pred HHHHHHhCCCEEEEC-CCCCCHHHHHHHHHHcCCCEEEEccchhccHHH--HHHHHHHHHhcCCCCeEEE
Confidence 335556667665321 223589999999999999999998765444443 2445555544433 55544
No 396
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=41.09 E-value=51 Score=26.67 Aligned_cols=26 Identities=27% Similarity=0.505 Sum_probs=12.8
Q ss_pred cChHhHHHHHHH-HhCCCEEEEeecCC
Q 040308 109 GDAKEKVCELVE-KLHADLLVMGSHTF 134 (167)
Q Consensus 109 g~~~~~I~~~a~-~~~~dliV~g~~~~ 134 (167)
|+=.+.+.+.++ +.+..+|.+.+.+.
T Consensus 135 GdDi~~v~~~~~~~~~~pvi~v~t~Gf 161 (475)
T PRK14478 135 GDDIDAVCKRAAEKFGIPVIPVNSPGF 161 (475)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCCc
Confidence 433444444333 34566666655543
No 397
>PF00534 Glycos_transf_1: Glycosyl transferases group 1; InterPro: IPR001296 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Proteins containign this domain transfer UDP, ADP, GDP or CMP linked sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. The bacterial enzymes are involved in various biosynthetic processes that include exopolysaccharide biosynthesis, lipopolysaccharide core biosynthesis and the biosynthesis of the slime polysaccaride colanic acid. Mutations in this domain of the human N-acetylglucosaminyl-phosphatidylinositol biosynthetic protein are the cause of paroxysmal nocturnal hemoglobinuria (PNH), an acquired hemolytic blood disorder characterised by venous thrombosis, erythrocyte hemolysis, infections and defective hematopoiesis.; GO: 0009058 biosynthetic process; PDB: 2L7C_A 2IV3_B 2IUY_B 2XA9_A 2XA1_B 2X6R_A 2XMP_B 2XA2_B 2X6Q_A 3QHP_B ....
Probab=41.00 E-value=94 Score=20.45 Aligned_cols=46 Identities=20% Similarity=0.211 Sum_probs=27.8
Q ss_pred EecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 107 VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 107 ~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
......+++.++.+ .+|++|..+.. ..+ -.+..+.+ .+.|||++-.
T Consensus 78 ~~~~~~~~l~~~~~--~~di~v~~s~~-e~~----~~~~~Ea~--~~g~pvI~~~ 123 (172)
T PF00534_consen 78 LGYVPDDELDELYK--SSDIFVSPSRN-EGF----GLSLLEAM--ACGCPVIASD 123 (172)
T ss_dssp EESHSHHHHHHHHH--HTSEEEE-BSS-BSS-----HHHHHHH--HTT-EEEEES
T ss_pred cccccccccccccc--cceeccccccc-ccc----cccccccc--ccccceeecc
Confidence 33334788888888 69999998775 222 22444544 5678888654
No 398
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=40.52 E-value=1.1e+02 Score=23.25 Aligned_cols=45 Identities=13% Similarity=0.214 Sum_probs=26.9
Q ss_pred HhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhc--CCCCEEEEcCCC
Q 040308 112 KEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANH--AQCPVVVVKGKG 164 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~--~~~pVliv~~~~ 164 (167)
.+.+.+.+++.++|.|| +|...-. .++..+... -..|++.||...
T Consensus 67 v~~~~~~~~~~~~d~IIaiGGGs~~--------D~aK~ia~~~~~~~p~i~iPTt~ 114 (332)
T cd07766 67 VKEAVERARAAEVDAVIAVGGGSTL--------DTAKAVAALLNRGLPIIIVPTTA 114 (332)
T ss_pred HHHHHHHHHhcCcCEEEEeCCchHH--------HHHHHHHHHhcCCCCEEEEeCCC
Confidence 55666777778899987 5633221 122222222 278999999654
No 399
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=40.28 E-value=1.4e+02 Score=21.40 Aligned_cols=71 Identities=18% Similarity=0.082 Sum_probs=35.7
Q ss_pred HHHHHHHHHhhh--cCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSE--KNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~--~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
++.+.+.+.+.+ .++.+......+++ ...+++.+...++|-||+......... ...+. +.+.+.||+.+.
T Consensus 16 ~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~-----~~i~~-~~~~~ipvv~~~ 89 (271)
T cd06321 16 ALAKGAEAAAKKLNPGVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIA-----PAVKR-AQAAGIVVVAVD 89 (271)
T ss_pred HHHHHHHHHHHHhCCCeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhH-----HHHHH-HHHCCCeEEEec
Confidence 344555555555 34443322223333 234445556678998888643211111 12233 345578888885
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 90 ~ 90 (271)
T cd06321 90 V 90 (271)
T ss_pred C
Confidence 4
No 400
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=40.20 E-value=1e+02 Score=19.92 Aligned_cols=40 Identities=15% Similarity=0.152 Sum_probs=21.2
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEe
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMG 130 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 130 (167)
+.+++++.|.++.....-++-.+.|.+..++ .++|+||..
T Consensus 24 l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvitt 65 (133)
T cd00758 24 LEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLTT 65 (133)
T ss_pred HHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEEC
Confidence 3445566777666553334333334433222 158988875
No 401
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosa
Probab=40.19 E-value=81 Score=22.36 Aligned_cols=15 Identities=20% Similarity=0.313 Sum_probs=7.9
Q ss_pred HHhcCCCCEEEEcCC
Q 040308 149 CANHAQCPVVVVKGK 163 (167)
Q Consensus 149 i~~~~~~pVliv~~~ 163 (167)
++...++|++.++..
T Consensus 65 ~l~~~~~p~~~v~GN 79 (240)
T cd07402 65 LLAALPIPVYLLPGN 79 (240)
T ss_pred HHhhcCCCEEEeCCC
Confidence 344445666666543
No 402
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=40.08 E-value=1.1e+02 Score=20.06 Aligned_cols=42 Identities=17% Similarity=0.225 Sum_probs=23.7
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEe
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMG 130 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 130 (167)
..+.+++++.|.++.....-.|-.+.|.+..++ .+.|+||.-
T Consensus 20 ~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~Vitt 63 (144)
T PF00994_consen 20 PFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITT 63 (144)
T ss_dssp HHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEc
Confidence 344566667888776554444434444433322 266988874
No 403
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=40.07 E-value=58 Score=25.35 Aligned_cols=41 Identities=20% Similarity=0.206 Sum_probs=34.7
Q ss_pred CCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeC
Q 040308 4 NLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQP 46 (167)
Q Consensus 4 ~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~ 46 (167)
.+.+|.|...+..+|--.++.++++++..+ ..+|.++|+--
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~~--~~~i~VlfiD~ 66 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVARENG--RDKISVLFIDW 66 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHhC--CCceEEEEEcc
Confidence 467899999999999999999999999984 34888888744
No 404
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=39.82 E-value=88 Score=23.19 Aligned_cols=66 Identities=14% Similarity=0.240 Sum_probs=38.2
Q ss_pred hhcCCcEEEEEEec-ChHhH-HHHHHHHhCCCEEEEeecCCCccceeccc-----------chhHHHHhcCCCCEEEEcC
Q 040308 96 SEKNVNVKSEVVIG-DAKEK-VCELVEKLHADLLVMGSHTFGPIKRMFLG-----------SVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 96 ~~~~~~~~~~v~~g-~~~~~-I~~~a~~~~~dliV~g~~~~~~~~~~~~g-----------s~~~~i~~~~~~pVliv~~ 162 (167)
+++| +.+.+++.| +.... .+++|.+...+.+|+-+.=.+.. +.+.. ++ ..=+++.+||||+++.
T Consensus 124 ~~~g-~~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S~~-rv~~~~~~~~~~~d~f~~-i~kI~~i~~PVLiiHg 200 (258)
T KOG1552|consen 124 NRYG-SPERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTSGM-RVAFPDTKTTYCFDAFPN-IEKISKITCPVLIIHG 200 (258)
T ss_pred hhcC-CCceEEEEEecCCchhhhhHhhcCCcceEEEeccchhhh-hhhccCcceEEeeccccc-cCcceeccCCEEEEec
Confidence 4566 777778887 33222 45777766688888876422211 11111 11 2234667899999986
Q ss_pred CC
Q 040308 163 KG 164 (167)
Q Consensus 163 ~~ 164 (167)
..
T Consensus 201 td 202 (258)
T KOG1552|consen 201 TD 202 (258)
T ss_pred cc
Confidence 54
No 405
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=39.79 E-value=1.7e+02 Score=22.36 Aligned_cols=69 Identities=10% Similarity=0.012 Sum_probs=45.6
Q ss_pred hhhcCCcEEEE-EEecChHhHHHHHHHHhCCCEEEEeecCCCccce-ecccchhHHHHhcCC-CCEEEEcCC
Q 040308 95 CSEKNVNVKSE-VVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR-MFLGSVSNYCANHAQ-CPVVVVKGK 163 (167)
Q Consensus 95 ~~~~~~~~~~~-v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~i~~~~~-~pVliv~~~ 163 (167)
+.+.+..+-.. +..-...+++++.|++.+..+|+..+.+.....+ .++......+..+++ +||.+-=..
T Consensus 12 A~~~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIlq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValHLDH 83 (307)
T PRK05835 12 AHKEGYGVGAFNFVNFEMLNAIFEAGNEENSPLFIQASEGAIKYMGIDMAVGMVKIMCERYPHIPVALHLDH 83 (307)
T ss_pred HHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhCChHHHHHHHHHHHHhcCCCeEEEECCC
Confidence 34444333333 3344789999999999999999988765432221 234567777788886 999876443
No 406
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=39.60 E-value=1.1e+02 Score=20.28 Aligned_cols=40 Identities=18% Similarity=0.252 Sum_probs=22.2
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHH----hCCCEEEEe
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEK----LHADLLVMG 130 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~----~~~dliV~g 130 (167)
+.+.+++.|.++.....-.|-.+.|.+..++ ..+|+||..
T Consensus 25 l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVitt 68 (152)
T cd00886 25 LVELLEEAGHEVVAYEIVPDDKDEIREALIEWADEDGVDLILTT 68 (152)
T ss_pred HHHHHHHcCCeeeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 3455667787665554344333444443332 268988885
No 407
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=39.59 E-value=1.4e+02 Score=21.27 Aligned_cols=69 Identities=14% Similarity=0.110 Sum_probs=40.4
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+.+.+.+.+.|..+......+++. ..+++.....++|-||+........ ... -+...++||+++-.
T Consensus 16 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~-------~~~-~~~~~~ipvV~~~~ 86 (264)
T cd06274 16 RIAKRLEALARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGSLPPDD-------PYY-LCQKAGLPVVALDR 86 (264)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCchH-------HHH-HHHhcCCCEEEecC
Confidence 445555566667787766554444443 3566666777899888765422111 122 34556789888844
No 408
>COG0284 PyrF Orotidine-5'-phosphate decarboxylase [Nucleotide transport and metabolism]
Probab=39.40 E-value=1.5e+02 Score=21.68 Aligned_cols=38 Identities=18% Similarity=0.105 Sum_probs=23.2
Q ss_pred CCCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCC
Q 040308 2 SGNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPP 47 (167)
Q Consensus 2 ~~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~ 47 (167)
+.+-+++.|++|..+.... +++++.. ...+..+-|..+
T Consensus 8 ~~~~~~livaLD~~~~~~~-----~~~~~~~---~~~~~~~Kvg~~ 45 (240)
T COG0284 8 EAMSRRLIVALDVPTEEEA-----LAFVDKL---GPTVDFVKVGKP 45 (240)
T ss_pred hhcccCeEEEECCCCHHHH-----HHHHHHh---hccccEEEEchH
Confidence 3444559999999976553 5555555 445555555443
No 409
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=39.27 E-value=1.8e+02 Score=22.38 Aligned_cols=66 Identities=24% Similarity=0.362 Sum_probs=36.9
Q ss_pred HHHHHHhhhcCCcEEEEE-EecC--h----HhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 89 DHALKICSEKNVNVKSEV-VIGD--A----KEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v-~~g~--~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
+++.+.+.+.++++.+.. ..++ + .+.+.+.+++ ++|.|| +|.... ..++..+.....+|++.|
T Consensus 40 ~~v~~~l~~~~i~~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGGGs~--------~D~aK~vA~~~~~p~i~I 110 (348)
T cd08175 40 KKVEALLKRAGVVVLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGSGTI--------NDITKYVSYKTGIPYISV 110 (348)
T ss_pred HHHHHHHHHCCCeeEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECCcHH--------HHHHHHHHHhcCCCEEEe
Confidence 555566667777665443 2232 2 3344444555 788877 552221 223344444457899999
Q ss_pred cCC
Q 040308 161 KGK 163 (167)
Q Consensus 161 ~~~ 163 (167)
|..
T Consensus 111 PTT 113 (348)
T cd08175 111 PTA 113 (348)
T ss_pred cCc
Confidence 976
No 410
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=39.25 E-value=1.1e+02 Score=21.57 Aligned_cols=74 Identities=14% Similarity=0.151 Sum_probs=48.9
Q ss_pred HHHHhhhcCCcEEEEEEecC----hHhHHHHHHHHhCCCEEEEeecC--------CC-------ccceecccchhHHHHh
Q 040308 91 ALKICSEKNVNVKSEVVIGD----AKEKVCELVEKLHADLLVMGSHT--------FG-------PIKRMFLGSVSNYCAN 151 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliV~g~~~--------~~-------~~~~~~~gs~~~~i~~ 151 (167)
+.+.+.+.|.++.....+.. ....+.+......+|.|++.+.. .. ...-.-+|..+.+.++
T Consensus 132 l~~~L~~~g~~v~~~~vY~~~~~~~~~~~~~~l~~~~~~~v~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig~~ta~~l~ 211 (231)
T PF02602_consen 132 LPEKLREAGIEVTEVIVYETPPEELSPELKEALDRGEIDAVVFTSPSAVRAFLELLKKNGALLKRVPIVAIGPRTAKALR 211 (231)
T ss_dssp HHHHHHHTTEEEEEEECEEEEEHHHHHHHHHHHHHTTTSEEEESSHHHHHHHHHHSSGHHHHHTTSEEEESSHHHHHHHH
T ss_pred HHHHHHHCCCeEEEEEEeecccccchHHHHHHHHcCCCCEEEECCHHHHHHHHHHhHhhhhhhhCCEEEEECHHHHHHHH
Confidence 34555667777666554444 56667777777799999998753 11 1112347888888898
Q ss_pred cCCCCEEEEcCCC
Q 040308 152 HAQCPVVVVKGKG 164 (167)
Q Consensus 152 ~~~~pVliv~~~~ 164 (167)
+..+++.+++.+.
T Consensus 212 ~~g~~~~~va~~~ 224 (231)
T PF02602_consen 212 ELGFKVDIVAERP 224 (231)
T ss_dssp HTT-SCSEEESSS
T ss_pred HcCCCceEECCCC
Confidence 8898887777654
No 411
>TIGR03609 S_layer_CsaB polysaccharide pyruvyl transferase CsaB. The CsaB protein (cell surface anchoring B) of Bacillus anthracis adds a pyruvoyl group to peptidoglycan-associated polysaccharide. This addition is required for proteins with an S-layer homology domain (pfam00395) to bind. Within the larger group of proteins described by Pfam model pfam04230, this model represents a distinct clade that nearly exactly follows the phylogenetic distribution of the S-layer homology domain (pfam00395).
Probab=39.21 E-value=1.6e+02 Score=21.85 Aligned_cols=47 Identities=15% Similarity=0.134 Sum_probs=26.4
Q ss_pred HHHHHHHHhCCCEEEEeecCCC----ccceecccchhHHHHhcCCCCEEEEcC
Q 040308 114 KVCELVEKLHADLLVMGSHTFG----PIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~~~----~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+.+..+ ++|++|+|..+-- .+...+.--....+.+....|+++++.
T Consensus 57 ~~~~~l~--~~D~vI~gGG~l~~d~~~~~~~~~~~~~~~~a~~~~k~~~~~g~ 107 (298)
T TIGR03609 57 AVLRALR--RADVVIWGGGSLLQDVTSFRSLLYYLGLMRLARLFGKPVILWGQ 107 (298)
T ss_pred HHHHHHH--HCCEEEECCcccccCCcccccHHHHHHHHHHHHHcCCCEEEEec
Confidence 5666676 8899999865421 111111000123455667889988864
No 412
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=39.19 E-value=1.1e+02 Score=20.08 Aligned_cols=59 Identities=12% Similarity=0.055 Sum_probs=37.5
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhc
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANH 152 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~ 152 (167)
+...++..|.++-.. -..-+.+++.+.+.+.++|+|.+.......... +..+.+.+-..
T Consensus 23 v~~~lr~~G~eVi~L-G~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~--~~~~~~~L~~~ 81 (137)
T PRK02261 23 LDRALTEAGFEVINL-GVMTSQEEFIDAAIETDADAILVSSLYGHGEID--CRGLREKCIEA 81 (137)
T ss_pred HHHHHHHCCCEEEEC-CCCCCHHHHHHHHHHcCCCEEEEcCccccCHHH--HHHHHHHHHhc
Confidence 345566678765321 223589999999999999999998765443332 23444444333
No 413
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=39.18 E-value=77 Score=22.92 Aligned_cols=51 Identities=8% Similarity=0.191 Sum_probs=32.4
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCCC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKGT 165 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~ 165 (167)
..++++.+.+.+.|.|++|....-.... ...+... +++...||++.|....
T Consensus 16 ~~~~~~~~~~~gtdai~vGGS~~vt~~~--~~~~v~~-ik~~~lPvilfp~~~~ 66 (223)
T TIGR01768 16 ADEIAKAAAESGTDAILIGGSQGVTYEK--TDTLIEA-LRRYGLPIILFPSNPT 66 (223)
T ss_pred cHHHHHHHHhcCCCEEEEcCCCcccHHH--HHHHHHH-HhccCCCEEEeCCCcc
Confidence 4557777777789999999664222222 2334443 4455699999986543
No 414
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=39.11 E-value=1.5e+02 Score=21.50 Aligned_cols=69 Identities=19% Similarity=0.006 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChH--hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAK--EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+++.|+.+...... +.. ...++.+...++|-||+-....... ...-..+...++||+++-
T Consensus 16 ~~~~gi~~~~~~~g~~~~~~~~~-~~~~~~~~i~~~~~~~~dgiii~~~~~~~~------~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 16 TEWKFAKKAAKEKGFTVVKIDVP-DGEKVLSAIDNLGAQGAKGFVICVPDVKLG------PAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHHHHHHHHHHcCCEEEEccCC-CHHHHHHHHHHHHHcCCCEEEEccCchhhh------HHHHHHHHhCCCeEEEec
Confidence 45556666666778776543222 332 2334445567899888854321111 111234556789999884
No 415
>TIGR03297 Ppyr-DeCO2ase phosphonopyruvate decarboxylase. This family consists of examples of phosphonopyruvate an decarboxylase enzyme that produces phosphonoacetaldehyde (Pald), the second step in the biosynthesis phosphonate-containing compounds. Since the preceding enzymate step, PEP phosphomutase (AepX, TIGR02320) favors the substrate PEP energetically, the decarboxylase is required to drive the reaction in the direction of phosphonate production. Pald is a precursor of natural products including antibiotics like bialaphos and phosphonothricin in Streptomyces species, phosphonate-modified molecules such as the polysaccharide B of Bacteroides fragilis, the phosphonolipids of Tetrahymena pyroformis, the glycosylinositolphospholipids of Trypanosoma cruzi. This gene generally occurs in prokaryotic organisms adjacent to the gene for AepX. Most often an aminotansferase (aepZ) is also present which leads to the production of the most common phosphonate compound, 2-aminoethylphosphonate (A
Probab=39.08 E-value=38 Score=26.37 Aligned_cols=55 Identities=16% Similarity=0.161 Sum_probs=38.8
Q ss_pred cChHhHHHHHHHHhC---CCEEEEeecCCCc----cceecccchhHHHHhcCCCCEEEEcCC
Q 040308 109 GDAKEKVCELVEKLH---ADLLVMGSHTFGP----IKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 109 g~~~~~I~~~a~~~~---~dliV~g~~~~~~----~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
|+..+.+..++...- +=++++|++|... .++.+.|..+..++....+|..+++..
T Consensus 63 Gn~vN~l~SL~~~~~y~iP~l~~i~~RG~~g~~depqh~~~G~~t~~lL~~~~i~~~~~~~~ 124 (361)
T TIGR03297 63 GNAVNPLTSLADTEVYDIPLLLIVGWRGEPGVHDEPQHVKQGRITLSLLDALEIPWEVLSTD 124 (361)
T ss_pred hhhhhHHHhhccccccCcCeeEEEecCCCCCCCCCchhhHHhHHHHHHHHHcCCCEEECCCC
Confidence 466666666643223 3347888887543 335678999999999999999999643
No 416
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=39.08 E-value=1.3e+02 Score=22.33 Aligned_cols=60 Identities=17% Similarity=0.126 Sum_probs=36.8
Q ss_pred cCCcEEEE-EEecChHhHHH-HHHHHhCCCEEEEeecCCC-ccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 98 KNVNVKSE-VVIGDAKEKVC-ELVEKLHADLLVMGSHTFG-PIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 98 ~~~~~~~~-v~~g~~~~~I~-~~a~~~~~dliV~g~~~~~-~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.++..... -..|....+.. .+.++.++|.||--..|.. ..... -...+...+||++|-+.
T Consensus 169 ~~~p~~~Iia~~GPfs~~~n~all~q~~id~vItK~SG~~Gg~~~K------i~aA~eLgi~VI~I~Rp 231 (257)
T COG2099 169 LGVPPARIIAMRGPFSEEDNKALLEQYRIDVVVTKNSGGAGGTYEK------IEAARELGIPVIMIERP 231 (257)
T ss_pred cCCChhhEEEecCCcChHHHHHHHHHhCCCEEEEccCCcccCcHHH------HHHHHHcCCcEEEEecC
Confidence 34443333 34566666665 4577889999988665544 33322 24567788999988654
No 417
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=39.06 E-value=1.4e+02 Score=21.12 Aligned_cols=70 Identities=16% Similarity=0.126 Sum_probs=39.9
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecChHh--HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGDAKE--KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+++.+.+.+.+.|..+.......++.. ..++.....++|.+|+...... ......+...+.||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~--------~~~~~~~~~~~ipvv~~~~ 86 (259)
T cd01542 15 SRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLARQKVDGIILLATTIT--------DEHREAIKKLNVPVVVVGQ 86 (259)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCC--------HHHHHHHhcCCCCEEEEec
Confidence 45666666777778877655433334433 3344455568999988643211 1122344556788888743
No 418
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=39.04 E-value=1.7e+02 Score=22.01 Aligned_cols=62 Identities=13% Similarity=0.114 Sum_probs=36.8
Q ss_pred HHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC---CccceecccchhHHHH-hcCCCCEEEEcC
Q 040308 93 KICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF---GPIKRMFLGSVSNYCA-NHAQCPVVVVKG 162 (167)
Q Consensus 93 ~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~i~-~~~~~pVliv~~ 162 (167)
..+.+.|+++.... ++-.-. +.+ ++|.+|+|..+- +.+-.. .|+..-.++ ++-++||+++-+
T Consensus 154 ~eL~~~GI~vtlI~--Dsa~~~---~m~--~vd~VivGAD~I~~nG~v~NK-iGT~~lA~~Ak~~~vPfyV~a~ 219 (275)
T PRK08335 154 NELEFLGIEFEVIT--DAQLGL---FAK--EATLALVGADNVTRDGYVVNK-AGTYLLALACHDNGVPFYVAAE 219 (275)
T ss_pred HHHHHCCCCEEEEe--ccHHHH---HHH--hCCEEEECccEEecCCCEeeh-hhHHHHHHHHHHcCCCEEEECc
Confidence 33455688876542 222222 234 499999998763 222222 466554555 677799999854
No 419
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=38.99 E-value=64 Score=22.81 Aligned_cols=8 Identities=25% Similarity=0.596 Sum_probs=4.7
Q ss_pred EEEEeecC
Q 040308 126 LLVMGSHT 133 (167)
Q Consensus 126 liV~g~~~ 133 (167)
.+++|.+.
T Consensus 73 ~~~~GNHD 80 (214)
T cd07399 73 SVLAGNHD 80 (214)
T ss_pred EEECCCCc
Confidence 45566665
No 420
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=38.71 E-value=83 Score=18.45 Aligned_cols=40 Identities=23% Similarity=0.348 Sum_probs=22.9
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..+++.+.+.|+++... .+. ......... ++|+++++..-
T Consensus 18 ~~i~~~~~~~gi~~~~~--~~~-~~~~~~~~~--~~D~il~~~~i 57 (90)
T PF02302_consen 18 NKIKKALKELGIEVEVS--AGS-ILEVEEIAD--DADLILLTPQI 57 (90)
T ss_dssp HHHHHHHHHTTECEEEE--EEE-TTTHHHHHT--T-SEEEEEESS
T ss_pred HHHHHHHHhccCceEEE--Eec-ccccccccC--CCcEEEEcCcc
Confidence 55566777777555443 323 223333344 79999999764
No 421
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=38.63 E-value=2e+02 Score=22.95 Aligned_cols=70 Identities=4% Similarity=0.042 Sum_probs=34.9
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC--CC-EEEEcC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ--CP-VVVVKG 162 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~--~p-Vliv~~ 162 (167)
+++..++...++++.......+....|.+ . .++|+|++-+.|+........ .....++..+. +. .||++.
T Consensus 268 eqL~~~a~~~~vp~~~~~~~~~l~~~l~~-~--~~~DlVlIDt~G~~~~d~~~~-~~L~~ll~~~~~~~~~~LVl~a 340 (424)
T PRK05703 268 EQLKTYAKIMGIPVEVVYDPKELAKALEQ-L--RDCDVILIDTAGRSQRDKRLI-EELKALIEFSGEPIDVYLVLSA 340 (424)
T ss_pred HHHHHHHHHhCCceEccCCHHhHHHHHHH-h--CCCCEEEEeCCCCCCCCHHHH-HHHHHHHhccCCCCeEEEEEEC
Confidence 34444445566665433222233333322 2 378999999888766543322 22334555322 22 555554
No 422
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=38.37 E-value=2e+02 Score=22.64 Aligned_cols=25 Identities=4% Similarity=-0.096 Sum_probs=18.7
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
.....+++.+++.+.+.+.+|+.+-
T Consensus 245 ~~~~~l~~~a~~~g~~~~wigs~~w 269 (403)
T cd06361 245 FHVFLLFNKAIERNINKVWIASDNW 269 (403)
T ss_pred HHHHHHHHHHHHhCCCeEEEEECcc
Confidence 4566777888888888888887653
No 423
>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=38.20 E-value=1.3e+02 Score=20.57 Aligned_cols=42 Identities=24% Similarity=0.394 Sum_probs=25.2
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEe
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMG 130 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 130 (167)
..+.+.+.+.|+++......+|-.+.|.+..++ ..+|+||..
T Consensus 22 ~~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~dlVItt 65 (170)
T cd00885 22 AFLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERADLVITT 65 (170)
T ss_pred HHHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 344456677888877665555544444444332 278988876
No 424
>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species
Probab=38.15 E-value=2.1e+02 Score=22.88 Aligned_cols=66 Identities=17% Similarity=0.330 Sum_probs=36.3
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHHHHHHH--hCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVCELVEK--LHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
.+.+.+.+.|+++.....-+|-.+.|.+..++ ..+|+||+. .+-++-..-+ +.+.+.+...+|+..
T Consensus 24 ~l~~~L~~~G~~v~~~~~v~Dd~~~i~~~l~~a~~~~DlVItt-GGlgpt~dD~---t~eava~~~g~~l~~ 91 (413)
T TIGR00200 24 WLADFLAHQGLPLSRRTTVGDNPERLKTIIRIASERADVLIFN-GGLGPTSDDL---TAETIATAKGEPLVL 91 (413)
T ss_pred HHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhcCCCEEEEc-CCCCCCCccc---HHHHHHHHhCCCcEE
Confidence 34456677898887776666555555544332 378999986 4444443321 333333444455443
No 425
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=37.90 E-value=1.5e+02 Score=21.23 Aligned_cols=43 Identities=26% Similarity=0.201 Sum_probs=25.3
Q ss_pred HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 114 KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
.+++.....++|-||+.......+. ...+. +....+||+.+-.
T Consensus 51 ~~~~~l~~~~vDgiii~~~~~~~~~-----~~i~~-~~~~gIpvV~~d~ 93 (274)
T cd06311 51 AQQDLLINRKIDALVILPFESAPLT-----QPVAK-AKKAGIFVVVVDR 93 (274)
T ss_pred HHHHHHHHcCCCEEEEeCCCchhhH-----HHHHH-HHHCCCeEEEEcC
Confidence 4455556668998888754332222 12233 4567899988753
No 426
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=37.78 E-value=34 Score=27.20 Aligned_cols=24 Identities=21% Similarity=0.452 Sum_probs=20.8
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecC
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
.-.+.|+++|++.++||+|+|...
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE~ 73 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPEA 73 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCcH
Confidence 347899999999999999999753
No 427
>cd00019 AP2Ec AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-hexulose 3-phosphate to D-fructose 6-phosphate, via cleaving the phosphoesterbond with the sugar.
Probab=37.71 E-value=1.6e+02 Score=21.54 Aligned_cols=78 Identities=14% Similarity=0.176 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 040308 18 SMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKICSE 97 (167)
Q Consensus 18 s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (167)
+...++.++++|+.. +++.+.+|...... . ..+...+...+.++++.+.+..
T Consensus 83 ~~~~~~~~i~~A~~l---G~~~v~~~~g~~~~---------------------~----~~~~~~~~~~~~l~~l~~~a~~ 134 (279)
T cd00019 83 SIERLKDEIERCEEL---GIRLLVFHPGSYLG---------------------Q----SKEEGLKRVIEALNELIDKAET 134 (279)
T ss_pred HHHHHHHHHHHHHHc---CCCEEEECCCCCCC---------------------C----CHHHHHHHHHHHHHHHHHhccC
Confidence 445578899999999 88876665432110 0 0122233445556666667777
Q ss_pred cCCcEEEEEEec------ChHhHHHHHHHHhC
Q 040308 98 KNVNVKSEVVIG------DAKEKVCELVEKLH 123 (167)
Q Consensus 98 ~~~~~~~~v~~g------~~~~~I~~~a~~~~ 123 (167)
.|+.+..+...+ +....+.++.++.+
T Consensus 135 ~gi~l~lEn~~~~~~~~~~t~~~~~~li~~v~ 166 (279)
T cd00019 135 KGVVIALETMAGQGNEIGSSFEELKEIIDLIK 166 (279)
T ss_pred CCCEEEEeCCCCCCCCCCCCHHHHHHHHHhcC
Confidence 787765554322 23466677777543
No 428
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=37.68 E-value=95 Score=18.85 Aligned_cols=40 Identities=10% Similarity=0.298 Sum_probs=25.3
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeec
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
...+++.+.+.|++++. ...+.. ++-.+++ ++|++|.+..
T Consensus 20 ~~ki~~~l~~~gi~~~v--~~~~~~-e~~~~~~--~~D~iv~t~~ 59 (94)
T PRK10310 20 AEEIKELCQSHNIPVEL--IQCRVN-EIETYMD--GVHLICTTAR 59 (94)
T ss_pred HHHHHHHHHHCCCeEEE--EEecHH-HHhhhcC--CCCEEEECCc
Confidence 35566777778887653 333433 4444444 7999988864
No 429
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=37.61 E-value=1.5e+02 Score=21.07 Aligned_cols=70 Identities=10% Similarity=0.178 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEec--ChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIG--DAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+.+.+++.+++.|.++......+ +..+.+.+.....++|-||+-..... . ...+ -+....+||+.+-.
T Consensus 20 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~--~-----~~~~-~~~~~~ipvV~~~~ 91 (270)
T cd06294 20 IEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED--D-----PIID-YLKEEKFPFVVIGK 91 (270)
T ss_pred HHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC--c-----HHHH-HHHhcCCCEEEECC
Confidence 3455556666666776654432221 22344445555567888888643211 1 1223 34556788888854
No 430
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=37.59 E-value=63 Score=26.13 Aligned_cols=51 Identities=14% Similarity=0.198 Sum_probs=28.7
Q ss_pred HHHHHHHHHHhhhcCCcEEEEE------EecChHhHHHHHH-HHhCCCEEEEeecCCC
Q 040308 85 QAIIDHALKICSEKNVNVKSEV------VIGDAKEKVCELV-EKLHADLLVMGSHTFG 135 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v------~~g~~~~~I~~~a-~~~~~dliV~g~~~~~ 135 (167)
+++.+.+.+..++++.++-+.+ ..|+-.+.+...+ ++.++.+|.+-+.|..
T Consensus 83 ~~L~~~i~ei~~~~~p~~ifv~~TC~t~iIGdDle~va~~~~~~~gipVV~v~~~Gf~ 140 (457)
T CHL00073 83 EELKRLCLQIKKDRNPSVIVWIGTCTTEIIKMDLEGMAPKLEAEIGIPIVVARANGLD 140 (457)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEccCcHHhhccCHHHHHHHHHHhhCCCEEEEeCCCcc
Confidence 3444444555555554433332 2254455665444 4678999999887754
No 431
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.59 E-value=1.2e+02 Score=20.13 Aligned_cols=49 Identities=16% Similarity=0.165 Sum_probs=21.2
Q ss_pred HHHHHHHHhCCCEEEEeecC-CCccceecccchhHHHHhcC-CCCEEEEcC
Q 040308 114 KVCELVEKLHADLLVMGSHT-FGPIKRMFLGSVSNYCANHA-QCPVVVVKG 162 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~i~~~~-~~pVliv~~ 162 (167)
.+..+.+++++|-||+-.|. ++.+.+.-.|--.+.++.-. +|+|-++.+
T Consensus 52 ~f~kl~~dy~Vd~VvIk~R~~KGKfAGga~~FKmEaaIQL~~~~~V~lvs~ 102 (138)
T PF11215_consen 52 TFAKLMEDYKVDKVVIKERATKGKFAGGAVGFKMEAAIQLIDDVEVELVSP 102 (138)
T ss_pred HHHHHHHHcCCCEEEEEecccCCCccCCchhHHHHHHHHhcCCCcEEEECH
Confidence 34445555666666665442 22222211122234444333 466655543
No 432
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=37.28 E-value=1.6e+02 Score=21.38 Aligned_cols=59 Identities=3% Similarity=-0.059 Sum_probs=37.1
Q ss_pred HHHHHhhhcCC--cEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHH
Q 040308 90 HALKICSEKNV--NVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCA 150 (167)
Q Consensus 90 ~~~~~~~~~~~--~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~ 150 (167)
+..+.+++.|. ..-..+.-+.+.+.+..+.. ..|+|.+=+-.+++-.+.|..+..++|-
T Consensus 107 ~~l~~Ik~~g~~~kaGlalnP~Tp~~~i~~~l~--~vD~VLiMtV~PGfgGQ~f~~~~l~KI~ 167 (228)
T PRK08091 107 LTIEWLAKQKTTVLIGLCLCPETPISLLEPYLD--QIDLIQILTLDPRTGTKAPSDLILDRVI 167 (228)
T ss_pred HHHHHHHHCCCCceEEEEECCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHHH
Confidence 33445566676 55444455688999999999 7887666555555555556555444443
No 433
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=37.27 E-value=1e+02 Score=22.11 Aligned_cols=11 Identities=18% Similarity=0.350 Sum_probs=6.0
Q ss_pred EEEEEEecChH
Q 040308 102 VKSEVVIGDAK 112 (167)
Q Consensus 102 ~~~~v~~g~~~ 112 (167)
+...+..||..
T Consensus 33 ~d~vv~~GDl~ 43 (239)
T TIGR03729 33 IDHLHIAGDIS 43 (239)
T ss_pred CCEEEECCccc
Confidence 44556666643
No 434
>PRK05569 flavodoxin; Provisional
Probab=37.18 E-value=1.1e+02 Score=19.64 Aligned_cols=42 Identities=21% Similarity=0.201 Sum_probs=22.1
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
+.+.+.+.+.+.|+.++..-...... .... ++|.|++|+...
T Consensus 18 iA~~i~~~~~~~g~~v~~~~~~~~~~----~~~~--~~d~iilgsPty 59 (141)
T PRK05569 18 LANTIADGAKEAGAEVTIKHVADAKV----EDVL--EADAVAFGSPSM 59 (141)
T ss_pred HHHHHHHHHHhCCCeEEEEECCcCCH----HHHh--hCCEEEEECCCc
Confidence 33444444455566554432222111 1233 899999998753
No 435
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=37.12 E-value=1.7e+02 Score=21.60 Aligned_cols=70 Identities=9% Similarity=0.069 Sum_probs=40.0
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHh--CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKL--HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~--~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+++.+.+.|+.+.......+. ...+++..... ++|-||+..... ... ... ..+...++||+++-
T Consensus 17 ~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~-~~~-----~~~-~~~~~~giPvV~~~ 89 (305)
T cd06324 17 SVARFMQAAADDLGIELEVLYAERDRFLMLQQARTILQRPDKPDALIFTNEKS-VAP-----ELL-RLAEGAGVKLFLVN 89 (305)
T ss_pred HHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCcc-chH-----HHH-HHHHhCCCeEEEEe
Confidence 44555556666678776554333333 33455556666 899999954321 111 122 34556789999885
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 90 ~ 90 (305)
T cd06324 90 S 90 (305)
T ss_pred c
Confidence 4
No 436
>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=37.11 E-value=1.8e+02 Score=21.81 Aligned_cols=49 Identities=16% Similarity=0.051 Sum_probs=31.6
Q ss_pred HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 114 KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
+..+.+++.++|-+++-.........--+-..-..|+..+++||++...
T Consensus 90 ~~a~~a~~~Gadav~~~pP~y~~~s~~~i~~~f~~v~~a~~~pvilYn~ 138 (296)
T TIGR03249 90 EIARLAEKAGADGYLLLPPYLINGEQEGLYAHVEAVCESTDLGVIVYQR 138 (296)
T ss_pred HHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhccCCCEEEEeC
Confidence 3446788899999988765433222211223445677788999999863
No 437
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=37.02 E-value=1.4e+02 Score=21.82 Aligned_cols=52 Identities=12% Similarity=0.103 Sum_probs=30.3
Q ss_pred EEecC---hHhHHHHHHHHhCCCE-EEEeecCCCccceecccchhHHHHhcCCCCEEEEcCCC
Q 040308 106 VVIGD---AKEKVCELVEKLHADL-LVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 106 v~~g~---~~~~I~~~a~~~~~dl-iV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~ 164 (167)
+..|+ +.+.+.+.++ .+|+ ||||+...-... .+.. ...+....+|+++..++
T Consensus 154 V~FGE~~~~~~~~~~~~~--~~DlllviGTSl~V~pa----~~l~-~~a~~~g~~vi~IN~~~ 209 (242)
T PTZ00408 154 VWFGEMPLYMDEIESVMS--KTDLFVAVGTSGNVYPA----AGFV-GRAQFYGATTLELNLEE 209 (242)
T ss_pred EEcCCCCCcHHHHHHHHH--hCCEEEEEccCCccccH----HHHH-HHHHHcCCeEEEECCCC
Confidence 45565 3456666666 6887 677876432221 1222 23556678999887655
No 438
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=37.01 E-value=1.5e+02 Score=20.97 Aligned_cols=69 Identities=14% Similarity=0.026 Sum_probs=38.2
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecC--hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGD--AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~--~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+++.+.+.+.+.|+++......++ ..+.+.+.....++|-+|+...... . .... .+...+.||+++-
T Consensus 19 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~--~-----~~~~-~~~~~~ipvV~~~ 89 (268)
T cd06271 19 AEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPD--D-----PRVA-LLLERGFPFVTHG 89 (268)
T ss_pred HHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCC--C-----hHHH-HHHhcCCCEEEEC
Confidence 34455556666667777655543332 3344555555567898888643211 1 1122 3345678888774
No 439
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=36.96 E-value=1.6e+02 Score=21.33 Aligned_cols=72 Identities=8% Similarity=0.075 Sum_probs=39.7
Q ss_pred HHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccch---hHHHHhcCCCCEEE
Q 040308 88 IDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSV---SNYCANHAQCPVVV 159 (167)
Q Consensus 88 ~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~---~~~i~~~~~~pVli 159 (167)
.+.+.+.++++|+..-..+.-..+.+.|...++...--+.+|+..+.++.+..+..+. .+.+-+..++|+.+
T Consensus 118 ~~~~~~~~~~~g~~~i~~i~P~T~~~~i~~i~~~~~~~vy~~s~~g~tG~~~~~~~~~~~~i~~lr~~~~~pI~v 192 (242)
T cd04724 118 AEEFREAAKEYGLDLIFLVAPTTPDERIKKIAELASGFIYYVSRTGVTGARTELPDDLKELIKRIRKYTDLPIAV 192 (242)
T ss_pred HHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHhhCCCCEEEEeCCCCCCCccCCChhHHHHHHHHHhcCCCcEEE
Confidence 4556667777888766655555666666666653333345566554433333222222 34444455688876
No 440
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=36.87 E-value=1.3e+02 Score=22.32 Aligned_cols=42 Identities=14% Similarity=0.057 Sum_probs=25.8
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
..+.+.+++.|+++...... +.+.+..+..++|+++...++.
T Consensus 26 ~~i~~al~~~g~~v~~i~~~----~~~~~~~~~~~~D~v~~~~~g~ 67 (304)
T PRK01372 26 AAVLAALREAGYDAHPIDPG----EDIAAQLKELGFDRVFNALHGR 67 (304)
T ss_pred HHHHHHHHHCCCEEEEEecC----cchHHHhccCCCCEEEEecCCC
Confidence 34445556678887665322 2344555566899999876543
No 441
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=36.82 E-value=61 Score=21.02 Aligned_cols=44 Identities=16% Similarity=0.094 Sum_probs=23.0
Q ss_pred HHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
+.+.+.+.|+.+..+-.-..-.+.-+..-+-..+|+||+.....
T Consensus 24 Le~~A~~~g~~IKVETqGs~G~eN~LT~edI~~Ad~VI~AaD~~ 67 (122)
T COG1445 24 LEKAAKKLGVEIKVETQGAVGIENRLTAEDIAAADVVILAADIE 67 (122)
T ss_pred HHHHHHHcCCeEEEEcCCcccccCcCCHHHHHhCCEEEEEeccc
Confidence 34555566766655532222122222222223899999988653
No 442
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=36.79 E-value=1e+02 Score=22.35 Aligned_cols=54 Identities=19% Similarity=0.162 Sum_probs=33.0
Q ss_pred hHhHHHHHHHHhCCCEEEEeecCCC-ccceecccchh--HHHHhcCCCCEEEEcCCC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHTFG-PIKRMFLGSVS--NYCANHAQCPVVVVKGKG 164 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~~~-~~~~~~~gs~~--~~i~~~~~~pVliv~~~~ 164 (167)
..+++.+.+.+..+|++|++-.=.. .+........- ..-+.....||+.||.+.
T Consensus 18 ~~~k~~~~~~~~~~D~lviaGDlt~~~~~~~~~~~~~~~~e~l~~~~~~v~avpGNc 74 (226)
T COG2129 18 SLKKLLNAAADIRADLLVIAGDLTYFHFGPKEVAEELNKLEALKELGIPVLAVPGNC 74 (226)
T ss_pred HHHHHHHHHhhccCCEEEEecceehhhcCchHHHHhhhHHHHHHhcCCeEEEEcCCC
Confidence 4688888999899999999854210 11111100010 124556789999999764
No 443
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=36.59 E-value=1.8e+02 Score=21.64 Aligned_cols=51 Identities=10% Similarity=0.023 Sum_probs=28.8
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHH---HHHHHHhCCCEEEEeecCCCccce
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKV---CELVEKLHADLLVMGSHTFGPIKR 139 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~~ 139 (167)
+++..++...++.+-......++...+ +..+...++|+|++-+.++.....
T Consensus 117 ~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~~~~D~ViIDT~G~~~~d~ 170 (272)
T TIGR00064 117 EQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNKV 170 (272)
T ss_pred HHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHHCCCCEEEEeCCCCCcchH
Confidence 344455555565432211123454433 344556789999999998876443
No 444
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=36.39 E-value=1.1e+02 Score=19.39 Aligned_cols=43 Identities=16% Similarity=0.169 Sum_probs=22.6
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
++.+.+.+.+...|+.++..-........ .. ++|.||+|+...
T Consensus 14 ~~A~~i~~~~~~~g~~v~~~~~~~~~~~~----l~--~~d~iilgspty 56 (140)
T TIGR01753 14 EMANIIAEGLKEAGAEVDLLEVADADAED----LL--SYDAVLLGCSTW 56 (140)
T ss_pred HHHHHHHHHHHhcCCeEEEEEcccCCHHH----Hh--cCCEEEEEcCCC
Confidence 33444445555566666544322211112 22 589999998754
No 445
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=36.38 E-value=1.6e+02 Score=20.96 Aligned_cols=71 Identities=17% Similarity=0.161 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEecC---hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 85 QAIIDHALKICSEKNVNVKSEVVIGD---AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v~~g~---~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
..+.+.+++.+++.|+.+......++ ....+.+.....++|-||+-..... .. .. -..+...+.||+++-
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~-----~~-~~~~~~~~ipvv~i~ 87 (270)
T cd01545 15 SEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSD-NP-----EL-LDLLDEAGVPYVRIA 87 (270)
T ss_pred HHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCC-cc-----HH-HHHHHhcCCCEEEEe
Confidence 44555555666677777655443332 3455666666778998887533211 11 11 234556778998885
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 88 ~ 88 (270)
T cd01545 88 P 88 (270)
T ss_pred c
Confidence 4
No 446
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=36.35 E-value=1.5e+02 Score=23.12 Aligned_cols=52 Identities=12% Similarity=0.259 Sum_probs=34.4
Q ss_pred HHHHHHHhCCCEEEEeecC-------CCccceecccchhHHHHhcCCCCEEEEcCCCCC
Q 040308 115 VCELVEKLHADLLVMGSHT-------FGPIKRMFLGSVSNYCANHAQCPVVVVKGKGTS 166 (167)
Q Consensus 115 I~~~a~~~~~dliV~g~~~-------~~~~~~~~~gs~~~~i~~~~~~pVliv~~~~~~ 166 (167)
....+.+..+|++|+...- .+..+-.-|-.-++++.+...|.|+.++....+
T Consensus 186 fek~~~Q~rp~~vViDp~v~f~~G~s~s~vqv~~fi~~~rkla~~l~caIiy~hHtsks 244 (402)
T COG3598 186 FEKILEQKRPDFVVIDPFVAFYEGKSISDVQVKEFIKKTRKLARNLECAIIYIHHTSKS 244 (402)
T ss_pred HHHHHHHhCCCeEEEcchhhhcCCccchhHHHHHHHHHHHHHHHhcCCeEEEEeccccc
Confidence 3345667789999997642 111111123456678999999999999876554
No 447
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=36.11 E-value=1.7e+02 Score=21.26 Aligned_cols=59 Identities=8% Similarity=-0.009 Sum_probs=37.7
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHH
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYC 149 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i 149 (167)
.++.+.+++.|...-..+.-+.+.+.+..+.. ..|+|.+=+-.+++-.+.|.....++|
T Consensus 98 ~~~i~~Ik~~G~kaGlalnP~T~~~~l~~~l~--~vD~VLvMsV~PGf~GQ~fi~~~l~KI 156 (229)
T PRK09722 98 FRLIDEIRRAGMKVGLVLNPETPVESIKYYIH--LLDKITVMTVDPGFAGQPFIPEMLDKI 156 (229)
T ss_pred HHHHHHHHHcCCCEEEEeCCCCCHHHHHHHHH--hcCEEEEEEEcCCCcchhccHHHHHHH
Confidence 34445666778777666666788999999999 677665544445555555554444443
No 448
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=36.07 E-value=1.6e+02 Score=22.60 Aligned_cols=69 Identities=14% Similarity=0.220 Sum_probs=36.9
Q ss_pred HHHHHHHHhhhcCCcEEEEEEe-cC--h----HhHHHHHHHHhCC---CEEE-EeecCCCccceecccchhHHHH--hcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVI-GD--A----KEKVCELVEKLHA---DLLV-MGSHTFGPIKRMFLGSVSNYCA--NHA 153 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~-g~--~----~~~I~~~a~~~~~---dliV-~g~~~~~~~~~~~~gs~~~~i~--~~~ 153 (167)
..+.+.+.+++.|+.+...+.. +. + .+.+.+.+++.++ |.|| +|..... .++..+. ..-
T Consensus 35 ~~~~v~~~L~~~g~~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavGGGsv~--------D~aK~iA~~~~~ 106 (344)
T TIGR01357 35 YADKLLEALQALGYNVLKLTVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIALGGGVVG--------DLAGFVAATYMR 106 (344)
T ss_pred HHHHHHHHHHhcCCceeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEcChHHH--------HHHHHHHHHHcc
Confidence 3555666666777776544333 22 2 5556666776665 5555 4432211 1222221 334
Q ss_pred CCCEEEEcCC
Q 040308 154 QCPVVVVKGK 163 (167)
Q Consensus 154 ~~pVliv~~~ 163 (167)
.+|++.||..
T Consensus 107 ~~p~i~VPTT 116 (344)
T TIGR01357 107 GIRFIQVPTT 116 (344)
T ss_pred CCCEEEecCc
Confidence 6899999874
No 449
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=36.02 E-value=1.7e+02 Score=21.18 Aligned_cols=35 Identities=14% Similarity=0.005 Sum_probs=29.0
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEE
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVL 42 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l 42 (167)
.++|.+|.|....-+.|...+..++... +-.+.++
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~---G~~v~vv 188 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKA---GFITKVI 188 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHC---CCeEEEE
Confidence 4789999999999999999999988876 5565554
No 450
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=35.96 E-value=1.1e+02 Score=24.31 Aligned_cols=51 Identities=8% Similarity=0.029 Sum_probs=27.4
Q ss_pred HHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccce
Q 040308 89 DHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKR 139 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 139 (167)
+++..+....++++.......+..+.|..+....++|+|++-+.|++....
T Consensus 251 eQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~~d~ 301 (407)
T PRK12726 251 EQFQGYADKLDVELIVATSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAE 301 (407)
T ss_pred HHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCccCH
Confidence 345555556676654321111222223222222478999999998876544
No 451
>COG1831 Predicted metal-dependent hydrolase (urease superfamily) [General function prediction only]
Probab=35.88 E-value=1.9e+02 Score=21.74 Aligned_cols=90 Identities=12% Similarity=0.190 Sum_probs=57.4
Q ss_pred hHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhh
Q 040308 17 ESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKICS 96 (167)
Q Consensus 17 ~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 96 (167)
........|+++|+.+.. ......+-=+--+.++.+ +...+...+.+..+.+.+.
T Consensus 101 ea~e~m~~~lelA~k~v~-eg~avaiGEvGrPHypVs------------------------~~v~~~~n~vl~~a~elA~ 155 (285)
T COG1831 101 EALEEMRHALELAAKLVE-EGKAVAIGEVGRPHYPVS------------------------EEVWEASNEVLEYAMELAK 155 (285)
T ss_pred HHHHHHHHHHHHHHHHHh-ccceeeeeccCCCCCCCC------------------------HHHHHHHHHHHHHHHHHhh
Confidence 455566777777777632 334554422222222211 3455677888899999998
Q ss_pred hcCCcEEEEEEecC--hHhHHHHHHHHhC--CCEEEEee
Q 040308 97 EKNVNVKSEVVIGD--AKEKVCELVEKLH--ADLLVMGS 131 (167)
Q Consensus 97 ~~~~~~~~~v~~g~--~~~~I~~~a~~~~--~dliV~g~ 131 (167)
+.+..+..+....+ -.+.|.+++++.+ ...+|.-.
T Consensus 156 dvdc~vqLHtes~~~~~~~~i~~~ak~~G~~~~~VVkHh 194 (285)
T COG1831 156 DVDCAVQLHTESLDEETYEEIAEMAKEAGIKPYRVVKHH 194 (285)
T ss_pred cCCCcEEEecCCCChHHHHHHHHHHHHhCCCcceeEeec
Confidence 88877777765554 4889999999876 56666654
No 452
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=35.84 E-value=97 Score=22.34 Aligned_cols=51 Identities=18% Similarity=0.291 Sum_probs=31.4
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCC-CCEEEEcCCCC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQ-CPVVVVKGKGT 165 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~-~pVliv~~~~~ 165 (167)
...+.+.+.+.+.|.|++|....-. .. ...+...+-+... .||++.|....
T Consensus 14 ~~~~~~~~~~~gtdai~vGGS~~v~-~~--~~~~~~~ik~~~~~~Pvilfp~~~~ 65 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVGGSDGVS-ST--LDNVVRLIKRIRRPVPVILFPSNPE 65 (219)
T ss_pred HHHHHHHHHhcCCCEEEECCccchh-hh--HHHHHHHHHHhcCCCCEEEeCCCcc
Confidence 4556677777789999999664221 11 2334343334444 99999987654
No 453
>PRK10474 putative PTS system fructose-like transporter subunit EIIB; Provisional
Probab=35.81 E-value=86 Score=18.84 Aligned_cols=43 Identities=21% Similarity=0.081 Sum_probs=24.9
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHH--HHHHHhCCCEEEEeecCC
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVC--ELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~--~~a~~~~~dliV~g~~~~ 134 (167)
.+++.+.+.|+.+........-.+..+ +... .+|+||+.....
T Consensus 5 aL~~aA~~~G~~i~VEtqg~~g~~~~lt~~~i~--~Ad~VIia~d~~ 49 (88)
T PRK10474 5 ALESAAKAKGWEVKVETQGSIGLENELTAEDVA--SADMVILTKDIG 49 (88)
T ss_pred HHHHHHHHCCCeEEEEecCCcCcCCCCCHHHHH--hCCEEEEEecCC
Confidence 345666677877766644433223333 3344 889999876643
No 454
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=35.79 E-value=2.3e+02 Score=22.80 Aligned_cols=47 Identities=15% Similarity=0.152 Sum_probs=24.3
Q ss_pred HHHHhhhcCCcEEEEEEecChHh---HHHHHHHHhCCCEEEEeecCCCccce
Q 040308 91 ALKICSEKNVNVKSEVVIGDAKE---KVCELVEKLHADLLVMGSHTFGPIKR 139 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~ 139 (167)
+..++...++++.......++.+ ..++.+. ..|+||+-+.++.....
T Consensus 142 L~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~--~~DvVIIDTAGr~~~d~ 191 (437)
T PRK00771 142 LKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFK--KADVIIVDTAGRHALEE 191 (437)
T ss_pred HHHHHHHcCCcEEecCCccCHHHHHHHHHHHhh--cCCEEEEECCCcccchH
Confidence 33444455665432211234433 3333344 56999998888766543
No 455
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=35.78 E-value=34 Score=28.19 Aligned_cols=23 Identities=17% Similarity=0.436 Sum_probs=20.5
Q ss_pred ChHhHHHHHHHHhCCCEEEEeec
Q 040308 110 DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
...++|+..|++.+.|||++|..
T Consensus 39 ~tFeEIl~iA~e~~VDmiLlGGD 61 (646)
T KOG2310|consen 39 VTFEEILEIAQENDVDMILLGGD 61 (646)
T ss_pred HHHHHHHHHHHhcCCcEEEecCc
Confidence 35899999999999999999964
No 456
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=35.64 E-value=63 Score=25.54 Aligned_cols=49 Identities=16% Similarity=0.122 Sum_probs=24.9
Q ss_pred HHHHHHHHHhhhcCCcEEEEE------EecChHhHHHHHHH-HhCCCEEEEeecCC
Q 040308 86 AIIDHALKICSEKNVNVKSEV------VIGDAKEKVCELVE-KLHADLLVMGSHTF 134 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v------~~g~~~~~I~~~a~-~~~~dliV~g~~~~ 134 (167)
++.+.+.+..+.++.++-.++ ..|+-.+.+++.++ +.+..+|.+.+.+.
T Consensus 71 ~L~~aI~~i~~~~~P~~I~V~tTC~se~IGDDi~~v~~~~~~~~~~pVi~v~tpgf 126 (407)
T TIGR01279 71 ELDRVVEQIKRDRNPSVIFLLSSCTPEVIKMDLEGLAERLSTNFGVPVLFAPASGL 126 (407)
T ss_pred HHHHHHHHHHhhcCCCEEEEECCchHHHHHhhHHHHHHHHHHhhCCCEEEeeCCCc
Confidence 444444455555543332222 22655666665554 34666666666554
No 457
>TIGR01819 F420_cofD LPPG:FO 2-phospho-L-lactate transferase. This model represents LPPG:Fo 2-phospho-L-lactate transferase, which catalyses the fourth step in the biosynthesis of coenzyme F420, a flavin derivative found in methanogens, the Mycobacteria, and several other lineages. This enzyme is characterized so far in Methanococcus jannaschii but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. The clade represented by this model is one of two major divisions of proteins in pfam model pfam01933.
Probab=35.64 E-value=69 Score=24.29 Aligned_cols=47 Identities=19% Similarity=0.169 Sum_probs=30.2
Q ss_pred ChHhHHHHHHHHhCCCEEEEeecCC--CccceecccchhHHHHhcCCCCEEEEc
Q 040308 110 DAKEKVCELVEKLHADLLVMGSHTF--GPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+..+.++..+ ++|+||+|.... |-...++...+.+.+ ++ .||+.|-
T Consensus 171 ~a~peal~AI~--~AD~IIlGPgsp~TSI~P~LlVpgIreAL-~~--a~vV~Vs 219 (297)
T TIGR01819 171 SIAPKVLEAIR--KEDNILIGPSNPITSIGPILSLPGIREAL-RD--KKVVAVS 219 (297)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHHHH-Hc--CCEEEEc
Confidence 46778888888 899999996642 323334445555555 44 7777543
No 458
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=35.62 E-value=87 Score=23.08 Aligned_cols=44 Identities=11% Similarity=0.199 Sum_probs=28.0
Q ss_pred HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 115 VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 115 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
..+..++.++|++|+-+....... ..-++.++....+|++|+..
T Consensus 51 ~~~~~~~~~pdf~I~isPN~~~PG----P~~ARE~l~~~~iP~IvI~D 94 (276)
T PF01993_consen 51 VTKMLKEWDPDFVIVISPNAAAPG----PTKAREMLSAKGIPCIVISD 94 (276)
T ss_dssp HHHHHHHH--SEEEEE-S-TTSHH----HHHHHHHHHHSSS-EEEEEE
T ss_pred HHHHHHhhCCCEEEEECCCCCCCC----cHHHHHHHHhCCCCEEEEcC
Confidence 335557889999999887544222 23578899999999999864
No 459
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=35.52 E-value=83 Score=23.07 Aligned_cols=14 Identities=29% Similarity=0.328 Sum_probs=6.2
Q ss_pred HHhcCCCCEEEEcC
Q 040308 149 CANHAQCPVVVVKG 162 (167)
Q Consensus 149 i~~~~~~pVliv~~ 162 (167)
.+...++|+++++.
T Consensus 68 ~l~~l~~p~~~v~G 81 (267)
T cd07396 68 ILDRLKGPVHHVLG 81 (267)
T ss_pred HHHhcCCCEEEecC
Confidence 33334444444444
No 460
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=35.21 E-value=2.1e+02 Score=22.07 Aligned_cols=66 Identities=20% Similarity=0.302 Sum_probs=36.7
Q ss_pred HHHHHHhhhcCCcEEEEEEecC----hHhHHHHHHHHhCCCEEE-EeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 89 DHALKICSEKNVNVKSEVVIGD----AKEKVCELVEKLHADLLV-MGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 89 ~~~~~~~~~~~~~~~~~v~~g~----~~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+.+.+...+ .+...+ .++ ..+.+.+.+++.++|.|| +|... .+.++..+...-.+|++.||..
T Consensus 51 ~~l~~~l~~~~-~~~~~~-~~~~t~~~v~~~~~~~~~~~~d~IIaiGGGs--------v~D~ak~vA~~rgip~I~IPTT 120 (350)
T PRK00843 51 DRVEENLEDAG-DVEVVI-VDEATMEEVEKVEEKAKDVNAGFLIGVGGGK--------VIDVAKLAAYRLGIPFISVPTA 120 (350)
T ss_pred HHHHHHHHhcC-CeeEEe-CCCCCHHHHHHHHHHhhccCCCEEEEeCCch--------HHHHHHHHHHhcCCCEEEeCCC
Confidence 34444444455 443332 333 255666777777889877 45322 1234444444557899999975
Q ss_pred C
Q 040308 164 G 164 (167)
Q Consensus 164 ~ 164 (167)
.
T Consensus 121 ~ 121 (350)
T PRK00843 121 A 121 (350)
T ss_pred c
Confidence 4
No 461
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=35.18 E-value=93 Score=20.96 Aligned_cols=23 Identities=13% Similarity=0.280 Sum_probs=18.0
Q ss_pred ChHhHHHHHHHHhCCCEEEEeec
Q 040308 110 DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 110 ~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
-..+.+.++.++.++|+||-...
T Consensus 76 ~~~~~l~~~l~~~~PD~IIsThp 98 (169)
T PF06925_consen 76 LFARRLIRLLREFQPDLIISTHP 98 (169)
T ss_pred HHHHHHHHHHhhcCCCEEEECCc
Confidence 34667888999999998887654
No 462
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=35.13 E-value=71 Score=22.62 Aligned_cols=57 Identities=11% Similarity=0.029 Sum_probs=28.5
Q ss_pred HHHHhhhc-CCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHh
Q 040308 91 ALKICSEK-NVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCAN 151 (167)
Q Consensus 91 ~~~~~~~~-~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~ 151 (167)
+.+.+.+. |.++....... .+.+.+... ++|.|+++-......-+.+.++-...+++
T Consensus 51 ~~~a~~~l~G~~~~~~~~~~--~~~~~~~l~--~ad~I~l~GG~~~~~~~~l~~~~l~~~l~ 108 (212)
T cd03146 51 FYAAFESLRGVEVSHLHLFD--TEDPLDALL--EADVIYVGGGNTFNLLAQWREHGLDAILK 108 (212)
T ss_pred HHHHHhhccCcEEEEEeccC--cccHHHHHh--cCCEEEECCchHHHHHHHHHHcCHHHHHH
Confidence 34444555 66554332222 344455555 89999998643333333344444444444
No 463
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=35.09 E-value=1.9e+02 Score=21.51 Aligned_cols=105 Identities=16% Similarity=0.184 Sum_probs=60.9
Q ss_pred hhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHh
Q 040308 16 EESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKIC 95 (167)
Q Consensus 16 ~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (167)
+....++++|..+.+ . +.++...+.+.+......+.. ..++-++.+.+.+
T Consensus 38 e~~~~~~~~A~~lk~-~---g~~~~r~~~~kpRTs~~s~~G--------------------------~g~~gl~~l~~~~ 87 (266)
T PRK13398 38 ESEEQMVKVAEKLKE-L---GVHMLRGGAFKPRTSPYSFQG--------------------------LGEEGLKILKEVG 87 (266)
T ss_pred CCHHHHHHHHHHHHH-c---CCCEEEEeeecCCCCCCccCC--------------------------cHHHHHHHHHHHH
Confidence 345667888888777 4 577888888775443222111 0133455566667
Q ss_pred hhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 96 SEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 96 ~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
++.|+.+-+.+.+-.-.+.+. +. +|++-+|++.-.... ..+.+ -.++.||++=++
T Consensus 88 ~~~Gl~~~te~~d~~~~~~l~----~~-vd~~kIga~~~~n~~------LL~~~-a~~gkPV~lk~G 142 (266)
T PRK13398 88 DKYNLPVVTEVMDTRDVEEVA----DY-ADMLQIGSRNMQNFE------LLKEV-GKTKKPILLKRG 142 (266)
T ss_pred HHcCCCEEEeeCChhhHHHHH----Hh-CCEEEECcccccCHH------HHHHH-hcCCCcEEEeCC
Confidence 888999887766654444443 33 688989887533221 12223 345666665443
No 464
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=35.08 E-value=2e+02 Score=21.71 Aligned_cols=75 Identities=13% Similarity=0.127 Sum_probs=42.2
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecChHhH--HHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDAKEK--VCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~~~~--I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
++++.+.+.+. ..+++-..+- ++..+. ..+.+++.++|-+++-.........--+-..-..|...++.||++...
T Consensus 64 ~~~~~~~~~~~-~~~pvi~gv~-~~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~~lpi~lYn~ 140 (303)
T PRK03620 64 QVVRAAVETTA-GRVPVIAGAG-GGTAQAIEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKSTDLGVIVYNR 140 (303)
T ss_pred HHHHHHHHHhC-CCCcEEEecC-CCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhCCCCEEEEcC
Confidence 34444444432 2344433332 244333 346788889999999766433222211223445678888999999864
No 465
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=35.02 E-value=2.1e+02 Score=22.05 Aligned_cols=23 Identities=17% Similarity=0.304 Sum_probs=18.3
Q ss_pred hHhHHHHHHHHhCCCEEEEeecC
Q 040308 111 AKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 111 ~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
....+.+.|.+.++.+|+-|...
T Consensus 148 ~~~~l~~~A~~~gi~~Il~G~~~ 170 (343)
T TIGR03573 148 IFASVYQVALKFNIPLIIWGENI 170 (343)
T ss_pred HHHHHHHHHHHhCCCEEEeCCCH
Confidence 35566788999999999999764
No 466
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=35.02 E-value=74 Score=18.87 Aligned_cols=44 Identities=14% Similarity=0.139 Sum_probs=22.6
Q ss_pred hHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 113 EKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 113 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
+++++..++..+-|||+...-..... .....+....++|+..++
T Consensus 17 ~~v~kai~~gkaklViiA~D~~~~~~-----~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 17 KQTVKALKRGSVKEVVVAEDADPRLT-----EKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHHcCCeeEEEEECCCCHHHH-----HHHHHHHHHcCCCEEEEC
Confidence 44555555566666666655332221 122344555566666655
No 467
>cd07392 MPP_PAE1087 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain. PAE1087 is an uncharacterized Pyrobaculum aerophilum protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordina
Probab=34.94 E-value=71 Score=21.47 Aligned_cols=17 Identities=24% Similarity=0.225 Sum_probs=10.0
Q ss_pred HHHhcCCCCEEEEcCCC
Q 040308 148 YCANHAQCPVVVVKGKG 164 (167)
Q Consensus 148 ~i~~~~~~pVliv~~~~ 164 (167)
..+...++|+++|+...
T Consensus 46 ~~l~~~~~p~~~v~GNH 62 (188)
T cd07392 46 NLLLAIGVPVLAVPGNC 62 (188)
T ss_pred HHHHhcCCCEEEEcCCC
Confidence 34455567777776543
No 468
>cd02696 MurNAc-LAA N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs
Probab=34.76 E-value=1.4e+02 Score=19.99 Aligned_cols=50 Identities=16% Similarity=0.055 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEEec--ChHhHHHHHHHHhCCCEEEEeec
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVVIG--DAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
...++...+.+.++..|+++...-..+ ...++-...+...++|++|==+.
T Consensus 26 ~~~~ia~~l~~~L~~~G~~v~~~r~~~~~~~l~~r~~~an~~~~d~~islH~ 77 (172)
T cd02696 26 INLAIALKLAKLLEAAGAKVVLTRDDDTFVSLSERVAIANRAGADLFISIHA 77 (172)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEecCCCCCCHHHHHHHHHhcCCCEEEEEee
Confidence 344555666677777787765443322 36888888999889999987544
No 469
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=34.69 E-value=1.7e+02 Score=20.88 Aligned_cols=70 Identities=9% Similarity=-0.035 Sum_probs=39.6
Q ss_pred HHHHHHHHHhhhcC-CcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 86 AIIDHALKICSEKN-VNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 86 ~~~~~~~~~~~~~~-~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
++...+.+.+.+.| ..+-......+..+.+... ...++|-+|+-+..... ......+.+.++||+++...
T Consensus 15 ~~~~~i~~~l~~~g~~~l~~~~~~~~~~~~~~~~-~~~~vdGvIi~~~~~~~-------~~~~~~~~~~~~PvV~i~~~ 85 (247)
T cd06276 15 IIYNSFVNTLGKNAQVDLYFHHYNEDLFKNIISN-TKGKYSGYVVMPHFKNE-------IQYFLLKKIPKEKLLILDHS 85 (247)
T ss_pred HHHHHHHHHHHhcCcEEEEEEcCchHHHHHHHHH-HhcCCCEEEEecCCCCc-------HHHHHHhccCCCCEEEEcCc
Confidence 46677777888888 5443321222334445555 35789988885432111 11234445567999999753
No 470
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=34.57 E-value=2.3e+02 Score=22.40 Aligned_cols=69 Identities=14% Similarity=0.032 Sum_probs=35.6
Q ss_pred HHHHHhhhcCCcEEEEEEecChHhHHHHH-HHHhCCCEEEEeecCCCccceecccchhHHHHhcCCC---CEEEEcCC
Q 040308 90 HALKICSEKNVNVKSEVVIGDAKEKVCEL-VEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQC---PVVVVKGK 163 (167)
Q Consensus 90 ~~~~~~~~~~~~~~~~v~~g~~~~~I~~~-a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~---pVliv~~~ 163 (167)
++..+++..|+++...- ..+.+... .+..++|+|++-+.|++......+ .-...++..... .+||+...
T Consensus 224 QL~~~a~~lgvpv~~~~----~~~~l~~~L~~~~~~DlVLIDTaGr~~~~~~~l-~el~~~l~~~~~~~e~~LVlsat 296 (388)
T PRK12723 224 QIQTYGDIMGIPVKAIE----SFKDLKEEITQSKDFDLVLVDTIGKSPKDFMKL-AEMKELLNACGRDAEFHLAVSST 296 (388)
T ss_pred HHHHHhhcCCcceEeeC----cHHHHHHHHHHhCCCCEEEEcCCCCCccCHHHH-HHHHHHHHhcCCCCeEEEEEcCC
Confidence 34455565677664322 12233322 223589999999988876432212 222345554432 45666543
No 471
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=34.21 E-value=1.2e+02 Score=19.00 Aligned_cols=35 Identities=17% Similarity=0.272 Sum_probs=20.0
Q ss_pred CCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 123 HADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 123 ~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
++|+||+|+... ..++.....+-+++..+.|-+++
T Consensus 53 ~pe~liiGtG~~----~~~~~~~~~~~l~~~GI~ve~m~ 87 (110)
T PF04430_consen 53 KPEVLIIGTGKR----QLFLPPELREYLRKKGIGVEVMD 87 (110)
T ss_dssp S-SEEEEEETTS-----SECTHHHHHHHHTTT-EEEEE-
T ss_pred CCcEEEEccCCc----cccCCHHHHHHHHHcCCeEEEEC
Confidence 889999997643 12334455556666677776654
No 472
>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=34.16 E-value=2.3e+02 Score=22.19 Aligned_cols=54 Identities=15% Similarity=0.091 Sum_probs=37.0
Q ss_pred hhhcCCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEE
Q 040308 95 CSEKNVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 95 ~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..+.|+++-+++.+-...+.+.++ +|.+-+|++.... .....++....+||.+=
T Consensus 134 ~~e~Glp~atE~ld~~~~~y~~Dl-----vs~~aIGARt~es-------q~hre~aSgl~~PVgfK 187 (353)
T PRK12755 134 LVELGLPLATEALDPISPQYLGDL-----ISWGAIGARTTES-------QTHREMASGLSMPVGFK 187 (353)
T ss_pred HHHhCCCEEEEecCcccHHHHHhh-----hhheeeccchhcC-------HHHHHHhcCCCCeeEec
Confidence 567799988888876655555444 5588888875322 23456777888999873
No 473
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=34.06 E-value=1.7e+02 Score=22.61 Aligned_cols=69 Identities=16% Similarity=0.235 Sum_probs=36.8
Q ss_pred HHHHHHHHhhhcCCcEEEEEEe-c--C----hHhHHHHHHHHhCC---CEEE-EeecCCCccceecccchhHHHH--hcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVI-G--D----AKEKVCELVEKLHA---DLLV-MGSHTFGPIKRMFLGSVSNYCA--NHA 153 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~-g--~----~~~~I~~~a~~~~~---dliV-~g~~~~~~~~~~~~gs~~~~i~--~~~ 153 (167)
..+.+.+.+...++.+...+.. + + ..+.+.+.+++.++ |.|| +|...-. .++..+. ...
T Consensus 46 ~~~~v~~~L~~~gi~~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavGGGsv~--------D~aK~iA~~~~~ 117 (358)
T PRK00002 46 YLEKLRASLEAAGFEVDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIALGGGVIG--------DLAGFAAATYMR 117 (358)
T ss_pred HHHHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEcCcHHH--------HHHHHHHHHhcC
Confidence 4555566666677777654333 2 1 24555566666555 7665 4422211 2222222 344
Q ss_pred CCCEEEEcCC
Q 040308 154 QCPVVVVKGK 163 (167)
Q Consensus 154 ~~pVliv~~~ 163 (167)
.+|++.||..
T Consensus 118 gip~i~IPTT 127 (358)
T PRK00002 118 GIRFIQVPTT 127 (358)
T ss_pred CCCEEEcCch
Confidence 6899999875
No 474
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=33.71 E-value=2e+02 Score=21.36 Aligned_cols=69 Identities=7% Similarity=0.082 Sum_probs=37.6
Q ss_pred HHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcC
Q 040308 87 IIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKG 162 (167)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~ 162 (167)
+++.+.+.+.+.|..+.......++ ...+++.....++|-||+...... .. .... .+...++||+++-.
T Consensus 79 l~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~~-~~-----~~~~-~l~~~~iPvV~v~~ 149 (328)
T PRK11303 79 IAKYLERQARQRGYQLLIACSDDQPDNEMRCAEHLLQRQVDALIVSTSLPP-EH-----PFYQ-RLQNDGLPIIALDR 149 (328)
T ss_pred HHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCC-Ch-----HHHH-HHHhcCCCEEEECC
Confidence 4555666666777776554333333 334556566678998888532111 01 1112 33456788888754
No 475
>cd07391 MPP_PF1019 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to PF1019, an uncharacterized Pyrococcus furiosus protein. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for pro
Probab=33.59 E-value=1.4e+02 Score=20.22 Aligned_cols=6 Identities=33% Similarity=0.971 Sum_probs=2.4
Q ss_pred EEEecC
Q 040308 105 EVVIGD 110 (167)
Q Consensus 105 ~v~~g~ 110 (167)
.+..||
T Consensus 45 lii~GD 50 (172)
T cd07391 45 LIILGD 50 (172)
T ss_pred EEEeCc
Confidence 334443
No 476
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=33.58 E-value=2.2e+02 Score=21.74 Aligned_cols=71 Identities=15% Similarity=0.064 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecC--hHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGD--AKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~--~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.-++++.+.+.+.+.|..+-......+ ..+.+++...+..+|-||+-..... ......+....+|++++-
T Consensus 73 ~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~~~~--------~~~~~~l~~~~~P~V~i~ 144 (333)
T COG1609 73 FAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLGERPN--------DSLLELLAAAGIPVVVID 144 (333)
T ss_pred HHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC--------HHHHHHHHhcCCCEEEEe
Confidence 445667777778888877655444433 3456667777888888888762111 122345666689988886
Q ss_pred C
Q 040308 162 G 162 (167)
Q Consensus 162 ~ 162 (167)
.
T Consensus 145 ~ 145 (333)
T COG1609 145 R 145 (333)
T ss_pred C
Confidence 5
No 477
>PRK03708 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=33.52 E-value=1.1e+02 Score=22.93 Aligned_cols=74 Identities=5% Similarity=-0.000 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHhhhcCCcEEEEEEec---ChHhHHH-HHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEE
Q 040308 83 ITQAIIDHALKICSEKNVNVKSEVVIG---DAKEKVC-ELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~v~~g---~~~~~I~-~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
...+..+++.+++++.++.+....... ....... ....+.++|++|.-....+.+ ..++ +....+|++
T Consensus 13 ~~~~~~~~I~~~L~~~g~~v~v~~~~~~~~~~~~~~~~~~~~~~~~d~vi~iGGDGTlL------~a~~--~~~~~~pi~ 84 (277)
T PRK03708 13 EALKLAYRVYDFLKVSGYEVVVDSETYEHLPEFSEEDVLPLEEMDVDFIIAIGGDGTIL------RIEH--KTKKDIPIL 84 (277)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEecchhhhcCcccccccccccccCCCEEEEEeCcHHHH------HHHH--hcCCCCeEE
Confidence 345566777777778887765532111 1011111 122223677766643332222 1233 334579999
Q ss_pred EEcCCC
Q 040308 159 VVKGKG 164 (167)
Q Consensus 159 iv~~~~ 164 (167)
.|+...
T Consensus 85 gIn~G~ 90 (277)
T PRK03708 85 GINMGT 90 (277)
T ss_pred EEeCCC
Confidence 998643
No 478
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=33.43 E-value=98 Score=24.60 Aligned_cols=28 Identities=21% Similarity=0.277 Sum_probs=16.2
Q ss_pred cChHhHHHHHHH-HhCCCEEEEeecCCCc
Q 040308 109 GDAKEKVCELVE-KLHADLLVMGSHTFGP 136 (167)
Q Consensus 109 g~~~~~I~~~a~-~~~~dliV~g~~~~~~ 136 (167)
|+=.+.+++.++ +.+..+|.+.+.+...
T Consensus 115 GdDi~~v~~~~~~~~~~pvi~v~t~gf~g 143 (421)
T cd01976 115 GDDIEAVARKASKELGIPVVPVRCEGFRG 143 (421)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCccC
Confidence 544555554443 4577777777666543
No 479
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=33.17 E-value=2.2e+02 Score=21.64 Aligned_cols=43 Identities=16% Similarity=0.166 Sum_probs=28.9
Q ss_pred EecChHhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 107 VIGDAKEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 107 ~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
..|...+...+..... +|+||+-....+ ..+.+..++++||+=
T Consensus 78 ~kgEsl~Dt~~vls~y-~D~iviR~~~~~---------~~~~~a~~~~vPVIN 120 (302)
T PRK14805 78 GKRESVADFAANLSCW-ADAIVARVFSHS---------TIEQLAEHGSVPVIN 120 (302)
T ss_pred CCCcCHHHHHHHHHHh-CCEEEEeCCChh---------HHHHHHHhCCCCEEE
Confidence 3455555666666666 999999875433 445677788899763
No 480
>PLN02329 3-isopropylmalate dehydrogenase
Probab=33.14 E-value=54 Score=26.06 Aligned_cols=26 Identities=19% Similarity=0.206 Sum_probs=21.8
Q ss_pred hhHHHHHHHHHHhccccCCCCCeEEEEEE
Q 040308 16 EESMDALRWAIDNLKLRSPAPGSFIVLHV 44 (167)
Q Consensus 16 ~~s~~al~~a~~la~~~~~~~~~l~~l~v 44 (167)
..+++.+++|+++|++. +.+|+++|=
T Consensus 211 ~~~eRI~r~AFe~A~~r---~~kVT~v~K 236 (409)
T PLN02329 211 HEIDRIARVAFETARKR---RGKLCSVDK 236 (409)
T ss_pred HHHHHHHHHHHHHHHHc---CCeEEEEEC
Confidence 56899999999999988 667777764
No 481
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=33.12 E-value=2.5e+02 Score=22.28 Aligned_cols=37 Identities=30% Similarity=0.337 Sum_probs=25.3
Q ss_pred cEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCC
Q 040308 6 GCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPT 49 (167)
Q Consensus 6 ~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~ 49 (167)
.+.|+-+.+.=+|.- |.+++-+. |.+++.+|...++.
T Consensus 176 Gk~l~LlSGGIDSPV----A~~l~mkR---G~~v~~v~f~~~p~ 212 (383)
T COG0301 176 GKVLLLLSGGIDSPV----AAWLMMKR---GVEVIPVHFGNPPY 212 (383)
T ss_pred CcEEEEEeCCCChHH----HHHHHHhc---CCEEEEEEEcCCCC
Confidence 456666666655553 44666667 89999999977543
No 482
>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA [], Ycf3 [, ], and Ycf4 (IPR003359 from INTERPRO) []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions.
Probab=33.02 E-value=83 Score=23.28 Aligned_cols=46 Identities=20% Similarity=0.221 Sum_probs=28.0
Q ss_pred hHhHHH-HHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEE
Q 040308 111 AKEKVC-ELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVV 159 (167)
Q Consensus 111 ~~~~I~-~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVli 159 (167)
+.++.. ..++...+|-||+.....+.-... +....+-..++.||++
T Consensus 159 ~~~~~~~~a~~~~~aDaviVtG~~TG~~~~~---~~l~~vr~~~~~PVlv 205 (254)
T PF03437_consen 159 DLEEAAKDAVERGGADAVIVTGKATGEPPDP---EKLKRVREAVPVPVLV 205 (254)
T ss_pred CHHHHHHHHHHhcCCCEEEECCcccCCCCCH---HHHHHHHhcCCCCEEE
Confidence 344444 444778999999986654433221 2345566667788886
No 483
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=32.92 E-value=2.2e+02 Score=21.54 Aligned_cols=58 Identities=9% Similarity=-0.014 Sum_probs=41.7
Q ss_pred EEecChHhHHHHHHHHhCCCEEEEeecCCCcc-c-eecccchhHHHHhcCC--CCEEEEcCC
Q 040308 106 VVIGDAKEKVCELVEKLHADLLVMGSHTFGPI-K-RMFLGSVSNYCANHAQ--CPVVVVKGK 163 (167)
Q Consensus 106 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~i~~~~~--~pVliv~~~ 163 (167)
+..-....++++.|++.+..+|+.-+.+.-.. . -..+......+..+++ +||.+-=..
T Consensus 25 ~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~vPV~lHLDH 86 (286)
T PRK08610 25 LNNLEFTQAILEASQEENAPVILGVSEGAARYMSGFYTVVKMVEGLMHDLNITIPVAIHLDH 86 (286)
T ss_pred ECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCCEEEECCC
Confidence 34457899999999999999999887764333 2 1235667777887877 788775443
No 484
>cd05844 GT1_like_7 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center
Probab=32.88 E-value=2.1e+02 Score=21.41 Aligned_cols=68 Identities=15% Similarity=0.120 Sum_probs=34.2
Q ss_pred HHHHhhhcCCcEEEEEEec-ChHhHHHHHHHHhCCCEEEEeecCCCcc-ceecccchhHHHHhcCCCCEEEEcCC
Q 040308 91 ALKICSEKNVNVKSEVVIG-DAKEKVCELVEKLHADLLVMGSHTFGPI-KRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 91 ~~~~~~~~~~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
+.+...+.++.-... ..| -+.+++..+.. .+|++|+.+...... ..-+-....+.+ .+.|||+.-+..
T Consensus 234 ~~~~~~~~~~~~~v~-~~g~~~~~~l~~~~~--~ad~~v~ps~~~~~~~~E~~~~~~~EA~--a~G~PvI~s~~~ 303 (367)
T cd05844 234 LEALARALGLGGRVT-FLGAQPHAEVRELMR--RARIFLQPSVTAPSGDAEGLPVVLLEAQ--ASGVPVVATRHG 303 (367)
T ss_pred HHHHHHHcCCCCeEE-ECCCCCHHHHHHHHH--hCCEEEECcccCCCCCccCCchHHHHHH--HcCCCEEEeCCC
Confidence 344444444432222 334 34566777777 788887765421111 111223344554 467899876543
No 485
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=32.87 E-value=2.1e+02 Score=21.36 Aligned_cols=88 Identities=22% Similarity=0.205 Sum_probs=52.4
Q ss_pred CcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHH
Q 040308 5 LGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRIT 84 (167)
Q Consensus 5 ~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (167)
..+++|+..+.-+|.-.+..|..-+ |..+..+.+..+....
T Consensus 17 ~~kv~vAfSGGvDSslLa~la~~~l------G~~v~AvTv~sP~~p~--------------------------------- 57 (269)
T COG1606 17 KKKVVVAFSGGVDSSLLAKLAKEAL------GDNVVAVTVDSPYIPR--------------------------------- 57 (269)
T ss_pred cCeEEEEecCCccHHHHHHHHHHHh------ccceEEEEEecCCCCh---------------------------------
Confidence 4589999999888875555554432 4567777776633211
Q ss_pred HHHHHHHHHHhhhcCCcEEEEE------------------EecChHhHHHHHHHHhCCCEEEEeec
Q 040308 85 QAIIDHALKICSEKNVNVKSEV------------------VIGDAKEKVCELVEKLHADLLVMGSH 132 (167)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~~v------------------~~g~~~~~I~~~a~~~~~dliV~g~~ 132 (167)
+.++.+...+.+.|++-+..- -.....+.|.+.+.+.++|.|+=|+.
T Consensus 58 -~e~e~A~~~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 58 -REIEEAKNIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred -hhhhHHHHHHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 112222333334444332221 11234678889999999999999975
No 486
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=32.86 E-value=1.8e+02 Score=20.55 Aligned_cols=61 Identities=13% Similarity=0.092 Sum_probs=33.4
Q ss_pred CcEEEEEEecC----hHhHHHHHHHHhCCCEEEEeecCCCc-cc-eecccchhHHHHhcCCCCEEEEc
Q 040308 100 VNVKSEVVIGD----AKEKVCELVEKLHADLLVMGSHTFGP-IK-RMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 100 ~~~~~~v~~g~----~~~~I~~~a~~~~~dliV~g~~~~~~-~~-~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
+.+...+..|. ....+++...+.++|.|.+..+.... .. ...+ .....+.+..++||+..-
T Consensus 124 ~~v~vk~r~~~~~~~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~-~~~~~i~~~~~ipvi~~G 190 (231)
T cd02801 124 IPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGPADW-DYIAEIKEAVSIPVIANG 190 (231)
T ss_pred CCEEEEEeeccCCchHHHHHHHHHHHhCCCEEEECCCCHHHcCCCCCCH-HHHHHHHhCCCCeEEEeC
Confidence 44444444432 34556666777789999886543211 11 1111 233456666779988754
No 487
>PF13362 Toprim_3: Toprim domain
Probab=32.82 E-value=1.1e+02 Score=18.26 Aligned_cols=38 Identities=18% Similarity=0.122 Sum_probs=26.9
Q ss_pred CCcEEEEeecCChh--HHHHHHHHHHhccccCCCCCeEEEEEE
Q 040308 4 NLGCVIVAVDGGEE--SMDALRWAIDNLKLRSPAPGSFIVLHV 44 (167)
Q Consensus 4 ~~~~ILv~id~s~~--s~~al~~a~~la~~~~~~~~~l~~l~v 44 (167)
..++|+|+.|.... ...++..+...+... +..+.++..
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~---g~~~~~~~p 79 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAA---GIAVSIVEP 79 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhC---CCeEEEECC
Confidence 56899999998877 777777776666666 555555533
No 488
>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=32.71 E-value=1.8e+02 Score=20.69 Aligned_cols=71 Identities=11% Similarity=0.110 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEe-cC------hHhHH---HHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVI-GD------AKEKV---CELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHA 153 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~-g~------~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~ 153 (167)
..+...++.+.+.++++.+-..... |. ..+.| .+.+.+.++|.|-....+ .+ ...+++.+.+
T Consensus 107 ~~~~i~~v~~~~~~~g~~~iie~~~~g~~~~~~~~~~~i~~~~~~a~~~GaD~Ik~~~~~--~~------~~~~~i~~~~ 178 (235)
T cd00958 107 MLEELARVAAEAHKYGLPLIAWMYPRGPAVKNEKDPDLIAYAARIGAELGADIVKTKYTG--DA------ESFKEVVEGC 178 (235)
T ss_pred HHHHHHHHHHHHHHcCCCEEEEEeccCCcccCccCHHHHHHHHHHHHHHCCCEEEecCCC--CH------HHHHHHHhcC
Confidence 3445566666667778664332211 10 01232 334777899988885321 11 3457788889
Q ss_pred CCCEEEEcC
Q 040308 154 QCPVVVVKG 162 (167)
Q Consensus 154 ~~pVliv~~ 162 (167)
++||++.-.
T Consensus 179 ~~pvv~~GG 187 (235)
T cd00958 179 PVPVVIAGG 187 (235)
T ss_pred CCCEEEeCC
Confidence 999877643
No 489
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=32.70 E-value=2e+02 Score=23.37 Aligned_cols=49 Identities=24% Similarity=0.197 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhhhc--CCcEEEEEEecChHhHHHHHHHHhCCCEEEEeecCC
Q 040308 84 TQAIIDHALKICSEK--NVNVKSEVVIGDAKEKVCELVEKLHADLLVMGSHTF 134 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~--~~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 134 (167)
.+++.+.+.+-+.+. |+.++..-........|+..+. ++|.|++|+...
T Consensus 265 Te~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~--~ad~vilGspT~ 315 (479)
T PRK05452 265 TRMMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVF--RSKGVLVGSSTM 315 (479)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHh--hCCEEEEECCcc
Confidence 556666666666655 4554443333334555555554 789999998764
No 490
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=32.63 E-value=2e+02 Score=20.97 Aligned_cols=80 Identities=9% Similarity=0.051 Sum_probs=48.7
Q ss_pred HHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 040308 18 SMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKICSE 97 (167)
Q Consensus 18 s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (167)
+...++.++++|+.. +++..+++...... ... .....+...+.++.+.+.+.+
T Consensus 88 ~~~~~~~~i~~a~~l---Ga~~i~~~~~~~~~-------------------~~~-----~~~~~~~~~~~l~~l~~~a~~ 140 (275)
T PRK09856 88 SLDMIKLAMDMAKEM---NAGYTLISAAHAGY-------------------LTP-----PNVIWGRLAENLSELCEYAEN 140 (275)
T ss_pred HHHHHHHHHHHHHHh---CCCEEEEcCCCCCC-------------------CCC-----HHHHHHHHHHHHHHHHHHHHH
Confidence 345677888999999 88887775432110 000 122233455677888888888
Q ss_pred cCCcEEEEEEe------cChHhHHHHHHHHhCC
Q 040308 98 KNVNVKSEVVI------GDAKEKVCELVEKLHA 124 (167)
Q Consensus 98 ~~~~~~~~v~~------g~~~~~I~~~a~~~~~ 124 (167)
+|+.+-.+... .+..+++.+++++.+.
T Consensus 141 ~gv~l~iE~~~~~~~~~~~t~~~~~~l~~~~~~ 173 (275)
T PRK09856 141 IGMDLILEPLTPYESNVVCNANDVLHALALVPS 173 (275)
T ss_pred cCCEEEEecCCCCcccccCCHHHHHHHHHHcCC
Confidence 99877655321 1236777777776553
No 491
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=32.60 E-value=2.4e+02 Score=22.06 Aligned_cols=112 Identities=15% Similarity=0.093 Sum_probs=57.7
Q ss_pred CCCcEEEEeecCChhHHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHH
Q 040308 3 GNLGCVIVAVDGGEESMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGR 82 (167)
Q Consensus 3 ~~~~~ILv~id~s~~s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (167)
++..+|+|+..+--+|.- ++.+.+.. +-+|+.+|...-..... .. .-.++.....++-...
T Consensus 1 ~~~~kV~v~mSGGVDSSV----aA~lLk~Q---GyeViGl~m~~~~~~~~----------~~--C~s~~d~~da~~va~~ 61 (356)
T COG0482 1 MKKKKVLVGMSGGVDSSV----AAYLLKEQ---GYEVIGLFMKNWDEDGG----------GG--CCSEEDLRDAERVADQ 61 (356)
T ss_pred CCCcEEEEEccCCHHHHH----HHHHHHHc---CCeEEEEEEEeeccCCC----------Cc--CCchhHHHHHHHHHHH
Confidence 345799999998866652 34566666 78999998765432000 00 0011222222211111
Q ss_pred ---------HHHHHHHHHHHH-hhh--cCCcEEEEEEec--ChHhHHHHHHHHhCCCEEEEeecC
Q 040308 83 ---------ITQAIIDHALKI-CSE--KNVNVKSEVVIG--DAKEKVCELVEKLHADLLVMGSHT 133 (167)
Q Consensus 83 ---------~~~~~~~~~~~~-~~~--~~~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~ 133 (167)
..+++.+..... .+. .|-....-+.-. --...+++++.+.++|.|+.|+.-
T Consensus 62 LGIp~~~vdf~~~y~~~V~~~f~~~Y~~G~TPNPci~CN~~iKF~~~l~~a~~lgad~iATGHYa 126 (356)
T COG0482 62 LGIPLYVVDFEKEFWNKVFEYFLAEYKAGKTPNPCILCNKEIKFKALLDYAKELGADYIATGHYA 126 (356)
T ss_pred hCCceEEEchHHHHHHHHHHHHHHHHhCCCCCCcchhcCHHHHHHHHHHHHHHcCCCeEEEeeeE
Confidence 123333222221 222 232222222222 246778889999999999999864
No 492
>TIGR01278 DPOR_BchB light-independent protochlorophyllide reductase, B subunit. This enzyme describes the B subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme. This subunit shows homology to the nitrogenase molybdenum-iron protein. It catalyzes a step in bacteriochlorophyll biosynthesis.
Probab=32.50 E-value=62 Score=26.45 Aligned_cols=12 Identities=8% Similarity=0.432 Sum_probs=6.2
Q ss_pred CCCEEEEeecCC
Q 040308 123 HADLLVMGSHTF 134 (167)
Q Consensus 123 ~~dliV~g~~~~ 134 (167)
++.+|.+.+.+.
T Consensus 115 ~~pvi~v~t~gf 126 (511)
T TIGR01278 115 KSKVIVADVNAY 126 (511)
T ss_pred CCcEEEecCCCc
Confidence 455555555543
No 493
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=32.47 E-value=1.6e+02 Score=20.04 Aligned_cols=49 Identities=16% Similarity=0.125 Sum_probs=32.1
Q ss_pred HHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 114 KVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 114 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
-+++++++.++..||=|-+..+.++--+.-...++-+.. .+-.+.+++.
T Consensus 73 Llvd~ak~~~a~~ivRGLR~~sDfeYE~qma~~N~~L~~-eveTvFl~~s 121 (159)
T COG0669 73 LLVDYAKKLGATVLVRGLRAVSDFEYELQMAHMNRKLAP-EVETVFLMPS 121 (159)
T ss_pred HHHHHHHHcCCCEEEEeccccchHHHHHHHHHHHHhhcc-cccEEEecCC
Confidence 778999999999999999987777644433333333333 4444444433
No 494
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=32.47 E-value=1.1e+02 Score=24.32 Aligned_cols=28 Identities=14% Similarity=0.191 Sum_probs=15.5
Q ss_pred ecChHhHHHHHHHH-----hCCCEEEEeecCCC
Q 040308 108 IGDAKEKVCELVEK-----LHADLLVMGSHTFG 135 (167)
Q Consensus 108 ~g~~~~~I~~~a~~-----~~~dliV~g~~~~~ 135 (167)
.|+-.+.+.+.+++ .+..++.+.+.+..
T Consensus 96 iGdDi~~v~~~~~~~~~~~~~~~vi~v~tpgf~ 128 (428)
T cd01965 96 IGDDVAGFIKEFRAEGPEPADFPVVYASTPSFK 128 (428)
T ss_pred cCCCHHHHHHHHHhhccCCCCCeEEEeeCCCCC
Confidence 35556666666554 35556666555433
No 495
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=32.34 E-value=1.8e+02 Score=20.53 Aligned_cols=68 Identities=9% Similarity=0.027 Sum_probs=38.4
Q ss_pred HHHHHHHHHhhhcCCcEEEEEEecCh--HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEc
Q 040308 86 AIIDHALKICSEKNVNVKSEVVIGDA--KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVK 161 (167)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~ 161 (167)
.+.+.+.+.+.+.|..+.......+. ...+++.+...++|-||+...... ......+...+.||+.+-
T Consensus 16 ~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~--------~~~~~~~~~~~ipvv~~~ 85 (268)
T cd01575 16 DVLQGISDVLEAAGYQLLLGNTGYSPEREEELLRTLLSRRPAGLILTGLEHT--------ERTRQLLRAAGIPVVEIM 85 (268)
T ss_pred HHHHHHHHHHHHcCCEEEEecCCCCchhHHHHHHHHHHcCCCEEEEeCCCCC--------HHHHHHHHhcCCCEEEEe
Confidence 34455566666777666544333233 345566666678998887543221 112234456688998874
No 496
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=32.31 E-value=2.2e+02 Score=21.55 Aligned_cols=46 Identities=17% Similarity=0.226 Sum_probs=25.5
Q ss_pred HHHHHHHhCCCEEEEeecCCCc-cceecccchhHHHHhcCCCCEEEE
Q 040308 115 VCELVEKLHADLLVMGSHTFGP-IKRMFLGSVSNYCANHAQCPVVVV 160 (167)
Q Consensus 115 I~~~a~~~~~dliV~g~~~~~~-~~~~~~gs~~~~i~~~~~~pVliv 160 (167)
..+.+.+.++|.|++-.+..+. ......-.....+.+..++||+.-
T Consensus 121 ~a~~a~~~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaa 167 (307)
T TIGR03151 121 LAKRMEKAGADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAA 167 (307)
T ss_pred HHHHHHHcCCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEE
Confidence 3456667799999983321111 111111234556777778998764
No 497
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=32.29 E-value=1e+02 Score=19.26 Aligned_cols=63 Identities=16% Similarity=0.088 Sum_probs=35.9
Q ss_pred HhhhcCCcEEEEEEe---cC-hHhHHHHHHHHhCCCEEEEeec-CCCccceecccchhHHHHhcCCCCEE
Q 040308 94 ICSEKNVNVKSEVVI---GD-AKEKVCELVEKLHADLLVMGSH-TFGPIKRMFLGSVSNYCANHAQCPVV 158 (167)
Q Consensus 94 ~~~~~~~~~~~~v~~---g~-~~~~I~~~a~~~~~dliV~g~~-~~~~~~~~~~gs~~~~i~~~~~~pVl 158 (167)
.+.+.|++++..... ++ ....|.++.++.++|+||--.. +..... --|-..++..-...+|++
T Consensus 38 ~L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~~~~~~~~--~~~~~iRr~Av~~~ip~i 105 (116)
T cd01423 38 FLLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPSNRGKRVL--DNDYVMRRAADDFAVPLI 105 (116)
T ss_pred HHHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCCCCCCccc--cCcEeeehhhHhhCCccc
Confidence 344667776665322 11 2377889999999999988543 222111 113344455555667765
No 498
>COG1735 Php Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]
Probab=32.18 E-value=1.8e+02 Score=22.31 Aligned_cols=52 Identities=12% Similarity=0.161 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHhhhcCCcEEEEEEecChHhHHHHHHHHhCCCE--EEEeecCCC
Q 040308 84 TQAIIDHALKICSEKNVNVKSEVVIGDAKEKVCELVEKLHADL--LVMGSHTFG 135 (167)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~v~~g~~~~~I~~~a~~~~~dl--iV~g~~~~~ 135 (167)
-++.++.+.....+.|+++.++...|..+-+.++...+.++|+ |++|+-.++
T Consensus 150 Eek~lrAaA~A~~~Tg~Pi~tHt~~gt~g~eq~~il~~egvdl~~v~igH~d~n 203 (316)
T COG1735 150 EEKSLRAAARAHKETGAPISTHTPAGTMGLEQLRILAEEGVDLRKVSIGHMDPN 203 (316)
T ss_pred HHHHHHHHHHHhhhcCCCeEEeccchhhhHHHHHHHHHcCCChhHeeEeccCCC
Confidence 4556666666666778999998888877777777777766665 899987643
No 499
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=32.10 E-value=1.1e+02 Score=22.84 Aligned_cols=48 Identities=27% Similarity=0.431 Sum_probs=34.1
Q ss_pred HhHHHHHHHHhCCCEEEEeecCCCccceecccchhHHHHhcCCCCEEEEcCC
Q 040308 112 KEKVCELVEKLHADLLVMGSHTFGPIKRMFLGSVSNYCANHAQCPVVVVKGK 163 (167)
Q Consensus 112 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~i~~~~~~pVliv~~~ 163 (167)
.+.+...++...+-||||...- ++.... ...-.+.+...+|..+++.+
T Consensus 137 in~VtklIekkKAkLVIIA~DV-sP~t~k---k~LP~LC~k~~VPY~iv~sK 184 (266)
T PTZ00365 137 LNHVTDLVEYKKAKLVVIAHDV-DPIELV---CFLPALCRKKEVPYCIIKGK 184 (266)
T ss_pred hHHHHHHHHhCCccEEEEeCCC-CHHHHH---HHHHHHHhccCCCEEEECCH
Confidence 5677888888999999999663 444322 12245777888999988764
No 500
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=32.07 E-value=1.6e+02 Score=19.65 Aligned_cols=57 Identities=12% Similarity=-0.042 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhccccCCCCCeEEEEEEeCCCCcccCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 040308 18 SMDALRWAIDNLKLRSPAPGSFIVLHVQPPPTIAAGLNPGAIPFGGPSHVEVPAFTAAIEAHQGRITQAIIDHALKICSE 97 (167)
Q Consensus 18 s~~al~~a~~la~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (167)
-.++++-..+.|++. +++-+++|-+.--+.... .-..+.+.++.+.+.+..
T Consensus 56 v~~av~eI~~~a~kv---~~~~ivlyPyAHLSs~La--------------------------~P~~A~~iL~~le~~L~~ 106 (138)
T PF08915_consen 56 VEKAVEEIKWVAKKV---KAKRIVLYPYAHLSSSLA--------------------------SPDVAVEILKKLEERLKS 106 (138)
T ss_dssp HHHHHHHHHHHHHHT---T-SEEEEEE-GGGSSSB----------------------------HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhc---CCCEEEEeCcccccCCcC--------------------------ChHHHHHHHHHHHHHHHh
Confidence 567888888999999 889899988764432211 124456667777777766
Q ss_pred cCCcEE
Q 040308 98 KNVNVK 103 (167)
Q Consensus 98 ~~~~~~ 103 (167)
.|+++.
T Consensus 107 ~g~eV~ 112 (138)
T PF08915_consen 107 RGFEVY 112 (138)
T ss_dssp TT-EEE
T ss_pred CCCeEE
Confidence 776653
Done!