Query 030208
Match_columns 181
No_of_seqs 120 out of 1037
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 10:12:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030208.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030208hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15005 universal stress prot 99.9 1E-24 2.2E-29 154.5 15.8 127 40-169 1-144 (144)
2 PRK15456 universal stress prot 99.9 2.5E-24 5.4E-29 152.4 16.0 126 40-169 1-142 (142)
3 PF00582 Usp: Universal stress 99.9 1.5E-23 3.3E-28 145.9 15.8 129 40-169 1-140 (140)
4 PRK09982 universal stress prot 99.9 1.2E-23 2.6E-28 149.1 14.5 129 40-172 2-141 (142)
5 PRK15118 universal stress glob 99.9 2.9E-23 6.3E-28 147.1 15.0 130 40-173 2-142 (144)
6 cd01989 STK_N The N-terminal d 99.9 1.5E-22 3.2E-27 143.7 15.6 127 43-170 1-145 (146)
7 PRK10116 universal stress prot 99.9 1.4E-22 3.1E-27 143.1 14.9 130 40-172 2-141 (142)
8 PRK11175 universal stress prot 99.9 2.1E-22 4.6E-27 159.1 15.7 151 12-173 133-303 (305)
9 cd01988 Na_H_Antiporter_C The 99.9 1.1E-21 2.4E-26 136.4 15.9 125 43-169 1-132 (132)
10 cd01987 USP_OKCHK USP domain i 99.9 1.6E-21 3.4E-26 134.8 13.3 123 43-169 1-124 (124)
11 PRK11175 universal stress prot 99.9 7E-21 1.5E-25 150.4 15.0 132 39-172 1-148 (305)
12 cd00293 USP_Like Usp: Universa 99.8 4E-19 8.7E-24 122.2 15.3 124 43-168 1-130 (130)
13 COG0589 UspA Universal stress 99.8 3.1E-17 6.7E-22 116.4 15.8 131 39-171 3-153 (154)
14 PRK12652 putative monovalent c 99.6 3.2E-14 6.9E-19 114.2 15.2 128 38-167 2-148 (357)
15 PRK10490 sensor protein KdpD; 99.5 6.5E-13 1.4E-17 118.5 16.3 131 36-172 245-376 (895)
16 COG2205 KdpD Osmosensitive K+ 99.4 5.5E-12 1.2E-16 108.1 13.8 162 8-173 211-377 (890)
17 cd01984 AANH_like Adenine nucl 98.7 1.1E-07 2.3E-12 61.2 7.3 84 44-167 1-85 (86)
18 PLN03159 cation/H(+) antiporte 97.7 0.0012 2.6E-08 59.3 13.3 128 41-171 630-795 (832)
19 PLN03159 cation/H(+) antiporte 97.5 0.0026 5.6E-08 57.2 12.8 130 41-172 458-617 (832)
20 TIGR02432 lysidine_TilS_N tRNA 96.9 0.036 7.7E-07 40.7 11.6 95 43-143 1-112 (189)
21 PF01171 ATP_bind_3: PP-loop f 96.7 0.059 1.3E-06 39.4 11.8 97 43-145 1-111 (182)
22 cd01992 PP-ATPase N-terminal d 96.4 0.1 2.3E-06 37.9 11.2 95 43-143 1-109 (185)
23 PRK12342 hypothetical protein; 95.7 0.17 3.8E-06 39.2 10.0 103 50-165 33-139 (254)
24 cd01993 Alpha_ANH_like_II This 95.3 0.47 1E-05 34.4 10.7 95 43-143 1-119 (185)
25 COG0037 MesJ tRNA(Ile)-lysidin 94.9 0.2 4.4E-06 39.3 8.4 99 42-145 22-135 (298)
26 PRK03359 putative electron tra 94.5 0.6 1.3E-05 36.3 9.6 103 50-164 34-141 (256)
27 COG2086 FixA Electron transfer 94.2 0.93 2E-05 35.3 10.2 103 50-166 35-142 (260)
28 PRK10696 tRNA 2-thiocytidine b 94.0 2 4.3E-05 33.3 11.8 95 41-144 29-145 (258)
29 PF01012 ETF: Electron transfe 93.5 1.1 2.3E-05 32.1 8.9 79 52-141 15-101 (164)
30 PRK07313 phosphopantothenoylcy 93.0 0.34 7.4E-06 35.6 5.7 35 41-76 1-35 (182)
31 TIGR00591 phr2 photolyase PhrI 92.6 0.97 2.1E-05 38.0 8.7 93 44-139 25-122 (454)
32 PRK13982 bifunctional SbtC-lik 92.2 1.2 2.5E-05 37.8 8.5 118 40-173 69-191 (475)
33 cd01986 Alpha_ANH_like Adenine 91.9 2.3 5.1E-05 27.8 8.3 72 44-141 1-72 (103)
34 PRK10660 tilS tRNA(Ile)-lysidi 91.1 3.3 7.2E-05 34.8 10.1 65 41-111 15-80 (436)
35 cd01995 ExsB ExsB is a transcr 91.1 4.3 9.3E-05 29.0 9.9 86 43-142 1-88 (169)
36 TIGR02113 coaC_strep phosphopa 90.5 1.4 3.1E-05 32.2 6.6 34 42-76 1-34 (177)
37 PRK05253 sulfate adenylyltrans 90.2 5.3 0.00011 31.9 10.1 94 41-142 27-139 (301)
38 PRK05579 bifunctional phosphop 89.7 3.3 7.1E-05 34.4 8.8 116 41-172 6-126 (399)
39 TIGR00268 conserved hypothetic 89.3 7.9 0.00017 29.9 10.3 88 41-140 12-117 (252)
40 TIGR02852 spore_dpaB dipicolin 89.2 3.3 7.2E-05 30.6 7.7 35 42-77 1-36 (187)
41 PRK13820 argininosuccinate syn 89.2 11 0.00023 31.3 11.4 38 40-80 1-39 (394)
42 PF00875 DNA_photolyase: DNA p 89.1 2.4 5.3E-05 30.2 6.9 107 54-170 13-125 (165)
43 COG0041 PurE Phosphoribosylcar 88.1 5.6 0.00012 28.4 7.8 63 100-171 23-89 (162)
44 PRK14665 mnmA tRNA-specific 2- 87.6 14 0.00031 30.2 12.7 115 41-166 5-164 (360)
45 cd01713 PAPS_reductase This do 87.6 7.7 0.00017 27.1 10.4 95 43-146 1-121 (173)
46 PRK08305 spoVFB dipicolinate s 86.6 4.2 9.1E-05 30.3 6.9 36 41-77 5-41 (196)
47 TIGR00521 coaBC_dfp phosphopan 85.8 8.4 0.00018 31.9 9.0 119 41-174 3-124 (390)
48 PRK00919 GMP synthase subunit 84.7 7.4 0.00016 31.1 7.9 37 42-81 22-58 (307)
49 cd01985 ETF The electron trans 84.3 13 0.00029 26.8 12.6 78 50-141 17-102 (181)
50 KOG1650 Predicted K+/H+-antipo 84.2 5.8 0.00013 35.9 7.9 101 40-141 613-723 (769)
51 PRK06029 3-octaprenyl-4-hydrox 83.5 2.6 5.6E-05 31.1 4.6 37 41-77 1-37 (185)
52 TIGR02039 CysD sulfate adenyly 82.8 22 0.00048 28.3 10.7 91 42-140 20-129 (294)
53 PRK12563 sulfate adenylyltrans 82.4 24 0.00052 28.4 10.3 92 41-140 37-147 (312)
54 PRK08091 ribulose-phosphate 3- 82.4 12 0.00026 28.6 7.9 67 71-139 143-209 (228)
55 TIGR02699 archaeo_AfpA archaeo 82.1 9.5 0.00021 27.8 7.0 35 43-77 1-36 (174)
56 TIGR02765 crypto_DASH cryptoch 82.1 13 0.00028 31.0 8.7 83 50-139 11-105 (429)
57 PRK08745 ribulose-phosphate 3- 81.4 13 0.00029 28.2 7.9 66 72-139 136-201 (223)
58 cd00408 DHDPS-like Dihydrodipi 80.4 14 0.00031 28.7 8.1 115 54-171 16-132 (281)
59 TIGR00290 MJ0570_dom MJ0570-re 80.3 18 0.00039 27.6 8.2 88 44-139 3-94 (223)
60 PLN00200 argininosuccinate syn 79.8 35 0.00075 28.5 12.5 38 40-80 4-41 (404)
61 PRK00143 mnmA tRNA-specific 2- 79.6 30 0.00065 28.1 9.8 34 42-79 1-34 (346)
62 TIGR03556 photolyase_8HDF deox 79.5 15 0.00032 31.2 8.4 81 52-139 13-99 (471)
63 PRK14057 epimerase; Provisiona 79.4 17 0.00038 28.2 8.0 67 71-139 157-223 (254)
64 PF02844 GARS_N: Phosphoribosy 79.4 2.1 4.5E-05 28.3 2.6 24 116-139 48-71 (100)
65 TIGR00884 guaA_Cterm GMP synth 79.2 26 0.00057 28.1 9.3 36 42-80 17-52 (311)
66 cd01990 Alpha_ANH_like_I This 78.9 23 0.0005 26.0 10.0 87 44-141 1-106 (202)
67 PRK09722 allulose-6-phosphate 78.8 27 0.00058 26.7 10.5 67 71-139 133-199 (229)
68 PRK08185 hypothetical protein; 78.3 6.6 0.00014 31.0 5.5 58 111-169 18-75 (283)
69 PRK00109 Holliday junction res 78.2 5.4 0.00012 27.9 4.5 55 118-173 42-100 (138)
70 COG0036 Rpe Pentose-5-phosphat 77.6 19 0.00041 27.4 7.5 95 42-139 86-199 (220)
71 cd01712 ThiI ThiI is required 77.4 24 0.00052 25.4 11.3 35 43-81 1-35 (177)
72 PRK05920 aromatic acid decarbo 76.7 6.6 0.00014 29.5 4.9 37 40-77 2-38 (204)
73 cd00951 KDGDH 5-dehydro-4-deox 76.3 36 0.00078 26.8 9.8 112 54-169 19-132 (289)
74 cd01997 GMP_synthase_C The C-t 75.7 15 0.00032 29.2 6.9 35 43-80 1-35 (295)
75 PF00448 SRP54: SRP54-type pro 75.4 30 0.00066 25.6 10.0 113 44-168 5-120 (196)
76 PRK09590 celB cellobiose phosp 75.4 4.4 9.6E-05 26.9 3.3 67 99-175 22-88 (104)
77 cd00950 DHDPS Dihydrodipicolin 75.3 25 0.00054 27.5 8.1 114 55-171 20-135 (284)
78 TIGR01162 purE phosphoribosyla 75.0 28 0.00061 25.0 8.3 64 100-172 19-86 (156)
79 PF02441 Flavoprotein: Flavopr 74.2 7.2 0.00016 26.7 4.3 112 42-171 1-119 (129)
80 COG3969 Predicted phosphoadeno 73.5 13 0.00028 30.2 6.0 57 40-96 26-83 (407)
81 cd00946 FBP_aldolase_IIA Class 73.3 14 0.00029 30.2 6.2 60 110-170 20-95 (345)
82 cd01998 tRNA_Me_trans tRNA met 73.2 48 0.001 26.9 9.5 23 120-142 103-125 (349)
83 PRK09195 gatY tagatose-bisphos 73.2 12 0.00027 29.5 5.8 59 110-169 22-81 (284)
84 COG1927 Mtd Coenzyme F420-depe 72.8 39 0.00084 25.6 8.2 69 97-171 22-96 (277)
85 PF02887 PK_C: Pyruvate kinase 72.3 13 0.00028 24.9 5.1 45 118-171 4-48 (117)
86 PRK00074 guaA GMP synthase; Re 72.0 50 0.0011 28.5 9.6 88 42-139 216-325 (511)
87 PRK14664 tRNA-specific 2-thiou 72.0 54 0.0012 26.9 11.0 86 41-141 5-119 (362)
88 PRK06806 fructose-bisphosphate 72.0 18 0.00038 28.6 6.4 58 111-169 23-81 (281)
89 PRK06801 hypothetical protein; 71.6 17 0.00037 28.8 6.3 59 111-170 23-82 (286)
90 PRK12857 fructose-1,6-bisphosp 71.4 16 0.00035 28.9 6.1 59 111-170 23-82 (284)
91 COG0452 Dfp Phosphopantothenoy 71.3 19 0.00041 29.9 6.8 114 42-172 5-123 (392)
92 TIGR00289 conserved hypothetic 71.3 32 0.0007 26.1 7.5 89 43-139 2-94 (222)
93 KOG0781 Signal recognition par 71.2 67 0.0015 27.7 10.6 116 39-161 377-496 (587)
94 PRK08334 translation initiatio 71.0 57 0.0012 26.8 9.4 64 102-170 215-280 (356)
95 COG1066 Sms Predicted ATP-depe 70.6 64 0.0014 27.2 11.2 112 42-169 94-217 (456)
96 PF01008 IF-2B: Initiation fac 70.4 49 0.0011 25.8 8.7 110 42-172 108-220 (282)
97 TIGR00342 thiazole biosynthesi 70.4 59 0.0013 26.7 11.1 37 40-80 171-207 (371)
98 PF00731 AIRC: AIR carboxylase 70.2 37 0.00079 24.2 7.4 63 100-171 21-87 (150)
99 PF12683 DUF3798: Protein of u 69.9 33 0.00072 26.9 7.3 93 43-142 4-98 (275)
100 cd01714 ETF_beta The electron 69.1 45 0.00097 24.8 9.6 83 46-141 29-119 (202)
101 TIGR00853 pts-lac PTS system, 69.0 9.2 0.0002 24.8 3.7 63 100-174 25-87 (95)
102 TIGR00420 trmU tRNA (5-methyla 68.7 63 0.0014 26.4 10.0 33 42-78 1-33 (352)
103 TIGR01858 tag_bisphos_ald clas 68.7 20 0.00042 28.4 6.0 59 111-170 21-80 (282)
104 PRK12738 kbaY tagatose-bisphos 67.5 21 0.00047 28.2 6.1 59 110-169 22-81 (286)
105 PRK12737 gatY tagatose-bisphos 67.2 21 0.00046 28.2 6.0 58 111-169 23-81 (284)
106 TIGR02764 spore_ybaN_pdaB poly 67.1 46 0.001 24.2 8.8 129 41-171 5-160 (191)
107 COG0329 DapA Dihydrodipicolina 66.8 59 0.0013 25.8 8.5 111 52-169 21-137 (299)
108 PF03652 UPF0081: Uncharacteri 66.8 11 0.00025 26.2 4.0 57 116-173 37-98 (135)
109 TIGR03249 KdgD 5-dehydro-4-deo 66.6 62 0.0014 25.5 10.0 113 53-169 23-137 (296)
110 TIGR00032 argG argininosuccina 66.0 77 0.0017 26.4 10.9 34 43-80 1-34 (394)
111 TIGR00250 RNAse_H_YqgF RNAse H 65.9 14 0.00031 25.5 4.3 56 117-173 35-94 (130)
112 PRK10867 signal recognition pa 65.9 82 0.0018 26.6 10.8 93 44-146 104-199 (433)
113 KOG1467 Translation initiation 64.9 91 0.002 26.8 10.3 111 42-173 360-472 (556)
114 PRK09197 fructose-bisphosphate 64.9 28 0.00061 28.4 6.3 59 111-170 26-100 (350)
115 PRK06371 translation initiatio 64.4 76 0.0017 25.7 8.8 64 102-170 192-257 (329)
116 PF09043 Lys-AminoMut_A: D-Lys 64.2 45 0.00097 28.1 7.4 47 108-154 148-197 (509)
117 PF02601 Exonuc_VII_L: Exonucl 64.1 60 0.0013 25.8 8.2 37 130-167 75-112 (319)
118 PRK03620 5-dehydro-4-deoxygluc 64.0 72 0.0016 25.3 9.5 113 54-170 26-140 (303)
119 PF00834 Ribul_P_3_epim: Ribul 63.9 14 0.0003 27.6 4.2 96 42-139 82-196 (201)
120 COG0552 FtsY Signal recognitio 63.8 79 0.0017 25.7 10.5 99 42-152 141-243 (340)
121 TIGR01520 FruBisAldo_II_A fruc 62.8 36 0.00078 27.9 6.6 62 110-172 31-109 (357)
122 COG0036 Rpe Pentose-5-phosphat 62.4 67 0.0015 24.4 7.6 96 47-157 63-158 (220)
123 PRK04147 N-acetylneuraminate l 61.5 78 0.0017 24.9 10.1 115 54-171 22-139 (293)
124 PRK00994 F420-dependent methyl 61.2 75 0.0016 24.6 8.8 70 97-172 22-97 (277)
125 cd02067 B12-binding B12 bindin 61.0 46 0.001 22.1 6.4 23 117-139 37-59 (119)
126 cd03364 TOPRIM_DnaG_primases T 60.7 32 0.0007 21.1 4.9 33 42-74 44-76 (79)
127 TIGR02329 propionate_PrpR prop 60.7 70 0.0015 27.7 8.4 66 95-173 16-84 (526)
128 cd00947 TBP_aldolase_IIB Tagat 60.1 29 0.00062 27.4 5.5 60 111-171 18-78 (276)
129 COG0420 SbcD DNA repair exonuc 60.0 16 0.00034 30.0 4.3 59 117-176 27-89 (390)
130 cd05564 PTS_IIB_chitobiose_lic 59.7 18 0.0004 23.4 3.8 64 99-174 20-83 (96)
131 PRK11070 ssDNA exonuclease Rec 59.6 88 0.0019 27.5 8.8 94 41-141 69-162 (575)
132 TIGR01769 GGGP geranylgeranylg 59.6 25 0.00053 26.4 4.9 51 120-173 14-64 (205)
133 PRK02929 L-arabinose isomerase 59.5 1.2E+02 0.0025 26.2 10.5 93 70-170 7-105 (499)
134 TIGR00674 dapA dihydrodipicoli 59.5 84 0.0018 24.6 10.0 113 54-171 17-133 (285)
135 cd05565 PTS_IIB_lactose PTS_II 59.2 32 0.0007 22.6 4.9 59 102-172 24-82 (99)
136 PRK08384 thiamine biosynthesis 59.1 1E+02 0.0022 25.5 8.8 36 40-79 179-214 (381)
137 PF01261 AP_endonuc_2: Xylose 59.0 65 0.0014 23.2 7.8 78 55-133 70-158 (213)
138 PRK03170 dihydrodipicolinate s 58.2 89 0.0019 24.5 11.0 115 54-171 20-136 (292)
139 PRK08883 ribulose-phosphate 3- 58.1 80 0.0017 23.9 7.9 50 88-139 148-197 (220)
140 PRK08349 hypothetical protein; 58.0 73 0.0016 23.4 12.0 33 43-79 2-34 (198)
141 PRK15424 propionate catabolism 57.6 59 0.0013 28.3 7.4 63 98-173 29-94 (538)
142 PRK05772 translation initiatio 57.5 1.1E+02 0.0023 25.3 9.8 64 102-170 223-288 (363)
143 COG0191 Fba Fructose/tagatose 57.3 40 0.00087 26.7 5.8 61 111-172 23-85 (286)
144 PRK06027 purU formyltetrahydro 57.2 96 0.0021 24.5 10.1 83 41-140 89-175 (286)
145 TIGR02313 HpaI-NOT-DapA 2,4-di 57.1 96 0.0021 24.5 10.9 114 54-170 19-135 (294)
146 PRK06036 translation initiatio 57.0 1.1E+02 0.0023 25.0 8.6 61 104-170 205-267 (339)
147 PF13662 Toprim_4: Toprim doma 57.0 21 0.00045 22.1 3.6 33 41-73 46-78 (81)
148 PF01116 F_bP_aldolase: Fructo 56.8 14 0.00031 29.2 3.3 57 111-168 22-79 (287)
149 PRK07998 gatY putative fructos 56.2 36 0.00079 26.9 5.5 58 112-170 24-82 (283)
150 PRK07315 fructose-bisphosphate 56.1 42 0.0009 26.7 5.9 57 111-168 23-83 (293)
151 cd00532 MGS-like MGS-like doma 55.7 58 0.0012 21.6 6.1 101 44-167 2-104 (112)
152 COG1646 Predicted phosphate-bi 55.7 82 0.0018 24.3 7.0 54 117-173 28-81 (240)
153 TIGR02690 resist_ArsH arsenica 55.4 90 0.0019 23.7 9.2 28 52-79 40-67 (219)
154 cd08550 GlyDH-like Glycerol_de 55.0 1.1E+02 0.0024 24.7 10.7 43 119-170 66-109 (349)
155 cd02070 corrinoid_protein_B12- 54.6 64 0.0014 23.8 6.4 68 97-169 101-172 (201)
156 PRK05720 mtnA methylthioribose 54.1 1.2E+02 0.0026 24.8 9.1 65 103-172 203-269 (344)
157 PRK00509 argininosuccinate syn 53.6 1.3E+02 0.0029 25.1 10.9 37 41-80 2-38 (399)
158 PRK05370 argininosuccinate syn 53.5 1.4E+02 0.003 25.4 10.3 97 41-143 11-135 (447)
159 COG0299 PurN Folate-dependent 53.5 93 0.002 23.3 10.4 82 43-139 2-88 (200)
160 TIGR00167 cbbA ketose-bisphosp 53.3 54 0.0012 26.0 6.1 58 111-169 23-84 (288)
161 TIGR00655 PurU formyltetrahydr 53.0 1.1E+02 0.0024 24.1 9.6 82 41-139 84-169 (280)
162 COG0075 Serine-pyruvate aminot 52.9 1.3E+02 0.0029 24.9 9.3 77 41-131 80-162 (383)
163 COG0482 TrmU Predicted tRNA(5- 52.7 56 0.0012 26.8 6.1 24 118-141 104-127 (356)
164 TIGR00959 ffh signal recogniti 52.6 1.4E+02 0.0031 25.1 10.8 92 44-145 103-197 (428)
165 TIGR00640 acid_CoA_mut_C methy 52.2 51 0.0011 22.8 5.2 59 96-158 20-79 (132)
166 cd02072 Glm_B12_BD B12 binding 51.8 68 0.0015 22.1 5.7 43 97-142 18-62 (128)
167 PRK08194 tartrate dehydrogenas 51.7 72 0.0016 26.1 6.6 28 52-79 161-188 (352)
168 PRK01565 thiamine biosynthesis 51.7 1.4E+02 0.003 24.8 11.7 35 41-79 176-210 (394)
169 PRK13399 fructose-1,6-bisphosp 51.2 59 0.0013 26.6 6.1 58 111-169 23-82 (347)
170 TIGR01501 MthylAspMutase methy 50.9 71 0.0015 22.2 5.7 23 117-139 39-61 (134)
171 PF02878 PGM_PMM_I: Phosphoglu 50.8 53 0.0012 22.5 5.2 39 41-79 40-78 (137)
172 TIGR03573 WbuX N-acetyl sugar 50.7 1.1E+02 0.0025 24.7 7.8 89 42-141 60-171 (343)
173 cd01994 Alpha_ANH_like_IV This 50.7 1E+02 0.0022 22.8 9.3 90 43-140 1-98 (194)
174 TIGR00683 nanA N-acetylneurami 50.7 1.2E+02 0.0027 23.8 11.4 115 54-171 19-137 (290)
175 TIGR00512 salvage_mtnA S-methy 50.5 1.4E+02 0.003 24.3 9.6 63 103-170 203-267 (331)
176 PTZ00285 glucosamine-6-phospha 50.5 1.1E+02 0.0025 23.4 8.1 107 42-151 33-151 (253)
177 PF04244 DPRP: Deoxyribodipyri 50.5 71 0.0015 24.3 6.1 69 99-173 55-128 (224)
178 PF01902 ATP_bind_4: ATP-bindi 50.4 58 0.0013 24.7 5.6 89 43-139 2-94 (218)
179 cd03557 L-arabinose_isomerase 50.1 1.7E+02 0.0036 25.2 9.9 79 87-172 18-101 (484)
180 PF03808 Glyco_tran_WecB: Glyc 50.1 82 0.0018 22.7 6.2 73 56-139 35-110 (172)
181 TIGR00583 mre11 DNA repair pro 49.8 51 0.0011 27.5 5.7 22 118-139 30-51 (405)
182 TIGR00421 ubiX_pad polyprenyl 49.5 34 0.00074 25.1 4.2 34 43-77 1-34 (181)
183 cd00453 FTBP_aldolase_II Fruct 49.4 51 0.0011 26.9 5.4 61 111-172 18-95 (340)
184 PRK15411 rcsA colanic acid cap 49.3 1.1E+02 0.0023 22.7 7.9 49 117-171 34-86 (207)
185 COG3640 CooC CO dehydrogenase 48.7 1.1E+02 0.0023 23.8 6.7 44 116-161 86-130 (255)
186 COG0541 Ffh Signal recognition 48.4 1.7E+02 0.0037 24.8 10.3 98 44-152 104-204 (451)
187 COG2870 RfaE ADP-heptose synth 48.3 1.7E+02 0.0036 24.7 9.2 53 117-173 128-182 (467)
188 TIGR02088 LEU3_arch isopropylm 47.7 1.2E+02 0.0026 24.5 7.3 28 50-77 139-166 (322)
189 PRK08005 epimerase; Validated 47.3 1.1E+02 0.0024 23.1 6.6 26 114-139 168-193 (210)
190 PHA02031 putative DnaG-like pr 47.2 65 0.0014 25.3 5.5 38 41-78 206-243 (266)
191 COG2102 Predicted ATPases of P 46.5 1.3E+02 0.0028 23.0 7.6 89 44-139 3-95 (223)
192 PLN02496 probable phosphopanto 46.4 54 0.0012 24.7 4.8 37 39-77 17-53 (209)
193 smart00851 MGS MGS-like domain 46.3 63 0.0014 20.3 4.6 61 104-166 28-89 (90)
194 cd07044 CofD_YvcK Family of Co 46.0 48 0.001 26.6 4.8 54 117-174 163-218 (309)
195 cd01400 6PGL 6PGL: 6-Phosphogl 45.7 1.3E+02 0.0028 22.6 10.8 107 42-152 23-141 (219)
196 PF11215 DUF3010: Protein of u 45.5 83 0.0018 22.1 5.3 52 120-171 51-103 (138)
197 COG0301 ThiI Thiamine biosynth 45.5 1.8E+02 0.0039 24.2 9.6 92 41-139 175-288 (383)
198 PRK06850 hypothetical protein; 45.1 2E+02 0.0043 25.0 8.5 71 42-113 35-110 (507)
199 KOG3111 D-ribulose-5-phosphate 45.1 1.3E+02 0.0029 22.6 8.1 86 56-156 75-160 (224)
200 COG1184 GCD2 Translation initi 45.0 1.6E+02 0.0035 23.6 7.8 51 115-170 128-178 (301)
201 PRK08576 hypothetical protein; 44.9 1.9E+02 0.0042 24.5 10.0 87 42-140 235-340 (438)
202 PLN02948 phosphoribosylaminoim 44.6 1.4E+02 0.003 26.2 7.8 64 99-171 430-497 (577)
203 TIGR01425 SRP54_euk signal rec 44.5 2E+02 0.0042 24.4 10.3 94 45-149 105-201 (429)
204 COG0669 CoaD Phosphopantethein 44.4 1.2E+02 0.0026 21.9 8.9 104 42-158 3-111 (159)
205 TIGR01521 FruBisAldo_II_B fruc 44.3 90 0.002 25.5 6.1 59 111-169 21-80 (347)
206 KOG3243 6,7-dimethyl-8-ribityl 44.3 1.1E+02 0.0023 21.4 7.2 97 70-167 16-118 (158)
207 PF01884 PcrB: PcrB family; I 44.1 43 0.00094 25.6 4.1 52 117-173 19-70 (230)
208 PRK07084 fructose-bisphosphate 44.1 76 0.0016 25.7 5.6 58 111-169 29-92 (321)
209 PF14582 Metallophos_3: Metall 43.5 47 0.001 25.6 4.1 20 155-175 83-102 (255)
210 cd01971 Nitrogenase_VnfN_like 43.5 41 0.0009 28.1 4.3 26 116-141 102-127 (427)
211 TIGR00524 eIF-2B_rel eIF-2B al 43.5 1.7E+02 0.0037 23.4 9.4 65 104-173 176-242 (303)
212 PF04459 DUF512: Protein of un 43.4 1.4E+02 0.003 22.4 8.3 54 118-172 148-203 (204)
213 cd00954 NAL N-Acetylneuraminic 43.4 1.6E+02 0.0035 23.1 11.4 115 54-171 19-137 (288)
214 PRK13010 purU formyltetrahydro 43.1 1.7E+02 0.0036 23.2 9.5 82 41-139 93-178 (289)
215 PRK08997 isocitrate dehydrogen 42.8 1.1E+02 0.0024 24.9 6.4 29 51-79 146-175 (334)
216 PF00701 DHDPS: Dihydrodipicol 42.7 1.6E+02 0.0035 22.9 10.3 112 54-170 20-135 (289)
217 COG0816 Predicted endonuclease 42.5 62 0.0013 22.8 4.4 53 118-171 41-97 (141)
218 PF09936 Methyltrn_RNA_4: SAM- 42.5 1.4E+02 0.003 22.1 7.5 99 63-172 35-142 (185)
219 PF02142 MGS: MGS-like domain 42.4 19 0.00041 23.1 1.7 65 100-166 24-94 (95)
220 cd02069 methionine_synthase_B1 42.2 1.2E+02 0.0025 22.8 6.2 69 96-169 106-176 (213)
221 PRK00286 xseA exodeoxyribonucl 41.5 95 0.0021 26.0 6.1 54 114-168 172-230 (438)
222 PRK06372 translation initiatio 41.2 1.7E+02 0.0037 22.8 7.2 63 104-173 132-196 (253)
223 PF01507 PAPS_reduct: Phosphoa 41.2 1.2E+02 0.0027 21.1 8.7 33 43-79 1-33 (174)
224 PRK10674 deoxyribodipyrimidine 41.0 2.3E+02 0.0049 24.1 9.4 85 49-139 11-105 (472)
225 COG1619 LdcA Uncharacterized p 40.9 1.3E+02 0.0028 24.3 6.4 93 47-141 17-112 (313)
226 COG0391 Uncharacterized conser 40.8 87 0.0019 25.4 5.5 56 117-176 178-235 (323)
227 TIGR00511 ribulose_e2b2 ribose 40.8 1.9E+02 0.004 23.1 12.2 108 44-172 118-227 (301)
228 TIGR00930 2a30 K-Cl cotranspor 40.8 3.2E+02 0.0069 25.8 13.0 124 42-171 576-710 (953)
229 TIGR01826 CofD_related conserv 40.1 75 0.0016 25.5 5.0 53 117-173 161-215 (310)
230 cd06375 PBP1_mGluR_groupII Lig 40.0 2.3E+02 0.0049 23.9 10.3 24 117-140 243-266 (458)
231 PF01933 UPF0052: Uncharacteri 39.9 60 0.0013 25.9 4.5 51 117-171 172-224 (300)
232 PRK05835 fructose-bisphosphate 39.9 1.1E+02 0.0023 24.7 5.8 59 111-169 22-81 (307)
233 TIGR00237 xseA exodeoxyribonuc 39.8 2.2E+02 0.0047 24.0 8.0 55 113-168 165-225 (432)
234 CHL00073 chlN photochlorophyll 39.8 54 0.0012 27.9 4.4 13 128-140 126-138 (457)
235 PLN00096 isocitrate dehydrogen 39.5 2.3E+02 0.0049 23.7 9.2 36 43-78 166-202 (393)
236 PLN02958 diacylglycerol kinase 39.4 2.5E+02 0.0053 24.1 9.4 67 98-171 135-208 (481)
237 PRK08610 fructose-bisphosphate 39.3 1.1E+02 0.0025 24.2 5.9 59 110-168 22-83 (286)
238 PRK08535 translation initiatio 39.3 2E+02 0.0043 23.0 11.9 108 44-172 123-232 (310)
239 KOG0910 Thioredoxin-like prote 39.2 20 0.00044 25.5 1.5 23 154-180 54-76 (150)
240 TIGR01859 fruc_bis_ald_ fructo 39.1 1.2E+02 0.0026 24.0 6.0 59 111-169 21-81 (282)
241 PF07355 GRDB: Glycine/sarcosi 39.0 45 0.00098 27.2 3.6 50 118-168 68-117 (349)
242 TIGR02089 TTC tartrate dehydro 38.9 1.3E+02 0.0029 24.6 6.3 28 52-79 164-191 (352)
243 cd01424 MGS_CPS_II Methylglyox 38.2 1.1E+02 0.0025 19.9 6.2 98 43-166 2-99 (110)
244 COG2185 Sbm Methylmalonyl-CoA 38.1 1.4E+02 0.0031 21.0 6.0 34 42-75 13-46 (143)
245 PRK09196 fructose-1,6-bisphosp 38.0 1.2E+02 0.0025 24.9 5.9 58 111-168 23-81 (347)
246 TIGR00646 MG010 DNA primase-re 38.0 1.8E+02 0.0039 22.1 7.3 38 41-78 154-191 (218)
247 PF02310 B12-binding: B12 bind 37.1 1.2E+02 0.0026 19.8 6.8 34 44-77 3-36 (121)
248 PRK05234 mgsA methylglyoxal sy 37.0 1.5E+02 0.0032 20.8 10.6 101 41-166 4-110 (142)
249 cd05008 SIS_GlmS_GlmD_1 SIS (S 36.9 90 0.002 20.6 4.5 37 41-78 46-82 (126)
250 PRK14025 multifunctional 3-iso 36.7 1.5E+02 0.0033 24.1 6.3 30 50-79 138-172 (330)
251 PF01207 Dus: Dihydrouridine s 36.4 2.2E+02 0.0048 22.7 7.8 124 42-169 54-190 (309)
252 PRK02261 methylaspartate mutas 36.4 1.5E+02 0.0032 20.6 6.9 24 117-140 41-64 (137)
253 COG1737 RpiR Transcriptional r 36.3 65 0.0014 25.2 4.2 37 41-78 177-213 (281)
254 KOG1014 17 beta-hydroxysteroid 36.3 2.3E+02 0.005 22.9 7.4 82 42-138 49-134 (312)
255 COG0415 PhrB Deoxyribodipyrimi 36.2 2.8E+02 0.006 23.8 8.9 85 50-140 12-100 (461)
256 KOG1466 Translation initiation 36.0 56 0.0012 25.7 3.6 43 130-173 198-243 (313)
257 COG0745 OmpR Response regulato 35.6 1.9E+02 0.0041 21.9 6.5 70 93-173 11-83 (229)
258 COG1570 XseA Exonuclease VII, 35.4 2.7E+02 0.0059 23.6 7.7 52 114-167 172-230 (440)
259 PF00793 DAHP_synth_1: DAHP sy 35.4 2E+02 0.0043 22.6 6.7 107 52-172 27-141 (270)
260 cd06361 PBP1_GPC6A_like Ligand 35.3 2.6E+02 0.0055 23.1 12.3 97 41-140 172-268 (403)
261 COG1184 GCD2 Translation initi 35.0 2.4E+02 0.0052 22.7 11.5 109 42-173 120-232 (301)
262 COG1606 ATP-utilizing enzymes 35.0 2.2E+02 0.0048 22.3 10.5 88 41-139 17-122 (269)
263 cd01996 Alpha_ANH_like_III Thi 34.9 1.5E+02 0.0033 20.4 9.5 34 43-79 3-36 (154)
264 PF01182 Glucosamine_iso: Gluc 34.9 1.5E+02 0.0032 21.9 5.7 109 42-153 21-145 (199)
265 TIGR00169 leuB 3-isopropylmala 34.7 45 0.00097 27.3 3.1 29 51-79 162-190 (349)
266 PF13167 GTP-bdg_N: GTP-bindin 34.5 1.3E+02 0.0029 19.6 7.7 41 117-166 44-84 (95)
267 cd01967 Nitrogenase_MoFe_alpha 34.3 1E+02 0.0022 25.4 5.2 25 116-140 103-128 (406)
268 cd05569 PTS_IIB_fructose PTS_I 34.3 1.1E+02 0.0023 19.8 4.3 45 98-142 21-65 (96)
269 cd06533 Glyco_transf_WecG_TagA 34.2 1.8E+02 0.0038 20.9 7.0 43 118-167 87-129 (171)
270 PF12965 DUF3854: Domain of un 33.9 1.3E+02 0.0029 20.7 4.9 37 41-77 68-110 (130)
271 PF03358 FMN_red: NADPH-depend 33.9 1.6E+02 0.0034 20.2 7.6 29 52-80 14-42 (152)
272 COG0615 TagD Cytidylyltransfer 33.9 1.1E+02 0.0024 21.6 4.5 103 52-172 15-121 (140)
273 PLN02589 caffeoyl-CoA O-methyl 33.8 1.9E+02 0.0041 22.4 6.2 45 98-142 120-168 (247)
274 PF03162 Y_phosphatase2: Tyros 33.7 95 0.0021 22.3 4.4 67 105-172 31-101 (164)
275 COG0151 PurD Phosphoribosylami 33.4 45 0.00097 28.0 2.9 23 117-139 50-72 (428)
276 PF09967 DUF2201: VWA-like dom 33.1 98 0.0021 21.1 4.2 36 44-79 1-41 (126)
277 PRK04527 argininosuccinate syn 33.0 2.8E+02 0.006 23.3 7.4 36 41-80 2-37 (400)
278 PF13433 Peripla_BP_5: Peripla 32.9 2.8E+02 0.0061 22.9 8.7 114 42-168 108-224 (363)
279 cd00952 CHBPH_aldolase Trans-o 32.9 2.5E+02 0.0055 22.3 11.5 84 85-171 58-144 (309)
280 TIGR03127 RuMP_HxlB 6-phospho 32.6 1.1E+02 0.0023 21.9 4.6 38 41-79 72-109 (179)
281 PRK02628 nadE NAD synthetase; 32.6 1.8E+02 0.0039 26.1 6.7 37 41-77 361-400 (679)
282 PRK08335 translation initiatio 32.5 2.5E+02 0.0054 22.2 11.2 63 104-173 158-222 (275)
283 TIGR00347 bioD dethiobiotin sy 32.5 1.4E+02 0.003 20.9 5.1 40 129-170 98-137 (166)
284 PLN02858 fructose-bisphosphate 32.2 1.2E+02 0.0026 29.7 5.9 59 111-170 1119-1177(1378)
285 PRK07709 fructose-bisphosphate 32.1 1.9E+02 0.0041 22.9 6.1 58 111-168 23-83 (285)
286 PRK13398 3-deoxy-7-phosphohept 32.0 2.5E+02 0.0054 22.0 9.9 82 52-140 38-120 (266)
287 PRK11921 metallo-beta-lactamas 31.9 2.9E+02 0.0063 22.7 11.5 79 54-141 231-311 (394)
288 CHL00076 chlB photochlorophyll 31.9 91 0.002 26.9 4.6 53 118-171 73-125 (513)
289 PRK05627 bifunctional riboflav 31.9 2.4E+02 0.0051 22.6 6.7 112 52-171 27-154 (305)
290 cd04731 HisF The cyclase subun 31.7 1.5E+02 0.0032 22.5 5.4 52 119-171 151-202 (243)
291 PHA02546 47 endonuclease subun 31.7 1.6E+02 0.0034 23.8 5.8 20 119-138 28-47 (340)
292 PF01596 Methyltransf_3: O-met 31.6 96 0.0021 23.2 4.2 43 99-141 87-132 (205)
293 COG1440 CelA Phosphotransferas 31.6 1.1E+02 0.0024 20.2 4.0 57 105-173 28-84 (102)
294 PRK01269 tRNA s(4)U8 sulfurtra 31.5 3.3E+02 0.0072 23.3 11.9 37 40-80 176-212 (482)
295 cd07187 YvcK_like family of mo 31.4 1.2E+02 0.0026 24.3 5.0 53 117-173 164-218 (308)
296 cd05014 SIS_Kpsf KpsF-like pro 31.4 1.1E+02 0.0024 20.2 4.3 36 42-78 48-83 (128)
297 PRK13606 LPPG:FO 2-phospho-L-l 31.4 93 0.002 24.9 4.3 47 117-169 174-222 (303)
298 cd01029 TOPRIM_primases TOPRIM 31.4 1.2E+02 0.0026 18.2 4.9 28 42-69 44-71 (79)
299 cd01981 Pchlide_reductase_B Pc 31.4 87 0.0019 26.1 4.4 14 41-54 23-36 (430)
300 TIGR00696 wecB_tagA_cpsF bacte 31.3 2.1E+02 0.0045 20.8 6.3 71 56-139 35-109 (177)
301 cd04795 SIS SIS domain. SIS (S 31.2 1.1E+02 0.0024 18.4 4.0 35 41-76 47-81 (87)
302 TIGR03183 DNA_S_dndC putative 31.1 3.3E+02 0.0073 23.2 9.1 55 42-96 14-73 (447)
303 PRK13964 coaD phosphopantethei 31.1 1.9E+02 0.0041 20.3 7.3 26 121-146 73-98 (140)
304 PRK09762 galactosamine-6-phosp 31.0 2.4E+02 0.0051 21.4 7.0 101 42-145 28-139 (232)
305 TIGR02700 flavo_MJ0208 archaeo 30.7 1.1E+02 0.0023 23.4 4.4 35 43-77 1-37 (234)
306 PF02568 ThiI: Thiamine biosyn 30.5 2.3E+02 0.005 21.1 8.2 36 42-81 4-39 (197)
307 cd01972 Nitrogenase_VnfE_like 30.5 85 0.0018 26.2 4.2 50 119-169 78-127 (426)
308 cd01968 Nitrogenase_NifE_I Nit 30.5 1.3E+02 0.0029 24.8 5.3 25 116-140 102-127 (410)
309 PRK00772 3-isopropylmalate deh 30.5 59 0.0013 26.7 3.1 29 51-79 165-193 (358)
310 PRK11914 diacylglycerol kinase 30.4 2.7E+02 0.0058 21.9 7.6 34 41-74 8-44 (306)
311 PLN02329 3-isopropylmalate deh 30.4 62 0.0014 27.1 3.3 27 52-78 211-237 (409)
312 PRK13011 formyltetrahydrofolat 30.1 2.8E+02 0.0061 21.9 9.6 82 41-139 89-174 (286)
313 PF13727 CoA_binding_3: CoA-bi 29.9 53 0.0012 22.9 2.6 47 118-169 129-175 (175)
314 PF13362 Toprim_3: Toprim doma 29.9 1.5E+02 0.0032 18.7 5.2 38 40-77 40-79 (96)
315 TIGR01198 pgl 6-phosphoglucono 29.9 2.5E+02 0.0054 21.3 11.6 106 42-152 28-148 (233)
316 cd05710 SIS_1 A subgroup of th 29.6 1.5E+02 0.0032 19.7 4.6 36 41-77 47-82 (120)
317 TIGR01283 nifE nitrogenase mol 29.4 1.1E+02 0.0024 25.8 4.7 55 117-172 108-162 (456)
318 cd00019 AP2Ec AP endonuclease 29.4 2.6E+02 0.0057 21.4 8.0 76 54-130 83-166 (279)
319 PF00072 Response_reg: Respons 29.3 1.5E+02 0.0032 18.6 7.6 50 119-172 32-81 (112)
320 cd05006 SIS_GmhA Phosphoheptos 29.2 1.3E+02 0.0028 21.5 4.6 37 41-78 101-137 (177)
321 TIGR02082 metH 5-methyltetrahy 29.2 5.3E+02 0.012 25.1 9.3 71 95-170 749-821 (1178)
322 COG0163 UbiX 3-polyprenyl-4-hy 29.1 1.7E+02 0.0037 21.7 4.9 36 41-77 2-37 (191)
323 PF02729 OTCace_N: Aspartate/o 29.0 76 0.0016 22.2 3.1 40 116-166 81-120 (142)
324 cd05017 SIS_PGI_PMI_1 The memb 28.8 1.2E+02 0.0027 20.0 4.1 34 42-76 44-77 (119)
325 TIGR02260 benz_CoA_red_B benzo 28.8 1.7E+02 0.0037 24.5 5.7 56 118-174 338-393 (413)
326 cd00840 MPP_Mre11_N Mre11 nucl 28.6 1.8E+02 0.0038 21.2 5.3 18 120-137 31-48 (223)
327 COG0473 LeuB Isocitrate/isopro 28.6 64 0.0014 26.3 3.0 30 50-79 154-184 (348)
328 KOG2310 DNA repair exonuclease 28.6 54 0.0012 28.6 2.6 23 117-139 39-61 (646)
329 COG3640 CooC CO dehydrogenase 28.5 1.2E+02 0.0027 23.5 4.3 37 39-75 154-191 (255)
330 PRK02090 phosphoadenosine phos 28.4 2.4E+02 0.0051 21.5 6.0 34 42-79 41-74 (241)
331 PRK01060 endonuclease IV; Prov 28.3 2.8E+02 0.006 21.3 8.4 77 53-132 86-171 (281)
332 COG2379 GckA Putative glycerat 28.2 1.4E+02 0.003 24.9 4.8 57 116-173 257-318 (422)
333 PRK00766 hypothetical protein; 28.2 2.4E+02 0.0051 21.1 5.7 57 107-168 43-104 (194)
334 PF06574 FAD_syn: FAD syntheta 28.1 1.4E+02 0.0031 21.1 4.5 122 42-171 5-146 (157)
335 TIGR00364 exsB protein. This p 28.0 2.4E+02 0.0052 20.6 10.1 23 120-142 101-123 (201)
336 COG1058 CinA Predicted nucleot 28.0 2.2E+02 0.0048 22.2 5.7 40 97-137 25-67 (255)
337 smart00493 TOPRIM topoisomeras 27.9 1.1E+02 0.0023 18.2 3.4 9 44-52 50-58 (76)
338 cd00458 SugarP_isomerase Sugar 27.8 2.3E+02 0.005 20.2 7.7 38 42-79 20-58 (169)
339 COG0608 RecJ Single-stranded D 27.8 3.9E+02 0.0084 22.8 9.5 87 41-139 36-122 (491)
340 PRK13936 phosphoheptose isomer 27.6 1.4E+02 0.0031 21.9 4.6 37 41-78 111-147 (197)
341 TIGR03297 Ppyr-DeCO2ase phosph 27.5 77 0.0017 26.0 3.3 63 107-170 52-123 (361)
342 PRK10966 exonuclease subunit S 27.1 2.1E+02 0.0045 23.9 5.9 13 154-167 94-106 (407)
343 cd07388 MPP_Tt1561 Thermus the 27.0 2.1E+02 0.0045 21.8 5.4 21 118-138 19-39 (224)
344 PRK14478 nitrogenase molybdenu 27.0 1.3E+02 0.0028 25.7 4.7 54 117-171 106-159 (475)
345 PF01380 SIS: SIS domain SIS d 27.0 1.9E+02 0.004 19.0 4.8 36 41-77 53-88 (131)
346 PRK13602 putative ribosomal pr 26.7 1.3E+02 0.0028 18.8 3.6 19 119-137 42-60 (82)
347 COG1504 Uncharacterized conser 26.7 1.7E+02 0.0036 19.9 4.1 39 129-171 60-98 (121)
348 PF11965 DUF3479: Domain of un 26.5 2.5E+02 0.0055 20.3 8.1 88 44-139 3-94 (164)
349 PRK08299 isocitrate dehydrogen 26.4 60 0.0013 27.1 2.5 28 50-77 183-210 (402)
350 TIGR02370 pyl_corrinoid methyl 26.3 2.7E+02 0.0058 20.5 6.3 60 97-159 103-162 (197)
351 PRK06247 pyruvate kinase; Prov 26.2 2.2E+02 0.0047 24.5 5.8 46 118-172 357-402 (476)
352 PLN02476 O-methyltransferase 26.2 2.2E+02 0.0048 22.5 5.5 44 98-141 159-205 (278)
353 TIGR00441 gmhA phosphoheptose 26.2 1.7E+02 0.0037 20.5 4.6 35 42-77 80-114 (154)
354 PRK14561 hypothetical protein; 26.0 2.7E+02 0.0058 20.4 9.8 32 43-79 2-33 (194)
355 PRK10886 DnaA initiator-associ 25.9 1.7E+02 0.0036 21.8 4.6 38 41-79 109-146 (196)
356 COG5214 POL12 DNA polymerase a 25.8 1.1E+02 0.0024 25.8 3.9 64 116-181 322-403 (581)
357 PTZ00300 pyruvate kinase; Prov 25.3 2E+02 0.0044 24.5 5.5 45 118-171 336-380 (454)
358 PF07279 DUF1442: Protein of u 25.2 3.1E+02 0.0067 20.9 8.3 51 115-173 102-152 (218)
359 PLN02285 methionyl-tRNA formyl 25.1 3.4E+02 0.0074 21.9 6.6 97 42-141 7-104 (334)
360 COG4122 Predicted O-methyltran 25.1 2.9E+02 0.0064 21.0 5.9 43 98-141 100-143 (219)
361 cd01979 Pchlide_reductase_N Pc 24.9 1.1E+02 0.0024 25.3 3.9 49 92-140 73-128 (396)
362 TIGR01918 various_sel_PB selen 24.9 1.1E+02 0.0024 25.8 3.7 50 119-169 65-114 (431)
363 TIGR03679 arCOG00187 arCOG0018 24.9 3E+02 0.0066 20.6 6.3 87 46-141 2-97 (218)
364 TIGR01917 gly_red_sel_B glycin 24.7 1.1E+02 0.0024 25.8 3.7 51 119-170 65-115 (431)
365 PRK08091 ribulose-phosphate 3- 24.5 3.2E+02 0.007 20.9 8.0 89 54-157 77-167 (228)
366 PRK08417 dihydroorotase; Provi 24.5 62 0.0013 26.6 2.3 26 54-79 180-205 (386)
367 PF09954 DUF2188: Uncharacteri 24.3 1.2E+02 0.0025 17.7 3.0 23 52-74 26-49 (62)
368 COG0358 DnaG DNA primase (bact 24.1 2.3E+02 0.0049 24.8 5.8 32 39-70 288-319 (568)
369 PF13580 SIS_2: SIS domain; PD 24.1 1.8E+02 0.0039 19.9 4.3 34 41-75 103-136 (138)
370 COG2129 Predicted phosphoester 24.1 2E+02 0.0043 22.1 4.7 55 117-176 17-78 (226)
371 TIGR03572 WbuZ glycosyl amidat 23.9 2.2E+02 0.0048 21.3 5.1 51 120-171 156-206 (232)
372 TIGR00127 nadp_idh_euk isocitr 23.8 79 0.0017 26.5 2.7 29 50-78 184-212 (409)
373 PLN02461 Probable pyruvate kin 23.8 2.2E+02 0.0048 24.7 5.5 43 118-169 383-425 (511)
374 PF03746 LamB_YcsF: LamB/YcsF 23.8 3.5E+02 0.0076 21.0 10.3 113 42-166 28-160 (242)
375 KOG0784 Isocitrate dehydrogena 23.5 93 0.002 25.4 3.0 28 52-79 184-212 (375)
376 PLN02417 dihydrodipicolinate s 23.5 3.6E+02 0.0078 21.0 8.2 85 54-140 20-106 (280)
377 COG0707 MurG UDP-N-acetylgluco 23.5 4.2E+02 0.009 21.7 10.9 101 42-173 183-283 (357)
378 PRK03437 3-isopropylmalate deh 23.4 90 0.002 25.5 3.0 29 51-79 159-188 (344)
379 PRK11889 flhF flagellar biosyn 23.4 4.6E+02 0.01 22.3 9.2 115 44-170 245-360 (436)
380 KOG2584 Dihydroorotase and rel 23.4 95 0.0021 26.3 3.1 29 54-82 231-259 (522)
381 cd05005 SIS_PHI Hexulose-6-pho 23.4 1.8E+02 0.0039 20.8 4.4 37 41-78 75-111 (179)
382 TIGR00829 FRU PTS system, fruc 23.2 2E+02 0.0044 18.1 4.1 43 99-141 21-63 (85)
383 PF00180 Iso_dh: Isocitrate/is 23.1 1E+02 0.0023 25.1 3.3 80 51-138 159-239 (348)
384 PRK09423 gldA glycerol dehydro 23.0 4.2E+02 0.009 21.6 10.9 10 42-51 30-39 (366)
385 PF02952 Fucose_iso_C: L-fucos 22.9 1.5E+02 0.0033 20.3 3.8 31 106-136 111-141 (142)
386 TIGR02873 spore_ylxY probable 22.9 3.7E+02 0.0081 21.0 12.0 130 41-172 84-240 (268)
387 PF09370 TIM-br_sig_trns: TIM- 22.9 1.8E+02 0.004 22.9 4.4 50 118-167 23-86 (268)
388 cd01965 Nitrogenase_MoFe_beta_ 22.8 2.3E+02 0.005 23.6 5.4 25 116-140 97-126 (428)
389 COG2876 AroA 3-deoxy-D-arabino 22.6 1.8E+02 0.0039 23.0 4.3 92 44-141 47-139 (286)
390 COG1251 NirB NAD(P)H-nitrite r 22.5 3.1E+02 0.0067 25.1 6.2 69 67-143 166-244 (793)
391 COG1103 Archaea-specific pyrid 22.4 4.1E+02 0.009 21.3 6.7 55 116-171 170-234 (382)
392 PF01990 ATP-synt_F: ATP synth 22.4 1.2E+02 0.0026 19.3 3.0 61 102-168 13-74 (95)
393 cd04732 HisA HisA. Phosphorib 22.4 2.5E+02 0.0053 21.0 5.1 50 119-169 148-197 (234)
394 COG0794 GutQ Predicted sugar p 22.3 2.5E+02 0.0055 21.1 4.9 41 40-81 85-125 (202)
395 PRK04527 argininosuccinate syn 22.2 4.7E+02 0.01 21.9 7.6 91 41-141 27-120 (400)
396 cd07186 CofD_like LPPG:FO 2-ph 22.2 2.2E+02 0.0047 22.9 4.8 50 117-170 172-223 (303)
397 cd00316 Oxidoreductase_nitroge 22.1 1.7E+02 0.0038 23.8 4.5 12 129-140 110-121 (399)
398 PF03373 Octapeptide: Octapept 22.1 32 0.0007 11.8 0.1 7 3-9 1-7 (8)
399 PLN02762 pyruvate kinase compl 22.1 2.8E+02 0.006 24.1 5.7 46 118-172 397-442 (509)
400 TIGR01279 DPOR_bchN light-inde 22.0 1.3E+02 0.0028 25.0 3.7 26 116-141 100-126 (407)
401 PRK03692 putative UDP-N-acetyl 22.0 3.8E+02 0.0081 20.7 8.7 42 119-167 146-187 (243)
402 TIGR02855 spore_yabG sporulati 21.8 4.1E+02 0.0089 21.1 6.3 47 93-140 116-163 (283)
403 TIGR00177 molyb_syn molybdenum 21.8 2.8E+02 0.0061 19.1 5.9 18 62-79 33-50 (144)
404 PRK00090 bioD dithiobiotin syn 21.8 2.9E+02 0.0062 20.4 5.3 13 155-168 127-139 (222)
405 PTZ00435 isocitrate dehydrogen 21.7 86 0.0019 26.3 2.6 29 49-77 185-213 (413)
406 PRK02122 glucosamine-6-phospha 21.7 6E+02 0.013 22.9 8.1 108 42-152 59-180 (652)
407 PF01993 MTD: methylene-5,6,7, 21.6 1.6E+02 0.0034 22.9 3.8 46 120-170 49-94 (276)
408 TIGR01064 pyruv_kin pyruvate k 21.6 2.7E+02 0.0059 23.8 5.6 47 117-172 360-406 (473)
409 PF00107 ADH_zinc_N: Zinc-bind 21.6 1.6E+02 0.0035 19.3 3.6 17 60-76 5-21 (130)
410 cd01422 MGS Methylglyoxal synt 21.6 2.6E+02 0.0056 18.6 6.4 58 105-166 44-105 (115)
411 TIGR00824 EIIA-man PTS system, 21.6 2.6E+02 0.0056 18.6 10.2 90 42-137 2-91 (116)
412 PF05582 Peptidase_U57: YabG p 21.5 4.2E+02 0.0092 21.1 6.7 47 93-140 117-164 (287)
413 TIGR02924 ICDH_alpha isocitrat 21.4 1E+02 0.0022 26.4 3.0 29 50-78 143-172 (473)
414 PLN02765 pyruvate kinase 21.4 2.6E+02 0.0055 24.4 5.4 43 118-169 396-438 (526)
415 PRK06683 hypothetical protein; 21.4 1.9E+02 0.0041 18.1 3.6 20 121-140 18-37 (82)
416 KOG1503 Phosphoribosylpyrophos 21.3 2.4E+02 0.0052 22.0 4.7 38 40-77 245-283 (354)
417 PF06050 HGD-D: 2-hydroxygluta 21.2 1E+02 0.0022 24.5 3.0 55 116-172 272-327 (349)
418 TIGR01862 N2-ase-Ialpha nitrog 21.0 1.9E+02 0.0042 24.3 4.6 26 116-141 134-160 (443)
419 KOG1552 Predicted alpha/beta h 21.0 2.1E+02 0.0045 22.4 4.4 65 108-173 128-203 (258)
420 PLN02781 Probable caffeoyl-CoA 21.0 3.3E+02 0.0072 20.6 5.6 41 99-139 110-153 (234)
421 COG1597 LCB5 Sphingosine kinas 20.9 4.3E+02 0.0094 20.9 6.6 36 102-137 29-65 (301)
422 COG2100 Predicted Fe-S oxidore 20.9 4.8E+02 0.01 21.5 6.9 120 42-169 120-262 (414)
423 PLN00118 isocitrate dehydrogen 20.7 1.1E+02 0.0023 25.4 2.9 30 50-79 182-212 (372)
424 PLN02360 probable 6-phosphoglu 20.7 4.1E+02 0.0089 20.6 11.1 107 42-152 42-172 (268)
425 PRK06354 pyruvate kinase; Prov 20.6 2.9E+02 0.0062 24.5 5.6 46 118-172 365-410 (590)
426 PF10649 DUF2478: Protein of u 20.5 1.8E+02 0.004 20.9 3.8 45 121-168 84-129 (159)
427 TIGR00175 mito_nad_idh isocitr 20.4 1.1E+02 0.0024 24.8 2.9 29 51-79 144-173 (333)
428 PRK04148 hypothetical protein; 20.4 3E+02 0.0065 19.1 4.7 39 107-145 78-117 (134)
429 cd07402 MPP_GpdQ Enterobacter 20.3 2.6E+02 0.0057 20.7 4.9 18 155-173 64-81 (240)
430 PRK09222 isocitrate dehydrogen 20.2 1.1E+02 0.0024 26.2 3.0 27 52-78 149-176 (482)
431 PF02571 CbiJ: Precorrin-6x re 20.2 2.3E+02 0.0049 21.9 4.5 53 114-173 177-230 (249)
No 1
>PRK15005 universal stress protein F; Provisional
Probab=99.93 E-value=1e-24 Score=154.45 Aligned_cols=127 Identities=17% Similarity=0.276 Sum_probs=100.5
Q ss_pred CCCeEEEEEcCChh--hHHHHHHHHHHhccCCCEEEEEEEecCCchh---------------hHHHHHHHHHHHHHHHHh
Q 030208 40 RGRDILIAVDHGPN--SKHAFDWALIHLCRLADTIHLVHAVSSVQNQ---------------IVYDMSQGLMEKLAIEAM 102 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~--s~~a~~~a~~la~~~~a~l~llhV~~~~~~~---------------~~~~~~~~~l~~~~~~~~ 102 (181)
|+++||+|+|+|+. +..++++|.++|+..+++++++||++..... ...+..++.++++.+. .
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~ 79 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKK-F 79 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHH-h
Confidence 57999999999987 5799999999999999999999998743210 0011222333332222 2
Q ss_pred hhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 103 DVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 103 ~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
...+..++..+..|++.+.|++++++.++||||||++ ++++.+.++||++++|+++++ ||||+||
T Consensus 80 ~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~-~~~~~~~llGS~a~~vl~~a~-cpVlvVr 144 (144)
T PRK15005 80 KLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH-RPDITTYLLGSNAAAVVRHAE-CSVLVVR 144 (144)
T ss_pred CCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC-CCCchheeecchHHHHHHhCC-CCEEEeC
Confidence 2334567788889999999999999999999999998 467888899999999999999 9999996
No 2
>PRK15456 universal stress protein UspG; Provisional
Probab=99.93 E-value=2.5e-24 Score=152.36 Aligned_cols=126 Identities=24% Similarity=0.287 Sum_probs=99.1
Q ss_pred CCCeEEEEEcCC--hhhHHHHHHHHHHhccCCCEEEEEEEecCCchh------h----HH----HHHHHHHHHHHHHHhh
Q 030208 40 RGRDILIAVDHG--PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ------I----VY----DMSQGLMEKLAIEAMD 103 (181)
Q Consensus 40 ~~~~Ilv~vd~s--~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~------~----~~----~~~~~~l~~~~~~~~~ 103 (181)
|+++||+|+|+| +.+..++++|..+|+.. ++++++||.+..... . .. +..++.++++.+. +.
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~ 78 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSH-FT 78 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHH-hC
Confidence 579999999999 48999999999999874 699999998753210 0 11 1122223332221 22
Q ss_pred hcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 104 VAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 104 ~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
..+.+++..+..|++.+.|++++++.++||||||+++++ +.++++||++++++++++ |||||||
T Consensus 79 ~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~-~pVLvV~ 142 (142)
T PRK15456 79 IDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHAN-LPVLVVR 142 (142)
T ss_pred CCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCC-CCEEEeC
Confidence 245677888889999999999999999999999999976 778899999999999999 9999996
No 3
>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=99.92 E-value=1.5e-23 Score=145.86 Aligned_cols=129 Identities=30% Similarity=0.383 Sum_probs=103.3
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHH----HHHHH-------HHHhhhcCce
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGL----MEKLA-------IEAMDVAMVR 108 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~----l~~~~-------~~~~~~~~i~ 108 (181)
|+++||||+|+++.+..++++|..+|+..+++++++||.+.............. ..... ..........
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSFSAAEDEESEEEAEEEEQARQAEAEEAEAEGGIV 80 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSE
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccccccccccccccccchhhhhhhHHHHHHhhhccce
Confidence 579999999999999999999999999999999999999876433221110000 00000 1122234456
Q ss_pred EEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 109 TKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 109 ~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
....+..|++.++|++++++.++|+||||+++++.+.++++||++++++++++ |||+|||
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv~ 140 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAP-CPVLVVP 140 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTS-SEEEEEE
T ss_pred eEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCC-CCEEEeC
Confidence 67777889999999999999999999999999999999999999999999999 9999997
No 4
>PRK09982 universal stress protein UspD; Provisional
Probab=99.92 E-value=1.2e-23 Score=149.06 Aligned_cols=129 Identities=14% Similarity=0.173 Sum_probs=98.3
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh---h-------HHHHHHHHHHHHHHHHhhh-cCce
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ---I-------VYDMSQGLMEKLAIEAMDV-AMVR 108 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~---~-------~~~~~~~~l~~~~~~~~~~-~~i~ 108 (181)
|+++||||+|+|+.|..|+++|..+|+..+++++++||.+..... . ..+..++..++.++...+. ....
T Consensus 2 ~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 81 (142)
T PRK09982 2 AYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPK 81 (142)
T ss_pred CceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 689999999999999999999999999999999999998743210 0 0111111111122222211 1234
Q ss_pred EEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 109 TKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 109 ~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
++..+..|++.+.|+++|++.++||||||++ ++++.+++ | ++++++++++ ||||+||...
T Consensus 82 ~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~-~pVLvv~~~~ 141 (142)
T PRK09982 82 TKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMS-ADLLIVPFID 141 (142)
T ss_pred ceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCC-CCEEEecCCC
Confidence 6677788999999999999999999999986 78888776 5 9999999999 9999998653
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.91 E-value=2.9e-23 Score=147.14 Aligned_cols=130 Identities=18% Similarity=0.163 Sum_probs=96.8
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh-h---------HHHHHHHHHHHHHHHHhhhcCceE
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ-I---------VYDMSQGLMEKLAIEAMDVAMVRT 109 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~-~---------~~~~~~~~l~~~~~~~~~~~~i~~ 109 (181)
++++||||+|+|+.+..|+++|..+|+..+++++++||....... . ..+...+..++.+++.....++..
T Consensus 2 ~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 81 (144)
T PRK15118 2 AYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDLYTGLIDVNLGDMQKRISEETHHALTELSTNAGYPI 81 (144)
T ss_pred CceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHhCCCCc
Confidence 579999999999999999999999999999999999994321110 0 011111222222333334445554
Q ss_pred -EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 110 -KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 110 -~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
...+..|++.+.|+++|++.++||||||+++ +.+. . +||++++++++++ ||||+||....
T Consensus 82 ~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~-~pVLvv~~~~~ 142 (144)
T PRK15118 82 TETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVH-VDMLIVPLRDE 142 (144)
T ss_pred eEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCC-CCEEEecCCcC
Confidence 3455679999999999999999999999996 3444 3 5799999999999 99999997543
No 6
>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=99.90 E-value=1.5e-22 Score=143.69 Aligned_cols=127 Identities=22% Similarity=0.275 Sum_probs=101.2
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhh-----------H----HHHHHHHHHHHHHHHhhhcCc
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQI-----------V----YDMSQGLMEKLAIEAMDVAMV 107 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~-----------~----~~~~~~~l~~~~~~~~~~~~i 107 (181)
+||||+|+|+.+..|++||.++++..+++++++||.+...... . .+..++.++++. +.+...++
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~ 79 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYR-CFCSRKGV 79 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHH-HHHhhcCC
Confidence 4899999999999999999999999999999999987532110 0 112222233322 22334567
Q ss_pred eEEEEEecC-ChHHHHHHHHHHhCCCEEEEeccCCCcccccccC-chhhHHHhcCCC-ccEEEEcC
Q 030208 108 RTKARIVEG-DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQG-SVGEYCLHHCKT-APIIVVPG 170 (181)
Q Consensus 108 ~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g-s~~~~ll~~~~~-~pVlvv~~ 170 (181)
..+..+..| ++.+.|+++|++.++|+||||+++++++.++++| |++.++++++++ ||||||+.
T Consensus 80 ~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 80 QCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred eEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeC
Confidence 888878776 8999999999999999999999999999998887 699999999975 99999986
No 7
>PRK10116 universal stress protein UspC; Provisional
Probab=99.90 E-value=1.4e-22 Score=143.13 Aligned_cols=130 Identities=16% Similarity=0.173 Sum_probs=101.2
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh---------hHHHHHHHHHHHHHHHHhhhcCceE-
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ---------IVYDMSQGLMEKLAIEAMDVAMVRT- 109 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~---------~~~~~~~~~l~~~~~~~~~~~~i~~- 109 (181)
++++|||++|++..+..++++|..+|+.++++++++|+++..... ...+...+..++++++.....++..
T Consensus 2 ~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 81 (142)
T PRK10116 2 SYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQDADYPIE 81 (142)
T ss_pred CCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeE
Confidence 579999999999999999999999999999999999998653211 0011222222233333334445543
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
...+..|++.+.|++++++.++||||||+++++++.+++ |++++++++++ |||||||...
T Consensus 82 ~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~-~pVLvv~~~~ 141 (142)
T PRK10116 82 KTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSE-VDVLLVPLTG 141 (142)
T ss_pred EEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCC-CCEEEEeCCC
Confidence 356678999999999999999999999999998888763 78999999999 9999999764
No 8
>PRK11175 universal stress protein UspE; Provisional
Probab=99.90 E-value=2.1e-22 Score=159.10 Aligned_cols=151 Identities=21% Similarity=0.256 Sum_probs=114.1
Q ss_pred hhhhhcCCCCCCcccCCcchhhhcCCCCCCCeEEEEEcCChhh-------HHHHHHHHHHhccC-CCEEEEEEEecCCch
Q 030208 12 SWREVNLPALSPTAAAEPELERETGERRRGRDILIAVDHGPNS-------KHAFDWALIHLCRL-ADTIHLVHAVSSVQN 83 (181)
Q Consensus 12 ~~r~~~~P~l~~~~~~~~~~~~~~~~~~~~~~Ilv~vd~s~~s-------~~a~~~a~~la~~~-~a~l~llhV~~~~~~ 83 (181)
..|...||+|+.+.... ..+++||+|+|+++.+ ..++++|..+|+.. +++++++||.+....
T Consensus 133 l~~~~~~pvlvv~~~~~----------~~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~ 202 (305)
T PRK11175 133 LLRKCPCPVLMVKDQDW----------PEGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPI 202 (305)
T ss_pred HHhcCCCCEEEeccccc----------CCCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcch
Confidence 34889999999986321 2368999999998653 68999999999998 999999999764321
Q ss_pred h-----------hHHHHHHHHHHHHHHHHhhhcCceE-EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCc
Q 030208 84 Q-----------IVYDMSQGLMEKLAIEAMDVAMVRT-KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGS 151 (181)
Q Consensus 84 ~-----------~~~~~~~~~l~~~~~~~~~~~~i~~-~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs 151 (181)
. ...+..++...+..++..+..++.. ...+..|++.+.|.+++++.++||||||+++++++.++++||
T Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS 282 (305)
T PRK11175 203 NIAIELPEFDPSVYNDAIRGQHLLAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGN 282 (305)
T ss_pred hccccccccchhhHHHHHHHHHHHHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecc
Confidence 1 1111111122222333333334443 355678999999999999999999999999999999999999
Q ss_pred hhhHHHhcCCCccEEEEcCCCC
Q 030208 152 VGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 152 ~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
++++|+++++ ||||+||+.++
T Consensus 283 ~a~~v~~~~~-~pVLvv~~~~~ 303 (305)
T PRK11175 283 TAEHVIDHLN-CDLLAIKPDGY 303 (305)
T ss_pred hHHHHHhcCC-CCEEEEcCCCC
Confidence 9999999999 99999987554
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=99.89 E-value=1.1e-21 Score=136.43 Aligned_cols=125 Identities=17% Similarity=0.200 Sum_probs=102.7
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh------hHHHHHHHHHHHHHHHHhhhcCceEEEEEe-c
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ------IVYDMSQGLMEKLAIEAMDVAMVRTKARIV-E 115 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~-~ 115 (181)
+||||+|+++++..++++|.++|+..+++++++|+.+..... ...+..++.++. ..+.....+++++..+. .
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~ 79 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQ-AERIAASLGVPVHTIIRID 79 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHH-HHHHhhhcCCceEEEEEec
Confidence 599999999999999999999999999999999998854321 112233334444 33444445677776665 4
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
|++.+.|.+++++.++|+||||+++++.+.++++||++.+++++++ |||++++
T Consensus 80 ~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~-~pvlvv~ 132 (132)
T cd01988 80 HDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAP-CDVAVVK 132 (132)
T ss_pred CCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCC-CCEEEeC
Confidence 7999999999999999999999999999988999999999999999 9999986
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=99.88 E-value=1.6e-21 Score=134.77 Aligned_cols=123 Identities=17% Similarity=0.225 Sum_probs=100.4
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHH
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVI 122 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I 122 (181)
+||||+|+++.+.+++++|..+++.++++++++||.+..... ..+..++.++.+. +..++.++... .+..|++.+.|
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~-~~~~~~~~l~~~~-~~~~~~~~~~~-~~~~~~~~~~I 77 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNR-LSEAERRRLAEAL-RLAEELGAEVV-TLPGDDVAEAI 77 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCcccc-CCHHHHHHHHHHH-HHHHHcCCEEE-EEeCCcHHHHH
Confidence 599999999999999999999999999999999998754321 2233444555544 33334444433 33456999999
Q ss_pred HHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcC-CCccEEEEc
Q 030208 123 CKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHC-KTAPIIVVP 169 (181)
Q Consensus 123 ~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~-~~~pVlvv~ 169 (181)
.+++++.++|+||||+++++.+.++++||+++++++++ + |||+|++
T Consensus 78 ~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~-~~v~v~~ 124 (124)
T cd01987 78 VEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGN-IDVHIVA 124 (124)
T ss_pred HHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCC-CeEEEeC
Confidence 99999999999999999999999999999999999999 8 9999985
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.86 E-value=7e-21 Score=150.42 Aligned_cols=132 Identities=15% Similarity=0.159 Sum_probs=104.5
Q ss_pred CCCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh-------hHH--------HHHHHHHHHHHHHHhh
Q 030208 39 RRGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ-------IVY--------DMSQGLMEKLAIEAMD 103 (181)
Q Consensus 39 ~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~-------~~~--------~~~~~~l~~~~~~~~~ 103 (181)
+++++||||+|+++.+..|+++|.++|+..+++++++|+++..... ... +..++.+++... ...
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~ 79 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAK-PYL 79 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHH-HHh
Confidence 3689999999999999999999999999999999999987542110 000 111222333222 223
Q ss_pred hcCceEEEEEe-cCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 104 VAMVRTKARIV-EGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 104 ~~~i~~~~~~~-~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
..++.++..+. .|++.+.|++++++.++||||||+++++++.+.++||++++|+++++ ||||+||...
T Consensus 80 ~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~-~pvlvv~~~~ 148 (305)
T PRK11175 80 DAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCP-CPVLMVKDQD 148 (305)
T ss_pred hcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCC-CCEEEecccc
Confidence 34677777665 58999999999999999999999999999999999999999999999 9999999753
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=99.83 E-value=4e-19 Score=122.22 Aligned_cols=124 Identities=35% Similarity=0.546 Sum_probs=104.2
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh------hHHHHHHHHHHHHHHHHhhhcCceEEEEEecC
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ------IVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG 116 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g 116 (181)
+||||+|+++.+..++++|..+|+..+++++++|+.+..... ......++.++++... ....++.++..+..|
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~ 79 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSAAELAELLEEEARALLEALREA-LAEAGVKVETVVLEG 79 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHH-HhcCCCceEEEEecC
Confidence 589999999999999999999999999999999998765332 2234445555554433 234567788888889
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEE
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv 168 (181)
++.++|.+++++.++|+||||+++++.+.++++|+++++++++++ |||+++
T Consensus 80 ~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~-~pvliv 130 (130)
T cd00293 80 DPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAP-CPVLVV 130 (130)
T ss_pred CCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCC-CCEEeC
Confidence 889999999999999999999999999988999999999999999 999985
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.77 E-value=3.1e-17 Score=116.36 Aligned_cols=131 Identities=28% Similarity=0.409 Sum_probs=106.3
Q ss_pred CCCCeEEEEEc-CChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhh-----------------HHHHHHHHHHHHHHH
Q 030208 39 RRGRDILIAVD-HGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQI-----------------VYDMSQGLMEKLAIE 100 (181)
Q Consensus 39 ~~~~~Ilv~vd-~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~-----------------~~~~~~~~l~~~~~~ 100 (181)
.++++|++++| +++.+..+++.+..++...++.+++++|.+...... ......+.++. ..+
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 81 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAE-AKA 81 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHH-HHH
Confidence 45799999999 999999999999999999999999999986542110 01222333333 233
Q ss_pred HhhhcCce-EEEEEecCCh-HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 101 AMDVAMVR-TKARIVEGDA-AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 101 ~~~~~~i~-~~~~~~~g~~-~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
.....++. .+..+..|++ .+.|++++++.++|+||||+++++++.++++||++++++++++ |||++++..
T Consensus 82 ~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~-~pVlvv~~~ 153 (154)
T COG0589 82 LAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAP-CPVLVVRSE 153 (154)
T ss_pred HHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCC-CCEEEEccC
Confidence 44444556 4778888988 7999999999999999999999999999999999999999999 999999875
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.61 E-value=3.2e-14 Score=114.16 Aligned_cols=128 Identities=18% Similarity=0.164 Sum_probs=89.2
Q ss_pred CCCCCeEEEEEcCChhhHHHHHHHHHHhccC--CCEEEEEEEecCCchh----hHHHHHHHHHHHHHHHHhh-----hcC
Q 030208 38 RRRGRDILIAVDHGPNSKHAFDWALIHLCRL--ADTIHLVHAVSSVQNQ----IVYDMSQGLMEKLAIEAMD-----VAM 106 (181)
Q Consensus 38 ~~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~--~a~l~llhV~~~~~~~----~~~~~~~~~l~~~~~~~~~-----~~~ 106 (181)
+.++++||||+|+|+.|.+|+++|+++|+.. +++++++||.+..... ......++.+++..+...+ ..+
T Consensus 2 ~~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~~~~~~~~~eelle~~~~~~~~~l~~~~~g 81 (357)
T PRK12652 2 MMAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDPEGQDELAAAEELLERVEVWATEDLGDDASS 81 (357)
T ss_pred CcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCcccccchhHHHHHHHHHHHHHHHHHHHhhhcccCC
Confidence 3578999999999999999999999999984 6999999998753211 1123333344443332222 147
Q ss_pred ceEEEEEec--------CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEE
Q 030208 107 VRTKARIVE--------GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIV 167 (181)
Q Consensus 107 i~~~~~~~~--------g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlv 167 (181)
++++..+.. |++.+.|+++|+++++||||||..-..+-..-++-+. +.-+.++. +.+=.
T Consensus 82 V~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~ 148 (357)
T PRK12652 82 VTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPL-ERELARAG-ITYEE 148 (357)
T ss_pred CceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchH-HHHHHhcC-Cceec
Confidence 888877765 8999999999999999999999876554433334444 33344444 44433
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.51 E-value=6.5e-13 Score=118.54 Aligned_cols=131 Identities=12% Similarity=0.089 Sum_probs=101.4
Q ss_pred CCCCCCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec
Q 030208 36 GERRRGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE 115 (181)
Q Consensus 36 ~~~~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~ 115 (181)
+.|....+||||+++++++..++++|.++|.+.+++++++||..........+..+. +.+.. ...+..|.+ +....
T Consensus 245 ~~~~~~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~~~~~~~~~-l~~~~-~lA~~lGa~--~~~~~ 320 (895)
T PRK10490 245 KVWHTRDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHRLPEKKRRA-ILSAL-RLAQELGAE--TATLS 320 (895)
T ss_pred CCCCcCCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCcCCHHHHHH-HHHHH-HHHHHcCCE--EEEEe
Confidence 445566899999999999999999999999999999999999765432222222222 22222 233443444 33344
Q ss_pred -CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 116 -GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 116 -g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
+++.+.|++||+.++++.||||.++++.+ ++.||+++++++.++++.|.||+...
T Consensus 321 ~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~~ 376 (895)
T PRK10490 321 DPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALDE 376 (895)
T ss_pred CCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCCc
Confidence 49999999999999999999999998876 56789999999999999999997543
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.41 E-value=5.5e-12 Score=108.14 Aligned_cols=162 Identities=15% Similarity=0.184 Sum_probs=117.8
Q ss_pred hhhhhhhhhcCCCCCCcccCCcch----hhhcCCCCCCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCch
Q 030208 8 EEVYSWREVNLPALSPTAAAEPEL----ERETGERRRGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQN 83 (181)
Q Consensus 8 ~~~~~~r~~~~P~l~~~~~~~~~~----~~~~~~~~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~ 83 (181)
+|....|++.+...-..+..+... +...+.|..-.+||||+++++++...+++|.++|.+.+++++++||......
T Consensus 211 ~NL~aLRElALRr~AdrVd~~~~~~~~~~~~~~~~~~~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~ 290 (890)
T COG2205 211 GNLTALRELALRRTADRVDDQLRAYRRHKGIEGVWAARERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELH 290 (890)
T ss_pred ccHHHHHHHHHHHHHHHHhHHHHHHhhcccccccccccceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEeccccc
Confidence 345555666555443333222111 1112356667899999999999999999999999999999999999665432
Q ss_pred hhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCC
Q 030208 84 QIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE-GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKT 162 (181)
Q Consensus 84 ~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~ 162 (181)
. ..+.....+.+.. +..+. +..++.... +++.++|.+||+.+++.-||+|.+.++.|..++.|+.++++++..++
T Consensus 291 ~-~~~~~~~~l~~~~-~Lae~--lGae~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~ 366 (890)
T COG2205 291 R-LSEKEARRLHENL-RLAEE--LGAEIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPG 366 (890)
T ss_pred c-ccHHHHHHHHHHH-HHHHH--hCCeEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCC
Confidence 2 2233344444433 23333 233444444 59999999999999999999999999999999999999999999999
Q ss_pred ccEEEEcCCCC
Q 030208 163 APIIVVPGKGT 173 (181)
Q Consensus 163 ~pVlvv~~~~~ 173 (181)
+.|.+|+....
T Consensus 367 idv~ii~~~~~ 377 (890)
T COG2205 367 IDVHIVALDAP 377 (890)
T ss_pred ceEEEeeCCCC
Confidence 99999986554
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=98.69 E-value=1.1e-07 Score=61.25 Aligned_cols=84 Identities=13% Similarity=0.158 Sum_probs=73.6
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVIC 123 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~ 123 (181)
|+++++++..|..++.++.+.+ ..+.+++++|+. ...+.+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------~~~~~~~ 41 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------AFVRILK 41 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH--------------------------------------HHHHHHH
Confidence 6899999999999999999987 557788888885 5667788
Q ss_pred HHHHHhCCCEEEEeccCCCcccccccC-chhhHHHhcCCCccEEE
Q 030208 124 KEAERLKPAAVVIGSRGRGLIQSVLQG-SVGEYCLHHCKTAPIIV 167 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~~~~~~~~~g-s~~~~ll~~~~~~pVlv 167 (181)
+++++.++|+|++|++.....+..+.| +++.++++.+. +||+.
T Consensus 42 ~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~-~~vl~ 85 (86)
T cd01984 42 RLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAG-IPVLT 85 (86)
T ss_pred HHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccC-CceeC
Confidence 888999999999999998888887777 89999999999 99874
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.68 E-value=0.0012 Score=59.33 Aligned_cols=128 Identities=10% Similarity=0.176 Sum_probs=76.3
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhh-----------------------HHHHHHHHHHHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQI-----------------------VYDMSQGLMEKL 97 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~-----------------------~~~~~~~~l~~~ 97 (181)
..+|.+.+-+.++..+|+.||.+++++.+-+++++|......... ..+.-++.++++
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~D~~~~~ef 709 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGEDAAPTASQPASSPSDPRIPTVETDGKKERQLDEEYINEF 709 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEcccccccccccccccccccccccccccchhHHHHHHHHHHHH
Confidence 469999999999999999999999999999999999876432111 011122223332
Q ss_pred HHHHhhhcCceEEEEEe-cC-ChHHHHHHHHHHhCCCEEEEeccCC---------Cccccc-ccCchhhHHHhc---CCC
Q 030208 98 AIEAMDVAMVRTKARIV-EG-DAAKVICKEAERLKPAAVVIGSRGR---------GLIQSV-LQGSVGEYCLHH---CKT 162 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~-~g-~~~~~I~~~a~~~~~dliV~g~~~~---------~~~~~~-~~gs~~~~ll~~---~~~ 162 (181)
..+......+.+..+++ .| +....|-...+ ++||+|+|+.+. +.|.+. -+|.+.+-++.. +.
T Consensus 710 ~~~~~~~~~v~y~E~~V~~~~e~~~~l~~~~~--~ydL~iVGr~~~~~~~~~~gL~~w~e~pELG~iGD~LaS~d~~~~- 786 (832)
T PLN03159 710 RARNAGNESIVYTEKVVSNGEETVAAIRSMDS--AHDLFIVGRGQGMISPLTAGLTDWSECPELGAIGDLLASSDFAAT- 786 (832)
T ss_pred HHhcCCCCceEEEEEecCCHHHHHHHHHHhhc--cCcEEEEecCCCCCcchhccccccccCCccchhhhHHhcCCCCCc-
Confidence 22222223343333333 33 33344444333 399999998543 123332 267776655543 34
Q ss_pred ccEEEEcCC
Q 030208 163 APIIVVPGK 171 (181)
Q Consensus 163 ~pVlvv~~~ 171 (181)
..||||.+.
T Consensus 787 ~SVLVvQQ~ 795 (832)
T PLN03159 787 VSVLVVQQY 795 (832)
T ss_pred eeEEEEEee
Confidence 789999643
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.49 E-value=0.0026 Score=57.19 Aligned_cols=130 Identities=12% Similarity=0.106 Sum_probs=83.4
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhc--cCCCEEEEEEEecCCchhh------------------HHHHHHHHHHHHHHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLC--RLADTIHLVHAVSSVQNQI------------------VYDMSQGLMEKLAIE 100 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~--~~~a~l~llhV~~~~~~~~------------------~~~~~~~~l~~~~~~ 100 (181)
--+||+|+....+....++.+..... ...-.++++|.++...... .....++.+.. ++.
T Consensus 458 elriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~~l~~h~~~~~~~~~~~~~~~~~~~i~~a-f~~ 536 (832)
T PLN03159 458 ELRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASAMLIVHNTRKSGRPALNRTQAQSDHIINA-FEN 536 (832)
T ss_pred ceeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCccceeeeecccccccccccccccccHHHHH-HHH
Confidence 36899999998888888877644322 2335999999977331000 00112222222 222
Q ss_pred Hhhh-cCceEEEEEe---cCChHHHHHHHHHHhCCCEEEEeccCCCcccc------cccCchhhHHHhcCCCccEEEEcC
Q 030208 101 AMDV-AMVRTKARIV---EGDAAKVICKEAERLKPAAVVIGSRGRGLIQS------VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 101 ~~~~-~~i~~~~~~~---~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~------~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
..+. .++.++.... ..+..+.|+..|++..+++||++-|++....+ -.+..+.++++++++ |+|-|.=.
T Consensus 537 ~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~Ap-CsVgIlVD 615 (832)
T PLN03159 537 YEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAP-CSVGILVD 615 (832)
T ss_pred HHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCC-CCEEEEEe
Confidence 2221 2455553332 24899999999999999999999986533222 245677899999999 99988854
Q ss_pred CC
Q 030208 171 KG 172 (181)
Q Consensus 171 ~~ 172 (181)
++
T Consensus 616 Rg 617 (832)
T PLN03159 616 RG 617 (832)
T ss_pred CC
Confidence 44
No 20
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=96.87 E-value=0.036 Score=40.69 Aligned_cols=95 Identities=13% Similarity=0.115 Sum_probs=62.5
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-------
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE------- 115 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~------- 115 (181)
+|+|+++++..|..++..+.+++...+.++.++|+...... ......+.++ ...+..+++.......
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~~--~~~~~~~~~~----~~~~~~gi~~~~~~~~~~~~~~~ 74 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLRP--ESDEEAEFVQ----QFCKKLNIPLEIKKVDVKALAKG 74 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCh--hHHHHHHHHH----HHHHHcCCCEEEEEecchhhccc
Confidence 58999999999999999998888777778999999653221 1111222222 3333334554432221
Q ss_pred -C-ChH--------HHHHHHHHHhCCCEEEEeccCCCc
Q 030208 116 -G-DAA--------KVICKEAERLKPAAVVIGSRGRGL 143 (181)
Q Consensus 116 -g-~~~--------~~I~~~a~~~~~dliV~g~~~~~~ 143 (181)
+ +.. ..+.++|++.+++.|+.|.+....
T Consensus 75 ~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D~ 112 (189)
T TIGR02432 75 KKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADDQ 112 (189)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHHH
Confidence 1 122 577889999999999999885543
No 21
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=96.75 E-value=0.059 Score=39.44 Aligned_cols=97 Identities=14% Similarity=0.110 Sum_probs=58.6
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-----C-
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE-----G- 116 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-----g- 116 (181)
+|+|++++...|..++..+.++....+-++.++||...... ......+.+ ++..+..+++..+.... +
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~~--~s~~~~~~v----~~~~~~~~i~~~~~~~~~~~~~~~ 74 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLRE--ESDEEAEFV----EEICEQLGIPLYIVRIDEDRKKGS 74 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STSC--CHHHHHHHH----HHHHHHTT-EEEEEE--CHCCTTS
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCc--ccchhHHHH----HHHHHhcCCceEEEEeeeeecccC
Confidence 68999999999999999999999988899999999764331 112222333 33344444555443322 1
Q ss_pred ChH--------HHHHHHHHHhCCCEEEEeccCCCccc
Q 030208 117 DAA--------KVICKEAERLKPAAVVIGSRGRGLIQ 145 (181)
Q Consensus 117 ~~~--------~~I~~~a~~~~~dliV~g~~~~~~~~ 145 (181)
+.. +.+.++|++.+++.|++|.+.....+
T Consensus 75 ~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD~~E 111 (182)
T PF01171_consen 75 NIEECARELRYQFLREIAKEEGCNKIALGHHLDDQAE 111 (182)
T ss_dssp TCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHHHHH
T ss_pred CHHHHHHHHHHHHHHHhhhcccccceeecCcCCccHH
Confidence 211 46667899999999999987544443
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=96.40 E-value=0.1 Score=37.95 Aligned_cols=95 Identities=14% Similarity=0.105 Sum_probs=61.6
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEE--E-ecCC-h
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKAR--I-VEGD-A 118 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~--~-~~g~-~ 118 (181)
+|+|+++++..|..++..+.+.....+.++.++|+....... .....+.+ .+.....+++.+.. . ..+. .
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~~~--~~~~~~~~----~~~~~~~~i~~~~~~~~~~~~~~~ 74 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLRPE--SDEEAAFV----ADLCAKLGIPLYILVVALAPKPGG 74 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCCch--HHHHHHHH----HHHHHHcCCcEEEEeeccccCCCC
Confidence 589999999999999999988887667899999995532111 11122222 23333444555443 1 1111 1
Q ss_pred ----------HHHHHHHHHHhCCCEEEEeccCCCc
Q 030208 119 ----------AKVICKEAERLKPAAVVIGSRGRGL 143 (181)
Q Consensus 119 ----------~~~I~~~a~~~~~dliV~g~~~~~~ 143 (181)
...+.++|++.+++.|+.|.+....
T Consensus 75 ~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD~ 109 (185)
T cd01992 75 NLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQ 109 (185)
T ss_pred CHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHHH
Confidence 1567788999999999999875443
No 23
>PRK12342 hypothetical protein; Provisional
Probab=95.74 E-value=0.17 Score=39.20 Aligned_cols=103 Identities=14% Similarity=0.073 Sum_probs=62.4
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-Ch---HHHHHHH
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-DA---AKVICKE 125 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~~---~~~I~~~ 125 (181)
-++....|++.|+++. ..|.+++++++-+... .....+++.+.. .-+..+-+.-....| ++ ...|..+
T Consensus 33 iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a------~~~~l~r~alam-GaD~avli~d~~~~g~D~~ata~~La~~ 104 (254)
T PRK12342 33 ISQFDLNAIEAASQLA-TDGDEIAALTVGGSLL------QNSKVRKDVLSR-GPHSLYLVQDAQLEHALPLDTAKALAAA 104 (254)
T ss_pred CChhhHHHHHHHHHHh-hcCCEEEEEEeCCChH------hHHHHHHHHHHc-CCCEEEEEecCccCCCCHHHHHHHHHHH
Confidence 4578899999999998 6789999999966321 111122332222 122122222222234 55 6888888
Q ss_pred HHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccE
Q 030208 126 AERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPI 165 (181)
Q Consensus 126 a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pV 165 (181)
+++.++|||+.|.....+-. |.+.-.+..... .|.
T Consensus 105 i~~~~~DLVl~G~~s~D~~t----gqvg~~lA~~Lg-~P~ 139 (254)
T PRK12342 105 IEKIGFDLLLFGEGSGDLYA----QQVGLLLGELLQ-LPV 139 (254)
T ss_pred HHHhCCCEEEEcCCcccCCC----CCHHHHHHHHhC-CCc
Confidence 89889999999976543322 444445555555 554
No 24
>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=95.30 E-value=0.47 Score=34.37 Aligned_cols=95 Identities=15% Similarity=0.098 Sum_probs=58.2
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccC--CCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-----
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRL--ADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----- 115 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~--~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----- 115 (181)
+|+|++++...|..++..+.++.... +-+++++|+...... ..+...+.+++ .....++........
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~~~--~~~~~~~~~~~----~~~~~~i~~~~~~~~~~~~~ 74 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPG--YRDESLEVVER----LAEELGIELEIVSFKEEYTD 74 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCCCC--CcHHHHHHHHH----HHHHcCCceEEEehhhhcch
Confidence 58999999999999998888876655 568889998653221 11112222222 223333333322111
Q ss_pred ----------------C-ChHHHHHHHHHHhCCCEEEEeccCCCc
Q 030208 116 ----------------G-DAAKVICKEAERLKPAAVVIGSRGRGL 143 (181)
Q Consensus 116 ----------------g-~~~~~I~~~a~~~~~dliV~g~~~~~~ 143 (181)
+ .....+.++|++.+++.|+.|.+....
T Consensus 75 ~~~~~~~~~~~~~~~c~~~r~~~l~~~a~~~g~~~l~~Gh~~dD~ 119 (185)
T cd01993 75 DIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNLDDE 119 (185)
T ss_pred hhhhhccCCCCCCCccHHHHHHHHHHHHHHcCCCEEEEcCChHHH
Confidence 0 123566778999999999999875433
No 25
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=94.94 E-value=0.2 Score=39.35 Aligned_cols=99 Identities=19% Similarity=0.163 Sum_probs=61.3
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-C---
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-D--- 117 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~--- 117 (181)
.+|+|++++.+.|..++..+..+... -.+.++||........ +...+..+.+.+...- .-+........+ .
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~~~~~~--~~~~~~~~~~~~~~~~-~~~v~~~~~~~~~~~~~ 96 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHGLRGYS--DQEAELVEKLCEKLGI-PLIVERVTDDLGRETLD 96 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCCCCCcc--chHHHHHHHHHHHhCC-ceEEEEEEeeccccccC
Confidence 79999999999999999888887665 7899999976543311 2333333433322211 111111111111 1
Q ss_pred -----------hHHHHHHHHHHhCCCEEEEeccCCCccc
Q 030208 118 -----------AAKVICKEAERLKPAAVVIGSRGRGLIQ 145 (181)
Q Consensus 118 -----------~~~~I~~~a~~~~~dliV~g~~~~~~~~ 145 (181)
.-..+.+.|+..++|.|+.|.+.....+
T Consensus 97 ~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~~e 135 (298)
T COG0037 97 GKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQAE 135 (298)
T ss_pred CCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHHHHH
Confidence 1244667789999999999988655443
No 26
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=94.47 E-value=0.6 Score=36.30 Aligned_cols=103 Identities=12% Similarity=0.036 Sum_probs=61.5
Q ss_pred CChhhHHHHHHHHHHhccCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-C---hHHHHHH
Q 030208 50 HGPNSKHAFDWALIHLCRLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-D---AAKVICK 124 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~---~~~~I~~ 124 (181)
-++....|++.|+++....+ .+++++++-+... .....+++.+..-... .+-+.-....| + ....|..
T Consensus 34 iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a------~~~~~lr~aLAmGaD~-avli~d~~~~g~D~~~tA~~La~ 106 (256)
T PRK03359 34 ISQYDLNAIEAACQLKQQAAEAQVTALSVGGKAL------TNAKGRKDVLSRGPDE-LIVVIDDQFEQALPQQTASALAA 106 (256)
T ss_pred cChhhHHHHHHHHHHhhhcCCCEEEEEEECCcch------hhHHHHHHHHHcCCCE-EEEEecCcccCcCHHHHHHHHHH
Confidence 45788999999999998865 7999999966421 1123344433221111 12222111122 3 3677777
Q ss_pred HHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCcc
Q 030208 125 EAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAP 164 (181)
Q Consensus 125 ~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~p 164 (181)
++++.++|||+.|.....+-. |.+.-.+..... .|
T Consensus 107 ai~~~~~DLVl~G~~s~D~~t----gqvg~~lAe~Lg-~P 141 (256)
T PRK03359 107 AAQKAGFDLILCGDGSSDLYA----QQVGLLVGEILN-IP 141 (256)
T ss_pred HHHHhCCCEEEEcCccccCCC----CcHHHHHHHHhC-CC
Confidence 888889999999987544322 334444555544 55
No 27
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=94.21 E-value=0.93 Score=35.30 Aligned_cols=103 Identities=15% Similarity=0.140 Sum_probs=63.9
Q ss_pred CChhhHHHHHHHHHHhc-cCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC----ChHHHHHH
Q 030208 50 HGPNSKHAFDWALIHLC-RLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG----DAAKVICK 124 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~-~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g----~~~~~I~~ 124 (181)
-++....|++.|+++.. .++.+++++++-+. ..+..+++++.. .-+..+-++.....+ .....|..
T Consensus 35 in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~--------~a~~~lr~aLAm-GaDraili~d~~~~~~d~~~ta~~Laa 105 (260)
T COG2086 35 INPFDLNAVEEALRLKEKGYGGEVTVLTMGPP--------QAEEALREALAM-GADRAILITDRAFAGADPLATAKALAA 105 (260)
T ss_pred cChhhHHHHHHHHHhhccCCCceEEEEEecch--------hhHHHHHHHHhc-CCCeEEEEecccccCccHHHHHHHHHH
Confidence 34678899999999998 68999999999653 233444442221 111112222111222 34678888
Q ss_pred HHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 125 EAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 125 ~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
++++.+.|||++|...-.+- .|.+.-.+..... .|.+
T Consensus 106 ~~~~~~~~LVl~G~qa~D~~----t~qvg~~lAe~Lg-~P~~ 142 (260)
T COG2086 106 AVKKIGPDLVLTGKQAIDGD----TGQVGPLLAELLG-WPQV 142 (260)
T ss_pred HHHhcCCCEEEEecccccCC----ccchHHHHHHHhC-Ccee
Confidence 89999999999998754322 2444455555555 5554
No 28
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=93.98 E-value=2 Score=33.27 Aligned_cols=95 Identities=14% Similarity=0.176 Sum_probs=59.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCC--CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec---
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLA--DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE--- 115 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~--a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~--- 115 (181)
..+|+|+++++..|..++..+..+....+ -++..+|+....... . ++. .++..+..+++..+....
T Consensus 29 ~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~~--~---~~~----~~~~~~~lgI~~~v~~~~~~~ 99 (258)
T PRK10696 29 GDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPGF--P---EHV----LPEYLESLGVPYHIEEQDTYS 99 (258)
T ss_pred CCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCCC--C---HHH----HHHHHHHhCCCEEEEEecchh
Confidence 37899999999999999988877765543 478888875432110 1 111 233334444554432211
Q ss_pred --------C-C--------hHHHHHHHHHHhCCCEEEEeccCCCcc
Q 030208 116 --------G-D--------AAKVICKEAERLKPAAVVIGSRGRGLI 144 (181)
Q Consensus 116 --------g-~--------~~~~I~~~a~~~~~dliV~g~~~~~~~ 144 (181)
+ + -...+.++|++.++|.|++|.+.....
T Consensus 100 ~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD~~ 145 (258)
T PRK10696 100 IVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDDIL 145 (258)
T ss_pred hhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHHHH
Confidence 1 1 124567789999999999998854433
No 29
>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=93.50 E-value=1.1 Score=32.12 Aligned_cols=79 Identities=18% Similarity=0.102 Sum_probs=52.0
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC--------ChHHHHH
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG--------DAAKVIC 123 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g--------~~~~~I~ 123 (181)
+.+..++..|.+++...|.+++++.+-+... ..+.+++ .+...+.+--+.+... ...+.|.
T Consensus 15 ~~~~e~l~~A~~La~~~g~~v~av~~G~~~~-------~~~~l~~----~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~ 83 (164)
T PF01012_consen 15 PVSLEALEAARRLAEALGGEVTAVVLGPAEE-------AAEALRK----ALAKYGADKVYHIDDPALAEYDPEAYADALA 83 (164)
T ss_dssp HHHHHHHHHHHHHHHCTTSEEEEEEEETCCC-------HHHHHHH----HHHSTTESEEEEEE-GGGTTC-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhcCCeEEEEEEecchh-------hHHHHhh----hhhhcCCcEEEEecCccccccCHHHHHHHHH
Confidence 7899999999999999999999998864221 2222222 2232334333333221 2456888
Q ss_pred HHHHHhCCCEEEEeccCC
Q 030208 124 KEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~ 141 (181)
+.+++.++|+|++|....
T Consensus 84 ~~~~~~~~~lVl~~~t~~ 101 (164)
T PF01012_consen 84 ELIKEEGPDLVLFGSTSF 101 (164)
T ss_dssp HHHHHHT-SEEEEESSHH
T ss_pred HHHHhcCCCEEEEcCcCC
Confidence 899999999999997643
No 30
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=92.97 E-value=0.34 Score=35.63 Aligned_cols=35 Identities=17% Similarity=0.093 Sum_probs=28.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVH 76 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llh 76 (181)
+++|++++.++..+.++.++...+.+ .+.+++++-
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~g~~V~vv~ 35 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTK-RGYQVTVLM 35 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHH-CCCEEEEEE
Confidence 48899999999999999888877755 477766554
No 31
>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=92.64 E-value=0.97 Score=38.01 Aligned_cols=93 Identities=14% Similarity=0.116 Sum_probs=61.4
Q ss_pred EEEEE--cCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhH---HHHHHHHHHHHHHHHhhhcCceEEEEEecCCh
Q 030208 44 ILIAV--DHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIV---YDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA 118 (181)
Q Consensus 44 Ilv~v--d~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~ 118 (181)
||+=. |..-..-.|+..|++.|...+..|..+++.++...... ..-..+.+.++.++ ++..| ....+..|++
T Consensus 25 vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~~~~r~~Fl~esL~~L~~~-L~~~g--~~L~v~~g~~ 101 (454)
T TIGR00591 25 VVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAATRRHYFFMLGGLDEVANE-CERLI--IPFHLLDGPP 101 (454)
T ss_pred EEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccccHHHHHHHHHHHHHHHHH-HHHcC--CceEEeecCh
Confidence 44443 44455667888888877666778999999876432221 22333444543333 33333 3445678999
Q ss_pred HHHHHHHHHHhCCCEEEEecc
Q 030208 119 AKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.|.+++++.+++.|+....
T Consensus 102 ~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 102 KELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 999999999999999999864
No 32
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=92.16 E-value=1.2 Score=37.81 Aligned_cols=118 Identities=13% Similarity=0.173 Sum_probs=65.3
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh-
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA- 118 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~- 118 (181)
..++|++++.++-.+.++.+.+..+.+ .|.+++++..-. +.+.+..+.-+.+.. ..+.........
T Consensus 69 ~~k~IllgVtGsIAayka~~lvr~L~k-~G~~V~VvmT~s----------A~~fv~p~~~~~ls~--~~V~~d~~~~~~~ 135 (475)
T PRK13982 69 ASKRVTLIIGGGIAAYKALDLIRRLKE-RGAHVRCVLTKA----------AQQFVTPLTASALSG--QRVYTDLFDPESE 135 (475)
T ss_pred CCCEEEEEEccHHHHHHHHHHHHHHHh-CcCEEEEEECcC----------HHHHhhHHHHHHhcC--CceEecCCCcccc
Confidence 358999999999999999999977765 477777665422 111111111111221 222221111110
Q ss_pred -HHHHHHHHHHhCCCEEEEeccCCCcccccc---cCchhhHHHhcCCCccEEEEcCCCC
Q 030208 119 -AKVICKEAERLKPAAVVIGSRGRGLIQSVL---QGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 119 -~~~I~~~a~~~~~dliV~g~~~~~~~~~~~---~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.-.=+++++. +|++|+.--..+.+.++- -....-.++.... +||+++|.-..
T Consensus 136 ~~~~Hi~la~~--aD~~vVAPATANTIAKiA~GiADnLlt~v~La~~-~PvliaPaMN~ 191 (475)
T PRK13982 136 FDAGHIRLARD--CDLIVVAPATADLMAKMANGLADDLASAILLAAN-RPILLAPAMNP 191 (475)
T ss_pred cCccchhhhhh--cCEEEEeeCCHHHHHHHHccccCcHHHHHHHhcC-CCEEEEEcCCH
Confidence 0111345555 999999875544443322 2222344455678 99999996543
No 33
>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=91.87 E-value=2.3 Score=27.76 Aligned_cols=72 Identities=15% Similarity=0.132 Sum_probs=48.0
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVIC 123 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~ 123 (181)
|+|++++...|.-++..+.+.. .++.++|+...... ..+.. .+..++ ...+.+.
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~~----~~~~~~~~~~~~~~--~~~~~----~~~~~~----------------~r~~~~~ 54 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKLG----YQVIAVTVDHGISP--RLEDA----KEIAKE----------------AREEAAK 54 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHhC----CCEEEEEEcCCCcc--cHHHH----HHHHHH----------------HHHHHHH
Confidence 5899999999988888876653 37899998664332 11111 111111 4566777
Q ss_pred HHHHHhCCCEEEEeccCC
Q 030208 124 KEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~ 141 (181)
++|++.+++.|+.|.+..
T Consensus 55 ~~a~~~g~~~i~~g~~~~ 72 (103)
T cd01986 55 RIAKEKGAETIATGTRRD 72 (103)
T ss_pred HHHHHcCCCEEEEcCCcc
Confidence 788888999999997644
No 34
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=91.10 E-value=3.3 Score=34.77 Aligned_cols=65 Identities=17% Similarity=0.095 Sum_probs=42.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhc-cCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLC-RLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKA 111 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~-~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~ 111 (181)
.++|+|++++...|..++..+..+.. ..+-+++++||...-.. ..+.. .+..++.++..+++..+
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhglr~--~s~~~----~~~~~~~~~~l~i~~~~ 80 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHGLSP--NADSW----VKHCEQVCQQWQVPLVV 80 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCCCCc--chHHH----HHHHHHHHHHcCCcEEE
Confidence 38899999999999999888877652 34679999999764321 11111 22344455555666554
No 35
>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=91.08 E-value=4.3 Score=29.02 Aligned_cols=86 Identities=15% Similarity=0.205 Sum_probs=51.7
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCC--hHH
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGD--AAK 120 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~--~~~ 120 (181)
+|++.+++...|..++..+.+. +.++..+|+....... . ..+.++.+.+... .... +...+ ...
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~~----~~~v~~~~~~~~~~~~---~-~~~~~~~~~~~~g----~~~~--~~~~~~~~~~ 66 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKKE----GYEVHALSFDYGQRHA---K-EEEAAKLIAEKLG----PSTY--VPARNLIFLS 66 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHHc----CCcEEEEEEECCCCCh---h-HHHHHHHHHHHHC----CCEE--EeCcCHHHHH
Confidence 4799999999998888777653 4568888886432111 1 1123333332222 1111 11222 234
Q ss_pred HHHHHHHHhCCCEEEEeccCCC
Q 030208 121 VICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~ 142 (181)
.+.++|++.+++.|+.|.+...
T Consensus 67 ~l~~~a~~~g~~~i~~G~~~~d 88 (169)
T cd01995 67 IAAAYAEALGAEAIIIGVNAED 88 (169)
T ss_pred HHHHHHHHCCCCEEEEeeccCc
Confidence 5677889999999999988643
No 36
>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=90.45 E-value=1.4 Score=32.23 Aligned_cols=34 Identities=21% Similarity=0.169 Sum_probs=26.5
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVH 76 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llh 76 (181)
|+|++++.++..+..+.+....+.+ .+.+++++-
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~~-~g~~V~vi~ 34 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLTK-LGYDVTVLM 34 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHHH-CCCEEEEEE
Confidence 5799999999999999877766654 477766554
No 37
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=90.18 E-value=5.3 Score=31.87 Aligned_cols=94 Identities=11% Similarity=0.013 Sum_probs=58.9
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe-----c
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV-----E 115 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~-----~ 115 (181)
+.++++++++.+.|..++..+.+.....+-.+.++|+....... +..+..++ ..+..+++..+... .
T Consensus 27 f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iDTG~~Fp----Et~ef~d~----~a~~~gl~l~v~~~~~~i~~ 98 (301)
T PRK05253 27 FENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDTGWKFP----EMIEFRDR----RAKELGLELIVHSNPEGIAR 98 (301)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEeCCCCCH----HHHHHHHH----HHHHhCCCEEEEeChHHHhc
Confidence 47899999999999999988877655445578999995432211 11222222 22333444433211 1
Q ss_pred C------C--------hHHHHHHHHHHhCCCEEEEeccCCC
Q 030208 116 G------D--------AAKVICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 116 g------~--------~~~~I~~~a~~~~~dliV~g~~~~~ 142 (181)
| + ....+.++++++++|.++.|.+...
T Consensus 99 g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrDE 139 (301)
T PRK05253 99 GINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRDE 139 (301)
T ss_pred CCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccch
Confidence 1 1 1256778888999999999998643
No 38
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=89.67 E-value=3.3 Score=34.40 Aligned_cols=116 Identities=17% Similarity=0.231 Sum_probs=62.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC--Ch
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG--DA 118 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g--~~ 118 (181)
.++|++++.++..+..+.+.+..+.+ .|.+++++-.-. +.+.+....-+.+.. -.+....... ..
T Consensus 6 ~k~IllgvTGsiaa~k~~~lv~~L~~-~g~~V~vv~T~~----------A~~fi~~~~l~~l~~--~~V~~~~~~~~~~~ 72 (399)
T PRK05579 6 GKRIVLGVSGGIAAYKALELVRRLRK-AGADVRVVMTEA----------AKKFVTPLTFQALSG--NPVSTDLWDPAAEA 72 (399)
T ss_pred CCeEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEECHh----------HHHHHhHHHHHHhhC--CceEccccccccCC
Confidence 58999999999999999988877754 577776655311 111111111111111 1121111111 00
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCccccc---ccCchhhHHHhcCCCccEEEEcCCC
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSV---LQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~---~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
...=++.++. +|++|+.--....+.++ +-.+....++.... +||+++|.-.
T Consensus 73 ~~~hi~l~~~--aD~~vVaPaTaNtlaKiA~GiaDnllt~~~la~~-~pvvi~Pamn 126 (399)
T PRK05579 73 AMGHIELAKW--ADLVLIAPATADLIAKLAHGIADDLLTTTLLATT-APVLVAPAMN 126 (399)
T ss_pred Ccchhhcccc--cCEEEEeeCCHHHHHHHHcccCCcHHHHHHHhcC-CCEEEEeCCC
Confidence 1111344444 99999987654443332 23334444555667 9999999543
No 39
>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=89.32 E-value=7.9 Score=29.86 Aligned_cols=88 Identities=17% Similarity=0.058 Sum_probs=52.8
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-----
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----- 115 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----- 115 (181)
.++++|++++...|.-++..+.+. +.++..+|+.......... +..+ +..+..+++.+..-..
T Consensus 12 ~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~~~~~~~~e~----~~a~----~~a~~lgi~~~ii~~~~~~~~ 79 (252)
T TIGR00268 12 FKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVVSPSISPREL----EDAI----IIAKEIGVNHEFVKIDKMINP 79 (252)
T ss_pred cCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEecCCCCCHHHH----HHHH----HHHHHcCCCEEEEEcHHHHHH
Confidence 478999999999998888877664 5678889986532211111 1112 2222223333321110
Q ss_pred -------------CChHHHHHHHHHHhCCCEEEEeccC
Q 030208 116 -------------GDAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 116 -------------g~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
......+.++|++.+++.|+.|++.
T Consensus 80 ~~~n~~~~c~~ck~~~~~~l~~~A~~~g~~~I~~G~n~ 117 (252)
T TIGR00268 80 FRANVEERCYFCKKMVLSILVKEAEKRGYDVVVDGTNA 117 (252)
T ss_pred HHhCCCcccchhhHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 0123456678899999999999754
No 40
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit. Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.
Probab=89.25 E-value=3.3 Score=30.60 Aligned_cols=35 Identities=6% Similarity=-0.056 Sum_probs=26.8
Q ss_pred CeEEEEEcCChhhHHHH-HHHHHHhccCCCEEEEEEE
Q 030208 42 RDILIAVDHGPNSKHAF-DWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~-~~a~~la~~~~a~l~llhV 77 (181)
++|++++.++..+.+++ +....+. ..|.+++++-.
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L~-~~g~~V~vI~S 36 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKLV-DEGAEVTPIVS 36 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHHH-hCcCEEEEEEc
Confidence 57999999999999997 6666664 44888776653
No 41
>PRK13820 argininosuccinate synthase; Provisional
Probab=89.24 E-value=11 Score=31.34 Aligned_cols=38 Identities=8% Similarity=0.046 Sum_probs=30.0
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCC-EEEEEEEecC
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLAD-TIHLVHAVSS 80 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a-~l~llhV~~~ 80 (181)
++++|+|++++...|.-++.++.+ .++. +++.+|+...
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e---~~g~~~Viav~vd~g 39 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKE---KYGYDEVITVTVDVG 39 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHH---hcCCCEEEEEEEECC
Confidence 358999999999999888888754 3464 8999999653
No 42
>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=89.08 E-value=2.4 Score=30.24 Aligned_cols=107 Identities=11% Similarity=0.057 Sum_probs=59.1
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCc------hhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHH
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQ------NQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAE 127 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~ 127 (181)
.-.|+..| ...+.++..++|.++.. +..-..-..+.+.++.++. .. ......+..|++.+.|.++++
T Consensus 13 DN~aL~~A----~~~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L-~~--~g~~L~v~~g~~~~~l~~l~~ 85 (165)
T PF00875_consen 13 DNPALHAA----AQNGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESL-RK--LGIPLLVLRGDPEEVLPELAK 85 (165)
T ss_dssp T-HHHHHH----HHTTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHH-HH--TTS-EEEEESSHHHHHHHHHH
T ss_pred hhHHHHHH----HHcCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHH-Hh--cCcceEEEecchHHHHHHHHH
Confidence 34555555 34467899999988652 1111123334444433332 33 345566788999999999999
Q ss_pred HhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 128 RLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 128 ~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+++.|+....-.....+ ...-..+.+.... +.+..+..
T Consensus 86 ~~~~~~V~~~~~~~~~~~~--rd~~v~~~l~~~~-i~~~~~~~ 125 (165)
T PF00875_consen 86 EYGATAVYFNEEYTPYERR--RDERVRKALKKHG-IKVHTFDD 125 (165)
T ss_dssp HHTESEEEEE---SHHHHH--HHHHHHHHHHHTT-SEEEEE--
T ss_pred hcCcCeeEeccccCHHHHH--HHHHHHHHHHhcc-eEEEEECC
Confidence 9999999988653322211 1223344555555 77766653
No 43
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=88.11 E-value=5.6 Score=28.38 Aligned_cols=63 Identities=19% Similarity=0.287 Sum_probs=44.8
Q ss_pred HHhhhcCceEEEEEecC-ChHHHHHHH---HHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 100 EAMDVAMVRTKARIVEG-DAAKVICKE---AERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 100 ~~~~~~~i~~~~~~~~g-~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
+.+++-++.++..+.+- ..-+.+.+| ++++++..||-|+-+...+.++ +...++ .||+=||-.
T Consensus 23 ~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPGm--------vAa~T~-lPViGVPv~ 89 (162)
T COG0041 23 EILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPGM--------VAAKTP-LPVIGVPVQ 89 (162)
T ss_pred HHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcchh--------hhhcCC-CCeEeccCc
Confidence 44455578888777764 444455554 5777888999998877776654 566788 999999865
No 44
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=87.61 E-value=14 Score=30.23 Aligned_cols=115 Identities=16% Similarity=0.044 Sum_probs=65.9
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe------
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV------ 114 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~------ 114 (181)
.++|+|++++...|.-++..+.+ .+..++.+|+....... . . +.++. ++...+..+++....-.
T Consensus 5 ~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~~~~~~~-~-~---~d~~~-a~~va~~LgIp~~vvd~~~~f~~ 74 (360)
T PRK14665 5 NKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFRFYEFNG-S-T---EYLED-ARALAERLGIGHITYDARKVFRK 74 (360)
T ss_pred CCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEecCCCCC-C-h---HHHHH-HHHHHHHhCCCEEEEecHHHHHH
Confidence 37899999999888777766654 36678888885422111 0 0 11111 12222222333322111
Q ss_pred -----------cC---Ch---------HHHHHHHHHHhCCCEEEEeccCCC----------------cccccccCchhhH
Q 030208 115 -----------EG---DA---------AKVICKEAERLKPAAVVIGSRGRG----------------LIQSVLQGSVGEY 155 (181)
Q Consensus 115 -----------~g---~~---------~~~I~~~a~~~~~dliV~g~~~~~----------------~~~~~~~gs~~~~ 155 (181)
.| ++ ...+.++|++.++|.|+.|.+.+. .-+.+|+..+...
T Consensus 75 ~v~~~f~~~y~~g~tpnpC~~Cnr~ikf~~l~~~A~~~G~~~IATGHya~~~~~~~~~~l~~g~D~~kDQSyfL~~l~~~ 154 (360)
T PRK14665 75 QIIDYFIDEYMSGHTPVPCTLCNNYLKWPLLAKIADEMGIFYLATGHYVRKQWIDGNYYITPAEDVDKDQSFFLWGLRQE 154 (360)
T ss_pred HHHhhhhhHHhccCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEECCccceeccCCcEEEEeecCCCCCceEEecCCCHH
Confidence 12 11 145678899999999999977532 2234556666677
Q ss_pred HHhcCCCccEE
Q 030208 156 CLHHCKTAPII 166 (181)
Q Consensus 156 ll~~~~~~pVl 166 (181)
.+.+.- .|+.
T Consensus 155 ~l~~~i-fPLg 164 (360)
T PRK14665 155 ILQRML-LPMG 164 (360)
T ss_pred HHhhee-ccCc
Confidence 776666 6654
No 45
>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=87.59 E-value=7.7 Score=27.15 Aligned_cols=95 Identities=12% Similarity=0.106 Sum_probs=54.5
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC------
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG------ 116 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g------ 116 (181)
+|+|++++...|..++..+.+..... .++.++|+...... .+..+.++++.+ ..+++........
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~dtg~~~----~~~~~~~~~~~~----~~g~~~~~~~~~~~~~~~~ 71 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLDTGYEF----PETYEFVDRVAE----RYGLPLVVVRPPDSPAEGL 71 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeCCCCCC----HHHHHHHHHHHH----HhCCCeEEECCCccHHHHH
Confidence 47899999999988888877655432 47888888543221 112223333222 2222222211110
Q ss_pred --------------------ChHHHHHHHHHHhCCCEEEEeccCCCcccc
Q 030208 117 --------------------DAAKVICKEAERLKPAAVVIGSRGRGLIQS 146 (181)
Q Consensus 117 --------------------~~~~~I~~~a~~~~~dliV~g~~~~~~~~~ 146 (181)
--.+.+.+++++.+.+.+++|.+.....++
T Consensus 72 ~~~~~~~~~~~~~~~~c~~~~K~~~~~~~~~~~~~~~~~~G~r~de~~~r 121 (173)
T cd01713 72 ALGLKGFPLPSPDRRWCCRILKVEPLRRALKELGVVAWITGIRRDESARR 121 (173)
T ss_pred HHhhhccCCccccHHHhhccccchHHHHHHHhcCCeEEEEEeccccchhh
Confidence 112456667777789999999986554443
No 46
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=86.59 E-value=4.2 Score=30.31 Aligned_cols=36 Identities=6% Similarity=-0.039 Sum_probs=27.7
Q ss_pred CCeEEEEEcCChhhHH-HHHHHHHHhccCCCEEEEEEE
Q 030208 41 GRDILIAVDHGPNSKH-AFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~-a~~~a~~la~~~~a~l~llhV 77 (181)
.++|++++.++-.+.+ +.+.+..+.+ .|.+++++-.
T Consensus 5 ~k~IllgVTGsiaa~k~a~~lir~L~k-~G~~V~vv~T 41 (196)
T PRK08305 5 GKRIGFGLTGSHCTYDEVMPEIEKLVD-EGAEVTPIVS 41 (196)
T ss_pred CCEEEEEEcCHHHHHHHHHHHHHHHHh-CcCEEEEEEC
Confidence 4889999999999998 5888866654 4777766553
No 47
>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=85.81 E-value=8.4 Score=31.92 Aligned_cols=119 Identities=12% Similarity=0.177 Sum_probs=63.1
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK 120 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~ 120 (181)
.++|++++.++..+..+++.+..+.+ .+.+++++-.-. +++.+....-+.... -++...........
T Consensus 3 ~k~IllgiTGSiaa~~~~~ll~~L~~-~g~~V~vv~T~~----------A~~fv~~~~l~~~~~--~~v~~~~~~~~~~~ 69 (390)
T TIGR00521 3 NKKILLGVTGGIAAYKTVELVRELVR-QGAEVKVIMTEA----------AKKFITPLTLEALSG--HKVVTELWGPIEHN 69 (390)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHHh-CCCEEEEEECHh----------HHHHHHHHHHHHhhC--Cceeehhccccccc
Confidence 38999999999999999999877754 477766554311 112222111111111 11111111111011
Q ss_pred HHHHHHHHhCCCEEEEeccCCCccccc---ccCchhhHHHhcCCCccEEEEcCCCCC
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQSV---LQGSVGEYCLHHCKTAPIIVVPGKGTS 174 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~~~---~~gs~~~~ll~~~~~~pVlvv~~~~~~ 174 (181)
.. +..-...+|++|+.--....+.++ +-.+.....+..+. +|++++|.-...
T Consensus 70 ~~-hi~l~~~aD~~vVaPaTanTlaKiA~GiaDnLlt~~~~~~~-~plviaPamn~~ 124 (390)
T TIGR00521 70 AL-HIDLAKWADLILIAPATANTISKIAHGIADDLVSTTALAAS-APIILAPAMNEN 124 (390)
T ss_pred cc-hhhcccccCEEEEecCCHHHHHHHHcccCCcHHHHHHHHhC-CCEEEEeCCChh
Confidence 11 222223489988886555444332 23344445566677 999999984443
No 48
>PRK00919 GMP synthase subunit B; Validated
Probab=84.71 E-value=7.4 Score=31.15 Aligned_cols=37 Identities=22% Similarity=0.203 Sum_probs=29.7
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSV 81 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~ 81 (181)
++++|++++...|.-++..+.+ ..|.+++.+|+....
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~---~lG~~v~aV~vD~G~ 58 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR---AIGDRLTPVFVDTGL 58 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH---HhCCeEEEEEEECCC
Confidence 7899999999888888777655 246789999997644
No 49
>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=84.25 E-value=13 Score=26.83 Aligned_cols=78 Identities=13% Similarity=0.113 Sum_probs=45.5
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec----C----ChHHH
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----G----DAAKV 121 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----g----~~~~~ 121 (181)
..+.+..++..|.+++. .+.++.++.+-... .+..++... ..|.+--+.+.. + ...+.
T Consensus 17 l~~~~~e~l~~A~~l~~-~~~~v~~v~~G~~~--------~~~~~~~~~-----~~Gad~v~~~~~~~~~~~~~~~~a~~ 82 (181)
T cd01985 17 LNPLDLEAVEAALRLKE-YGGEVTALVIGPPA--------AEVALREAL-----AMGADKVLLVEDPALAGYDPEATAKA 82 (181)
T ss_pred cCHhhHHHHHHHHHHhh-cCCeEEEEEECChH--------HHHHHHHHH-----HhCCCEEEEEecCcccCCChHHHHHH
Confidence 45677889999988876 55677776664310 111112111 112222222211 1 23577
Q ss_pred HHHHHHHhCCCEEEEeccCC
Q 030208 122 ICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 122 I~~~a~~~~~dliV~g~~~~ 141 (181)
|.+++++.++|+|++|....
T Consensus 83 l~~~i~~~~p~~Vl~g~t~~ 102 (181)
T cd01985 83 LAALIKKEKPDLILAGATSI 102 (181)
T ss_pred HHHHHHHhCCCEEEECCccc
Confidence 88888888999999998755
No 50
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=84.23 E-value=5.8 Score=35.86 Aligned_cols=101 Identities=8% Similarity=0.061 Sum_probs=60.5
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhH-------HHHHHHHHHHH-HHHHhhhcCceE--
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIV-------YDMSQGLMEKL-AIEAMDVAMVRT-- 109 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~-------~~~~~~~l~~~-~~~~~~~~~i~~-- 109 (181)
...+|.+..=+.+...+|+.++.+++.....++++++.......... ....+...+.. ........++..
T Consensus 613 ~~~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~ 692 (769)
T KOG1650|consen 613 SSYKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDESKYNRKVLVEVGKMLDQEGLEDFVKSTRESNLDIIYAE 692 (769)
T ss_pred ceeEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccchhhcccccchhhhhhhhhHHHHHHHHhhhchhhhhhhh
Confidence 34678888888888999999999999988999999999875432111 11111111111 111111111222
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCC
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
+..+..|...-.+++...+ ++|+.++|....
T Consensus 693 ek~v~~~~et~~~~~~~~~-~ydL~ivGr~~~ 723 (769)
T KOG1650|consen 693 EKIVLNGAETTALLRSITE-DYDLFIVGRSHG 723 (769)
T ss_pred HHHHhcchhHHHHHHHhcc-ccceEEEecccc
Confidence 2344556444455555444 799999998754
No 51
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=83.48 E-value=2.6 Score=31.12 Aligned_cols=37 Identities=8% Similarity=0.024 Sum_probs=30.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
+++|++++.++-.+..+.+.+..+.+..|.+++++-.
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~T 37 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVGEIETHLVIS 37 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEEC
Confidence 3789999999999999999998887655777666554
No 52
>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=82.77 E-value=22 Score=28.26 Aligned_cols=91 Identities=11% Similarity=0.061 Sum_probs=56.1
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe-----cC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV-----EG 116 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~-----~g 116 (181)
.++++++++.+.|..++..+.+.....+-.+.++|+-..-.... ..+..+++. +..+++..+... .|
T Consensus 20 ~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~IDTG~~F~E----t~efrd~~a----~~~gl~l~v~~~~~~~~~g 91 (294)
T TIGR02039 20 ERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDTGWKFRE----MIAFRDHMV----AKYGLRLIVHSNEEGIADG 91 (294)
T ss_pred CCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEecCCCCHH----HHHHHHHHH----HHhCCCEEEEechhhhhcC
Confidence 55678899999999999998877654456899999955322111 222223222 222333332111 01
Q ss_pred --------------ChHHHHHHHHHHhCCCEEEEeccC
Q 030208 117 --------------DAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 117 --------------~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
--.+.+.+++++++.|.++.|.+.
T Consensus 92 ~~~~~~~~~~~c~vlK~~pL~~al~e~g~da~itG~RR 129 (294)
T TIGR02039 92 INPFTEGSALHTDIMKTEALRQALDKNQFDAAFGGARR 129 (294)
T ss_pred ccccccChHHHhhHHHHHHHHHHHHHcCCCEEEecCCh
Confidence 112457778888999999999875
No 53
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=82.42 E-value=24 Score=28.36 Aligned_cols=92 Identities=10% Similarity=0.039 Sum_probs=56.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEE-------
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARI------- 113 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~------- 113 (181)
+.++++++++.+.|..++..+.+.+...+..+.++||-.........+..++..+ ..+++.....
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VDTG~~FpEt~efrD~~a~--------~~gl~Liv~~~~~~~~~ 108 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVDTTWKFREMIDFRDRRAK--------ELGLDLVVHHNPDGIAR 108 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeCCCCCCHHHHHHHHHHHH--------HhCCcEEEecChHHHHh
Confidence 4668899999999999999998776554567899998443222222222222211 1122222110
Q ss_pred -----ec------C-ChHHHHHHHHHHhCCCEEEEeccC
Q 030208 114 -----VE------G-DAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 114 -----~~------g-~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
.. + -..+.+.++.+++++|.++.|.+.
T Consensus 109 G~~~~~~~~~~~c~~~Kv~pL~raL~~~g~da~itG~RR 147 (312)
T PRK12563 109 GIVPFRHGSALHTDVAKTQGLKQALDHHGFDAAIGGARR 147 (312)
T ss_pred CCCcccCCHHHHhhHHhHHHHHHHHHhcCCCEEEEecCH
Confidence 00 1 123577778888899999999875
No 54
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=82.36 E-value=12 Score=28.65 Aligned_cols=67 Identities=13% Similarity=0.115 Sum_probs=38.8
Q ss_pred EEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 71 TIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 71 ~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.++.|.+....+......-++++++. +..++.+.++.+.+ -|.+..+-+..+.+.++|.+|+|+.
T Consensus 143 ~VLiMtV~PGfgGQ~f~~~~l~KI~~lr-~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 143 LIQILTLDPRTGTKAPSDLILDRVIQVE-NRLGNRRVEKLISI-DGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred EEEEEEECCCCCCccccHHHHHHHHHHH-HHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChh
Confidence 4555555443333333344555555533 33344455555443 5666666777777789999999964
No 55
>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA. The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.
Probab=82.12 E-value=9.5 Score=27.85 Aligned_cols=35 Identities=11% Similarity=0.081 Sum_probs=25.9
Q ss_pred eEEEEEcCC-hhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 43 DILIAVDHG-PNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 43 ~Ilv~vd~s-~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
+|++++.++ ......++.+..+.++.|.+++++-.
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g~eV~vv~S 36 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRYGDEIDVFLS 36 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhcCCEEEEEEC
Confidence 589999998 44456888888888777877665543
No 56
>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=82.06 E-value=13 Score=31.05 Aligned_cols=83 Identities=12% Similarity=0.024 Sum_probs=51.1
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh---------hH---HHHHHHHHHHHHHHHhhhcCceEEEEEecCC
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ---------IV---YDMSQGLMEKLAIEAMDVAMVRTKARIVEGD 117 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~---------~~---~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~ 117 (181)
..-..-.|+..|++. +.+|..|.|.++.... .. ..-..+.++++.++ +...|+ ...+..|+
T Consensus 11 LRl~DN~aL~~A~~~----~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~-L~~~g~--~L~v~~G~ 83 (429)
T TIGR02765 11 LRVHDNPALYKASSS----SDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTS-LRKLGS--DLLVRSGK 83 (429)
T ss_pred CccccHHHHHHHHhc----CCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHH-HHHcCC--CeEEEeCC
Confidence 334444666666543 3468899998853211 11 12233444443333 333233 44567899
Q ss_pred hHHHHHHHHHHhCCCEEEEecc
Q 030208 118 AAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~ 139 (181)
+.+.|.+++++.+++.|+.-..
T Consensus 84 ~~~vl~~L~~~~~~~~V~~~~~ 105 (429)
T TIGR02765 84 PEDVLPELIKELGVRTVFLHQE 105 (429)
T ss_pred HHHHHHHHHHHhCCCEEEEecc
Confidence 9999999999999999998855
No 57
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=81.38 E-value=13 Score=28.24 Aligned_cols=66 Identities=11% Similarity=0.098 Sum_probs=36.3
Q ss_pred EEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 72 IHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 72 l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
|.++.|.+...++......-+.++++. +...+.+.+..+.+ -|.+..+-+..+.+.++|.+|+|+.
T Consensus 136 VlvMtV~PGf~GQ~fi~~~l~KI~~l~-~~~~~~~~~~~IeV-DGGI~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 136 VLVMSVNPGFGGQAFIPSALDKLRAIR-KKIDALGKPIRLEI-DGGVKADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred EEEEEECCCCCCccccHHHHHHHHHHH-HHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEChh
Confidence 444444333333333344444555433 33333344544443 5666666777777779999999965
No 58
>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=80.44 E-value=14 Score=28.71 Aligned_cols=115 Identities=10% Similarity=-0.006 Sum_probs=58.7
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~~ 131 (181)
...+++.-++.....|..-.++.-..........++..+.++...+... ..+.+-.-+...+. .-.+.+.+++.++
T Consensus 16 D~~~~~~~i~~l~~~Gv~gi~~~GstGE~~~ls~~Er~~l~~~~~~~~~--~~~~vi~gv~~~~~~~~i~~a~~a~~~Ga 93 (281)
T cd00408 16 DLDALRRLVEFLIEAGVDGLVVLGTTGEAPTLTDEERKEVIEAVVEAVA--GRVPVIAGVGANSTREAIELARHAEEAGA 93 (281)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECCCCcccccCCHHHHHHHHHHHHHHhC--CCCeEEEecCCccHHHHHHHHHHHHHcCC
Confidence 3344554445544445433333222222233344555666666544432 22443322222233 3455567888999
Q ss_pred CEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 132 AAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 132 dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
|.+++..........--+-..-..|+..+. .|+++...+
T Consensus 94 d~v~v~pP~y~~~~~~~~~~~~~~ia~~~~-~pi~iYn~P 132 (281)
T cd00408 94 DGVLVVPPYYNKPSQEGIVAHFKAVADASD-LPVILYNIP 132 (281)
T ss_pred CEEEECCCcCCCCCHHHHHHHHHHHHhcCC-CCEEEEECc
Confidence 999998754332221112233356777788 999998543
No 59
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=80.35 E-value=18 Score=27.56 Aligned_cols=88 Identities=19% Similarity=0.227 Sum_probs=51.1
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHH-HHHHHHHHHHHHHhhhcCceEEEEEe---cCChH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYD-MSQGLMEKLAIEAMDVAMVRTKARIV---EGDAA 119 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~i~~~~~~~---~g~~~ 119 (181)
+++.+++.+.|-.|+-+|.+. ..-+.++++.+......... ...+.++. +.+.+ +++...... .++-.
T Consensus 3 ~~~l~SGGKDS~~al~~a~~~----~~v~~L~t~~~~~~~s~~~H~~~~~~~~~-qA~al---gipl~~~~~~~~~e~~~ 74 (223)
T TIGR00290 3 VAALISGGKDSCLALYHALKE----HEVISLVNIMPENEESYMFHGVNAHLTDL-QAESI---GIPLIKLYTEGTEEDEV 74 (223)
T ss_pred EEEEecCcHHHHHHHHHHHHh----CeeEEEEEEecCCCCcccccccCHHHHHH-HHHHc---CCCeEEeecCCCccHHH
Confidence 668899999999888888665 23455666665442222111 12223332 22322 344322112 23556
Q ss_pred HHHHHHHHHhCCCEEEEecc
Q 030208 120 KVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~ 139 (181)
+.+.+..++.+++.+|.|.-
T Consensus 75 e~l~~~l~~~gv~~vv~GdI 94 (223)
T TIGR00290 75 EELKGILHTLDVEAVVFGAI 94 (223)
T ss_pred HHHHHHHHHcCCCEEEECCc
Confidence 67777777779999999975
No 60
>PLN00200 argininosuccinate synthase; Provisional
Probab=79.79 E-value=35 Score=28.52 Aligned_cols=38 Identities=11% Similarity=0.168 Sum_probs=30.4
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
|.++|+|++++...|.-++.++.+ .+|.+++.+|+...
T Consensus 4 ~~~kVvva~SGGlDSsvla~~L~e---~~G~eViav~id~G 41 (404)
T PLN00200 4 KLNKVVLAYSGGLDTSVILKWLRE---NYGCEVVCFTADVG 41 (404)
T ss_pred CCCeEEEEEeCCHHHHHHHHHHHH---hhCCeEEEEEEECC
Confidence 458999999999999888888865 24678999998653
No 61
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=79.56 E-value=30 Score=28.12 Aligned_cols=34 Identities=12% Similarity=0.035 Sum_probs=25.6
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
++|+|++++...|..++..+.+ .+.++..+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeC
Confidence 3799999999888777665543 356788888864
No 62
>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=79.49 E-value=15 Score=31.19 Aligned_cols=81 Identities=16% Similarity=0.117 Sum_probs=50.2
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecCCchh---hH---HHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHH
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ---IV---YDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKE 125 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~---~~---~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~ 125 (181)
-..-.|+..|++ .+..|.++++.++.... .. ..-.-+.+.++.++ +...|+ ...+..|++.+.|.++
T Consensus 13 l~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~-L~~~G~--~L~v~~G~p~~vl~~l 85 (471)
T TIGR03556 13 LSDNIGLAAARQ----QSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQR-YQQAGS--QLLILQGDPVQLIPQL 85 (471)
T ss_pred cchHHHHHHHHh----cCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHH-HHHCCC--CeEEEECCHHHHHHHH
Confidence 344456666654 34579999998753211 11 12233344443323 333344 4456789999999999
Q ss_pred HHHhCCCEEEEecc
Q 030208 126 AERLKPAAVVIGSR 139 (181)
Q Consensus 126 a~~~~~dliV~g~~ 139 (181)
+++.+++.|+.-..
T Consensus 86 ~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 86 AQQLGAKAVYWNLD 99 (471)
T ss_pred HHHcCCCEEEEecc
Confidence 99999999997765
No 63
>PRK14057 epimerase; Provisional
Probab=79.42 E-value=17 Score=28.23 Aligned_cols=67 Identities=13% Similarity=0.021 Sum_probs=38.4
Q ss_pred EEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 71 TIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 71 ~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.|.++.|.+....+......-++++++. +...+.+..+.+.+ -|.+...-+..+.+.++|.+|+|+.
T Consensus 157 ~VLvMtV~PGfgGQ~Fi~~~l~KI~~lr-~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 157 VIQLLAVNPGYGSKMRSSDLHERVAQLL-CLLGDKREGKIIVI-DGSLTQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred EEEEEEECCCCCchhccHHHHHHHHHHH-HHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChH
Confidence 3444444333333333444555555533 33344445555443 5667666777777789999999964
No 64
>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=79.39 E-value=2.1 Score=28.30 Aligned_cols=24 Identities=21% Similarity=0.170 Sum_probs=20.6
Q ss_pred CChHHHHHHHHHHhCCCEEEEecc
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
-.-.+.|.++|+++++||+|+|..
T Consensus 48 ~~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 48 ITDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp TT-HHHHHHHHHHTTESEEEESSH
T ss_pred CCCHHHHHHHHHHcCCCEEEECCh
Confidence 356789999999999999999965
No 65
>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=79.24 E-value=26 Score=28.07 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=28.3
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
++++|++++...|.-++..+.+. .|.+++.+|+...
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~---~G~~v~av~vd~G 52 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA---IGDRLTCVFVDHG 52 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH---hCCCEEEEEEeCC
Confidence 78999999998887777666543 3568999999764
No 66
>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=78.94 E-value=23 Score=26.00 Aligned_cols=87 Identities=17% Similarity=0.131 Sum_probs=48.5
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec--------
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE-------- 115 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-------- 115 (181)
|+|++++...|..++..+.+.. +.++..+|+...... ....+..++ ..+..+++....-..
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~---~~~v~~v~vd~g~~~----~~~~~~~~~----~a~~lgi~~~~~~~~~~~~~~~~ 69 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL---GDRVLAVTATSPLFP----RRELEEAKR----LAKEIGIRHEVIETDELDDPEFA 69 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh---CCcEEEEEeCCCCCC----HHHHHHHHH----HHHHcCCcEEEEeCCccccHHHh
Confidence 5788888888877777665542 226888888543211 111122222 222223332221111
Q ss_pred ----------C-ChHHHHHHHHHHhCCCEEEEeccCC
Q 030208 116 ----------G-DAAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 116 ----------g-~~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
. -....+.++|++.+++.|+.|.+..
T Consensus 70 ~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~d 106 (202)
T cd01990 70 KNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNAD 106 (202)
T ss_pred cCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCccc
Confidence 1 1234566788999999999998754
No 67
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=78.85 E-value=27 Score=26.72 Aligned_cols=67 Identities=7% Similarity=0.099 Sum_probs=38.8
Q ss_pred EEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 71 TIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 71 ~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.|.++.|.+....+......-++++++. +.....+.++.+.+ -|.+...-+..+.+.++|.+|+|+.
T Consensus 133 ~VLvMsV~PGf~GQ~fi~~~l~KI~~lr-~~~~~~~~~~~IeV-DGGI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 133 KITVMTVDPGFAGQPFIPEMLDKIAELK-ALRERNGLEYLIEV-DGSCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred EEEEEEEcCCCcchhccHHHHHHHHHHH-HHHHhcCCCeEEEE-ECCCCHHHHHHHHHcCCCEEEEChH
Confidence 4555555443333444445555555533 33344455555544 5656666666777779999999964
No 68
>PRK08185 hypothetical protein; Provisional
Probab=78.33 E-value=6.6 Score=31.02 Aligned_cols=58 Identities=9% Similarity=-0.026 Sum_probs=45.2
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+.+.+-....++++.|++.++.+|+..+.+.-......+......++.++. +||.+-=
T Consensus 18 fN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~-vPV~lHL 75 (283)
T PRK08185 18 FNVADSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSP-VPFVIHL 75 (283)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCC-CCEEEEC
Confidence 344555889999999999999999999887544333336778888999999 9987753
No 69
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=78.16 E-value=5.4 Score=27.90 Aligned_cols=55 Identities=11% Similarity=0.085 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCC-Ccc---cccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGR-GLI---QSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~-~~~---~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
..+.|.+++++++++.||+|..-. .+. .....-..+++|-.+.. +||..+-..++
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~-~~v~~~DEr~T 100 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFG-LPVVLVDERLS 100 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhC-CCEEEEcCCcC
Confidence 478899999999999999996432 111 11233456677777777 99999876654
No 70
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=77.57 E-value=19 Score=27.35 Aligned_cols=95 Identities=12% Similarity=0.073 Sum_probs=53.9
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC-------------------CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHh
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA-------------------DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAM 102 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~-------------------a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~ 102 (181)
..|.+....+++-.+.+++..+.-...| .-+.++.|.+...++......-++++++. +..
T Consensus 86 d~It~H~E~~~~~~r~i~~Ik~~G~kaGv~lnP~Tp~~~i~~~l~~vD~VllMsVnPGfgGQ~Fi~~~l~Ki~~lr-~~~ 164 (220)
T COG0036 86 DIITFHAEATEHIHRTIQLIKELGVKAGLVLNPATPLEALEPVLDDVDLVLLMSVNPGFGGQKFIPEVLEKIRELR-AMI 164 (220)
T ss_pred CEEEEEeccCcCHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHhhCCEEEEEeECCCCcccccCHHHHHHHHHHH-HHh
Confidence 5677777766666666666655421111 12334444333333333445555556543 333
Q ss_pred hhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 103 DVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 103 ~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.+ +..+++ -|.....-+..+..-++|.+|+|+.
T Consensus 165 ~~~~-~~~IeV-DGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 165 DERL-DILIEV-DGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred cccC-CeEEEE-eCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 3233 444443 5777777788888889999999984
No 71
>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=77.43 E-value=24 Score=25.36 Aligned_cols=35 Identities=17% Similarity=0.057 Sum_probs=28.3
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCC
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSV 81 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~ 81 (181)
+|+|++++...|.-++..+.+. |.+++.+|+....
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~~----g~~v~av~~d~g~ 35 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMKR----GIEVDALHFNSGP 35 (177)
T ss_pred CEEEEecCChhHHHHHHHHHHc----CCeEEEEEEeCCC
Confidence 4899999999998888887663 7789999996543
No 72
>PRK05920 aromatic acid decarboxylase; Validated
Probab=76.75 E-value=6.6 Score=29.47 Aligned_cols=37 Identities=16% Similarity=0.192 Sum_probs=29.8
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
+.++|++++.++-.+.++++.+..+.+. |.+++++-.
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~~-g~~V~vi~T 38 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLAA-DYEVHLVIS 38 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHHC-CCEEEEEEC
Confidence 4589999999999999999988888665 777666553
No 73
>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=76.29 E-value=36 Score=26.80 Aligned_cols=112 Identities=11% Similarity=-0.045 Sum_probs=57.6
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~~ 131 (181)
....++.-++.....|..=.++.-..........++..+.++...+... ..+.+-.-+-. +. .-++.+.|++.++
T Consensus 19 D~~~l~~l~~~l~~~Gv~gi~v~GstGE~~~Ls~eEr~~l~~~~~~~~~--~~~pvi~gv~~-~t~~~i~~a~~a~~~Ga 95 (289)
T cd00951 19 DEDAYRAHVEWLLSYGAAALFAAGGTGEFFSLTPDEYAQVVRAAVEETA--GRVPVLAGAGY-GTATAIAYAQAAEKAGA 95 (289)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECcCCcCcccCCHHHHHHHHHHHHHHhC--CCCCEEEecCC-CHHHHHHHHHHHHHhCC
Confidence 3445555545544445433222222222233445555566665444432 23444433322 33 3445677899999
Q ss_pred CEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 132 AAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 132 dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
|.+++..........--+-..-..|+..++ .||++.-
T Consensus 96 d~v~~~pP~y~~~~~~~i~~~f~~v~~~~~-~pi~lYn 132 (289)
T cd00951 96 DGILLLPPYLTEAPQEGLYAHVEAVCKSTD-LGVIVYN 132 (289)
T ss_pred CEEEECCCCCCCCCHHHHHHHHHHHHhcCC-CCEEEEe
Confidence 999997654322211111223356777888 9999985
No 74
>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=75.65 E-value=15 Score=29.25 Aligned_cols=35 Identities=17% Similarity=0.201 Sum_probs=27.1
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
+|+|++++...|.-++..+.+. .|.++..+|+...
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEecCC
Confidence 4899999998888877777653 3567999999654
No 75
>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=75.42 E-value=30 Score=25.57 Aligned_cols=113 Identities=14% Similarity=0.079 Sum_probs=61.1
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHH-
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVI- 122 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I- 122 (181)
++|+-.+.--.-.+.+.|..+... +.++-++..-... -.+.+.++.+. +..++.+.......++.+.+
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R------~ga~eQL~~~a----~~l~vp~~~~~~~~~~~~~~~ 73 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYR------IGAVEQLKTYA----EILGVPFYVARTESDPAEIAR 73 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSS------THHHHHHHHHH----HHHTEEEEESSTTSCHHHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCC------ccHHHHHHHHH----HHhccccchhhcchhhHHHHH
Confidence 466667776677888888888877 8888888863321 12233334333 33334443211122555544
Q ss_pred --HHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEE
Q 030208 123 --CKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 123 --~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv 168 (181)
++..+..++|+|++-+.|++......+.... ++++...+..+++|
T Consensus 74 ~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~-~~~~~~~~~~~~LV 120 (196)
T PF00448_consen 74 EALEKFRKKGYDLVLIDTAGRSPRDEELLEELK-KLLEALNPDEVHLV 120 (196)
T ss_dssp HHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHH-HHHHHHSSSEEEEE
T ss_pred HHHHHHhhcCCCEEEEecCCcchhhHHHHHHHH-HHhhhcCCccceEE
Confidence 4455667899999999998875443333332 33333321545544
No 76
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=75.37 E-value=4.4 Score=26.92 Aligned_cols=67 Identities=10% Similarity=0.037 Sum_probs=40.2
Q ss_pred HHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCCCC
Q 030208 99 IEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGTSP 175 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~~~ 175 (181)
++.++..+++++.. ..+. ..+-++....++|+|++|.+-+-.... .++++.... +||.++++..+.|
T Consensus 22 k~~~~e~gi~~~i~--a~~~-~e~~~~~~~~~~DvIll~PQi~~~~~~------i~~~~~~~~-ipv~~I~~~~Y~~ 88 (104)
T PRK09590 22 TEYLKEQGKDIEVD--AITA-TEGEKAIAAAEYDLYLVSPQTKMYFKQ------FEEAGAKVG-KPVVQIPPQAYIP 88 (104)
T ss_pred HHHHHHCCCceEEE--EecH-HHHHHhhccCCCCEEEEChHHHHHHHH------HHHHhhhcC-CCEEEeCHHHcCC
Confidence 34445556665432 2222 345555555679999999764433322 256666667 9999998877665
No 77
>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=75.32 E-value=25 Score=27.47 Aligned_cols=114 Identities=11% Similarity=-0.003 Sum_probs=56.0
Q ss_pred HHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhCCC
Q 030208 55 KHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLKPA 132 (181)
Q Consensus 55 ~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~~d 132 (181)
..+++.-++.....|.+-.++.-..........++..+.++...+.. . ..+.+-.-+...+. .-++.+.|++.++|
T Consensus 20 ~~~~~~~i~~l~~~Gv~gl~v~GstGE~~~lt~~Er~~l~~~~~~~~-~-~~~~vi~gv~~~~~~~~~~~a~~a~~~G~d 97 (284)
T cd00950 20 FDALERLIEFQIENGTDGLVVCGTTGESPTLSDEEHEAVIEAVVEAV-N-GRVPVIAGTGSNNTAEAIELTKRAEKAGAD 97 (284)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCCCcchhhCCHHHHHHHHHHHHHHh-C-CCCcEEeccCCccHHHHHHHHHHHHHcCCC
Confidence 34444444444444543333222111222333455555555544432 2 12333222211122 34555678889999
Q ss_pred EEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 133 AVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 133 liV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
.+++..........--+-..-++|+..+. .||++...+
T Consensus 98 ~v~~~~P~~~~~~~~~l~~~~~~ia~~~~-~pi~lYn~P 135 (284)
T cd00950 98 AALVVTPYYNKPSQEGLYAHFKAIAEATD-LPVILYNVP 135 (284)
T ss_pred EEEEcccccCCCCHHHHHHHHHHHHhcCC-CCEEEEECh
Confidence 99988654322221111234467788888 999988543
No 78
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=75.01 E-value=28 Score=24.97 Aligned_cols=64 Identities=16% Similarity=0.249 Sum_probs=42.2
Q ss_pred HHhhhcCceEEEEEecC-ChHHHHHHHH---HHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 100 EAMDVAMVRTKARIVEG-DAAKVICKEA---ERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 100 ~~~~~~~i~~~~~~~~g-~~~~~I~~~a---~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
..++.-+++++..+..- ...+.+.+++ ++++++.+|.++-....+.+ -+...+. .||+-||-..
T Consensus 19 ~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg--------vva~~t~-~PVIgvP~~~ 86 (156)
T TIGR01162 19 DILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG--------MVAALTP-LPVIGVPVPS 86 (156)
T ss_pred HHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH--------HHHhccC-CCEEEecCCc
Confidence 34455567788777653 4445555554 55678888888766555443 3667788 9999998643
No 79
>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=74.16 E-value=7.2 Score=26.65 Aligned_cols=112 Identities=14% Similarity=0.116 Sum_probs=59.1
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEE-EEecCChHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKA-RIVEGDAAK 120 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~-~~~~g~~~~ 120 (181)
|+|++++.++..+..+.++..++.+. |.+++++---. +.+.+.... .....+..++ ....++...
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g~~v~vv~S~~----------A~~~~~~~~---~~~~~v~~~~~~~~~~~~~~ 66 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-GWEVRVVLSPS----------AERFVTPEG---LTGEPVYTDWDTWDRGDPAE 66 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-TSEEEEEESHH----------HHHHSHHHG---HCCSCEECTHCTCSTTTTTC
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-CCEEEEEECCc----------HHHHhhhhc---cccchhhhccccCCCCCCcC
Confidence 68999999999999988888777766 77755544311 222222211 1111111110 011223333
Q ss_pred HHHHHHHHhCCCEEEEeccCCCcccc---cccCchhhHHHhcC---CCccEEEEcCC
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQS---VLQGSVGEYCLHHC---KTAPIIVVPGK 171 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~~---~~~gs~~~~ll~~~---~~~pVlvv~~~ 171 (181)
. ++..+. +|++|+..-....+.+ -+-.+....++... . .||+++|..
T Consensus 67 ~-~~~~~~--~D~~vVaPaT~NtlaKiA~GiaD~l~~~~~~~~l~~~-~pvvi~P~m 119 (129)
T PF02441_consen 67 H-IELSRW--ADAMVVAPATANTLAKIANGIADNLLTRVALAALKEG-KPVVIAPAM 119 (129)
T ss_dssp H-HHHHHT--ESEEEEEEEEHHHHHHHHTT--SSHHHHHHHHHHHTT-CGEEEEEEE
T ss_pred c-cccccc--CCEEEEcccCHHHHHHHHhCCcchHHHHHHHHHccCC-CCeEEEEeC
Confidence 3 333444 9999998754433332 22334445555555 7 999999863
No 80
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=73.50 E-value=13 Score=30.24 Aligned_cols=57 Identities=12% Similarity=0.036 Sum_probs=44.5
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCC-EEEEEEEecCCchhhHHHHHHHHHHH
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLAD-TIHLVHAVSSVQNQIVYDMSQGLMEK 96 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a-~l~llhV~~~~~~~~~~~~~~~~l~~ 96 (181)
.+.+|.|.+++.+.|.-.+..+.+.++..+- +|.|+|+--........+.+++.+..
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~~~~~i~VlfiD~E~QYs~TidyV~em~~~ 83 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVARENGRDKISVLFIDWEAQYSCTIDYVQEMRES 83 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHhCCCceEEEEEcchhhhhhHHHHHHHHHhc
Confidence 4688999999999999999999999999875 89999996555545555555555443
No 81
>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=73.28 E-value=14 Score=30.17 Aligned_cols=60 Identities=10% Similarity=0.128 Sum_probs=44.4
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-ccc---------------ccCchhhHHHhcCCCccEEEEcC
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QSV---------------LQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~---------------~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+.+..-....++++.|++.++.+|+.-+.+.... ... .+......++.++. +||.+-=.
T Consensus 20 AfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~-VPValHLD 95 (345)
T cd00946 20 AVNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEHYG-VPVVLHTD 95 (345)
T ss_pred EEeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCC-CCEEEECC
Confidence 34555558899999999999999999998763321 211 45667788999999 99877633
No 82
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=73.20 E-value=48 Score=26.94 Aligned_cols=23 Identities=17% Similarity=0.190 Sum_probs=18.7
Q ss_pred HHHHHHHHHhCCCEEEEeccCCC
Q 030208 120 KVICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~~~~ 142 (181)
..+.++|++.++|.|+.|.+.+.
T Consensus 103 ~~l~~~A~~~g~~~IatGHya~d 125 (349)
T cd01998 103 GALLDYAKKLGADYIATGHYARI 125 (349)
T ss_pred HHHHHHHHHcCcCEEEECCcCCe
Confidence 46667899999999999987653
No 83
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=73.19 E-value=12 Score=29.54 Aligned_cols=59 Identities=12% Similarity=0.147 Sum_probs=44.4
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEc
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.+.+..-....++++.|++.++-+|+..+.+.-...+ -.+......++.+.. +||.+-=
T Consensus 22 AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~-VPV~lHL 81 (284)
T PRK09195 22 AFNIHNLETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYH-HPLALHL 81 (284)
T ss_pred EEEeCCHHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHHHHHHHHHHHCC-CCEEEEC
Confidence 3445555889999999999999999988776433222 245677888999999 9988753
No 84
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=72.81 E-value=39 Score=25.62 Aligned_cols=69 Identities=17% Similarity=0.184 Sum_probs=46.4
Q ss_pred HHHHHhhhcCceEEEEEecC---Ch---HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 97 LAIEAMDVAMVRTKARIVEG---DA---AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 97 ~~~~~~~~~~i~~~~~~~~g---~~---~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
++.+.....++.+... -.| ++ .....+..++.+.|+||+++...... ..+.++.++..+. .|.+|+..
T Consensus 22 llDErAdRedi~vrVv-gsgaKM~Pe~veaav~~~~e~~~pDfvi~isPNpaaP----GP~kARE~l~~s~-~PaiiigD 95 (277)
T COG1927 22 LLDERADREDIEVRVV-GSGAKMDPECVEAAVTEMLEEFNPDFVIYISPNPAAP----GPKKAREILSDSD-VPAIIIGD 95 (277)
T ss_pred HHHhhcccCCceEEEe-ccccccChHHHHHHHHHHHHhcCCCEEEEeCCCCCCC----CchHHHHHHhhcC-CCEEEecC
Confidence 3445555555665432 222 22 34556678999999999998765432 2567789999999 99999964
Q ss_pred C
Q 030208 171 K 171 (181)
Q Consensus 171 ~ 171 (181)
.
T Consensus 96 a 96 (277)
T COG1927 96 A 96 (277)
T ss_pred C
Confidence 3
No 85
>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=72.26 E-value=13 Score=24.91 Aligned_cols=45 Identities=24% Similarity=0.295 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
......+.|++.++..||+-+. -|.++..+.+.-+.|||+++-+.
T Consensus 4 ia~aa~~~A~~~~ak~Ivv~T~---------sG~ta~~isk~RP~~pIiavt~~ 48 (117)
T PF02887_consen 4 IARAAVELAEDLNAKAIVVFTE---------SGRTARLISKYRPKVPIIAVTPN 48 (117)
T ss_dssp HHHHHHHHHHHHTESEEEEE-S---------SSHHHHHHHHT-TSSEEEEEESS
T ss_pred HHHHHHHHHHhcCCCEEEEECC---------CchHHHHHHhhCCCCeEEEEcCc
Confidence 3566778899999988888765 27788899998888999998654
No 86
>PRK00074 guaA GMP synthase; Reviewed
Probab=72.01 E-value=50 Score=28.45 Aligned_cols=88 Identities=16% Similarity=0.172 Sum_probs=52.3
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe-------
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV------- 114 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~------- 114 (181)
++|+|++++...|.-++..+.+.. |.++..+|+....... .+.++..+. ..+..+++....-.
T Consensus 216 ~~vlva~SGGvDS~vll~ll~~~l---g~~v~av~vd~g~~~~---~e~~~~~~~----~a~~lgi~~~vvd~~~~f~~~ 285 (511)
T PRK00074 216 KKVILGLSGGVDSSVAAVLLHKAI---GDQLTCVFVDHGLLRK---NEAEQVMEM----FREHFGLNLIHVDASDRFLSA 285 (511)
T ss_pred CcEEEEeCCCccHHHHHHHHHHHh---CCceEEEEEeCCCCCH---HHHHHHHHH----HHHHcCCcEEEEccHHHHHHh
Confidence 789999999999988877776542 5679999996543211 112222221 11222333322110
Q ss_pred -cC--Ch-----------HHHHHHHHHHh-CCCEEEEecc
Q 030208 115 -EG--DA-----------AKVICKEAERL-KPAAVVIGSR 139 (181)
Q Consensus 115 -~g--~~-----------~~~I~~~a~~~-~~dliV~g~~ 139 (181)
.| ++ ...+.++|++. +++.|+-|+.
T Consensus 286 l~g~~~~~~~r~~~~~~~~~~~~~~a~~~~g~~~latGhn 325 (511)
T PRK00074 286 LAGVTDPEEKRKIIGREFIEVFEEEAKKLGGVKFLAQGTL 325 (511)
T ss_pred ccCCCCcHHhhhhhhHHHHHHHHHHHHHccCCCEEEECCC
Confidence 01 11 34567788888 9999999974
No 87
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=71.99 E-value=54 Score=26.93 Aligned_cols=86 Identities=15% Similarity=0.023 Sum_probs=50.8
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe------
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV------ 114 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~------ 114 (181)
.++|+|++++...|.-++..+. ..+.++..+|+..... .. +. ++...+..+++....-.
T Consensus 5 ~~kVlVa~SGGvDSsv~a~lL~----~~G~eV~av~~~~~~~---e~----~~----a~~va~~LGI~~~vvd~~~~f~~ 69 (362)
T PRK14664 5 KKRVLVGMSGGIDSTATCLMLQ----EQGYEIVGVTMRVWGD---EP----QD----ARELAARMGIEHYVADERVPFKD 69 (362)
T ss_pred CCEEEEEEeCCHHHHHHHHHHH----HcCCcEEEEEecCcch---hH----HH----HHHHHHHhCCCEEEEeChHHHHH
Confidence 3789999999988876665443 2466788888843211 00 11 22222232333222111
Q ss_pred -----------cCC-----------h-HHHHHHHHHHhCCCEEEEeccCC
Q 030208 115 -----------EGD-----------A-AKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 115 -----------~g~-----------~-~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
.|. . ...+.++|++.++|.|+-|.+.+
T Consensus 70 ~v~~~~~~~~~~G~tpnpC~~Cn~~iKf~~L~~~A~~~G~~~IATGHyar 119 (362)
T PRK14664 70 TIVKNFIDEYRQGRTPNPCVMCNPLFKFRMLIEWADKLGCAWIATGHYSR 119 (362)
T ss_pred HHHHHhHHHHHcCCCCCCchhhhHHHHHHHHHHHHHHcCCCEEEECCccc
Confidence 121 1 24688899999999999998864
No 88
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=71.96 E-value=18 Score=28.60 Aligned_cols=58 Identities=17% Similarity=0.083 Sum_probs=43.7
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+.+.+-....++++.|++.++.+|+..+.+.-.... -+++......++++. +||.+-=
T Consensus 23 fn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~-vpv~lHl 81 (281)
T PRK06806 23 FSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIGPLMVAAAKQAK-VPVAVHF 81 (281)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHHHHHHHHHHHCC-CCEEEEC
Confidence 344455889999999999999999998876533222 245677788999999 9988753
No 89
>PRK06801 hypothetical protein; Provisional
Probab=71.61 E-value=17 Score=28.79 Aligned_cols=59 Identities=5% Similarity=0.004 Sum_probs=45.6
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEcC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+.+-....++++.|++.++.+|+..+.+.....+ -.+......++.++. +||.+-=.
T Consensus 23 fn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~-vpV~lHlD 82 (286)
T PRK06801 23 FNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLVEAVKFEAARHD-IPVVLNLD 82 (286)
T ss_pred EeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCC-CCEEEECC
Confidence 344455789999999999999999998887554333 346778889999999 99877533
No 90
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=71.36 E-value=16 Score=28.91 Aligned_cols=59 Identities=12% Similarity=0.094 Sum_probs=43.9
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEcC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+..-....++++.|++.++.+|+..+.+.-...+ -.+......++.++. +||.+-=.
T Consensus 23 fNv~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~~~~~~~A~~~~-VPValHLD 82 (284)
T PRK12857 23 FNCNNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKAS-VPVALHLD 82 (284)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHHHHHHHHHHHCC-CCEEEECC
Confidence 344445889999999999999999998876433222 235667788899999 99987643
No 91
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=71.35 E-value=19 Score=29.87 Aligned_cols=114 Identities=14% Similarity=0.238 Sum_probs=62.9
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
|+|++++.++-.+.+++..+..+- +.|+.+.++-.-. +.+....+.-+.+....+ .+ .........
T Consensus 5 k~ill~v~gsiaayk~~~l~r~L~-~~ga~v~vvmt~~----------a~~fv~p~~~~~~s~~~v-~t--~~~~~~~~~ 70 (392)
T COG0452 5 KRILLGVTGSIAAYKSVELVRLLR-RSGAEVRVVMTES----------ARKFITPLTFQALSGNPV-YT--LLDEELTGS 70 (392)
T ss_pred ceEEEEecCchhhhhHHHHHHHHh-hCCCeeEEEcchh----------hhhhcCcccHHHhhCCCc-cc--ccccccccc
Confidence 699999999998888888775554 4588888776533 111111111122222111 11 112222222
Q ss_pred H--HHHHHHhCCCEEEEeccCCCcccc---cccCchhhHHHhcCCCccEEEEcCCC
Q 030208 122 I--CKEAERLKPAAVVIGSRGRGLIQS---VLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 122 I--~~~a~~~~~dliV~g~~~~~~~~~---~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
+ +++++ .+|++++.-.....+.. .+-...+-..+..+. +|+++.|.-.
T Consensus 71 ~~HI~l~~--~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~-~p~~~aPamn 123 (392)
T COG0452 71 VEHIELAR--WADLLLVAPATANTIAKLAVGIADNLSTTTLLAAK-APLVLAPAMN 123 (392)
T ss_pred ccHhhhhh--ccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhc-CcEEEecCcC
Confidence 2 33344 49999888765555443 222333334555666 8999988644
No 92
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=71.34 E-value=32 Score=26.14 Aligned_cols=89 Identities=17% Similarity=0.187 Sum_probs=50.2
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHH-HHHHHHHHHHHHHhhhcCceEEEEEecC---Ch
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYD-MSQGLMEKLAIEAMDVAMVRTKARIVEG---DA 118 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~i~~~~~~~~g---~~ 118 (181)
++++.+++.+.|--|+-++.+- ..-..++++........... ...+.++ ...+..+++.......| +-
T Consensus 2 kv~vl~SGGKDS~lAl~~~~~~----~~V~~L~~~~~~~~~s~~~h~~~~~~~~----~qA~algiPl~~~~~~~~~e~~ 73 (222)
T TIGR00289 2 KVAVLYSGGKDSILALYKALEE----HEVISLVGVFSENEESYMFHSPNLHLTD----LVAEAVGIPLIKLYTSGEEEKE 73 (222)
T ss_pred eEEEEecCcHHHHHHHHHHHHc----CeeEEEEEEcCCCCCccccccCCHHHHH----HHHHHcCCCeEEEEcCCchhHH
Confidence 4788899999998888888663 23344445544322111111 1112222 22233345554333333 45
Q ss_pred HHHHHHHHHHhCCCEEEEecc
Q 030208 119 AKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.+.+..++.+++.||.|.=
T Consensus 74 ~~~l~~~l~~~gv~~vv~GdI 94 (222)
T TIGR00289 74 VEDLAGQLGELDVEALCIGAI 94 (222)
T ss_pred HHHHHHHHHHcCCCEEEECcc
Confidence 666777777878999999974
No 93
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.16 E-value=67 Score=27.66 Aligned_cols=116 Identities=18% Similarity=0.070 Sum_probs=68.9
Q ss_pred CCCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC--
Q 030208 39 RRGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-- 116 (181)
Q Consensus 39 ~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-- 116 (181)
+++--.+|+|++---|-.+.+.|.+|... +-.+.+.-+ +. ......+....+.+++..- ....+..- +--+|
T Consensus 377 rPYVi~fvGVNGVGKSTNLAKIayWLlqN-kfrVLIAAC-DT-FRsGAvEQLrtHv~rl~~l--~~~~v~lf-ekGYgkd 450 (587)
T KOG0781|consen 377 RPYVISFVGVNGVGKSTNLAKIAYWLLQN-KFRVLIAAC-DT-FRSGAVEQLRTHVERLSAL--HGTMVELF-EKGYGKD 450 (587)
T ss_pred CCeEEEEEeecCccccchHHHHHHHHHhC-CceEEEEec-cc-hhhhHHHHHHHHHHHHHHh--ccchhHHH-hhhcCCC
Confidence 44566778899988888999999998765 334433333 32 2222223333333443211 00001100 01122
Q ss_pred --ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCC
Q 030208 117 --DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCK 161 (181)
Q Consensus 117 --~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~ 161 (181)
.++++-+++|++.++|.|.|-+-||-.-..-++++.+. ++.-..
T Consensus 451 ~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k-~~~~~~ 496 (587)
T KOG0781|consen 451 AAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAK-LIKVNK 496 (587)
T ss_pred hHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHH-HHhcCC
Confidence 35788899999999999999999988777777777754 555443
No 94
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=71.03 E-value=57 Score=26.77 Aligned_cols=64 Identities=14% Similarity=0.037 Sum_probs=39.2
Q ss_pred hhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcC
Q 030208 102 MDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 102 ~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+.|++++.. ..+.+. .+..+.++|++|+|+.+-..-.+ .-.|+..-.++.+..++||+|+-+
T Consensus 215 L~~~GI~vtlI--~Dsav~---~~M~~~~Vd~VivGAd~I~~nG~v~NKiGTy~lA~~Ak~~~vPfyV~Ap 280 (356)
T PRK08334 215 YHYDGIPLKLI--SDNMAG---FVMQQGKVDAIIVGADRIVANGDFANKIGTYTLAVLAKEHGIPFFTVAP 280 (356)
T ss_pred HHHCCCCEEEE--ehhHHH---HHhhhcCCCEEEECccEEecCCCEeehhhHHHHHHHHHHhCCCEEEEcc
Confidence 34456777643 333332 23445679999999986322221 225777777775555599999843
No 95
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=70.56 E-value=64 Score=27.18 Aligned_cols=112 Identities=21% Similarity=0.151 Sum_probs=67.3
Q ss_pred CeEEEEEcCC-hhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH
Q 030208 42 RDILIAVDHG-PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK 120 (181)
Q Consensus 42 ~~Ilv~vd~s-~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~ 120 (181)
.-||+.=|+. -.|--+++.+.++|++. .+++|.-..+.. +.+--+ +.+.- ......+....-.+
T Consensus 94 s~iLIgGdPGIGKSTLLLQva~~lA~~~----~vLYVsGEES~~--------QiklRA-~RL~~--~~~~l~l~aEt~~e 158 (456)
T COG1066 94 SVILIGGDPGIGKSTLLLQVAARLAKRG----KVLYVSGEESLQ--------QIKLRA-DRLGL--PTNNLYLLAETNLE 158 (456)
T ss_pred cEEEEccCCCCCHHHHHHHHHHHHHhcC----cEEEEeCCcCHH--------HHHHHH-HHhCC--CccceEEehhcCHH
Confidence 4577777776 44778899999998774 778886532211 111101 11111 11233444567789
Q ss_pred HHHHHHHHhCCCEEEEeccCCCccc--ccccCchhh---------HHHhcCCCccEEEEc
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQ--SVLQGSVGE---------YCLHHCKTAPIIVVP 169 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~--~~~~gs~~~---------~ll~~~~~~pVlvv~ 169 (181)
.|++.+++.+.|++|+-+=.--... ...-||+++ +++.+.. +++++|-
T Consensus 159 ~I~~~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~-i~~fiVG 217 (456)
T COG1066 159 DIIAELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKN-IAIFIVG 217 (456)
T ss_pred HHHHHHHhcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcC-CeEEEEE
Confidence 9999999999999999975311111 123465554 4555666 8888884
No 96
>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=70.43 E-value=49 Score=25.77 Aligned_cols=110 Identities=12% Similarity=0.076 Sum_probs=52.8
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
...++..+.|......+.. |...+.++.++ |.+...... .....+++ ...|++++.. ..+..
T Consensus 108 ~~~ILT~~~S~~v~~~l~~----a~~~~~~~~V~-v~es~P~~e----G~~~a~~L-----~~~gi~v~~i--~d~~~-- 169 (282)
T PF01008_consen 108 GDTILTHGYSSTVERFLLS----AKKKGKKFRVI-VLESRPYNE----GRLMAKEL-----AEAGIPVTLI--PDSAV-- 169 (282)
T ss_dssp TEEEEEES--SHHHHHHHH----HHHTTEEEEEE-EE--TTTTH----HHTHHHHH-----HHTT-EEEEE---GGGH--
T ss_pred CeEEEEeCCchHHHHHHHH----HHHcCCeEEEE-EccCCcchh----hhhHHHHh-----hhcceeEEEE--echHH--
Confidence 5566677777665555544 44445566664 555433221 12222222 2335666543 33232
Q ss_pred HHHHHHHhCCCEEEEeccCC---CcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 122 ICKEAERLKPAAVVIGSRGR---GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 122 I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
..+.++ ++|.+++|+..- ++.-. -.|+..-.++.+..++||+|+-..+
T Consensus 170 -~~~m~~-~vd~VliGad~v~~nG~v~n-k~Gt~~~a~~Ak~~~vPv~v~~~~~ 220 (282)
T PF01008_consen 170 -GYVMPR-DVDKVLIGADAVLANGGVVN-KVGTLQLALAAKEFNVPVYVLAESY 220 (282)
T ss_dssp -HHHHHC-TESEEEEE-SEEETTS-EEE-ETTHHHHHHHHHHTT-EEEEE--GG
T ss_pred -HHHHHH-hCCeeEEeeeEEecCCCEee-hhhHHHHHHHHHhhCCCEEEEcccc
Confidence 333333 699999999852 22222 2577666666555559999995544
No 97
>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=70.41 E-value=59 Score=26.69 Aligned_cols=37 Identities=16% Similarity=0.072 Sum_probs=29.5
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
...++++.+++...|.-++..+.+ .|.+++.+|+...
T Consensus 171 ~~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~~~ 207 (371)
T TIGR00342 171 TQGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFFNE 207 (371)
T ss_pred cCCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEeCC
Confidence 358899999999999888766644 3778999999743
No 98
>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=70.18 E-value=37 Score=24.20 Aligned_cols=63 Identities=8% Similarity=0.117 Sum_probs=37.3
Q ss_pred HHhhhcCceEEEEEecC-ChHHHHHHHHHHh---CCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 100 EAMDVAMVRTKARIVEG-DAAKVICKEAERL---KPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 100 ~~~~~~~i~~~~~~~~g-~~~~~I~~~a~~~---~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
..++..++.++..+..- ...+.+.+++++. +++.+|.++-....+. --+...+. .||+-||-.
T Consensus 21 ~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lp--------gvva~~t~-~PVIgvP~~ 87 (150)
T PF00731_consen 21 KTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALP--------GVVASLTT-LPVIGVPVS 87 (150)
T ss_dssp HHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HH--------HHHHHHSS-S-EEEEEE-
T ss_pred HHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccch--------hhheeccC-CCEEEeecC
Confidence 33444567888777664 5566777777654 5688887765544433 34667778 999999854
No 99
>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=69.93 E-value=33 Score=26.92 Aligned_cols=93 Identities=12% Similarity=0.126 Sum_probs=52.4
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-CC-hHH
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE-GD-AAK 120 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-g~-~~~ 120 (181)
+|-+.|.....++.-++.|-++.+.++.. .++|+.-+.... .+.+..+.++. .+..+..+++ .+.. +. -.-
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg~~-~I~h~tyPdnf~---~e~EttIskI~-~lAdDp~mKa--IVv~q~vpGt~ 76 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKYGDV-MIKHVTYPDNFM---SEQETTISKIV-SLADDPDMKA--IVVSQAVPGTA 76 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHHHHH-EEEEEE--TTGG---GCHHHHHHHHH-GGGG-TTEEE--EEEE-SS---H
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHhCcc-eEEEEeCCCccc---chHHHHHHHHH-HhccCCCccE--EEEeCCCcchH
Confidence 57788888889999999999999998876 778886643221 22333444432 2223433443 4443 32 244
Q ss_pred HHHHHHHHhCCCEEEEeccCCC
Q 030208 121 VICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~ 142 (181)
.-++-+++...|++.+....+.
T Consensus 77 ~af~kIkekRpDIl~ia~~~~E 98 (275)
T PF12683_consen 77 EAFRKIKEKRPDILLIAGEPHE 98 (275)
T ss_dssp HHHHHHHHH-TTSEEEESS--S
T ss_pred HHHHHHHhcCCCeEEEcCCCcC
Confidence 5556677778999998876543
No 100
>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=69.08 E-value=45 Score=24.79 Aligned_cols=83 Identities=10% Similarity=0.107 Sum_probs=48.3
Q ss_pred EEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec--------CC
Q 030208 46 IAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE--------GD 117 (181)
Q Consensus 46 v~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~--------g~ 117 (181)
++.-..+.+..++..+..+++..+.++.++.+-.. ..+...+.+. ..+...-+.+.. ..
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~G~~--------~~~~~~~~l~-----~~G~d~V~~~~~~~~~~~~~e~ 95 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSMGPP--------QAEEALREAL-----AMGADRAILVSDRAFAGADTLA 95 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEECCH--------HHHHHHHHHH-----HcCCCEEEEEecccccCCChHH
Confidence 34445566778888888888777778777776431 0111222211 112222222211 12
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
..+.|.+++++.++|+|++|+...
T Consensus 96 ~a~al~~~i~~~~p~lVL~~~t~~ 119 (202)
T cd01714 96 TAKALAAAIKKIGVDLILTGKQSI 119 (202)
T ss_pred HHHHHHHHHHHhCCCEEEEcCCcc
Confidence 356788888888899999998765
No 101
>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=68.96 E-value=9.2 Score=24.84 Aligned_cols=63 Identities=13% Similarity=0.114 Sum_probs=37.1
Q ss_pred HHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCCC
Q 030208 100 EAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGTS 174 (181)
Q Consensus 100 ~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~~ 174 (181)
+..+..+++++... .+.. ++-+... ++|+|+++.+-+..++. .++++.... +||.++++..+.
T Consensus 25 ~~~~~~gi~~~v~a--~~~~-~~~~~~~--~~Dvill~pqi~~~~~~------i~~~~~~~~-ipv~~I~~~~Y~ 87 (95)
T TIGR00853 25 KAAEEYGVPVKIAA--GSYG-AAGEKLD--DADVVLLAPQVAYMLPD------LKKETDKKG-IPVEVINGAQYG 87 (95)
T ss_pred HHHHHCCCcEEEEE--ecHH-HHHhhcC--CCCEEEECchHHHHHHH------HHHHhhhcC-CCEEEeChhhcc
Confidence 33444566655332 2222 2333343 48999999775443332 256677777 999999887663
No 102
>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=68.71 E-value=63 Score=26.37 Aligned_cols=33 Identities=9% Similarity=0.049 Sum_probs=25.7
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
++|+|++++...|.-++..+.+ .+.++..+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEE
Confidence 4799999999888877766655 35688888884
No 103
>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=68.66 E-value=20 Score=28.39 Aligned_cols=59 Identities=8% Similarity=0.108 Sum_probs=44.5
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEcC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+..-....++++.|++.++.+|+..+.+.-...+ -.+......+++++. +||.+-=.
T Consensus 21 fN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~-VPValHLD 80 (282)
T TIGR01858 21 FNIHNLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIVALCSAASTTYN-MPLALHLD 80 (282)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHHHHHHHHHHHCC-CCEEEECC
Confidence 344455889999999999999999998876533222 235678888999999 99987643
No 104
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=67.54 E-value=21 Score=28.23 Aligned_cols=59 Identities=8% Similarity=0.070 Sum_probs=43.9
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cccccCchhhHHHhcCCCccEEEEc
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.+.+.+-....++++.|++.++.+|+..+.+.-.. ..-.+......++.++. +||.+-=
T Consensus 22 AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~-VPValHL 81 (286)
T PRK12738 22 AFNIHNAETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIYALCSAYSTTYN-MPLALHL 81 (286)
T ss_pred EEEeCCHHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCC-CCEEEEC
Confidence 34555568899999999999999999877654322 22234677788899999 9998763
No 105
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=67.23 E-value=21 Score=28.25 Aligned_cols=58 Identities=14% Similarity=0.198 Sum_probs=43.4
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+.+..-....++++.|++.++.+|+..+.+.-...+ -++......+++++. +||.+-=
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~a~~~~-VPValHL 81 (284)
T PRK12737 23 FNIHNLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIVAIAEVAARKYN-IPLALHL 81 (284)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHHHHHHHHHHHCC-CCEEEEC
Confidence 344455889999999999999999988775433222 235677888999999 9988753
No 106
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=67.06 E-value=46 Score=24.16 Aligned_cols=129 Identities=13% Similarity=0.024 Sum_probs=68.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCc--------------------------hhhHHHHHHHHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQ--------------------------NQIVYDMSQGLM 94 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~--------------------------~~~~~~~~~~~l 94 (181)
.|.|.+.+|+.+.... ...+..+.+.++.+-+++-+-..-. .....+...+.+
T Consensus 5 ~k~V~LTFDDgp~~~~-t~~~l~~L~~~~ikaTfFv~g~~~~~~~~~~~~i~~~Gheig~Ht~~H~~~~~~~~~~~~~ei 83 (191)
T TIGR02764 5 DKKIALTFDISWGNDY-TEPILDTLKEYDVKATFFLSGSWAERHPELVKEIVKDGHEIGSHGYRHKNYTTLEDEKIKKDI 83 (191)
T ss_pred CCEEEEEEECCCCccc-HHHHHHHHHHcCCCEEEEeccHHHHHCHHHHHHHHhCCCEEEECCcCCCCcccCCHHHHHHHH
Confidence 3789999999876422 3444566667777666654422110 001112233333
Q ss_pred HHHHHHHhhhcCceEE-EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 95 EKLAIEAMDVAMVRTK-ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 95 ~~~~~~~~~~~~i~~~-~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
....+.+.+..+.... ++.-.|...+.+.+.+++.++..+.... ...++...-...+.++++.+..+-.|++++..
T Consensus 84 ~~~~~~l~~~~g~~~~~fr~P~G~~~~~~~~~l~~~G~~~v~w~~-~~~D~~~~~~~~i~~~~~~~~~~g~Iil~Hd~ 160 (191)
T TIGR02764 84 LRAQEIIEKLTGKKPTLFRPPSGAFNKAVLKAAESLGYTVVHWSV-DSRDWKNPGVESIVDRVVKNTKPGDIILLHAS 160 (191)
T ss_pred HHHHHHHHHHhCCCCCEEECCCcCCCHHHHHHHHHcCCeEEEecC-CCCccCCCCHHHHHHHHHhcCCCCCEEEEeCC
Confidence 3322222222333333 2333578889999999998877444333 23333322123344566667765778888853
No 107
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=66.82 E-value=59 Score=25.85 Aligned_cols=111 Identities=11% Similarity=0.053 Sum_probs=61.6
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecCC--chhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-C---hHHHHHHH
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSSV--QNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-D---AAKVICKE 125 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~---~~~~I~~~ 125 (181)
.-...+++..++.....| +.-+.+.-.. ......++..+.++...+..... +.+ ..-.| + -+-++.++
T Consensus 21 ~vD~~a~~~lv~~li~~G--v~gi~~~GttGE~~~Ls~eEr~~v~~~~v~~~~gr--vpv--iaG~g~~~t~eai~lak~ 94 (299)
T COG0329 21 SVDEEALRRLVEFLIAAG--VDGLVVLGTTGESPTLTLEERKEVLEAVVEAVGGR--VPV--IAGVGSNSTAEAIELAKH 94 (299)
T ss_pred CcCHHHHHHHHHHHHHcC--CCEEEECCCCccchhcCHHHHHHHHHHHHHHHCCC--CcE--EEecCCCcHHHHHHHHHH
Confidence 356677888777776666 3333333222 22333444455555433322221 332 22223 2 34566778
Q ss_pred HHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 126 AERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 126 a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
|++.++|-+++-..-.....+--+=..-..|+..+. .|+++.-
T Consensus 95 a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~~-lPvilYN 137 (299)
T COG0329 95 AEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAVD-LPVILYN 137 (299)
T ss_pred HHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhcC-CCEEEEe
Confidence 899999999998865444332111223367888887 9999885
No 108
>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=66.78 E-value=11 Score=26.16 Aligned_cols=57 Identities=18% Similarity=0.085 Sum_probs=41.2
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCC----cccccccCchhhHHHhcC-CCccEEEEcCCCC
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGRG----LIQSVLQGSVGEYCLHHC-KTAPIIVVPGKGT 173 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~~----~~~~~~~gs~~~~ll~~~-~~~pVlvv~~~~~ 173 (181)
+...+.|.+++++++++.+|+|..-.. .......-..++.+.... . +||..+-..++
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~-ipV~~~DEr~T 98 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPG-IPVILVDERLT 98 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-T-SEEEEEECSCS
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCC-CcEEEECCChh
Confidence 478999999999999999999986422 111223345556777776 6 99999976665
No 109
>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=66.56 E-value=62 Score=25.51 Aligned_cols=113 Identities=11% Similarity=-0.068 Sum_probs=58.0
Q ss_pred hhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChH--HHHHHHHHHhC
Q 030208 53 NSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAA--KVICKEAERLK 130 (181)
Q Consensus 53 ~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~--~~I~~~a~~~~ 130 (181)
-...+++.-++.....|.+=.++.-..........++..+.++...+.... .+.+-..+- .+.. -++.++|++.+
T Consensus 23 iD~~~l~~li~~l~~~Gv~gi~v~GstGE~~~Lt~eEr~~v~~~~~~~~~g--~~pvi~gv~-~~t~~ai~~a~~a~~~G 99 (296)
T TIGR03249 23 FDEAAYRENIEWLLGYGLEALFAAGGTGEFFSLTPAEYEQVVEIAVSTAKG--KVPVYTGVG-GNTSDAIEIARLAEKAG 99 (296)
T ss_pred cCHHHHHHHHHHHHhcCCCEEEECCCCcCcccCCHHHHHHHHHHHHHHhCC--CCcEEEecC-ccHHHHHHHHHHHHHhC
Confidence 344566666666655554333322222222334445555555554443222 244433332 2332 34566788899
Q ss_pred CCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 131 PAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 131 ~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+|.+++-.........--+-..-+.|+..++ .||++..
T Consensus 100 adav~~~pP~y~~~s~~~i~~~f~~v~~a~~-~pvilYn 137 (296)
T TIGR03249 100 ADGYLLLPPYLINGEQEGLYAHVEAVCESTD-LGVIVYQ 137 (296)
T ss_pred CCEEEECCCCCCCCCHHHHHHHHHHHHhccC-CCEEEEe
Confidence 9999887653322211111223356777888 9999985
No 110
>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=65.99 E-value=77 Score=26.38 Aligned_cols=34 Identities=12% Similarity=0.210 Sum_probs=27.4
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
+|++++++...|.-++.++.+. |.+++.+|+...
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id~G 34 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTADVG 34 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEecC
Confidence 4899999999898888877653 678999999653
No 111
>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=65.89 E-value=14 Score=25.49 Aligned_cols=56 Identities=9% Similarity=-0.015 Sum_probs=38.4
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCC-c---ccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRG-L---IQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~-~---~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
...+.|.+++++++++.||+|..-.. + ......-..+++|-.... .||..+-...+
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~-~~v~~~DEr~T 94 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFG-VPVVLWDERLS 94 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhC-CCEEEEcCCcC
Confidence 45788999999999999999954321 1 111223355667766777 99999876654
No 112
>PRK10867 signal recognition particle protein; Provisional
Probab=65.85 E-value=82 Score=26.60 Aligned_cols=93 Identities=15% Similarity=0.063 Sum_probs=53.0
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH---
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK--- 120 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~--- 120 (181)
+++...++--+-.+...|..+++..|.++.++..-.. ...+.+.++.+ .+..++.+.......++.+
T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~------R~aa~eQL~~~----a~~~gv~v~~~~~~~dp~~i~~ 173 (433)
T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVY------RPAAIEQLKTL----GEQIGVPVFPSGDGQDPVDIAK 173 (433)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEcccc------chHHHHHHHHH----HhhcCCeEEecCCCCCHHHHHH
Confidence 3444566666778888888877665777877766321 11112222222 2333455432212234433
Q ss_pred HHHHHHHHhCCCEEEEeccCCCcccc
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQS 146 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~~ 146 (181)
..+++++..++|+|++-+.++.....
T Consensus 174 ~a~~~a~~~~~DvVIIDTaGrl~~d~ 199 (433)
T PRK10867 174 AALEEAKENGYDVVIVDTAGRLHIDE 199 (433)
T ss_pred HHHHHHHhcCCCEEEEeCCCCcccCH
Confidence 34456677789999999998775443
No 113
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=64.90 E-value=91 Score=26.79 Aligned_cols=111 Identities=14% Similarity=0.143 Sum_probs=67.2
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
..+++..+.+.- ++..+..|...+.++.++-|-..+.. +.+..++.+ ...|+++.+....+ ...
T Consensus 360 gdviltyg~s~v----V~~ill~A~~~~k~frVvVVDSRP~~-----EG~~~lr~L-----v~~GinctYv~I~a--~sy 423 (556)
T KOG1467|consen 360 GDVLLTYGSSSV----VNMILLEAKELGKKFRVVVVDSRPNL-----EGRKLLRRL-----VDRGINCTYVLINA--ASY 423 (556)
T ss_pred CCEEEEecchHH----HHHHHHHHHHhCcceEEEEEeCCCCc-----chHHHHHHH-----HHcCCCeEEEEehh--HHH
Confidence 457788887754 44444445566777888877554421 233444443 34578888876653 222
Q ss_pred HHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 122 ICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 122 I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
|. .+++-|++|.+.- .+.--.-.|...-.++.+..|+||+|+=..+.
T Consensus 424 im-----~evtkvfLGahailsNG~vysR~GTa~valvAna~nVPVlVCCE~yK 472 (556)
T KOG1467|consen 424 IM-----LEVTKVFLGAHAILSNGAVYSRVGTACVALVANAFNVPVLVCCEAYK 472 (556)
T ss_pred HH-----HhcceeeechhhhhcCcchhhhcchHHHHHHhcccCCCEEEEechhh
Confidence 22 3489999999852 22111224666667777777799999965554
No 114
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=64.90 E-value=28 Score=28.41 Aligned_cols=59 Identities=17% Similarity=0.205 Sum_probs=42.4
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cc--c-c------------cCchhhHHHhcCCCccEEEEcC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QS--V-L------------QGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~--~-~------------~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+..-....++++.|++.++.+|+..+.+.... .+ + . +......+++++. +||.+-=.
T Consensus 26 fNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~-VPValHLD 100 (350)
T PRK09197 26 VNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGAKHVHEVAEHYG-VPVILHTD 100 (350)
T ss_pred EEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCC-CCEEEECC
Confidence 3444448899999999999999999887753322 11 1 1 4466788889999 99887643
No 115
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=64.42 E-value=76 Score=25.75 Aligned_cols=64 Identities=13% Similarity=0.111 Sum_probs=39.6
Q ss_pred hhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcC
Q 030208 102 MDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 102 ~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+...|++++. ...+.... +..+.++|++++|+..-..-.. .-.|+..-.++.+..++||+|+-+
T Consensus 192 L~~~GI~vtl--I~Dsa~~~---~M~~~~Vd~VivGAd~I~aNG~v~NKiGT~~lAl~Ak~~~VPfyV~a~ 257 (329)
T PRK06371 192 LAQEGIDHAI--IADNAAGY---FMRKKEIDLVIVGADRIASNGDFANKIGTYEKAVLAKVNGIPFYVAAP 257 (329)
T ss_pred HHHCCCCEEE--EcccHHHH---HhhhcCCCEEEECccEEecCCCEeehhhHHHHHHHHHHcCCCEEEecc
Confidence 3444677664 33444333 3345679999999986322211 225787777776666699999854
No 116
>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=64.25 E-value=45 Score=28.11 Aligned_cols=47 Identities=19% Similarity=0.268 Sum_probs=27.4
Q ss_pred eEEEEEecCChHHHHHHH--HHHhCCCEEEEe-ccCCCcccccccCchhh
Q 030208 108 RTKARIVEGDAAKVICKE--AERLKPAAVVIG-SRGRGLIQSVLQGSVGE 154 (181)
Q Consensus 108 ~~~~~~~~g~~~~~I~~~--a~~~~~dliV~g-~~~~~~~~~~~~gs~~~ 154 (181)
-..+.+..|+.-+.|.+. |.++++|.|.+- +.++|.+.....|.+.+
T Consensus 148 ~iy~iVAtG~iyeDi~qaraAA~~GAD~IaVIRttgQSllDyvp~GaT~e 197 (509)
T PF09043_consen 148 VIYVIVATGNIYEDIRQARAAARQGADIIAVIRTTGQSLLDYVPEGATTE 197 (509)
T ss_dssp EEEEEE-SS-HHHHHHHHHHHHHTT-SEEEE-BSTTGGG-SS-B-S--S-
T ss_pred eEEEEEecCchHHHHHHHHHHHHcCCCEEEEecccchhhhccccCCCCCC
Confidence 344566789999999875 788899988655 45677777777776554
No 117
>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=64.14 E-value=60 Score=25.83 Aligned_cols=37 Identities=11% Similarity=0.070 Sum_probs=19.0
Q ss_pred CCCEEEEeccCCCcccccccCc-hhhHHHhcCCCccEEE
Q 030208 130 KPAAVVIGSRGRGLIQSVLQGS-VGEYCLHHCKTAPIIV 167 (181)
Q Consensus 130 ~~dliV~g~~~~~~~~~~~~gs-~~~~ll~~~~~~pVlv 167 (181)
++|+||++.-|.+...-+.|++ ..-+-+..++ +||+.
T Consensus 75 ~~Dviii~RGGGs~eDL~~FN~e~varai~~~~-~Pvis 112 (319)
T PF02601_consen 75 DFDVIIIIRGGGSIEDLWAFNDEEVARAIAASP-IPVIS 112 (319)
T ss_pred cccEEEEecCCCChHHhcccChHHHHHHHHhCC-CCEEE
Confidence 4889999855443221111222 2224455666 77654
No 118
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=63.97 E-value=72 Score=25.30 Aligned_cols=113 Identities=12% Similarity=-0.012 Sum_probs=58.1
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~~ 131 (181)
...+++.-++.....|.+=.++.-..........++..+.++...+... ..+.+-.-+- ++. .-.+.+.+++.++
T Consensus 26 D~~~l~~li~~l~~~Gv~Gi~~~GstGE~~~Lt~eEr~~~~~~~~~~~~--~~~pvi~gv~-~~t~~~i~~~~~a~~~Ga 102 (303)
T PRK03620 26 DEAAYREHLEWLAPYGAAALFAAGGTGEFFSLTPDEYSQVVRAAVETTA--GRVPVIAGAG-GGTAQAIEYAQAAERAGA 102 (303)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECcCCcCcccCCHHHHHHHHHHHHHHhC--CCCcEEEecC-CCHHHHHHHHHHHHHhCC
Confidence 4455555555555445433332222222233344555555555444332 2244433332 233 3344567788899
Q ss_pred CEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 132 AAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 132 dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
|.+++..........--+-..-..|+..++ .||++...
T Consensus 103 dav~~~pP~y~~~~~~~i~~~f~~va~~~~-lpi~lYn~ 140 (303)
T PRK03620 103 DGILLLPPYLTEAPQEGLAAHVEAVCKSTD-LGVIVYNR 140 (303)
T ss_pred CEEEECCCCCCCCCHHHHHHHHHHHHHhCC-CCEEEEcC
Confidence 999987654322211111233356788888 99999863
No 119
>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=63.89 E-value=14 Score=27.60 Aligned_cols=96 Identities=10% Similarity=0.079 Sum_probs=49.3
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC-------------------CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHh
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA-------------------DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAM 102 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~-------------------a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~ 102 (181)
..|.+.+.......+.+++..+.-...| ..+.++.|.....++......-++++++. +..
T Consensus 82 ~~i~~H~E~~~~~~~~i~~ik~~g~k~GialnP~T~~~~~~~~l~~vD~VlvMsV~PG~~Gq~f~~~~~~KI~~l~-~~~ 160 (201)
T PF00834_consen 82 DYITFHAEATEDPKETIKYIKEAGIKAGIALNPETPVEELEPYLDQVDMVLVMSVEPGFGGQKFIPEVLEKIRELR-KLI 160 (201)
T ss_dssp SEEEEEGGGTTTHHHHHHHHHHTTSEEEEEE-TTS-GGGGTTTGCCSSEEEEESS-TTTSSB--HGGHHHHHHHHH-HHH
T ss_pred CEEEEcccchhCHHHHHHHHHHhCCCEEEEEECCCCchHHHHHhhhcCEEEEEEecCCCCcccccHHHHHHHHHHH-HHH
Confidence 5688888866666666666654311100 12222222221122223344555555543 333
Q ss_pred hhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 103 DVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 103 ~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
...+..+.+.+ -|.....-+..+.+.++|.+|.|+.
T Consensus 161 ~~~~~~~~I~v-DGGI~~~~~~~~~~aGad~~V~Gs~ 196 (201)
T PF00834_consen 161 PENGLDFEIEV-DGGINEENIKQLVEAGADIFVAGSA 196 (201)
T ss_dssp HHHTCGSEEEE-ESSESTTTHHHHHHHT--EEEESHH
T ss_pred HhcCCceEEEE-ECCCCHHHHHHHHHcCCCEEEECHH
Confidence 43345555443 5667666777777889999999963
No 120
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=63.79 E-value=79 Score=25.73 Aligned_cols=99 Identities=16% Similarity=0.089 Sum_probs=60.8
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-ChHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-DAAK 120 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~~~~ 120 (181)
--++|.+++.--+-...+.|..+- ..|-++.+.-. +. ....+-++++ .+.+..++.+-..- .| +++.
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~-~~g~~VllaA~-DT-----FRAaAiEQL~----~w~er~gv~vI~~~-~G~DpAa 208 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLK-QQGKSVLLAAG-DT-----FRAAAIEQLE----VWGERLGVPVISGK-EGADPAA 208 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHH-HCCCeEEEEec-ch-----HHHHHHHHHH----HHHHHhCCeEEccC-CCCCcHH
Confidence 345677999977777777776665 44666655443 21 1222333333 33344455554433 45 7776
Q ss_pred HHH---HHHHHhCCCEEEEeccCCCcccccccCch
Q 030208 121 VIC---KEAERLKPAAVVIGSRGRGLIQSVLQGSV 152 (181)
Q Consensus 121 ~I~---~~a~~~~~dliV~g~~~~~~~~~~~~gs~ 152 (181)
.+. ++|+.+++|.|++-+-||-..+.-++...
T Consensus 209 VafDAi~~Akar~~DvvliDTAGRLhnk~nLM~EL 243 (340)
T COG0552 209 VAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDEL 243 (340)
T ss_pred HHHHHHHHHHHcCCCEEEEeCcccccCchhHHHHH
Confidence 554 46888999999999998877665555544
No 121
>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=62.84 E-value=36 Score=27.89 Aligned_cols=62 Identities=10% Similarity=0.093 Sum_probs=44.3
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cc----c------------ccCchhhHHHhcCCCccEEEEcCCC
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QS----V------------LQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~----~------------~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
.+.+.+-....++++.|++.++.+|+..+.+.-.. .+ . .+......++.++. +||.+-=...
T Consensus 31 AfNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~v~~~Ae~a~-VPValHLDHg 109 (357)
T TIGR01520 31 AINCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGAHHVHSIAEHYG-VPVVLHTDHC 109 (357)
T ss_pred EEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHHHHHHHHHHHCC-CCEEEECCCC
Confidence 34555558899999999999999999987754221 11 0 14557778899999 9998764433
No 122
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=62.42 E-value=67 Score=24.45 Aligned_cols=96 Identities=10% Similarity=-0.024 Sum_probs=61.4
Q ss_pred EEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHH
Q 030208 47 AVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEA 126 (181)
Q Consensus 47 ~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a 126 (181)
++|-.--..+.-+|.-++++. |+.+.-+|+-... .+.+..+. .++.|.+.-...--+.+.+.+..+.
T Consensus 63 p~DvHLMV~~p~~~i~~fa~a-gad~It~H~E~~~-----------~~~r~i~~-Ik~~G~kaGv~lnP~Tp~~~i~~~l 129 (220)
T COG0036 63 PLDVHLMVENPDRYIEAFAKA-GADIITFHAEATE-----------HIHRTIQL-IKELGVKAGLVLNPATPLEALEPVL 129 (220)
T ss_pred ceEEEEecCCHHHHHHHHHHh-CCCEEEEEeccCc-----------CHHHHHHH-HHHcCCeEEEEECCCCCHHHHHHHH
Confidence 333333334456677677765 6888888885221 22222222 2233566666666689999999999
Q ss_pred HHhCCCEEEEeccCCCcccccccCchhhHHH
Q 030208 127 ERLKPAAVVIGSRGRGLIQSVLQGSVGEYCL 157 (181)
Q Consensus 127 ~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll 157 (181)
.+ .|+|.+=+...++-.+.|..++.++|-
T Consensus 130 ~~--vD~VllMsVnPGfgGQ~Fi~~~l~Ki~ 158 (220)
T COG0036 130 DD--VDLVLLMSVNPGFGGQKFIPEVLEKIR 158 (220)
T ss_pred hh--CCEEEEEeECCCCcccccCHHHHHHHH
Confidence 99 999988877777666667777766653
No 123
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=61.54 E-value=78 Score=24.90 Aligned_cols=115 Identities=13% Similarity=-0.017 Sum_probs=58.1
Q ss_pred hHHHHHHHHHHhcc-CCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChH--HHHHHHHHHhC
Q 030208 54 SKHAFDWALIHLCR-LADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAA--KVICKEAERLK 130 (181)
Q Consensus 54 s~~a~~~a~~la~~-~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~--~~I~~~a~~~~ 130 (181)
...+++.-++.... .|..=.++.-..........++..+.++...+... ..+.+-.-+-..+.. -++.++|++.+
T Consensus 22 D~~~~~~li~~l~~~~Gv~gi~v~GstGE~~~Ls~eEr~~~~~~~~~~~~--~~~~viagvg~~~t~~ai~~a~~a~~~G 99 (293)
T PRK04147 22 DEQGLRRLVRFNIEKQGIDGLYVGGSTGEAFLLSTEEKKQVLEIVAEEAK--GKVKLIAQVGSVNTAEAQELAKYATELG 99 (293)
T ss_pred CHHHHHHHHHHHHhcCCCCEEEECCCccccccCCHHHHHHHHHHHHHHhC--CCCCEEecCCCCCHHHHHHHHHHHHHcC
Confidence 44555555555544 45333222222222223334555555555444322 223333222112333 34556788999
Q ss_pred CCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 131 PAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 131 ~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
+|.+++-.........--+-..-+.|+..++ .||++...+
T Consensus 100 ad~v~v~~P~y~~~~~~~l~~~f~~va~a~~-lPv~iYn~P 139 (293)
T PRK04147 100 YDAISAVTPFYYPFSFEEICDYYREIIDSAD-NPMIVYNIP 139 (293)
T ss_pred CCEEEEeCCcCCCCCHHHHHHHHHHHHHhCC-CCEEEEeCc
Confidence 9999998764322221111223356778888 999998543
No 124
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=61.25 E-value=75 Score=24.62 Aligned_cols=70 Identities=21% Similarity=0.186 Sum_probs=44.4
Q ss_pred HHHHHhhhcCceEEEEEecC------ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 97 LAIEAMDVAMVRTKARIVEG------DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 97 ~~~~~~~~~~i~~~~~~~~g------~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
++.+.....++.+... ..| +..+......++++.|++|+.+...... ...-++.++.... .|.+|+..
T Consensus 22 ~lDErAdRedI~vrv~-gsGaKm~pe~~~~~~~~~~~~~~pDf~i~isPN~a~P----GP~~ARE~l~~~~-iP~IvI~D 95 (277)
T PRK00994 22 LLDERADREDIDVRVV-GSGAKMGPEEVEEVVKKMLEEWKPDFVIVISPNPAAP----GPKKAREILKAAG-IPCIVIGD 95 (277)
T ss_pred HHHhhhcccCceEEEe-ccCCCCCHHHHHHHHHHHHHhhCCCEEEEECCCCCCC----CchHHHHHHHhcC-CCEEEEcC
Confidence 3445555555665432 233 1223344456888999999998754332 2456789999998 99999965
Q ss_pred CC
Q 030208 171 KG 172 (181)
Q Consensus 171 ~~ 172 (181)
..
T Consensus 96 ~p 97 (277)
T PRK00994 96 AP 97 (277)
T ss_pred CC
Confidence 43
No 125
>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=60.95 E-value=46 Score=22.06 Aligned_cols=23 Identities=13% Similarity=0.111 Sum_probs=14.6
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.+.+++.+.+.++|+|.++..
T Consensus 37 ~~~~~l~~~~~~~~pdvV~iS~~ 59 (119)
T cd02067 37 VPPEEIVEAAKEEDADAIGLSGL 59 (119)
T ss_pred CCHHHHHHHHHHcCCCEEEEecc
Confidence 45566666666666666666654
No 126
>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=60.70 E-value=32 Score=21.07 Aligned_cols=33 Identities=21% Similarity=0.302 Sum_probs=20.9
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHL 74 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~l 74 (181)
++|++++|....-..+.+.+.+.....+..+.+
T Consensus 44 ~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~ 76 (79)
T cd03364 44 KEVILAFDGDEAGQKAALRALELLLKLGLNVRV 76 (79)
T ss_pred CeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEE
Confidence 677777777766666666665655555555443
No 127
>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=60.70 E-value=70 Score=27.72 Aligned_cols=66 Identities=20% Similarity=0.170 Sum_probs=40.5
Q ss_pred HHHHHHHhhhcCceEEEEEecCChHHHHHHH---HHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 95 EKLAIEAMDVAMVRTKARIVEGDAAKVICKE---AERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 95 ~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
.+++.+...+.+-..+..+..|+..+++... ....++|.||-. |+++..|-.+.+ +||+-++-.
T Consensus 16 ~~~~~~i~~~~~~~~~~~v~~~~~~~~~~~a~~~~~~~~~dviIsr------------G~ta~~i~~~~~-iPVv~i~~s 82 (526)
T TIGR02329 16 FDLFRDIAPEFDHRANITPIQLGFEDAVREIRQRLGAERCDVVVAG------------GSNGAYLKSRLS-LPVIVIKPT 82 (526)
T ss_pred HHHHHHHHHhCCCCceEEEEeccHHHHHHHHHHHHHhCCCcEEEEC------------chHHHHHHHhCC-CCEEEecCC
Confidence 3334444433221234445667766555544 446678888754 778887777888 999999865
Q ss_pred CC
Q 030208 172 GT 173 (181)
Q Consensus 172 ~~ 173 (181)
.+
T Consensus 83 ~~ 84 (526)
T TIGR02329 83 GF 84 (526)
T ss_pred hh
Confidence 44
No 128
>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=60.11 E-value=29 Score=27.38 Aligned_cols=60 Identities=15% Similarity=0.106 Sum_probs=44.5
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEcCC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
+.+..-....++++.|++.++.+|+.-+.+.-...+ -.+......+..++. +||.+-=..
T Consensus 18 fN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~~~~~~~a~~~~-VPV~lHLDH 78 (276)
T cd00947 18 FNINNLETLKAILEAAEETRSPVILQISEGAIKYAGLELLVAMVKAAAERAS-VPVALHLDH 78 (276)
T ss_pred EeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCC-CCEEEECCC
Confidence 344455789999999999999999988776543322 246677788888998 999886433
No 129
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=60.01 E-value=16 Score=30.03 Aligned_cols=59 Identities=22% Similarity=0.149 Sum_probs=30.1
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhh--HHHhcCCCccEEEEcCCCCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGE--YCLHHCKTAPIIVVPGKGTSPS 176 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~--~ll~~~~~~pVlvv~~~~~~~~ 176 (181)
...+.+++.|++.++|+||++-.-- +.....-..-..+ +-++... +||++++..+..+.
T Consensus 27 ~~f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~-Ipv~~I~GNHD~~~ 89 (390)
T COG0420 27 KAFDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAG-IPVVVIAGNHDSPS 89 (390)
T ss_pred HHHHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCC-CcEEEecCCCCchh
Confidence 3456677777777778877775321 1111000011111 2223344 78888877666554
No 130
>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=59.74 E-value=18 Score=23.39 Aligned_cols=64 Identities=11% Similarity=0.106 Sum_probs=36.2
Q ss_pred HHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCCC
Q 030208 99 IEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGTS 174 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~~ 174 (181)
++..+..+++++.. ..+..+ +-... .++|+|+++.+-+..++.+ ++.+.... +||.++++..+.
T Consensus 20 ~~~~~~~~~~~~v~--~~~~~~-~~~~~--~~~Diil~~Pqv~~~~~~i------~~~~~~~~-~pv~~I~~~~Y~ 83 (96)
T cd05564 20 KKAAEKRGIDAEIE--AVPESE-LEEYI--DDADVVLLGPQVRYMLDEV------KKKAAEYG-IPVAVIDMMDYG 83 (96)
T ss_pred HHHHHHCCCceEEE--EecHHH-HHHhc--CCCCEEEEChhHHHHHHHH------HHHhccCC-CcEEEcChHhcc
Confidence 34445555665433 223322 22333 3589999997754433322 33445566 999999987664
No 131
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=59.63 E-value=88 Score=27.48 Aligned_cols=94 Identities=12% Similarity=0.118 Sum_probs=56.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK 120 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~ 120 (181)
.++|++..|..-....+........+..|+.-...++-+..... +......++++.+ .+.+.-+.+-.|...-
T Consensus 69 ~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~IP~R~~eG--YGl~~~~i~~~~~-----~~~~LiItvD~Gi~~~ 141 (575)
T PRK11070 69 GTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLVPNRFEDG--YGLSPEVVDQAHA-----RGAQLIVTVDNGISSH 141 (575)
T ss_pred CCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEeCCCCcCC--CCCCHHHHHHHHh-----cCCCEEEEEcCCcCCH
Confidence 47899999888665555555566666667632222332211111 1111223333221 2345555666787788
Q ss_pred HHHHHHHHhCCCEEEEeccCC
Q 030208 121 VICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~ 141 (181)
+-+++|++.+.|+||...|..
T Consensus 142 e~i~~a~~~gidvIVtDHH~~ 162 (575)
T PRK11070 142 AGVAHAHALGIPVLVTDHHLP 162 (575)
T ss_pred HHHHHHHHCCCCEEEECCCCC
Confidence 888999999999999998743
No 132
>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=59.60 E-value=25 Score=26.44 Aligned_cols=51 Identities=20% Similarity=0.220 Sum_probs=31.6
Q ss_pred HHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 120 KVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
+.+...+.+.+.|.|++|.+. +....-+..+...+=+++. +||++.|....
T Consensus 14 ~~ia~~v~~~gtDaI~VGGS~--gvt~~~~~~~v~~ik~~~~-lPvilfp~~~~ 64 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVGGSL--GIVESNLDQTVKKIKKITN-LPVILFPGNVN 64 (205)
T ss_pred HHHHHHHHhcCCCEEEEcCcC--CCCHHHHHHHHHHHHhhcC-CCEEEECCCcc
Confidence 335556677789999998652 1221122344444444477 99999987654
No 133
>PRK02929 L-arabinose isomerase; Provisional
Probab=59.53 E-value=1.2e+02 Score=26.25 Aligned_cols=93 Identities=9% Similarity=-0.000 Sum_probs=55.4
Q ss_pred CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC--ChHHHHHHHHHHhC----CCEEEEeccCCCc
Q 030208 70 DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG--DAAKVICKEAERLK----PAAVVIGSRGRGL 143 (181)
Q Consensus 70 a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g--~~~~~I~~~a~~~~----~dliV~g~~~~~~ 143 (181)
.++-++.....-......++.++..+++.+.......+.+++. ..+ .-.+.|.+.+++.+ +|.||+-.+.-+.
T Consensus 7 ~~~w~~~g~q~lY~~~~l~~~~~~~~~i~~~l~~~~~~~~~vv-~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~ 85 (499)
T PRK02929 7 YEVWFVTGSQHLYGEETLRQVAEHAEEIVDGLNASGKLPVKIV-LKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSP 85 (499)
T ss_pred ceEEEEEeeccccChhHHHHHHHHHHHHHHHhcccCCCCeEEE-EcCccCCHHHHHHHHHHccccCCCcEEEEccCCCch
Confidence 3555555543333334445555555555544444444555554 333 44566666666665 9999988765443
Q ss_pred ccccccCchhhHHHhcCCCccEEEEcC
Q 030208 144 IQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 144 ~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+..-.+++... +|||+..-
T Consensus 86 ------a~~~i~~~~~l~-~PvL~~~~ 105 (499)
T PRK02929 86 ------AKMWIRGLSALQ-KPLLHLHT 105 (499)
T ss_pred ------HHHHHHHHHHcC-CCEEEEec
Confidence 334457789999 99999964
No 134
>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=59.46 E-value=84 Score=24.59 Aligned_cols=113 Identities=11% Similarity=-0.053 Sum_probs=55.1
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecC--CchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHh
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSS--VQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERL 129 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~ 129 (181)
...+++.-++.....|. +-+.+.-. .......++..+.++...+.... .+.+-.-+...+. .-.+.++|++.
T Consensus 17 D~~~~~~~i~~l~~~Gv--~Gi~~~GstGE~~~Ls~~Er~~~~~~~~~~~~~--~~~vi~gv~~~s~~~~i~~a~~a~~~ 92 (285)
T TIGR00674 17 DFAALEKLIDFQIENGT--DAIVVVGTTGESPTLSHEEHKKVIEFVVDLVNG--RVPVIAGTGSNATEEAISLTKFAEDV 92 (285)
T ss_pred CHHHHHHHHHHHHHcCC--CEEEECccCcccccCCHHHHHHHHHHHHHHhCC--CCeEEEeCCCccHHHHHHHHHHHHHc
Confidence 44555555555444443 22333221 12233345555555554443222 2333322211123 23355678889
Q ss_pred CCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 130 KPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 130 ~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
++|.+++..........--+-..-..|...+. .||++...+
T Consensus 93 Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~-~pi~lYn~P 133 (285)
T TIGR00674 93 GADGFLVVTPYYNKPTQEGLYQHFKAIAEEVD-LPIILYNVP 133 (285)
T ss_pred CCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCC-CCEEEEECc
Confidence 99999998654322211111123356777888 999988543
No 135
>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=59.17 E-value=32 Score=22.55 Aligned_cols=59 Identities=10% Similarity=-0.038 Sum_probs=35.0
Q ss_pred hhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 102 MDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 102 ~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
.+..++++++... ...++-+..+ ++|++++|.+-+-.+.. .++.+.... +||.+++...
T Consensus 24 a~~~gi~~~i~a~---~~~e~~~~~~--~~Dvill~PQv~~~~~~------i~~~~~~~~-ipv~~I~~~~ 82 (99)
T cd05565 24 AKERGVPLEAAAG---AYGSHYDMIP--DYDLVILAPQMASYYDE------LKKDTDRLG-IKLVTTTGKQ 82 (99)
T ss_pred HHHCCCcEEEEEe---eHHHHHHhcc--CCCEEEEcChHHHHHHH------HHHHhhhcC-CCEEEeCHHH
Confidence 3445566654322 2333444444 48999999775544332 256666777 9999987544
No 136
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=59.09 E-value=1e+02 Score=25.52 Aligned_cols=36 Identities=14% Similarity=0.028 Sum_probs=28.8
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
...++++.+++...|..|....++ .|.++..+|+..
T Consensus 179 s~gkvlvllSGGiDSpVAa~ll~k----rG~~V~~v~f~~ 214 (381)
T PRK08384 179 TQGKVVALLSGGIDSPVAAFLMMK----RGVEVIPVHIYM 214 (381)
T ss_pred CCCcEEEEEeCChHHHHHHHHHHH----cCCeEEEEEEEe
Confidence 358999999999888777665554 488999999954
No 137
>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=58.97 E-value=65 Score=23.15 Aligned_cols=78 Identities=18% Similarity=0.102 Sum_probs=49.2
Q ss_pred HHHHHHHHHHhccCCCEEEEEEEe--cCC---chhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh---H---HHHH
Q 030208 55 KHAFDWALIHLCRLADTIHLVHAV--SSV---QNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA---A---KVIC 123 (181)
Q Consensus 55 ~~a~~~a~~la~~~~a~l~llhV~--~~~---~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~---~---~~I~ 123 (181)
..-++.++++|+..|++...+|.. ... ......+...+.++++. +..+..++.+..+...+.. . +.+.
T Consensus 70 ~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~-~~a~~~gv~i~lE~~~~~~~~~~~~~~~~~ 148 (213)
T PF01261_consen 70 LEYLKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELA-EIAEEYGVRIALENHPGPFSETPFSVEEIY 148 (213)
T ss_dssp HHHHHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHH-HHHHHHTSEEEEE-SSSSSSSEESSHHHHH
T ss_pred HHHHHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHH-hhhhhhcceEEEecccCccccchhhHHHHH
Confidence 677888889999999999999965 211 12223344555555544 3344446666665554433 2 8999
Q ss_pred HHHHHhCCCE
Q 030208 124 KEAERLKPAA 133 (181)
Q Consensus 124 ~~a~~~~~dl 133 (181)
+++++.+.+-
T Consensus 149 ~~l~~~~~~~ 158 (213)
T PF01261_consen 149 RLLEEVDSPN 158 (213)
T ss_dssp HHHHHHTTTT
T ss_pred HHHhhcCCCc
Confidence 9999877653
No 138
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=58.18 E-value=89 Score=24.49 Aligned_cols=115 Identities=11% Similarity=-0.045 Sum_probs=58.9
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~~ 131 (181)
...+++.-++.....|.+=.++.-..........++..+.++...+.. . ..+.+-.-+...+. .-++.+.|++.++
T Consensus 20 D~~~l~~~i~~l~~~Gv~gi~~~Gs~GE~~~ls~~Er~~~~~~~~~~~-~-~~~~vi~gv~~~~~~~~i~~a~~a~~~G~ 97 (292)
T PRK03170 20 DFAALRKLVDYLIANGTDGLVVVGTTGESPTLTHEEHEELIRAVVEAV-N-GRVPVIAGTGSNSTAEAIELTKFAEKAGA 97 (292)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECCcCCccccCCHHHHHHHHHHHHHHh-C-CCCcEEeecCCchHHHHHHHHHHHHHcCC
Confidence 445555555555545543333322222223334455555556544433 2 22443332222233 3444567888899
Q ss_pred CEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 132 AAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 132 dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
|.+++..........--+-..-++|+..+. .||++...+
T Consensus 98 d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~-~pv~lYn~P 136 (292)
T PRK03170 98 DGALVVTPYYNKPTQEGLYQHFKAIAEATD-LPIILYNVP 136 (292)
T ss_pred CEEEECCCcCCCCCHHHHHHHHHHHHhcCC-CCEEEEECc
Confidence 999997654322221111233467788888 999998543
No 139
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=58.07 E-value=80 Score=23.90 Aligned_cols=50 Identities=14% Similarity=0.140 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 88 DMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 88 ~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
...-+.++++. +...+.+....+.+ -|.+..+=+..+.+.++|.+|+|+.
T Consensus 148 ~~~lekI~~l~-~~~~~~~~~~~I~v-dGGI~~eni~~l~~aGAd~vVvGSa 197 (220)
T PRK08883 148 PHTLDKLRAVR-KMIDESGRDIRLEI-DGGVKVDNIREIAEAGADMFVAGSA 197 (220)
T ss_pred HhHHHHHHHHH-HHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEeHH
Confidence 33444555533 33333344454444 4555455666666779999999965
No 140
>PRK08349 hypothetical protein; Validated
Probab=58.00 E-value=73 Score=23.41 Aligned_cols=33 Identities=18% Similarity=0.077 Sum_probs=26.1
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
++++.+++...|..++..+.+ .|.+++.+|+..
T Consensus 2 ~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d~ 34 (198)
T PRK08349 2 KAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFRQ 34 (198)
T ss_pred cEEEEccCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence 578999999888887765543 477999999975
No 141
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=57.58 E-value=59 Score=28.27 Aligned_cols=63 Identities=14% Similarity=0.104 Sum_probs=34.4
Q ss_pred HHHHhhhcCceEEEEEecCChHHHHHHH---HHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 98 AIEAMDVAMVRTKARIVEGDAAKVICKE---AERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
+.....+.+...++.++.+...+++... ....++|.||-. |+++..|=.+.. +||+-++-..+
T Consensus 29 ~~~i~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr------------G~ta~~i~~~~~-iPVv~i~~s~~ 94 (538)
T PRK15424 29 FRDISLEFDHLANITPIQLGFEKAVTYIRKRLATERCDAIIAA------------GSNGAYLKSRLS-VPVILIKPSGF 94 (538)
T ss_pred HHHHHHhcCCCceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC------------chHHHHHHhhCC-CCEEEecCCHh
Confidence 4444444333344444444333333333 334567777644 677777777777 88888875443
No 142
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=57.52 E-value=1.1e+02 Score=25.26 Aligned_cols=64 Identities=11% Similarity=0.038 Sum_probs=39.4
Q ss_pred hhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcC
Q 030208 102 MDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 102 ~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+.|++++.. ..+....+ ..+.++|.+++|+.+-..-.. .-.|+..-.++.+..++||+|+-+
T Consensus 223 L~~~GIpvtlI--~Dsa~~~~---m~~~~Vd~VivGAD~I~~NG~v~NKiGTy~lA~~Ak~~~vPfyV~ap 288 (363)
T PRK05772 223 LMEEGIKVTLI--TDTAVGLV---MYKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHELGIPFYALAP 288 (363)
T ss_pred HHHCCCCEEEE--ehhHHHHH---HhhcCCCEEEECccEEecCCCEeehhhhHHHHHHHHHhCCCEEEEcc
Confidence 33456777643 33333322 234579999999986322221 236888877776666699999854
No 143
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=57.28 E-value=40 Score=26.72 Aligned_cols=61 Identities=15% Similarity=0.108 Sum_probs=45.4
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
+.+.+-+..++|++.|++.++..||=.+.+.-...+ ..+-..+..++.+.+ +||.+-=..+
T Consensus 23 fN~~nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~~~~~~v~~~a~~~~-vPV~lHlDHg 85 (286)
T COG0191 23 FNINNLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGADSLAHMVKALAEKYG-VPVALHLDHG 85 (286)
T ss_pred eeecCHHHHHHHHHHHHHhCCCEEEEecccHHHHhchHHHHHHHHHHHHHHCC-CCEEEECCCC
Confidence 344455889999999999999999999887544322 234456678889999 9998865443
No 144
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=57.17 E-value=96 Score=24.53 Aligned_cols=83 Identities=13% Similarity=0.115 Sum_probs=50.0
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec----C
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----G 116 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----g 116 (181)
..+|.|-+.++-+...++-.+.+-- ..++++.++-.... .+.. ..++.++++...-.. .
T Consensus 89 ~~ri~vl~Sg~gsnl~al~~~~~~~-~~~~~i~~visn~~------------~~~~----lA~~~gIp~~~~~~~~~~~~ 151 (286)
T PRK06027 89 RKRVVILVSKEDHCLGDLLWRWRSG-ELPVEIAAVISNHD------------DLRS----LVERFGIPFHHVPVTKETKA 151 (286)
T ss_pred CcEEEEEEcCCCCCHHHHHHHHHcC-CCCcEEEEEEEcCh------------hHHH----HHHHhCCCEEEeccCccccc
Confidence 4688888888866666666553332 24566655554331 1111 133445666542211 2
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
+....+.+..++.++|++|+..+.
T Consensus 152 ~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 152 EAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred hhHHHHHHHHHHhCCCEEEEecch
Confidence 345678999999999999999763
No 145
>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=57.07 E-value=96 Score=24.50 Aligned_cols=114 Identities=10% Similarity=-0.080 Sum_probs=58.3
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChH--HHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAA--KVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~--~~I~~~a~~~~~ 131 (181)
...+++.-++.....|.+=.++.=..........++..+.++...+... ..+.+-.-+...+.. -++.++|++.++
T Consensus 19 D~~~l~~lv~~~~~~Gv~gi~v~GstGE~~~Ls~~Er~~l~~~~~~~~~--g~~pvi~gv~~~~t~~ai~~a~~A~~~Ga 96 (294)
T TIGR02313 19 DEEALRELIEFQIEGGSHAISVGGTSGEPGSLTLEERKQAIENAIDQIA--GRIPFAPGTGALNHDETLELTKFAEEAGA 96 (294)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECccCcccccCCHHHHHHHHHHHHHHhC--CCCcEEEECCcchHHHHHHHHHHHHHcCC
Confidence 4455555555554445432222222222223334555555555444322 234443222222333 345677889999
Q ss_pred CEEEEeccCCCcccccccCchhhHHHhcC-CCccEEEEcC
Q 030208 132 AAVVIGSRGRGLIQSVLQGSVGEYCLHHC-KTAPIIVVPG 170 (181)
Q Consensus 132 dliV~g~~~~~~~~~~~~gs~~~~ll~~~-~~~pVlvv~~ 170 (181)
|.+++..........--+-..-..|+..+ . .||++.-.
T Consensus 97 d~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~-lpv~iYn~ 135 (294)
T TIGR02313 97 DAAMVIVPYYNKPNQEALYDHFAEVADAVPD-FPIIIYNI 135 (294)
T ss_pred CEEEEcCccCCCCCHHHHHHHHHHHHHhccC-CCEEEEeC
Confidence 99999986433322211122335677788 7 99999854
No 146
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Probab=57.05 E-value=1.1e+02 Score=25.03 Aligned_cols=61 Identities=10% Similarity=-0.001 Sum_probs=38.4
Q ss_pred hcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcC
Q 030208 104 VAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 104 ~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
..|++++.. ..+ .+-.+.++.++|.+++|+..-..- + .-.|+..-.++.+..++|++|+=+
T Consensus 205 ~~GI~vtlI--~Ds---a~~~~M~~~~Vd~VivGAd~I~an-Gv~NKiGT~~lA~~Ak~~~vPfyV~ap 267 (339)
T PRK06036 205 QDNIPVTLI--TDS---MAGIVMRQGMVDKVIVGADRITRD-AVFNKIGTYTHSVLAKEHEIPFYVAAP 267 (339)
T ss_pred HcCCCEEEE--ehh---HHHHHhccCCCCEEEECccchhhc-CeehhhhHHHHHHHHHHhCCCEEEEee
Confidence 456777643 232 223344556799999999863221 2 226777777776665699999843
No 147
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=56.96 E-value=21 Score=22.08 Aligned_cols=33 Identities=18% Similarity=0.211 Sum_probs=18.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIH 73 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~ 73 (181)
.++|++++|+...-+.+..+..+.....+-+++
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccc
Confidence 477888888887777777777665544444443
No 148
>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=56.85 E-value=14 Score=29.25 Aligned_cols=57 Identities=11% Similarity=0.119 Sum_probs=42.7
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEE
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv 168 (181)
+.+..-....++++.|++.++.+|+.-+.+.....+ -.+......+.+++. +||.+-
T Consensus 22 fN~~n~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~~~~~~~~~~~~a~~~~-vPValH 79 (287)
T PF01116_consen 22 FNVYNLETARAVIEAAEELNSPVILQISPSEVKYMGLEYLAAMVKAAAEEAS-VPVALH 79 (287)
T ss_dssp EE-SSHHHHHHHHHHHHHTTS-EEEEEEHHHHHHHHHHHHHHHHHHHHHHST-SEEEEE
T ss_pred EeeCCHHHHHHHHHHHHHhCCCEEEEcchhhhhhhhHHHHHHHHHHHHHHcC-CCEEee
Confidence 344445889999999999999999998876444332 246678899999999 999764
No 149
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=56.21 E-value=36 Score=26.92 Aligned_cols=58 Identities=7% Similarity=-0.020 Sum_probs=42.4
Q ss_pred EEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEcC
Q 030208 112 RIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 112 ~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+..-....++++.|++.++.+|+..+.+.-...+ -.+......++.++. +||.+-=.
T Consensus 24 N~~n~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~~~~~~~A~~~~-vPV~lHLD 82 (283)
T PRK07998 24 NTTNLETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIYEIVKRHADKMD-VPVSLHLD 82 (283)
T ss_pred eeCCHHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHHHHHHHHHHHCC-CCEEEECc
Confidence 44444788999999999999999998765433222 235667788889998 99887633
No 150
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=56.05 E-value=42 Score=26.68 Aligned_cols=57 Identities=14% Similarity=0.111 Sum_probs=41.1
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cc-cccCchhhHHHhcC--CCccEEEE
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QS-VLQGSVGEYCLHHC--KTAPIIVV 168 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~-~~~gs~~~~ll~~~--~~~pVlvv 168 (181)
+.+..-....++++.|++.++.+|+..+.+.-.. .+ ..+......++.+. . +||.+-
T Consensus 23 fN~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~~~~~~~~~~~a~~~~~~-vPV~lH 83 (293)
T PRK07315 23 FNTNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGYKVCKNLIENLVESMGIT-VPVAIH 83 (293)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCC-CcEEEE
Confidence 4444558899999999999999999987764332 21 23466677888887 5 788765
No 151
>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=55.72 E-value=58 Score=21.55 Aligned_cols=101 Identities=11% Similarity=-0.032 Sum_probs=56.8
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCC-hHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGD-AAKVI 122 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~-~~~~I 122 (181)
|++-++... -..++.+|..+. ..|-+|+ ..+. ....+.+.|++++....... -...+
T Consensus 2 i~isv~d~~-K~~~~~~a~~l~-~~G~~i~-----AT~g---------------Ta~~L~~~Gi~~~~v~~~~~~g~~~i 59 (112)
T cd00532 2 VFLSVSDHV-KAMLVDLAPKLS-SDGFPLF-----ATGG---------------TSRVLADAGIPVRAVSKRHEDGEPTV 59 (112)
T ss_pred EEEEEEccc-HHHHHHHHHHHH-HCCCEEE-----ECcH---------------HHHHHHHcCCceEEEEecCCCCCcHH
Confidence 566666553 356677777766 3343332 2111 11222335677765433211 23668
Q ss_pred HHHHHH-hCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEE
Q 030208 123 CKEAER-LKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIV 167 (181)
Q Consensus 123 ~~~a~~-~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlv 167 (181)
.+..++ .++|+||--..+...-...--|...++.+-... +|++.
T Consensus 60 ~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~-Ip~~T 104 (112)
T cd00532 60 DAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYK-IPVTT 104 (112)
T ss_pred HHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcC-CCEEE
Confidence 888999 999999997654331111223566677777777 88764
No 152
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=55.66 E-value=82 Score=24.26 Aligned_cols=54 Identities=22% Similarity=0.313 Sum_probs=38.9
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
...+.|++.+.+.+.|.|++|-+..-..+. .-.+.+++-.++. .||++.|+...
T Consensus 28 ~~~~ei~~~~~~~GTDaImIGGS~gvt~~~--~~~~v~~ik~~~~-lPvilfP~~~~ 81 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIGGSDGVTEEN--VDNVVEAIKERTD-LPVILFPGSPS 81 (240)
T ss_pred cccHHHHHHHHHcCCCEEEECCcccccHHH--HHHHHHHHHhhcC-CCEEEecCChh
Confidence 456789999999999999999664322221 2345566666888 99999997655
No 153
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=55.43 E-value=90 Score=23.69 Aligned_cols=28 Identities=11% Similarity=-0.079 Sum_probs=22.6
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
.....+++++.+.+...+.++.++.+-+
T Consensus 40 S~n~~la~~~~~~~~~~g~~v~~idl~~ 67 (219)
T TIGR02690 40 SYSRLLAEEAARLLGCEGRETRIFDPPG 67 (219)
T ss_pred chHHHHHHHHHHHHhhcCCEEEEeCccc
Confidence 5567899999999887788999988643
No 154
>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=54.98 E-value=1.1e+02 Score=24.67 Aligned_cols=43 Identities=16% Similarity=0.256 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhCCCEEE-EeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 119 AKVICKEAERLKPAAVV-IGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
++.+.+.+++.++|.|| +|--. .-.+++.+..... .|++.||-
T Consensus 66 v~~~~~~~~~~~~d~IIavGGGs--------~~D~aK~ia~~~~-~p~i~VPT 109 (349)
T cd08550 66 VVKALCGAEEQEADVIIGVGGGK--------TLDTAKAVADRLD-KPIVIVPT 109 (349)
T ss_pred HHHHHHHHHhcCCCEEEEecCcH--------HHHHHHHHHHHcC-CCEEEeCC
Confidence 44556666666777766 44111 1122233333345 77777763
No 155
>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=54.61 E-value=64 Score=23.85 Aligned_cols=68 Identities=12% Similarity=0.046 Sum_probs=41.0
Q ss_pred HHHHHhhhcCceEEEEEecC--ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCC--CccEEEEc
Q 030208 97 LAIEAMDVAMVRTKARIVEG--DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCK--TAPIIVVP 169 (181)
Q Consensus 97 ~~~~~~~~~~i~~~~~~~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~--~~pVlvv~ 169 (181)
+....++..|.++ +.-| -+.+.+++.+++.++|+|.+.......... +..+.+.+-...+ +++|++=-
T Consensus 101 ~v~~~l~~~G~~v---i~lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~--~~~~i~~lr~~~~~~~~~i~vGG 172 (201)
T cd02070 101 LVATMLEANGFEV---IDLGRDVPPEEFVEAVKEHKPDILGLSALMTTTMGG--MKEVIEALKEAGLRDKVKVMVGG 172 (201)
T ss_pred HHHHHHHHCCCEE---EECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHH--HHHHHHHHHHCCCCcCCeEEEEC
Confidence 3445556656555 2234 578999999999999999998764444332 2344444433332 25565543
No 156
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=54.13 E-value=1.2e+02 Score=24.77 Aligned_cols=65 Identities=14% Similarity=0.039 Sum_probs=40.1
Q ss_pred hhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCC
Q 030208 103 DVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 103 ~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
...|++++.. ..+... .+..+.++|.+++|+..-..-.. .-.|+..-.++.+..++||+|+-+.+
T Consensus 203 ~~~GI~vtlI--~Dsa~~---~~M~~~~vd~VivGAd~I~~nG~v~NkiGT~~lAl~Ak~~~vPfyV~a~~~ 269 (344)
T PRK05720 203 YQAGIDVTVI--TDNMAA---HLMQTGKIDAVIVGADRIAANGDVANKIGTYQLAIAAKYHGVPFYVAAPSS 269 (344)
T ss_pred HHCCCCEEEE--cccHHH---HHhcccCCCEEEEcccEEecCCCEeehhhHHHHHHHHHHhCCCEEEecccc
Confidence 4456777643 333332 33345579999999986322211 23577777777665559999986554
No 157
>PRK00509 argininosuccinate synthase; Provisional
Probab=53.64 E-value=1.3e+02 Score=25.10 Aligned_cols=37 Identities=11% Similarity=0.187 Sum_probs=29.1
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
.++|+|++++.-.|.-++.++.+. +|.+++.+|+...
T Consensus 2 ~~kVvva~SGGlDSsvla~~l~e~---lG~eViavt~d~G 38 (399)
T PRK00509 2 KKKVVLAYSGGLDTSVIIKWLKET---YGCEVIAFTADVG 38 (399)
T ss_pred CCeEEEEEcCCHHHHHHHHHHHHh---hCCeEEEEEEecC
Confidence 478999999998888888777653 3678999998654
No 158
>PRK05370 argininosuccinate synthase; Validated
Probab=53.52 E-value=1.4e+02 Score=25.35 Aligned_cols=97 Identities=14% Similarity=0.080 Sum_probs=57.9
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCc-hhhHH-----------------HHHHHHHHHHHHHHh
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQ-NQIVY-----------------DMSQGLMEKLAIEAM 102 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~-~~~~~-----------------~~~~~~l~~~~~~~~ 102 (181)
.++|++|.++.-.+.-++.|..+- +.+|+.+++.-... ..... +..++..+++. ...
T Consensus 11 ~~KVvLAYSGGLDTSv~l~wL~e~----~~eVia~~aDvGQ~~~ed~~~i~~kA~~~GA~~~~viDlr~eF~e~~i-~aI 85 (447)
T PRK05370 11 GQRVGIAFSGGLDTSAALLWMRQK----GAVPYAYTANLGQPDEDDYDAIPRRAMEYGAENARLIDCRAQLVAEGI-AAI 85 (447)
T ss_pred CCEEEEEecCCchHHHHHHHHHhc----CCeEEEEEEECCCCCccchHHHHHHHHHhCCCEEEEeccHHHHHHHHH-HHH
Confidence 489999999998888888887653 77888888844221 11100 12233333333 222
Q ss_pred hhcCceE----EEEEec----C--ChHHHHHHHHHHhCCCEEEEeccCCCc
Q 030208 103 DVAMVRT----KARIVE----G--DAAKVICKEAERLKPAAVVIGSRGRGL 143 (181)
Q Consensus 103 ~~~~i~~----~~~~~~----g--~~~~~I~~~a~~~~~dliV~g~~~~~~ 143 (181)
... ... +-.... + -..+.+++.|++.+++.|.=|+.+.+-
T Consensus 86 ~an-A~Y~~~~e~~Y~l~t~LaRplia~~lv~~A~~~ga~aIAHG~TGKGN 135 (447)
T PRK05370 86 QCG-AFHISTGGVTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYKGN 135 (447)
T ss_pred HcC-CccccccCccccCCCcchHHHHHHHHHHHHHHhCCcEEEEcCCCCCC
Confidence 211 111 000111 2 357899999999999999999986543
No 159
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=53.51 E-value=93 Score=23.29 Aligned_cols=82 Identities=15% Similarity=0.031 Sum_probs=49.3
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCC-----
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGD----- 117 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~----- 117 (181)
+|.|=++++-+...++-.|++ ....++++.+|-...... ..+ +...+.++.....-....
T Consensus 2 ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~~~A---------~~l-----erA~~~gIpt~~~~~k~~~~r~~ 66 (200)
T COG0299 2 KIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDKADA---------YAL-----ERAAKAGIPTVVLDRKEFPSREA 66 (200)
T ss_pred eEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCCCCC---------HHH-----HHHHHcCCCEEEeccccCCCHHH
Confidence 577777777666666666666 333466666665543221 111 222334565543333222
Q ss_pred hHHHHHHHHHHhCCCEEEEecc
Q 030208 118 AAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~ 139 (181)
....|.+..+..++|+||+.-+
T Consensus 67 ~d~~l~~~l~~~~~dlvvLAGy 88 (200)
T COG0299 67 FDRALVEALDEYGPDLVVLAGY 88 (200)
T ss_pred HHHHHHHHHHhcCCCEEEEcch
Confidence 5688999999999999999854
No 160
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=53.30 E-value=54 Score=26.00 Aligned_cols=58 Identities=10% Similarity=0.042 Sum_probs=42.6
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cc-cccCchhhHHHhcC--CCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QS-VLQGSVGEYCLHHC--KTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~-~~~gs~~~~ll~~~--~~~pVlvv~ 169 (181)
+.+..-....++++.|++.++.+|+..+.+.-.. .+ -.+.........+. . +||.+-=
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~~~~~~~~~~~a~~~~~~-VPV~lHL 84 (288)
T TIGR00167 23 FNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGLGAISAMVKAMSEAYPYG-VPVALHL 84 (288)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCHHHHHHHHHHHHHhccCC-CcEEEEC
Confidence 4455558899999999999999999887764332 22 23566777888888 7 8988753
No 161
>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=53.02 E-value=1.1e+02 Score=24.09 Aligned_cols=82 Identities=12% Similarity=0.040 Sum_probs=49.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec----C
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----G 116 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----g 116 (181)
.++|.|-++++.+...++-.+.+- ...++++.++-..... . .. ..+..++++...-.. .
T Consensus 84 ~~ki~vl~Sg~g~nl~~l~~~~~~-g~l~~~i~~visn~~~--------~----~~----~A~~~gIp~~~~~~~~~~~~ 146 (280)
T TIGR00655 84 LKRVAILVSKEDHCLGDLLWRWYS-GELDAEIALVISNHED--------L----RS----LVERFGIPFHYIPATKDNRV 146 (280)
T ss_pred CcEEEEEEcCCChhHHHHHHHHHc-CCCCcEEEEEEEcChh--------H----HH----HHHHhCCCEEEcCCCCcchh
Confidence 478999999998777777666443 2234555544443311 0 11 123445666543221 1
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.....+++..++.++|++|+..+
T Consensus 147 ~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 147 EHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred hhHHHHHHHHHHhCCCEEEEeCc
Confidence 23467888899999999999976
No 162
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=52.86 E-value=1.3e+02 Score=24.93 Aligned_cols=77 Identities=13% Similarity=0.161 Sum_probs=44.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEE----ecC
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARI----VEG 116 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~----~~g 116 (181)
..++|+..++.-.. ++ .+++++++++++++.+-. ......+..++.++ ...+++.-..+ -.|
T Consensus 80 gdkVLv~~nG~FG~----R~-~~ia~~~g~~v~~~~~~w--g~~v~p~~v~~~L~-------~~~~~~~V~~vH~ETSTG 145 (383)
T COG0075 80 GDKVLVVVNGKFGE----RF-AEIAERYGAEVVVLEVEW--GEAVDPEEVEEALD-------KDPDIKAVAVVHNETSTG 145 (383)
T ss_pred CCeEEEEeCChHHH----HH-HHHHHHhCCceEEEeCCC--CCCCCHHHHHHHHh-------cCCCccEEEEEeccCccc
Confidence 36788888775322 22 367778888888887742 12223344444433 12223322222 225
Q ss_pred --ChHHHHHHHHHHhCC
Q 030208 117 --DAAKVICKEAERLKP 131 (181)
Q Consensus 117 --~~~~~I~~~a~~~~~ 131 (181)
++.++|.+.+++++.
T Consensus 146 vlnpl~~I~~~~k~~g~ 162 (383)
T COG0075 146 VLNPLKEIAKAAKEHGA 162 (383)
T ss_pred ccCcHHHHHHHHHHcCC
Confidence 789999999998753
No 163
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=52.74 E-value=56 Score=26.79 Aligned_cols=24 Identities=21% Similarity=0.235 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
....++++|.+.++|.|+.|.+-+
T Consensus 104 KF~~~l~~a~~lgad~iATGHYar 127 (356)
T COG0482 104 KFKALLDYAKELGADYIATGHYAR 127 (356)
T ss_pred HHHHHHHHHHHcCCCeEEEeeeEe
Confidence 467889999999999999998743
No 164
>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=52.55 E-value=1.4e+02 Score=25.14 Aligned_cols=92 Identities=12% Similarity=0.014 Sum_probs=52.5
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChH---H
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAA---K 120 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~---~ 120 (181)
++++..++--+-.+...|..+....|.++.++..-... ..+.+.++.+ ....++++.......++. .
T Consensus 103 ~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R------~~a~~QL~~~----a~~~gvp~~~~~~~~~P~~i~~ 172 (428)
T TIGR00959 103 LMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYR------PAAIEQLKVL----GQQVGVPVFALGKGQSPVEIAR 172 (428)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccc------hHHHHHHHHH----HHhcCCceEecCCCCCHHHHHH
Confidence 44555666667788888888765557778777663211 1122223332 233334443222122443 3
Q ss_pred HHHHHHHHhCCCEEEEeccCCCccc
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQ 145 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~ 145 (181)
..++.++..++|+|++-+.++....
T Consensus 173 ~al~~~~~~~~DvVIIDTaGr~~~d 197 (428)
T TIGR00959 173 RALEYAKENGFDVVIVDTAGRLQID 197 (428)
T ss_pred HHHHHHHhcCCCEEEEeCCCccccC
Confidence 4455666778999999999876543
No 165
>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=52.21 E-value=51 Score=22.78 Aligned_cols=59 Identities=12% Similarity=-0.006 Sum_probs=33.0
Q ss_pred HHHHHHhhhcCceEEEEEecC-ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHh
Q 030208 96 KLAIEAMDVAMVRTKARIVEG-DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLH 158 (181)
Q Consensus 96 ~~~~~~~~~~~i~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~ 158 (181)
.+....++..|+++.. ... ...+++++.|.+.++|.|++.+...+.... +..+.+.+-.
T Consensus 20 ~iv~~~l~~~GfeVi~--lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~--~~~~~~~L~~ 79 (132)
T TIGR00640 20 KVIATAYADLGFDVDV--GPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTL--VPALRKELDK 79 (132)
T ss_pred HHHHHHHHhCCcEEEE--CCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHH--HHHHHHHHHh
Confidence 3444555565555432 122 456777777777788888887665433332 3445455444
No 166
>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=51.85 E-value=68 Score=22.15 Aligned_cols=43 Identities=14% Similarity=0.030 Sum_probs=27.6
Q ss_pred HHHHHhhhcCceEEEEEecC--ChHHHHHHHHHHhCCCEEEEeccCCC
Q 030208 97 LAIEAMDVAMVRTKARIVEG--DAAKVICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 97 ~~~~~~~~~~i~~~~~~~~g--~~~~~I~~~a~~~~~dliV~g~~~~~ 142 (181)
+....++..++++. .-| .+.+.+++.|.++++|+|.+++---+
T Consensus 18 iv~~~L~~~GfeVi---dLG~~v~~e~~v~aa~~~~adiVglS~L~t~ 62 (128)
T cd02072 18 ILDHAFTEAGFNVV---NLGVLSPQEEFIDAAIETDADAILVSSLYGH 62 (128)
T ss_pred HHHHHHHHCCCEEE---ECCCCCCHHHHHHHHHHcCCCEEEEeccccC
Confidence 34445555555542 234 56788888888888888888765333
No 167
>PRK08194 tartrate dehydrogenase; Provisional
Probab=51.66 E-value=72 Score=26.15 Aligned_cols=28 Identities=7% Similarity=0.122 Sum_probs=23.0
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
..+++.+++|.++|+..+.+++++|=.+
T Consensus 161 ~~~eRI~r~Af~~A~~r~~~Vt~v~KaN 188 (352)
T PRK08194 161 KGTERAMRYAFELAAKRRKHVTSATKSN 188 (352)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCcc
Confidence 6789999999999988767788887533
No 168
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=51.65 E-value=1.4e+02 Score=24.76 Aligned_cols=35 Identities=26% Similarity=0.135 Sum_probs=28.1
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
..++++.+++.-.|.-++..+.+ .|..+..+|+..
T Consensus 176 ~gkvvvllSGGiDS~vaa~l~~k----~G~~v~av~~~~ 210 (394)
T PRK01565 176 SGKALLLLSGGIDSPVAGYLAMK----RGVEIEAVHFHS 210 (394)
T ss_pred CCCEEEEECCChhHHHHHHHHHH----CCCEEEEEEEeC
Confidence 48899999999888877766644 377899999954
No 169
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=51.18 E-value=59 Score=26.56 Aligned_cols=58 Identities=14% Similarity=0.115 Sum_probs=43.0
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcC-CCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHC-KTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~-~~~pVlvv~ 169 (181)
+.+..-....++++.|++.++.+|+..+.+.....+ -++......+..+. . +||.+-=
T Consensus 23 fN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~v~~~ae~~~~-VPVaLHL 82 (347)
T PRK13399 23 FNVNNMEQILAIMEAAEATDSPVILQASRGARKYAGDAMLRHMVLAAAEMYPD-IPICLHQ 82 (347)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhcCC-CcEEEEC
Confidence 345555889999999999999999999886544333 34566777788777 5 8987753
No 170
>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=50.87 E-value=71 Score=22.24 Aligned_cols=23 Identities=22% Similarity=0.231 Sum_probs=15.3
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.+.+++.|.++++|+|.+++.
T Consensus 39 v~~e~~v~aa~~~~adiVglS~l 61 (134)
T TIGR01501 39 SPQEEFIKAAIETKADAILVSSL 61 (134)
T ss_pred CCHHHHHHHHHHcCCCEEEEecc
Confidence 45667777777777777766654
No 171
>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=50.82 E-value=53 Score=22.51 Aligned_cols=39 Identities=15% Similarity=0.093 Sum_probs=32.1
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
..+|+|+-|....|....+.+..-....|.++..+....
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~ 78 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVP 78 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccC
Confidence 478999999999999999999998888888888888544
No 172
>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=50.74 E-value=1.1e+02 Score=24.70 Aligned_cols=89 Identities=12% Similarity=0.072 Sum_probs=49.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec------
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE------ 115 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~------ 115 (181)
-.++|++++...|..++..+.. ..|-.+.++|+....... ...+.+++++ +..+++..+....
T Consensus 60 yD~iV~lSGGkDSs~la~ll~~---~~gl~~l~vt~~~~~~~e----~~~~n~~~~~----~~lgvd~~~i~~d~~~~~~ 128 (343)
T TIGR03573 60 YDCIIGVSGGKDSTYQAHVLKK---KLGLNPLLVTVDPGWNTE----LGVKNLNNLI----KKLGFDLHTITINPETFRK 128 (343)
T ss_pred CCEEEECCCCHHHHHHHHHHHH---HhCCceEEEEECCCCCCH----HHHHHHHHHH----HHcCCCeEEEeCCHHHHHH
Confidence 3599999999888877655533 345566667775432211 1111122211 1111222111110
Q ss_pred -----------------CChHHHHHHHHHHhCCCEEEEeccCC
Q 030208 116 -----------------GDAAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 116 -----------------g~~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
......+.++|++.++.+|+-|....
T Consensus 129 l~~~~~~~~~~pc~~c~~~~~~~l~~~A~~~gi~~Il~G~~~d 171 (343)
T TIGR03573 129 LQRAYFKKVGDPEWPQDHAIFASVYQVALKFNIPLIIWGENIA 171 (343)
T ss_pred HHHHHHhccCCCchhhhhHHHHHHHHHHHHhCCCEEEeCCCHH
Confidence 12346677899999999999998754
No 173
>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=50.67 E-value=1e+02 Score=22.81 Aligned_cols=90 Identities=13% Similarity=0.098 Sum_probs=47.8
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhh-H-HHHHHHHHHHHHHHHhhhcCceEEEEEec---CC
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQI-V-YDMSQGLMEKLAIEAMDVAMVRTKARIVE---GD 117 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~i~~~~~~~~---g~ 117 (181)
++++.+++...|--++..+.+. |-++..+++........ . .....+. ++...+..+++....... .+
T Consensus 1 kv~v~~SGGkDS~~al~~a~~~----G~~v~~l~~~~~~~~~~~~~h~~~~e~----~~~~A~~lgipl~~i~~~~~~e~ 72 (194)
T cd01994 1 KVVALISGGKDSCYALYRALEE----GHEVVALLNLTPEEGSSMMYHTVNHEL----LELQAEAMGIPLIRIEISGEEED 72 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHHc----CCEEEEEEEEecCCCCcccccccCHHH----HHHHHHHcCCcEEEEeCCCCchH
Confidence 4789999999998888888773 55677777654332111 0 1111112 222333344554433221 23
Q ss_pred hHHHHHHHHHHh---CCCEEEEeccC
Q 030208 118 AAKVICKEAERL---KPAAVVIGSRG 140 (181)
Q Consensus 118 ~~~~I~~~a~~~---~~dliV~g~~~ 140 (181)
..+.+.+..++. +++.||-|.-.
T Consensus 73 ~~~~l~~~l~~~~~~g~~~vv~G~i~ 98 (194)
T cd01994 73 EVEDLKELLRKLKEEGVDAVVFGAIL 98 (194)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECccc
Confidence 334443333222 69999999863
No 174
>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=50.67 E-value=1.2e+02 Score=23.83 Aligned_cols=115 Identities=10% Similarity=-0.092 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHhccCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhC
Q 030208 54 SKHAFDWALIHLCRLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLK 130 (181)
Q Consensus 54 s~~a~~~a~~la~~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~ 130 (181)
...+++.-++.....| ..-.++.-..........++..+.++...+... ..+.+-.-+...+. .-.+.++|++.+
T Consensus 19 D~~~~~~~i~~~i~~G~v~gi~~~GstGE~~~Lt~eEr~~~~~~~~~~~~--~~~pvi~gv~~~~t~~~i~la~~a~~~G 96 (290)
T TIGR00683 19 NEKGLRQIIRHNIDKMKVDGLYVGGSTGENFMLSTEEKKEIFRIAKDEAK--DQIALIAQVGSVNLKEAVELGKYATELG 96 (290)
T ss_pred CHHHHHHHHHHHHhCCCcCEEEECCcccccccCCHHHHHHHHHHHHHHhC--CCCcEEEecCCCCHHHHHHHHHHHHHhC
Confidence 4455555555544444 333222222222223344555555555444432 23444333322233 345567789999
Q ss_pred CCEEEEeccCCCcccccccCchhhHHHhcC-CCccEEEEcCC
Q 030208 131 PAAVVIGSRGRGLIQSVLQGSVGEYCLHHC-KTAPIIVVPGK 171 (181)
Q Consensus 131 ~dliV~g~~~~~~~~~~~~gs~~~~ll~~~-~~~pVlvv~~~ 171 (181)
+|.+++..........--+-..-..|+..+ + .||++...+
T Consensus 97 ad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~-lpv~lYn~P 137 (290)
T TIGR00683 97 YDCLSAVTPFYYKFSFPEIKHYYDTIIAETGG-LNMIVYSIP 137 (290)
T ss_pred CCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCC-CCEEEEeCc
Confidence 999999765332221111112224566666 6 999998544
No 175
>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=50.53 E-value=1.4e+02 Score=24.33 Aligned_cols=63 Identities=13% Similarity=0.077 Sum_probs=39.1
Q ss_pred hhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcC
Q 030208 103 DVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 103 ~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+.|++++. ...+.+..+. ++.++|++++|+..-..-.. .-.|+..-.++.+..++||+|+-+
T Consensus 203 ~~~GI~vtl--I~Dsav~~~m---~~~~vd~VivGAd~v~~nG~v~nkiGT~~lA~~Ak~~~vPfyV~a~ 267 (331)
T TIGR00512 203 VQEGIPATL--ITDSMAAHLM---KHGEVDAVIVGADRIAANGDTANKIGTYQLAVLAKHHGVPFYVAAP 267 (331)
T ss_pred HHCCCCEEE--EcccHHHHHh---cccCCCEEEEcccEEecCCCEeehhhHHHHHHHHHHhCCCEEEecc
Confidence 345677763 3444444333 34579999999986322111 225777777776555599999854
No 176
>PTZ00285 glucosamine-6-phosphate isomerase; Provisional
Probab=50.51 E-value=1.1e+02 Score=23.44 Aligned_cols=107 Identities=13% Similarity=0.108 Sum_probs=56.7
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccC--C-CEEEEEEEecCC-chhhHHHHHHHHHHHHHHHHhhhcCceE-EEEEecC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRL--A-DTIHLVHAVSSV-QNQIVYDMSQGLMEKLAIEAMDVAMVRT-KARIVEG 116 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~--~-a~l~llhV~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~i~~-~~~~~~g 116 (181)
....+++.+...-...++...+..... + .+|+++++-+.. -.....+.-...+++ ..+....+.. .+....+
T Consensus 33 ~~~~i~lsgG~tP~~~y~~L~~~~~~~~i~w~~v~if~~DEr~~Vp~~~~~Sn~~~~~~---~l~~~~~ip~~~~~~~~~ 109 (253)
T PTZ00285 33 RPFVLGLPTGSTPLPTYQELIRAYREGRVSFSNVVTFNMDEYVGLPRDHPQSYHYFMKE---NFFDHVDIKEENRHILNG 109 (253)
T ss_pred CCeEEEEcCCCCHHHHHHHHHHHHhhcCCchhHeEEECCcEEecCCCCchHHHHHHHHH---HHhccCCCCHhhEEcCCC
Confidence 456777777766667777766654332 2 477777775532 111111222222222 2222222222 2222222
Q ss_pred ---ChHHHHHHHHHH----hCCCEEEEeccCCCcccccccCc
Q 030208 117 ---DAAKVICKEAER----LKPAAVVIGSRGRGLIQSVLQGS 151 (181)
Q Consensus 117 ---~~~~~I~~~a~~----~~~dliV~g~~~~~~~~~~~~gs 151 (181)
++.++..+|.+. .+.|++++|--..+.....|-|+
T Consensus 110 ~~~~~~~~~~~y~~~i~~~~~~Dl~lLG~G~DGH~AslfP~~ 151 (253)
T PTZ00285 110 TAPDLEEECRRYEEKIRAVGGIDLFLAGIGTDGHIAFNEPGS 151 (253)
T ss_pred CCcCHHHHHHHHHHHHHHhCCCcEEEeCCCCCCceeecCCCC
Confidence 455666666543 36899999987777776666665
No 177
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=50.45 E-value=71 Score=24.31 Aligned_cols=69 Identities=7% Similarity=0.029 Sum_probs=35.7
Q ss_pred HHHhhhcCceEEEEEec-----CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 99 IEAMDVAMVRTKARIVE-----GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~-----g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.+.+...|..+.+.-.. ++..+.|.++.++.+++-|.+-.-+.-.+.+ ..+++..... +++-+++...+
T Consensus 55 a~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~-----~l~~~~~~~~-i~~~~~~~~~F 128 (224)
T PF04244_consen 55 ADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQ-----RLESLAQQLG-IPLEVLEDPHF 128 (224)
T ss_dssp HHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHH-----HHHH----SS-S-EEEE--TTS
T ss_pred HHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHH-----HHHhhhcccC-CceEEeCCCCc
Confidence 34455567888876555 3568899999999999988888765544433 3356666777 99999987654
No 178
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=50.42 E-value=58 Score=24.68 Aligned_cols=89 Identities=20% Similarity=0.227 Sum_probs=41.7
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHH-HHHHHHHHHHHHhhhcCceEEEEEec---CCh
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDM-SQGLMEKLAIEAMDVAMVRTKARIVE---GDA 118 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~i~~~~~~~~---g~~ 118 (181)
++++-+++.+.|--|+-.|.+- ..-..|++..+.......... ..+.++. +.+.+. ++....-.. .+-
T Consensus 2 k~v~l~SGGKDS~lAl~~a~~~----~~v~~L~t~~~~~~~s~~~H~~~~~~~~~-qA~alg---ipl~~~~~~g~~~~~ 73 (218)
T PF01902_consen 2 KVVALWSGGKDSCLALYRALRQ----HEVVCLLTMVPEEEDSYMFHGVNIELIEA-QAEALG---IPLIEIPTSGDEEDY 73 (218)
T ss_dssp EEEEE--SSHHHHHHHHHHHHT-----EEEEEEEEEESTTT-SSS-STTGTCHHH-HHHHHT-----EEEEEE---CCCH
T ss_pred cEEEEEcCcHHHHHHHHHHHHh----CCccEEEEeccCCCCcccccccCHHHHHH-HHHHCC---CCEEEEEccCccchh
Confidence 3566688999998888777555 223455555544322111111 1222222 223333 333322223 455
Q ss_pred HHHHHHHHHHhCCCEEEEecc
Q 030208 119 AKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.+.+..++.+++.+|.|.=
T Consensus 74 ~~~l~~~l~~~~v~~vv~GdI 94 (218)
T PF01902_consen 74 VEDLKEALKELKVEAVVFGDI 94 (218)
T ss_dssp HHHHHHHHCTC--SEEE--TT
T ss_pred hHHHHHHHHHcCCCEEEECcC
Confidence 677777778888999998864
No 179
>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=50.14 E-value=1.7e+02 Score=25.21 Aligned_cols=79 Identities=8% Similarity=-0.086 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHhhhcCceEEEEEec-CChHHHHHHHHHH----hCCCEEEEeccCCCcccccccCchhhHHHhcCC
Q 030208 87 YDMSQGLMEKLAIEAMDVAMVRTKARIVE-GDAAKVICKEAER----LKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCK 161 (181)
Q Consensus 87 ~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-g~~~~~I~~~a~~----~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~ 161 (181)
.++..+..+++.+.......+.+++.... -.-.+.+.+.+++ .++|.||+-.+.-+. .+..-.+++...
T Consensus 18 l~~~~~~~~~i~~~l~~~~~~~~~v~~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~------a~~~i~~~~~l~ 91 (484)
T cd03557 18 LKQVAAHSREIVDGLNASGKLPVKIVFKPVLTTPDEILAVCREANADDNCAGVITWMHTFSP------AKMWIAGLTALQ 91 (484)
T ss_pred HHHHHHHHHHHHHHhcccCCCCeEEEEccccCCHHHHHHHHHHccccCCccEEEEccCCCch------HHHHHHHHHHcC
Confidence 34444555554444434344555543322 1445666666666 458999988765443 334457788999
Q ss_pred CccEEEEcCCC
Q 030208 162 TAPIIVVPGKG 172 (181)
Q Consensus 162 ~~pVlvv~~~~ 172 (181)
+|||+..-.+
T Consensus 92 -~PvL~~~~q~ 101 (484)
T cd03557 92 -KPLLHLHTQF 101 (484)
T ss_pred -CCEEEEccCC
Confidence 9999996544
No 180
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 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.; GO: 0009058 biosynthetic process
Probab=50.08 E-value=82 Score=22.67 Aligned_cols=73 Identities=12% Similarity=0.100 Sum_probs=40.7
Q ss_pred HHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe---cCChHHHHHHHHHHhCCC
Q 030208 56 HAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV---EGDAAKVICKEAERLKPA 132 (181)
Q Consensus 56 ~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~---~g~~~~~I~~~a~~~~~d 132 (181)
+.+...++.+...+.+++++--.+ +..++..+. +.+.. .++.+.-... ...-.+.|++.++..++|
T Consensus 35 dl~~~l~~~~~~~~~~ifllG~~~--------~~~~~~~~~-l~~~y--P~l~ivg~~~g~f~~~~~~~i~~~I~~~~pd 103 (172)
T PF03808_consen 35 DLFPDLLRRAEQRGKRIFLLGGSE--------EVLEKAAAN-LRRRY--PGLRIVGYHHGYFDEEEEEAIINRINASGPD 103 (172)
T ss_pred HHHHHHHHHHHHcCCeEEEEeCCH--------HHHHHHHHH-HHHHC--CCeEEEEecCCCCChhhHHHHHHHHHHcCCC
Confidence 455555566666677777775533 122222222 12211 1344332211 124678999999999999
Q ss_pred EEEEecc
Q 030208 133 AVVIGSR 139 (181)
Q Consensus 133 liV~g~~ 139 (181)
+|++|--
T Consensus 104 iv~vglG 110 (172)
T PF03808_consen 104 IVFVGLG 110 (172)
T ss_pred EEEEECC
Confidence 9999964
No 181
>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=49.84 E-value=51 Score=27.52 Aligned_cols=22 Identities=9% Similarity=0.191 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHhCCCEEEEecc
Q 030208 118 AAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~ 139 (181)
..++|+++|.+.++|+|+++-.
T Consensus 30 ~f~eil~~a~~~~vD~VLiaGD 51 (405)
T TIGR00583 30 TFEEVLQIAKEQDVDMILLGGD 51 (405)
T ss_pred HHHHHHHHHHHcCCCEEEECCc
Confidence 3567777777777888887753
No 182
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases. In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.
Probab=49.50 E-value=34 Score=25.06 Aligned_cols=34 Identities=15% Similarity=0.121 Sum_probs=27.0
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
+|++++.++..+.++.+.+..+.+. |.+++++-.
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~~~-g~~V~vv~T 34 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLKEA-GVEVHLVIS 34 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHHHC-CCEEEEEEC
Confidence 5899999999999999999888654 667665544
No 183
>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=49.43 E-value=51 Score=26.85 Aligned_cols=61 Identities=18% Similarity=0.245 Sum_probs=43.4
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEecc-CCCcccc----------------cccCchhhHHHhcCCCccEEEEcCCC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSR-GRGLIQS----------------VLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~-~~~~~~~----------------~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
+.+..-....++++.|++.++.+|+..+. +.....+ ..+.......+.+.. +||.+-=...
T Consensus 18 fN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~-VPV~lHLDH~ 95 (340)
T cd00453 18 VNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYG-VPVILHTDHC 95 (340)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHHHHHHHHHHHCC-CCEEEEcCCC
Confidence 34445578899999999999999999877 3312111 235567778888998 9998864433
No 184
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=49.30 E-value=1.1e+02 Score=22.73 Aligned_cols=49 Identities=12% Similarity=0.160 Sum_probs=31.4
Q ss_pred ChHHHHHHHHHHhCCCEEEEec----cCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGS----RGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~----~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
+-.++.++.+++..+|+++|.- ...++. ...+++.++.+.++|+++-..
T Consensus 34 ~~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~------~~i~~i~~~~p~~~iivlt~~ 86 (207)
T PRK15411 34 ETVDDLAIACDSLRPSVVFINEDCFIHDASNS------QRIKQIINQHPNTLFIVFMAI 86 (207)
T ss_pred CCHHHHHHHHhccCCCEEEEeCcccCCCCChH------HHHHHHHHHCCCCeEEEEECC
Confidence 3444455677777899999993 332221 366777776665888888544
No 185
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=48.66 E-value=1.1e+02 Score=23.82 Aligned_cols=44 Identities=16% Similarity=0.046 Sum_probs=28.1
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCCccc-ccccCchhhHHHhcCC
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGRGLIQ-SVLQGSVGEYCLHHCK 161 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~-~~~~gs~~~~ll~~~~ 161 (181)
++..++.+-. ..+++|+|||+-...+-. -...|...++++++..
T Consensus 86 ~di~~e~~~e--~~~~~LLvmGkie~~GeGC~Cp~~allR~~l~~l~ 130 (255)
T COG3640 86 SDLPDEYLVE--NGDIDLLVMGKIEEGGEGCACPMNALLRRLLRHLI 130 (255)
T ss_pred hhhhHHHhhh--cCCccEEEeccccCCCCcccchHHHHHHHHHHHHh
Confidence 3444444433 345999999987654432 2457888888888765
No 186
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=48.35 E-value=1.7e+02 Score=24.84 Aligned_cols=98 Identities=16% Similarity=0.110 Sum_probs=60.4
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChH---H
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAA---K 120 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~---~ 120 (181)
.+|.+-++--.-.+.+.|..+.+ .+.++-++..--. ...+-+.|+.+ .++.++.+--.....+|+ +
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~------RpAA~eQL~~L----a~q~~v~~f~~~~~~~Pv~Iak 172 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTY------RPAAIEQLKQL----AEQVGVPFFGSGTEKDPVEIAK 172 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccC------ChHHHHHHHHH----HHHcCCceecCCCCCCHHHHHH
Confidence 45667788666677777777766 6777777776221 11233333433 334344443331122454 6
Q ss_pred HHHHHHHHhCCCEEEEeccCCCcccccccCch
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQSVLQGSV 152 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~ 152 (181)
.=++.++..++|+||+-+-||-....-++.-.
T Consensus 173 ~al~~ak~~~~DvvIvDTAGRl~ide~Lm~El 204 (451)
T COG0541 173 AALEKAKEEGYDVVIVDTAGRLHIDEELMDEL 204 (451)
T ss_pred HHHHHHHHcCCCEEEEeCCCcccccHHHHHHH
Confidence 66778899899999999999888765444433
No 187
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=48.28 E-value=1.7e+02 Score=24.73 Aligned_cols=53 Identities=11% Similarity=0.166 Sum_probs=40.0
Q ss_pred ChHHHHHHHHHH--hCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 117 DAAKVICKEAER--LKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 117 ~~~~~I~~~a~~--~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.....|++..+. .++|.+|+.-++.+.+.. -...-++++... .||+|-|...+
T Consensus 128 ~~~~~ll~~~~~~l~~~~~vVLSDY~KG~L~~---~q~~I~~ar~~~-~pVLvDPKg~D 182 (467)
T COG2870 128 EDENKLLEKIKNALKSFDALVLSDYAKGVLTN---VQKMIDLAREAG-IPVLVDPKGKD 182 (467)
T ss_pred hhHHHHHHHHHHHhhcCCEEEEeccccccchh---HHHHHHHHHHcC-CcEEECCCCcc
Confidence 445667776655 579999999998887764 234457889999 99999986655
No 188
>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=47.68 E-value=1.2e+02 Score=24.54 Aligned_cols=28 Identities=14% Similarity=0.080 Sum_probs=22.8
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
....+++.+++|.++|+..+.+++++|=
T Consensus 139 tr~~~eRi~r~AF~~A~~r~~~Vt~v~K 166 (322)
T TIGR02088 139 TREGSERIARFAFNLAKERNRKVTCVHK 166 (322)
T ss_pred cHHHHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 3478999999999999888777766664
No 189
>PRK08005 epimerase; Validated
Probab=47.34 E-value=1.1e+02 Score=23.08 Aligned_cols=26 Identities=15% Similarity=0.194 Sum_probs=21.0
Q ss_pred ecCChHHHHHHHHHHhCCCEEEEecc
Q 030208 114 VEGDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 114 ~~g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
+-|.+...-+..+.+.++|.+|+|+.
T Consensus 168 VDGGI~~~~i~~l~~aGad~~V~Gsa 193 (210)
T PRK08005 168 ADGGITLRAARLLAAAGAQHLVIGRA 193 (210)
T ss_pred EECCCCHHHHHHHHHCCCCEEEEChH
Confidence 46777777777888889999999954
No 190
>PHA02031 putative DnaG-like primase
Probab=47.20 E-value=65 Score=25.27 Aligned_cols=38 Identities=18% Similarity=0.107 Sum_probs=30.1
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.++|+++.|+...-.+|...+.+++...+-++.++.+-
T Consensus 206 ~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~lP 243 (266)
T PHA02031 206 CPRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIITP 243 (266)
T ss_pred CCCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEECC
Confidence 37899999999888888888888887777777766663
No 191
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=46.47 E-value=1.3e+02 Score=22.96 Aligned_cols=89 Identities=16% Similarity=0.166 Sum_probs=49.2
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCC-EEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC---ChH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLAD-TIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG---DAA 119 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a-~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g---~~~ 119 (181)
+++-+++.+.|..|+-.|.+. |- -..++++.+...+....+...-.+-.++.+ ..++...+....| .-.
T Consensus 3 ~~aL~SGGKDS~~Al~~a~~~----G~eV~~Ll~~~p~~~dS~m~H~~n~~~~~~~Ae---~~gi~l~~~~~~g~~e~ev 75 (223)
T COG2102 3 VIALYSGGKDSFYALYLALEE----GHEVVYLLTVKPENGDSYMFHTPNLELAELQAE---AMGIPLVTFDTSGEEEREV 75 (223)
T ss_pred EEEEEecCcHHHHHHHHHHHc----CCeeEEEEEEecCCCCeeeeeccchHHHHHHHH---hcCCceEEEecCccchhhH
Confidence 455678888887666666543 43 345555554433222222111122222222 2335544444444 467
Q ss_pred HHHHHHHHHhCCCEEEEecc
Q 030208 120 KVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~ 139 (181)
+.+.+..+..++|.|+.|.-
T Consensus 76 e~L~~~l~~l~~d~iv~GaI 95 (223)
T COG2102 76 EELKEALRRLKVDGIVAGAI 95 (223)
T ss_pred HHHHHHHHhCcccEEEEchh
Confidence 78888888889999999974
No 192
>PLN02496 probable phosphopantothenoylcysteine decarboxylase
Probab=46.41 E-value=54 Score=24.74 Aligned_cols=37 Identities=14% Similarity=0.021 Sum_probs=28.3
Q ss_pred CCCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 39 RRGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 39 ~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
.+.++|++++.+|-.+.++.+.+..+- . ++++.++-.
T Consensus 17 ~~~k~IllgVtGSIAAyk~~~lvr~L~-~-g~~V~VvmT 53 (209)
T PLN02496 17 PRKPRILLAASGSVAAIKFGNLCHCFS-E-WAEVRAVVT 53 (209)
T ss_pred CCCCEEEEEEeCHHHHHHHHHHHHHhc-C-CCeEEEEEC
Confidence 346899999999999999888776664 3 677766654
No 193
>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=46.27 E-value=63 Score=20.31 Aligned_cols=61 Identities=11% Similarity=-0.092 Sum_probs=34.7
Q ss_pred hcCceEEEEE-ecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 104 VAMVRTKARI-VEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 104 ~~~i~~~~~~-~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
..|+.++..+ ..+.-...+.+..++.++|+||.-......... --|...++.+-... +|++
T Consensus 28 ~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~-~d~~~iRr~A~~~~-Ip~~ 89 (90)
T smart00851 28 EAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLYPLGAQPH-EDGKALRRAAENID-IPGA 89 (90)
T ss_pred HCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCCcCcceec-cCcHHHHHHHHHcC-CCee
Confidence 3456654322 112222468999999999999997654222111 13555566666666 6653
No 194
>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=45.99 E-value=48 Score=26.63 Aligned_cols=54 Identities=17% Similarity=0.287 Sum_probs=38.5
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEcCCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGTS 174 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~~ 174 (181)
.+..+.+++.++ +|+||+|-... |-+..+++..+.+ .+++++ +|++.|.+--..
T Consensus 163 ~~~~~~l~AI~~--ADlIvlgPGSlyTSI~P~Llv~gi~e-Ai~~s~-a~kV~V~ni~t~ 218 (309)
T cd07044 163 SPSREVLEAIEK--ADNIVIGPGSLYTSILPNISVPGIRE-ALKKTX-AKKVYVSNIXTQ 218 (309)
T ss_pred CCCHHHHHHHHh--CCEEEECCCcCHHHhhhhcCcHhHHH-HHHhcC-CCeEEECCCCCC
Confidence 567889999999 99999996542 2344455666655 455678 999999876443
No 195
>cd01400 6PGL 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard against the accumulation of the delta form of the lactone, which may be toxic through its reaction with endogenous cellular nucleophiles.
Probab=45.71 E-value=1.3e+02 Score=22.60 Aligned_cols=107 Identities=11% Similarity=0.108 Sum_probs=59.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceE-EEEEecC--C
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRT-KARIVEG--D 117 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~-~~~~~~g--~ 117 (181)
.+..+++.+...-...++...... ..+ .++++.++-+.--.....+.-...+++ ..++...+.. .+....+ +
T Consensus 23 ~~~~l~lsGGstp~~~y~~L~~~~-~i~w~~v~~f~~DEr~Vp~~~~~Sn~~~~~~---~ll~~~~~~~~~v~~~~~~~~ 98 (219)
T cd01400 23 GRFSLALSGGSTPKPLYELLAAAP-ALDWSKVHVFLGDERCVPPDDPDSNYRLARE---ALLSHVAIPAANIHPIPTELG 98 (219)
T ss_pred CeEEEEECCCccHHHHHHHhcccc-CCCCceEEEEEeeccccCCCCcccHHHHHHH---HhhccCCCCHhhEEeCCCCCC
Confidence 567888888877777777665543 233 688888886643111112222222222 2222222221 1122222 4
Q ss_pred hHHHHHHHHH---H-----hCCCEEEEeccCCCcccccccCch
Q 030208 118 AAKVICKEAE---R-----LKPAAVVIGSRGRGLIQSVLQGSV 152 (181)
Q Consensus 118 ~~~~I~~~a~---~-----~~~dliV~g~~~~~~~~~~~~gs~ 152 (181)
+.++..+|.+ + ...|++++|--..+.....|-|+.
T Consensus 99 ~~~~a~~y~~~i~~~~~~~~~~Dl~lLGmG~DGH~ASlfP~~~ 141 (219)
T cd01400 99 PEDAAAAYEKELRALFGGVPPFDLVLLGMGPDGHTASLFPGHP 141 (219)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCEEEECCcCCCceeecCCCCc
Confidence 5666666643 2 367999999887887777777754
No 196
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=45.54 E-value=83 Score=22.09 Aligned_cols=52 Identities=21% Similarity=0.144 Sum_probs=33.3
Q ss_pred HHHHHHHHHhCCCEEEEeccCC-CcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 120 KVICKEAERLKPAAVVIGSRGR-GLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~~~-~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
..+..+.+++++|-||+-.|.. +.+.+.-.|=..+.+++-..+|+|-++.+.
T Consensus 51 ~~f~kl~~dy~Vd~VvIk~R~~KGKfAGga~~FKmEaaIQL~~~~~V~lvs~~ 103 (138)
T PF11215_consen 51 FTFAKLMEDYKVDKVVIKERATKGKFAGGAVGFKMEAAIQLIDDVEVELVSPA 103 (138)
T ss_pred HHHHHHHHHcCCCEEEEEecccCCCccCCchhHHHHHHHHhcCCCcEEEECHH
Confidence 4455677888888888887753 334443334445666666645888888643
No 197
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=45.46 E-value=1.8e+02 Score=24.22 Aligned_cols=92 Identities=16% Similarity=0.135 Sum_probs=50.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-CChH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE-GDAA 119 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-g~~~ 119 (181)
..+.|+-+++.-+|.-|. +++-+.|.+++.+|....+.... .+.+....+........+..+...+.. ++..
T Consensus 175 ~Gk~l~LlSGGIDSPVA~----~l~mkRG~~v~~v~f~~~p~~~~---~a~~k~~~l~~~~~~~~~~~~~~~~v~f~~v~ 247 (383)
T COG0301 175 QGKVLLLLSGGIDSPVAA----WLMMKRGVEVIPVHFGNPPYTSE---KAREKVVALALLRLTSYGGKVRLYVVPFTEVQ 247 (383)
T ss_pred CCcEEEEEeCCCChHHHH----HHHHhcCCEEEEEEEcCCCCchH---HHHHHHHHHHhhhhcccCCceEEEEEchHHHH
Confidence 366788888887776544 44555699999999966443222 222222222212222222233333332 2333
Q ss_pred HHHHH---------------------HHHHhCCCEEEEecc
Q 030208 120 KVICK---------------------EAERLKPAAVVIGSR 139 (181)
Q Consensus 120 ~~I~~---------------------~a~~~~~dliV~g~~ 139 (181)
++|.. +|++.++..||.|-.
T Consensus 248 ~~i~~~~~~~y~~v~~rR~M~riA~~iae~~g~~aIvtGEs 288 (383)
T COG0301 248 EEILEKVPESYRCVLLKRMMYRIAEKLAEEFGAKAIVTGES 288 (383)
T ss_pred HHHHhhcCccceehHHHHHHHHHHHHHHHHhCCeEEEecCc
Confidence 33332 677888999998854
No 198
>PRK06850 hypothetical protein; Provisional
Probab=45.09 E-value=2e+02 Score=24.96 Aligned_cols=71 Identities=18% Similarity=0.244 Sum_probs=38.5
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccC-----CCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRL-----ADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARI 113 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~-----~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~ 113 (181)
+.++|++++++.|..++..+....... ...+++++.-..-.........++.++.+. ......++++..++
T Consensus 35 ~P~vV~fSGGKDStavL~Lv~~Al~~lp~e~r~k~v~Vi~~DTgvE~Pe~~~~v~~~l~~i~-~~a~~~glpi~~~~ 110 (507)
T PRK06850 35 RPWVIGYSGGKDSTAVLQLVWNALAGLPPEKRTKPVYVISSDTLVENPVVVDWVNKSLERIN-EAAKKQGLPITPHK 110 (507)
T ss_pred CCeEEeCCCCchHHHHHHHHHHHHHhcchhccCCcEEEEECCCCCccHHHHHHHHHHHHHHH-HHHHHcCCceEEEe
Confidence 447899999999988888776554322 235666666332222333344444444432 22333345554433
No 199
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=45.08 E-value=1.3e+02 Score=22.59 Aligned_cols=86 Identities=12% Similarity=0.098 Sum_probs=55.5
Q ss_pred HHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEE
Q 030208 56 HAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVV 135 (181)
Q Consensus 56 ~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV 135 (181)
+-.+|..++|+. ++.++-+|.-.... ..+..++ .+..+..+-..+.-|.+++.|..+++. .|++.
T Consensus 75 ~Peq~V~~~a~a-gas~~tfH~E~~q~-------~~~lv~~-----ir~~Gmk~G~alkPgT~Ve~~~~~~~~--~D~vL 139 (224)
T KOG3111|consen 75 NPEQWVDQMAKA-GASLFTFHYEATQK-------PAELVEK-----IREKGMKVGLALKPGTPVEDLEPLAEH--VDMVL 139 (224)
T ss_pred CHHHHHHHHHhc-CcceEEEEEeeccC-------HHHHHHH-----HHHcCCeeeEEeCCCCcHHHHHHhhcc--ccEEE
Confidence 445777788876 77777778744211 2222222 233457777777889999999999998 88887
Q ss_pred EeccCCCcccccccCchhhHH
Q 030208 136 IGSRGRGLIQSVLQGSVGEYC 156 (181)
Q Consensus 136 ~g~~~~~~~~~~~~gs~~~~l 156 (181)
+=+-..++-.+.|+.+...++
T Consensus 140 vMtVePGFGGQkFme~mm~KV 160 (224)
T KOG3111|consen 140 VMTVEPGFGGQKFMEDMMPKV 160 (224)
T ss_pred EEEecCCCchhhhHHHHHHHH
Confidence 777655555555555555443
No 200
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=45.01 E-value=1.6e+02 Score=23.59 Aligned_cols=51 Identities=18% Similarity=0.109 Sum_probs=40.2
Q ss_pred cCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 115 EGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 115 ~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+..+..++..|++.+-.+-|+-+.++..++ |...-+-|++.. +|+.++..
T Consensus 128 ~S~~v~~~l~~A~~~~k~~~V~VtESRP~~e----G~~~ak~L~~~g-I~~~~I~D 178 (301)
T COG1184 128 FSKTVLEVLKTAADRGKRFKVIVTESRPRGE----GRIMAKELRQSG-IPVTVIVD 178 (301)
T ss_pred CcHHHHHHHHHhhhcCCceEEEEEcCCCcch----HHHHHHHHHHcC-CceEEEec
Confidence 4577888888888887767777777777666 677788888888 99998875
No 201
>PRK08576 hypothetical protein; Provisional
Probab=44.92 E-value=1.9e+02 Score=24.48 Aligned_cols=87 Identities=15% Similarity=0.151 Sum_probs=50.5
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEE--EE------
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKA--RI------ 113 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~--~~------ 113 (181)
.+|+|++++...|..++..+.+... .+.++|+....... +..+.++++ .+..++++.. ..
T Consensus 235 ~rVvVafSGGKDStvLL~La~k~~~----~V~aV~iDTG~e~p----et~e~~~~l----ae~LGI~lii~~v~~~~~~~ 302 (438)
T PRK08576 235 WTVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVDTGYEMP----LTDEYVEKV----AEKLGVDLIRAGVDVPMPIE 302 (438)
T ss_pred CCEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeCCCCCCh----HHHHHHHHH----HHHcCCCEEEcccCHHHHhh
Confidence 3899999999999988877766532 37778874322111 112222222 2222344332 00
Q ss_pred ecC-----------ChHHHHHHHHHHhCCCEEEEeccC
Q 030208 114 VEG-----------DAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 114 ~~g-----------~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
..| .-.+.+.+++++.+.+.++.|.+.
T Consensus 303 ~~g~p~~~~rcCt~lK~~pL~raake~g~~~iatG~R~ 340 (438)
T PRK08576 303 KYGMPTHSNRWCTKLKVEALEEAIRELEDGLLVVGDRD 340 (438)
T ss_pred hcCCCCcccchhhHHHHHHHHHHHHhCCCCEEEEEeeH
Confidence 011 123467778888899999999753
No 202
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=44.57 E-value=1.4e+02 Score=26.22 Aligned_cols=64 Identities=20% Similarity=0.261 Sum_probs=42.2
Q ss_pred HHHhhhcCceEEEEEecC-ChHH---HHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 99 IEAMDVAMVRTKARIVEG-DAAK---VICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~g-~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
...++.-+++++..+..- ...+ .+.+-++..+++.+|.++-....+.+ -+...+. +||+-||..
T Consensus 430 ~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~--------~~a~~t~-~pvi~vp~~ 497 (577)
T PLN02948 430 AEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPG--------MVASMTP-LPVIGVPVK 497 (577)
T ss_pred HHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchH--------HHhhccC-CCEEEcCCC
Confidence 344555567777776653 3334 44445666789988888765555443 3667788 999999975
No 203
>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=44.46 E-value=2e+02 Score=24.39 Aligned_cols=94 Identities=13% Similarity=0.064 Sum_probs=50.5
Q ss_pred EEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH---H
Q 030208 45 LIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK---V 121 (181)
Q Consensus 45 lv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~---~ 121 (181)
+++..++--+-.+.+.|..+. ..|.++.++..-... ..+-+.++. ..+..++.+.......++.+ .
T Consensus 105 lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~R------~aA~eQLk~----~a~~~~vp~~~~~~~~dp~~i~~~ 173 (429)
T TIGR01425 105 FVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTFR------AGAFDQLKQ----NATKARIPFYGSYTESDPVKIASE 173 (429)
T ss_pred EECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcccc------hhHHHHHHH----HhhccCCeEEeecCCCCHHHHHHH
Confidence 444566655667777776554 346677777552211 111122222 22333455443222335543 3
Q ss_pred HHHHHHHhCCCEEEEeccCCCccccccc
Q 030208 122 ICKEAERLKPAAVVIGSRGRGLIQSVLQ 149 (181)
Q Consensus 122 I~~~a~~~~~dliV~g~~~~~~~~~~~~ 149 (181)
-++.++..++|+|++-+.|+......++
T Consensus 174 ~l~~~~~~~~DvViIDTaGr~~~d~~lm 201 (429)
T TIGR01425 174 GVEKFKKENFDIIIVDTSGRHKQEDSLF 201 (429)
T ss_pred HHHHHHhCCCCEEEEECCCCCcchHHHH
Confidence 4455666789999999998876554333
No 204
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=44.42 E-value=1.2e+02 Score=21.86 Aligned_cols=104 Identities=10% Similarity=0.071 Sum_probs=57.9
Q ss_pred CeEEEEEcCC---hhhHHHHHHHHHHhccCCCEEEEEEEec-CCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCC
Q 030208 42 RDILIAVDHG---PNSKHAFDWALIHLCRLADTIHLVHAVS-SVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGD 117 (181)
Q Consensus 42 ~~Ilv~vd~s---~~s~~a~~~a~~la~~~~a~l~llhV~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~ 117 (181)
+.-++|-.|. .+..+.++.|..++. ++++.-..+ ........++..+.+++. ..... +++.....|
T Consensus 3 ~iavypGSFDPiTnGHlDii~RA~~~Fd----~viVaV~~np~K~plFsleER~~l~~~~---~~~l~--nV~V~~f~~- 72 (159)
T COG0669 3 KIAVYPGSFDPITNGHLDIIKRASALFD----EVIVAVAINPSKKPLFSLEERVELIREA---TKHLP--NVEVVGFSG- 72 (159)
T ss_pred eeEEeCCCCCCCccchHHHHHHHHHhcc----EEEEEEEeCCCcCCCcCHHHHHHHHHHH---hcCCC--ceEEEeccc-
Confidence 3445554444 456788888877764 344433333 332333334444444442 12222 233222222
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHh
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLH 158 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~ 158 (181)
-++++|++.++..||=|-+.-++++- +-+...-+++..
T Consensus 73 ---Llvd~ak~~~a~~ivRGLR~~sDfeYE~qma~~N~~L~~ 111 (159)
T COG0669 73 ---LLVDYAKKLGATVLVRGLRAVSDFEYELQMAHMNRKLAP 111 (159)
T ss_pred ---HHHHHHHHcCCCEEEEeccccchHHHHHHHHHHHHhhcc
Confidence 78999999999999999999888763 334444444444
No 205
>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=44.31 E-value=90 Score=25.54 Aligned_cols=59 Identities=10% Similarity=0.175 Sum_probs=42.1
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+.+.+-....++++.|++.++.+|+..+.+.-...+ -++......++.+...+||.+-=
T Consensus 21 fN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~~~~~ae~~~~VPValHL 80 (347)
T TIGR01521 21 FNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAGAPFLRHLILAAIEEYPHIPVVMHQ 80 (347)
T ss_pred EeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhCCCCcEEEEC
Confidence 344455889999999999999999999886533222 33566677777777228888753
No 206
>KOG3243 consensus 6,7-dimethyl-8-ribityllumazine synthase [Coenzyme transport and metabolism]
Probab=44.28 E-value=1.1e+02 Score=21.36 Aligned_cols=97 Identities=12% Similarity=0.098 Sum_probs=51.7
Q ss_pred CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEE-EeccCCCccc--c
Q 030208 70 DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVV-IGSRGRGLIQ--S 146 (181)
Q Consensus 70 a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV-~g~~~~~~~~--~ 146 (181)
..+.+.-|..........-..+..++.+.+.-.+..++.+++.--+=.....+.++.++...|.++ +|.--++... .
T Consensus 16 ~~lR~~IvhARwN~vvi~~LvkGAiEtm~~~~V~eenI~ie~VPGS~Elp~g~~~~~~r~~~daVi~IGvlIkGsTmHfe 95 (158)
T KOG3243|consen 16 EGLRFAIVHARWNEVVIKLLVKGAIETMKKYSVREENIEIEWVPGSFELPVGAQNLGKRGKFDAVICIGVLIKGSTMHFE 95 (158)
T ss_pred CCeEEEEEeehhHHHHHHHHHHHHHHHHHHhCcchhceeEEEcCCceeccHHHHhhhhccCceEEEEEEEEEecCchhHH
Confidence 344444443343333333444555555554444445566555322225667788888888888776 3443232222 2
Q ss_pred cccCchhhHHHh---cCCCccEEE
Q 030208 147 VLQGSVGEYCLH---HCKTAPIIV 167 (181)
Q Consensus 147 ~~~gs~~~~ll~---~~~~~pVlv 167 (181)
....|++..+++ ++. +||++
T Consensus 96 yis~s~~hglm~~~~~sg-vPvIf 118 (158)
T KOG3243|consen 96 YISNSAAHGLMSASINSG-VPVIF 118 (158)
T ss_pred HHHHHHHHHHhhhcccCC-CCEEE
Confidence 445666666666 445 77764
No 207
>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=44.14 E-value=43 Score=25.65 Aligned_cols=52 Identities=17% Similarity=0.255 Sum_probs=32.6
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
...+.+++.+.+.+.|.|++|-+. .+.-+..+...+-+... .||++.|....
T Consensus 19 ~~~~~~~~~~~~~gtDai~VGGS~----~~~~~d~vv~~ik~~~~-lPvilfPg~~~ 70 (230)
T PF01884_consen 19 PNPEEALEAACESGTDAIIVGGSD----TGVTLDNVVALIKRVTD-LPVILFPGSPS 70 (230)
T ss_dssp S-HHHHHHHHHCTT-SEEEEE-ST----HCHHHHHHHHHHHHHSS-S-EEEETSTCC
T ss_pred CCcHHHHHHHHhcCCCEEEECCCC----CccchHHHHHHHHhcCC-CCEEEeCCChh
Confidence 445667777778899999999776 12223344455555577 99999987654
No 208
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=44.06 E-value=76 Score=25.66 Aligned_cols=58 Identities=10% Similarity=0.058 Sum_probs=38.4
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc----cccCchhhHHHhcC--CCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS----VLQGSVGEYCLHHC--KTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~----~~~gs~~~~ll~~~--~~~pVlvv~ 169 (181)
+.+..-...+++++.|++.++.+|+..+.+.....+ ..+.........++ . +||.+-=
T Consensus 29 fN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~g~~~~~~~~~~~~~~a~~a~~~-VPV~lHL 92 (321)
T PRK07084 29 YNFNNMEQLQAIIQACVETKSPVILQVSKGARKYANATLLRYMAQGAVEYAKELGCP-IPIVLHL 92 (321)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEEechhHHhhCCchHHHHHHHHHHHHHHHcCCC-CcEEEEC
Confidence 344455889999999999999999998876432222 11233334556665 6 8887753
No 209
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=43.50 E-value=47 Score=25.62 Aligned_cols=20 Identities=35% Similarity=0.605 Sum_probs=13.5
Q ss_pred HHHhcCCCccEEEEcCCCCCC
Q 030208 155 YCLHHCKTAPIIVVPGKGTSP 175 (181)
Q Consensus 155 ~ll~~~~~~pVlvv~~~~~~~ 175 (181)
+.|.... ||+++||...+.|
T Consensus 83 ~~L~~~~-~p~~~vPG~~Dap 102 (255)
T PF14582_consen 83 RILGELG-VPVFVVPGNMDAP 102 (255)
T ss_dssp HHHHCC--SEEEEE--TTS-S
T ss_pred HHHHhcC-CcEEEecCCCCch
Confidence 6788899 9999999877654
No 210
>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=43.48 E-value=41 Score=28.09 Aligned_cols=26 Identities=19% Similarity=0.248 Sum_probs=15.5
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCC
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
|+-.+.+++.+++.+..++.+.+.+-
T Consensus 102 GdDi~~v~~~~~~~~~~vi~v~t~gf 127 (427)
T cd01971 102 GDDVGAVVSEFQEGGAPIVYLETGGF 127 (427)
T ss_pred hcCHHHHHHHhhhcCCCEEEEECCCc
Confidence 54445555555666677777766553
No 211
>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=43.48 E-value=1.7e+02 Score=23.39 Aligned_cols=65 Identities=14% Similarity=0.073 Sum_probs=38.5
Q ss_pred hcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 104 VAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 104 ~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
+.|++++. ...+....+ .+..++|++++|+..-..-.+ .-.|+..-.++.+..++||+++-+.+.
T Consensus 176 ~~gI~vtl--I~Dsa~~~~---m~~~~vd~VlvGAd~v~~nG~v~nk~GT~~lA~~Ak~~~vPv~V~a~s~K 242 (303)
T TIGR00524 176 QDGIDVTL--ITDSMAAYF---MQKGEIDAVIVGADRIARNGDVANKIGTYQLAVLAKEFRIPFFVAAPLST 242 (303)
T ss_pred HCCCCEEE--EChhHHHHH---ccccCCCEEEEcccEEecCCCEeEhhhHHHHHHHHHHhCCCEEEeccccc
Confidence 44677654 333333333 344569999999986322111 125777777775555599999955443
No 212
>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=43.41 E-value=1.4e+02 Score=22.41 Aligned_cols=54 Identities=17% Similarity=0.094 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHh-CCCEEEEeccCCCc-ccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 118 AAKVICKEAERL-KPAAVVIGSRGRGL-IQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 118 ~~~~I~~~a~~~-~~dliV~g~~~~~~-~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
..+.|++..+.. ..|.|++-..--.. -.-++-+-+.+.+.+... +||.+++..+
T Consensus 148 Tg~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~el~~~lg-~~v~vv~~~~ 203 (204)
T PF04459_consen 148 TGQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLEELEERLG-VPVIVVRGPG 203 (204)
T ss_pred cHHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHHHHHHHhC-CcEEEeCCCC
Confidence 345555555443 33888887765333 334556888889999999 9999998764
No 213
>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=43.37 E-value=1.6e+02 Score=23.07 Aligned_cols=115 Identities=12% Similarity=-0.039 Sum_probs=56.6
Q ss_pred hHHHHHHHHHHhccC-CCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhC
Q 030208 54 SKHAFDWALIHLCRL-ADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLK 130 (181)
Q Consensus 54 s~~a~~~a~~la~~~-~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~ 130 (181)
...+++.-++..... |..=.++.-..........++..+.++...+.... .+.+-.-+-..+. .-++.++|++.+
T Consensus 19 D~~~~~~~i~~l~~~~Gv~gi~~~GstGE~~~Lt~~Er~~~~~~~~~~~~~--~~~viagv~~~~~~~ai~~a~~a~~~G 96 (288)
T cd00954 19 NEDVLRAIVDYLIEKQGVDGLYVNGSTGEGFLLSVEERKQIAEIVAEAAKG--KVTLIAHVGSLNLKESQELAKHAEELG 96 (288)
T ss_pred CHHHHHHHHHHHHhcCCCCEEEECcCCcCcccCCHHHHHHHHHHHHHHhCC--CCeEEeccCCCCHHHHHHHHHHHHHcC
Confidence 334444444444444 54333333322222333445555555554433222 2333222212233 344556789999
Q ss_pred CCEEEEeccCCCcccccccCchhhHHHhcC-CCccEEEEcCC
Q 030208 131 PAAVVIGSRGRGLIQSVLQGSVGEYCLHHC-KTAPIIVVPGK 171 (181)
Q Consensus 131 ~dliV~g~~~~~~~~~~~~gs~~~~ll~~~-~~~pVlvv~~~ 171 (181)
+|.+++..........--+-..-+.|+..+ . .||++...+
T Consensus 97 ad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~-lpi~iYn~P 137 (288)
T cd00954 97 YDAISAITPFYYKFSFEEIKDYYREIIAAAAS-LPMIIYHIP 137 (288)
T ss_pred CCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCC-CCEEEEeCc
Confidence 999998765432221111122335677788 7 999998543
No 214
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=43.07 E-value=1.7e+02 Score=23.24 Aligned_cols=82 Identities=12% Similarity=-0.032 Sum_probs=50.1
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec----C
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----G 116 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----g 116 (181)
..+|.|-++++.+...++-.+.+-- ..++++.+|-...+ + . .+..+..++++...-.. .
T Consensus 93 ~~kiavl~Sg~g~nl~al~~~~~~~-~l~~~i~~visn~~-------~-~--------~~~A~~~gIp~~~~~~~~~~~~ 155 (289)
T PRK13010 93 RPKVVIMVSKFDHCLNDLLYRWRMG-ELDMDIVGIISNHP-------D-L--------QPLAVQHDIPFHHLPVTPDTKA 155 (289)
T ss_pred CeEEEEEEeCCCccHHHHHHHHHCC-CCCcEEEEEEECCh-------h-H--------HHHHHHcCCCEEEeCCCccccc
Confidence 3689999999887777777764433 23455544443221 1 0 12233445666532111 1
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.....+++..++.++|++|+..+
T Consensus 156 ~~~~~~~~~l~~~~~Dlivlagy 178 (289)
T PRK13010 156 QQEAQILDLIETSGAELVVLARY 178 (289)
T ss_pred chHHHHHHHHHHhCCCEEEEehh
Confidence 23567899999999999999976
No 215
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=42.84 E-value=1.1e+02 Score=24.93 Aligned_cols=29 Identities=10% Similarity=0.132 Sum_probs=23.1
Q ss_pred ChhhHHHHHHHHHHhccCC-CEEEEEEEec
Q 030208 51 GPNSKHAFDWALIHLCRLA-DTIHLVHAVS 79 (181)
Q Consensus 51 s~~s~~a~~~a~~la~~~~-a~l~llhV~~ 79 (181)
...+++.+++|.++|+..+ .+++++|=.+
T Consensus 146 r~~~eRi~r~Af~~A~~r~~~~Vt~v~KaN 175 (334)
T PRK08997 146 RKGAERIVRFAYELARKEGRKKVTAVHKAN 175 (334)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEeCCC
Confidence 3779999999999998875 4688887533
No 216
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=42.66 E-value=1.6e+02 Score=22.95 Aligned_cols=112 Identities=13% Similarity=0.012 Sum_probs=55.0
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCC--chhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHh
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSV--QNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERL 129 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~ 129 (181)
...+++.-++.....|.. -+.+.-.. ......++..+.++...+.. . .++.+-.-+...+. .-++.+.+++.
T Consensus 20 d~~~~~~~i~~l~~~Gv~--gl~~~GstGE~~~Lt~~Er~~l~~~~~~~~-~-~~~~vi~gv~~~st~~~i~~a~~a~~~ 95 (289)
T PF00701_consen 20 DEDALKRLIDFLIEAGVD--GLVVLGSTGEFYSLTDEERKELLEIVVEAA-A-GRVPVIAGVGANSTEEAIELARHAQDA 95 (289)
T ss_dssp -HHHHHHHHHHHHHTTSS--EEEESSTTTTGGGS-HHHHHHHHHHHHHHH-T-TSSEEEEEEESSSHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHcCCC--EEEECCCCcccccCCHHHHHHHHHHHHHHc-c-CceEEEecCcchhHHHHHHHHHHHhhc
Confidence 445555555554444432 33333222 22333455555555444332 2 23444433322233 44556678899
Q ss_pred CCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 130 KPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 130 ~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
++|.+++..........--+-..-+.|+..+. .|+++...
T Consensus 96 Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~~~-~pi~iYn~ 135 (289)
T PF00701_consen 96 GADAVLVIPPYYFKPSQEELIDYFRAIADATD-LPIIIYNN 135 (289)
T ss_dssp T-SEEEEEESTSSSCCHHHHHHHHHHHHHHSS-SEEEEEEB
T ss_pred CceEEEEeccccccchhhHHHHHHHHHHhhcC-CCEEEEEC
Confidence 99988877653322221111233367888888 99998743
No 217
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=42.46 E-value=62 Score=22.79 Aligned_cols=53 Identities=13% Similarity=0.113 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCc----ccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGL----IQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~----~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
..+.|.+.+++++++.||+|-.-.-. ...-..-..++.|-.+.. +||.++-.+
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~~L~~r~~-lpv~l~DER 97 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAERLKKRFN-LPVVLWDER 97 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHHHHHHhcC-CCEEEEcCc
Confidence 67889999999999999999864211 111123345566777787 999887544
No 218
>PF09936 Methyltrn_RNA_4: SAM-dependent RNA methyltransferase; InterPro: IPR019230 This entry contains proteins that have no known function. They are found as separate proteins and as a C-terminal domain to tRNA (guanine-N(1)-)-methyltransferases to which they are structurally related. ; PDB: 3DCM_X.
Probab=42.45 E-value=1.4e+02 Score=22.10 Aligned_cols=99 Identities=11% Similarity=0.097 Sum_probs=48.9
Q ss_pred HHhccCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCc--------eEEEEEecCChHHHHHHHHHHhCCCE
Q 030208 63 IHLCRLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMV--------RTKARIVEGDAAKVICKEAERLKPAA 133 (181)
Q Consensus 63 ~la~~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i--------~~~~~~~~g~~~~~I~~~a~~~~~dl 133 (181)
+.++.+| ...+++|-++ .+++..+++.....+..|- ..+......+..+.+.+..+..+-.-
T Consensus 35 R~~rTYgv~~yyiVtPl~---------~Q~~l~~ril~hW~~G~G~~yNp~R~eAl~~v~~~~sle~a~~~I~~~~G~~P 105 (185)
T PF09936_consen 35 RSARTYGVKGYYIVTPLE---------AQRELAERILGHWQEGYGAEYNPDRKEALSLVRVVDSLEEAIEDIEEEEGKRP 105 (185)
T ss_dssp HHHHHTT-SEEEEE---H---------HHHHHHHHHHHHHHTSGGGGT-SSSHHHHTTEEEESSHHHHHHHHHHHHSS--
T ss_pred hhhhccCCcCEEEecchH---------HHHHHHHHHHHhcccCCCcCcCcCHHHHHhHhccHhhHHHHHHHHHHHhCCCC
Confidence 5556677 4777777655 2333444444333322211 11222345788888999999999999
Q ss_pred EEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 134 VVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 134 iV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
+++++..+......-+... ++.+.... .|+|++=..+
T Consensus 106 ~~v~TsAr~~~~~is~~~l-r~~l~~~~-~P~LllFGTG 142 (185)
T PF09936_consen 106 LLVATSARKYPNTISYAEL-RRMLEEED-RPVLLLFGTG 142 (185)
T ss_dssp EEEE--SS--SS-B-HHHH-HHHHHH---S-EEEEE--T
T ss_pred EEEEecCcCCCCCcCHHHH-HHHHhccC-CeEEEEecCC
Confidence 9999887754444434444 34556666 8999885443
No 219
>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=42.39 E-value=19 Score=23.09 Aligned_cols=65 Identities=9% Similarity=-0.031 Sum_probs=36.0
Q ss_pred HHhhhcCceEEEE-EecCCh--HH---HHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 100 EAMDVAMVRTKAR-IVEGDA--AK---VICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 100 ~~~~~~~i~~~~~-~~~g~~--~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
+.+++.++.+... -..+.. .. .+.+..++.++||||.-....+.... --|...++.+-... +|.+
T Consensus 24 ~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~~~~-~dg~~irr~a~~~~-Ip~~ 94 (95)
T PF02142_consen 24 KFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSDQEH-TDGYKIRRAAVEYN-IPLF 94 (95)
T ss_dssp HHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHHHHT-HHHHHHHHHHHHTT-SHEE
T ss_pred HHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCccccc-CCcHHHHHHHHHcC-CCCc
Confidence 4445556763322 223333 22 49999999999999998775443322 13555566666666 6654
No 220
>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=42.24 E-value=1.2e+02 Score=22.85 Aligned_cols=69 Identities=12% Similarity=-0.012 Sum_probs=43.6
Q ss_pred HHHHHHhhhcCceEEEEEecC--ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 96 KLAIEAMDVAMVRTKARIVEG--DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 96 ~~~~~~~~~~~i~~~~~~~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.+....++..|.++. .-| -+.+.+++.+.+.++|+|.++..-...... +..+.+.+-....+++|++=-
T Consensus 106 ~iv~~~l~~~G~~Vi---~LG~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~--~~~~i~~L~~~~~~~~i~vGG 176 (213)
T cd02069 106 NLVGVILSNNGYEVI---DLGVMVPIEKILEAAKEHKADIIGLSGLLVPSLDE--MVEVAEEMNRRGIKIPLLIGG 176 (213)
T ss_pred HHHHHHHHhCCCEEE---ECCCCCCHHHHHHHHHHcCCCEEEEccchhccHHH--HHHHHHHHHhcCCCCeEEEEC
Confidence 345556666666653 334 679999999999999999998765444332 244445554443325555543
No 221
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=41.49 E-value=95 Score=26.02 Aligned_cols=54 Identities=20% Similarity=0.283 Sum_probs=31.1
Q ss_pred ecC-ChHHHHHHHHHHhC---CCEEEEeccCCCcccccccCc-hhhHHHhcCCCccEEEE
Q 030208 114 VEG-DAAKVICKEAERLK---PAAVVIGSRGRGLIQSVLQGS-VGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 114 ~~g-~~~~~I~~~a~~~~---~dliV~g~~~~~~~~~~~~gs-~~~~ll~~~~~~pVlvv 168 (181)
+.| .....|++..+..+ +|+||++.-|-+...-..|+. ..-+-+..++ +||+.=
T Consensus 172 vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS~eDL~~Fn~e~v~~ai~~~~-~Pvis~ 230 (438)
T PRK00286 172 VQGEGAAASIVAAIERANARGEDVLIVARGGGSLEDLWAFNDEAVARAIAASR-IPVISA 230 (438)
T ss_pred CcCccHHHHHHHHHHHhcCCCCCEEEEecCCCCHHHhhccCcHHHHHHHHcCC-CCEEEe
Confidence 456 57777777654443 599999966544322112232 2234556777 887654
No 222
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=41.19 E-value=1.7e+02 Score=22.79 Aligned_cols=63 Identities=10% Similarity=-0.041 Sum_probs=37.3
Q ss_pred hcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 104 VAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 104 ~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
..|++++. ...+..-. +.++ +|.+++|++.-..-.+ .-.|+..-.++.+..++||+|+-..+.
T Consensus 132 ~~GI~vtl--i~Dsa~~~---~m~~--vd~VlvGAd~V~~nG~v~nkvGT~~~Al~A~~~~vPv~V~~~s~K 196 (253)
T PRK06372 132 KSGIDVVL--LTDASMCE---AVLN--VDAVIVGSDSVLYDGGLIHKNGTFPLALCARYLKKPFYSLTISMK 196 (253)
T ss_pred HCCCCEEE--EehhHHHH---HHHh--CCEEEECccEEecCCCEeehhhHHHHHHHHHHcCCCEEEEeeccc
Confidence 34677753 23333222 2344 9999999986322111 225777777775555599999865443
No 223
>PF01507 PAPS_reduct: Phosphoadenosine phosphosulfate reductase family; InterPro: IPR002500 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 []. 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 (Sinorhizobium meliloti) which has ATP sulphurylase activity (sulphate adenylate transferase) [].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2GOY_C 3G5A_C 3G6K_D 3G59_A 3FWK_A 2WSI_A 2OQ2_B 1SUR_A 2O8V_A 1ZUN_A.
Probab=41.18 E-value=1.2e+02 Score=21.12 Aligned_cols=33 Identities=15% Similarity=0.177 Sum_probs=23.7
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
+|+|.+++.+.|..++..+.+..... .++|+..
T Consensus 1 ~i~vs~SGGKDS~v~l~l~~~~~~~~----~vv~~dt 33 (174)
T PF01507_consen 1 NIVVSFSGGKDSTVMLHLAREAGRKV----PVVFIDT 33 (174)
T ss_dssp SEEEE--SSHHHHHHHHHHHHHHTTC----EEEEEE-
T ss_pred CeEEEecCCHHHHHHHHHHHHhcCCC----cEEEEec
Confidence 57899999999999998888777653 5777744
No 224
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=41.01 E-value=2.3e+02 Score=24.14 Aligned_cols=85 Identities=9% Similarity=0.046 Sum_probs=49.4
Q ss_pred cCChhhHHHHHHHHHHhccCCCEEEEEEEecCCch---hhHH---HHHHHHHHHHHHHHhhhcCceEEEEEec----CCh
Q 030208 49 DHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQN---QIVY---DMSQGLMEKLAIEAMDVAMVRTKARIVE----GDA 118 (181)
Q Consensus 49 d~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~---~~~~---~~~~~~l~~~~~~~~~~~~i~~~~~~~~----g~~ 118 (181)
|..-..-.++..|++.+ +..+..|.|.++... .... .-.-+.+.++.+ .+...|+.. .+.. |++
T Consensus 11 DLRl~DN~aL~~A~~~~---~~~vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~-~L~~~g~~L--~v~~g~~~g~~ 84 (472)
T PRK10674 11 DLRLHDNLALAAACRDP---SARVLALFIATPAQWAAHDMAPRQAAFINAQLNALQI-ALAEKGIPL--LFHEVDDFAAS 84 (472)
T ss_pred CCCcchHHHHHHHHhCC---CCCEEEEEEECchhhccCCCCHHHHHHHHHHHHHHHH-HHHHcCCce--EEEecCCcCCH
Confidence 44444556666665432 236999999886311 1111 223334444332 333334444 4443 579
Q ss_pred HHHHHHHHHHhCCCEEEEecc
Q 030208 119 AKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~ 139 (181)
.+.|.+++++.+++-|+.-..
T Consensus 85 ~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 85 VEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 999999999999999888754
No 225
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=40.93 E-value=1.3e+02 Score=24.29 Aligned_cols=93 Identities=14% Similarity=0.118 Sum_probs=61.2
Q ss_pred EEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHH
Q 030208 47 AVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEA 126 (181)
Q Consensus 47 ~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a 126 (181)
+-..+..+..+++.|++..+..|-++.+-..+....... ....+++++++ .+++.+.+++.-+-++.|.-...|+.+.
T Consensus 17 aPSs~~~~~~~~~~a~~~L~~~G~~v~~~~~i~~~~~~~-a~s~~~R~~dL-~~af~d~~vk~Il~~rGGygs~rlLp~l 94 (313)
T COG1619 17 APSSGATATDALKRAIQRLENLGFEVVFGEHILRRDQYF-AGSDEERAEDL-MSAFSDPDVKAILCVRGGYGSNRLLPYL 94 (313)
T ss_pred ecCcccchHHHHHHHHHHHHHcCCEEEechhhhhccccc-cCCHHHHHHHH-HHHhcCCCCeEEEEcccCCChhhhhhhc
Confidence 333334478999999999999998887776655443211 22235555553 3555566788877777788888888776
Q ss_pred HH---hCCCEEEEeccCC
Q 030208 127 ER---LKPAAVVIGSRGR 141 (181)
Q Consensus 127 ~~---~~~dliV~g~~~~ 141 (181)
.. .+..-+++|.+.-
T Consensus 95 d~~~i~~~pKifiGySDi 112 (313)
T COG1619 95 DYDLIRNHPKIFIGYSDI 112 (313)
T ss_pred chHHHhcCCceEEEecHH
Confidence 53 3567888886643
No 226
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=40.84 E-value=87 Score=25.36 Aligned_cols=56 Identities=21% Similarity=0.231 Sum_probs=41.0
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEcCCCCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGTSPS 176 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~~~~ 176 (181)
.+..+.++..++ +|+||+|-... |-+..++++.+.+.|.+ +. .|++.+.+-...+.
T Consensus 178 ~a~~eaveAI~~--AD~IviGPgSl~TSIlP~Lllp~I~eaLr~-~~-ap~i~v~n~~~~~g 235 (323)
T COG0391 178 SAAPEAVEAIKE--ADLIVIGPGSLFTSILPILLLPGIAEALRE-TV-APIVYVCNLMTQAG 235 (323)
T ss_pred CCCHHHHHHHHh--CCEEEEcCCccHhhhchhhchhHHHHHHHh-CC-CCEEEeccCCCCCC
Confidence 567888899998 99999997652 33455677888776665 77 89999876555443
No 227
>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=40.83 E-value=1.9e+02 Score=23.10 Aligned_cols=108 Identities=9% Similarity=0.050 Sum_probs=56.8
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVIC 123 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~ 123 (181)
+++....|......+..|. ..+.++.++ |.+...... .... .+.+.+.|++++.. ..+....++
T Consensus 118 ~ILT~~~S~tv~~~l~~a~----~~~~~f~V~-v~EsrP~~~----G~~~-----a~~L~~~gI~vtlI--~Dsa~~~~m 181 (301)
T TIGR00511 118 VVMTHCNSEAALSVIKTAF----EQGKDIEVI-ATETRPRKQ----GHIT-----AKELRDYGIPVTLI--VDSAVRYFM 181 (301)
T ss_pred EEEEECCcHHHHHHHHHHH----HcCCcEEEE-EecCCCcch----HHHH-----HHHHHHCCCCEEEE--ehhHHHHHH
Confidence 4445666644444444443 335566665 545433221 1111 22233446777643 333333333
Q ss_pred HHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCC
Q 030208 124 KEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
++ +|.+++|+..-..-.+ .-.|+..-.++.+..++||+|+-+.+
T Consensus 182 ---~~--vd~VivGad~v~~nG~v~nkiGT~~lA~~Ak~~~vPv~V~a~~~ 227 (301)
T TIGR00511 182 ---KE--VDHVVVGADAITANGALINKIGTSQLALAAREARVPFMVAAETY 227 (301)
T ss_pred ---Hh--CCEEEECccEEecCCCEEEHHhHHHHHHHHHHhCCCEEEEcccc
Confidence 44 9999999986322111 22577766666555559999985443
No 228
>TIGR00930 2a30 K-Cl cotransporter.
Probab=40.76 E-value=3.2e+02 Score=25.78 Aligned_cols=124 Identities=11% Similarity=0.057 Sum_probs=72.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-ChHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-DAAK 120 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~~~~ 120 (181)
-+|||.+........+++++..+.+. ..-..+.||...+.... .++.....++ ....++..+++.-..+... +..+
T Consensus 576 PqiLvl~~~p~~~~~Ll~f~~~l~~~-~gl~i~~~v~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~f~~~~~~~~~~~ 652 (953)
T TIGR00930 576 PQCLVLTGPPVCRPALLDFASQFTKG-KGLMICGSVIQGPRLEC-VKEAQAAEAK-IQTWLEKNKVKAFYAVVVADDLRE 652 (953)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHhccC-CcEEEEEEEecCchhhh-HHHHHHHHHH-HHHHHHHhCCCeEEEEecCCCHHH
Confidence 56899998888888999999988844 45677788876532211 1112212222 2233344456555445444 7888
Q ss_pred HHHHHHHHhC-----CCEEEEeccCC---Ccc--cccccCchhhHHHhcCCCccEEEEcCC
Q 030208 121 VICKEAERLK-----PAAVVIGSRGR---GLI--QSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 121 ~I~~~a~~~~-----~dliV~g~~~~---~~~--~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
++-...+..+ ...|+||-... ... ..-+++-+ +-+.... .-|+|.+..
T Consensus 653 g~~~l~q~~GlG~l~PNtv~lg~~~~w~~~~~~~~~~y~~~i--~~a~~~~-~~v~i~r~~ 710 (953)
T TIGR00930 653 GVRHLIQASGLGRMKPNTLVMGYKKDWRQAEPRAWETYIGII--HDAFDAH-LAVVVVRNS 710 (953)
T ss_pred HHHHHHHhcCCCCCCCCEEEecCccchhhccchhHHHHHHHH--HHHHHcC-CcEEEEccc
Confidence 8888877654 67899997642 110 01122222 2223555 778888753
No 229
>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=40.06 E-value=75 Score=25.54 Aligned_cols=53 Identities=19% Similarity=0.252 Sum_probs=38.7
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.+..+.++..++ +|+||+|-..- |-+..+++..+.+.| ++++ +|++.|.+--.
T Consensus 161 ~a~~~al~AI~~--ADlIvlgPGSlyTSIiPnLlv~gI~eAI-~~s~-a~kV~v~N~~t 215 (310)
T TIGR01826 161 PALREAVEAIRE--ADLIILGPGSLYTSIIPNLLVPEIAEAL-RESK-APKVYVCNLMT 215 (310)
T ss_pred CCCHHHHHHHHh--CCEEEECCCcCHHHhchhcCchhHHHHH-HhCC-CCEEEEeCCCC
Confidence 567889999998 99999996542 334456666676655 6678 99999977644
No 230
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=39.99 E-value=2.3e+02 Score=23.86 Aligned_cols=24 Identities=25% Similarity=0.393 Sum_probs=13.3
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
.....+++.+++.+.+...+|+.+
T Consensus 243 ~~~~~ll~~a~~~g~~~~wigs~~ 266 (458)
T cd06375 243 EDARELLAAAKRLNASFTWVASDG 266 (458)
T ss_pred HHHHHHHHHHHHcCCcEEEEEecc
Confidence 344455556666666655665543
No 231
>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=39.93 E-value=60 Score=25.90 Aligned_cols=51 Identities=20% Similarity=0.266 Sum_probs=31.4
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC-Cc-ccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR-GL-IQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~-~~-~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
.+....++..++ +|+||+|-... +. ...+.+..+ .+.++.++ +|++.|.+-
T Consensus 172 ~~~p~~l~AI~~--AD~IiigPgs~~TSI~P~L~v~gi-~~Ai~~s~-a~kV~V~ni 224 (300)
T PF01933_consen 172 KANPEALEAIEE--ADLIIIGPGSLYTSIIPNLLVPGI-REAIRESK-APKVYVSNI 224 (300)
T ss_dssp -B-HHHHHHHHH---SEEEE-SS-CCCCCHHHHTSHHH-HHHHHHSS-SEEEEE-SS
T ss_pred CCCHHHHHHHHh--CCEEEEcCCCchhhhcccccchhH-HHHHHhCC-CCEEEEcCC
Confidence 567889999999 99999996642 22 223344444 55677777 999988653
No 232
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=39.87 E-value=1.1e+02 Score=24.66 Aligned_cols=59 Identities=8% Similarity=0.033 Sum_probs=41.1
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+.+..-....++++.|++.++.+|+..+.+.-...+ -++......++.++..+||.+-=
T Consensus 22 fN~~n~e~~~avi~AAe~~~sPvIlq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValHL 81 (307)
T PRK05835 22 FNFVNFEMLNAIFEAGNEENSPLFIQASEGAIKYMGIDMAVGMVKIMCERYPHIPVALHL 81 (307)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhCChHHHHHHHHHHHHhcCCCeEEEEC
Confidence 344445889999999999999999998776533222 23445667777777328888753
No 233
>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=39.80 E-value=2.2e+02 Score=24.01 Aligned_cols=55 Identities=22% Similarity=0.294 Sum_probs=29.9
Q ss_pred EecC-ChHHHHHHHHH----HhCCCEEEEeccCCCcccccccCc-hhhHHHhcCCCccEEEE
Q 030208 113 IVEG-DAAKVICKEAE----RLKPAAVVIGSRGRGLIQSVLQGS-VGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 113 ~~~g-~~~~~I~~~a~----~~~~dliV~g~~~~~~~~~~~~gs-~~~~ll~~~~~~pVlvv 168 (181)
.+.| .....|++..+ ..++|+||++.-|-+...-..|+. ..-+-+..++ +||+.=
T Consensus 165 ~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~eDL~~Fn~e~~~rai~~~~-~Pvis~ 225 (432)
T TIGR00237 165 LVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSLEDLWSFNDEKVARAIFLSK-IPIISA 225 (432)
T ss_pred cccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCHHHhhhcCcHHHHHHHHcCC-CCEEEe
Confidence 3456 56666666543 234799999965544322122232 2224456677 777654
No 234
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=39.77 E-value=54 Score=27.89 Aligned_cols=13 Identities=23% Similarity=0.309 Sum_probs=7.3
Q ss_pred HhCCCEEEEeccC
Q 030208 128 RLKPAAVVIGSRG 140 (181)
Q Consensus 128 ~~~~dliV~g~~~ 140 (181)
+.++..|.+-+.|
T Consensus 126 ~~gipVV~v~~~G 138 (457)
T CHL00073 126 EIGIPIVVARANG 138 (457)
T ss_pred hhCCCEEEEeCCC
Confidence 4456666665544
No 235
>PLN00096 isocitrate dehydrogenase (NADP+); Provisional
Probab=39.49 E-value=2.3e+02 Score=23.71 Aligned_cols=36 Identities=8% Similarity=-0.109 Sum_probs=28.5
Q ss_pred eEEE-EEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 43 DILI-AVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 43 ~Ilv-~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.|+. -.+..+++++.+++|.++|...+.+|+++|=.
T Consensus 166 gv~~~~~N~~~si~RiAr~AF~~A~~r~~~Vt~v~Ka 202 (393)
T PLN00096 166 NAVVTYHNPLDNVHHLARIFFGRCLDAGIVPYVVTKK 202 (393)
T ss_pred eEEEEeccCHHHHHHHHHHHHHHHHHhCCcEEEEeCc
Confidence 4544 45666889999999999998888888888843
No 236
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=39.38 E-value=2.5e+02 Score=24.09 Aligned_cols=67 Identities=21% Similarity=0.196 Sum_probs=37.1
Q ss_pred HHHHhhhcCceEEEEEecC-ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhc------CCCccEEEEcC
Q 030208 98 AIEAMDVAMVRTKARIVEG-DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHH------CKTAPIIVVPG 170 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~------~~~~pVlvv~~ 170 (181)
.+..++..+++++...... .-...+.+.+...++|.||+. -|.+.+.+ +...++.+ .. +|+-++|.
T Consensus 135 v~~~L~~~gi~~~v~~T~~~ghA~~la~~~~~~~~D~VV~v-GGDGTlnE-----VvNGL~~~~~~~~~~~-~pLGiIPa 207 (481)
T PLN02958 135 VKPLLEDADIQLTIQETKYQLHAKEVVRTMDLSKYDGIVCV-SGDGILVE-----VVNGLLEREDWKTAIK-LPIGMVPA 207 (481)
T ss_pred HHHHHHHcCCeEEEEeccCccHHHHHHHHhhhcCCCEEEEE-cCCCHHHH-----HHHHHhhCcccccccc-CceEEecC
Confidence 3344555667766555443 344556665555678877664 33443333 33444432 25 88999885
Q ss_pred C
Q 030208 171 K 171 (181)
Q Consensus 171 ~ 171 (181)
.
T Consensus 208 G 208 (481)
T PLN02958 208 G 208 (481)
T ss_pred c
Confidence 3
No 237
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=39.34 E-value=1.1e+02 Score=24.19 Aligned_cols=59 Identities=12% Similarity=0.111 Sum_probs=41.1
Q ss_pred EEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cc-cccCchhhHHHhcCC-CccEEEE
Q 030208 110 KARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QS-VLQGSVGEYCLHHCK-TAPIIVV 168 (181)
Q Consensus 110 ~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~-~~~gs~~~~ll~~~~-~~pVlvv 168 (181)
.+.+..-....++++.|++.++.+|+.-+.+.-.. .+ ..+......++.+.. ++||.+-
T Consensus 22 AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~vPV~lH 83 (286)
T PRK08610 22 QYNLNNLEFTQAILEASQEENAPVILGVSEGAARYMSGFYTVVKMVEGLMHDLNITIPVAIH 83 (286)
T ss_pred EEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCCEEEE
Confidence 34455558899999999999999999888765433 21 235667777777765 1577665
No 238
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=39.34 E-value=2e+02 Score=23.02 Aligned_cols=108 Identities=10% Similarity=0.060 Sum_probs=56.9
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVIC 123 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~ 123 (181)
+++....|......+..|. ..+.++.++ |.+...... .... .+.+.+.|++++.. ..+....++
T Consensus 123 ~ILT~~~S~tv~~~l~~A~----~~~k~~~V~-v~EsrP~~~----G~~~-----a~~L~~~GI~vtlI--~Dsav~~~m 186 (310)
T PRK08535 123 VIMTHCNSSAALSVIKTAH----EQGKDIEVI-ATETRPRNQ----GHIT-----AKELAEYGIPVTLI--VDSAVRYFM 186 (310)
T ss_pred EEEEeCCcHHHHHHHHHHH----HCCCeEEEE-EecCCchhh----HHHH-----HHHHHHCCCCEEEE--ehhHHHHHH
Confidence 4445666655555554443 335566655 445432211 1111 22233446777643 344443333
Q ss_pred HHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCC
Q 030208 124 KEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
++ +|.+++|+..-..-.+ .-.|+..-.++.+..++||+|+-+.+
T Consensus 187 ---~~--vd~VivGAd~v~~nG~v~nkiGT~~~A~~Ak~~~vPv~V~a~~~ 232 (310)
T PRK08535 187 ---KD--VDKVVVGADAITANGAVINKIGTSQIALAAHEARVPFMVAAETY 232 (310)
T ss_pred ---Hh--CCEEEECccEEecCCCEEeHHhHHHHHHHHHHhCCCEEEecccc
Confidence 44 9999999986322111 23577766666555559999985433
No 239
>KOG0910 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=39.22 E-value=20 Score=25.48 Aligned_cols=23 Identities=22% Similarity=0.443 Sum_probs=18.3
Q ss_pred hHHHhcCCCccEEEEcCCCCCCCCCCC
Q 030208 154 EYCLHHCKTAPIIVVPGKGTSPSCIPC 180 (181)
Q Consensus 154 ~~ll~~~~~~pVlvv~~~~~~~~~~~~ 180 (181)
+..+-++. .||+|. ++.+||.||
T Consensus 54 ~~~Vi~S~-~PVlVd---F~A~WCgPC 76 (150)
T KOG0910|consen 54 DDKVINSD-VPVLVD---FHAEWCGPC 76 (150)
T ss_pred HHHHHccC-CCEEEE---EecCcCccH
Confidence 45666777 899995 668999998
No 240
>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=39.11 E-value=1.2e+02 Score=23.96 Aligned_cols=59 Identities=10% Similarity=0.058 Sum_probs=38.2
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
+.+..-...+++++.|++.++.+|+.-+.+.-.... ..+......++.+..++||.+--
T Consensus 21 fn~~n~e~~~avi~aAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~~a~~~~~vpv~lhl 81 (282)
T TIGR01859 21 FNFNNLEWTQAILEAAEEENSPVIIQVSEGAIKYMGGYKMAVAMVKTLIERMSIVPVALHL 81 (282)
T ss_pred EEECCHHHHHHHHHHHHHhCCCEEEEcCcchhhccCcHHHHHHHHHHHHHHCCCCeEEEEC
Confidence 344445788999999999999999887765433211 12455566667776426766553
No 241
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=38.96 E-value=45 Score=27.20 Aligned_cols=50 Identities=24% Similarity=0.282 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEE
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv 168 (181)
..+.|++++++.++|++|.|--=..+--+.--|.++..+-..+. +|++.-
T Consensus 68 a~~~i~~mv~~~~pD~viaGPaFnagrYG~acg~v~~aV~e~~~-IP~vta 117 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPAFNAGRYGVACGEVAKAVQEKLG-IPVVTA 117 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCCcCCchHHHHHHHHHHHHHHhhC-CCEEEE
Confidence 56788899999999999999642222223345777788888898 999865
No 242
>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=38.88 E-value=1.3e+02 Score=24.64 Aligned_cols=28 Identities=4% Similarity=0.011 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
..+++.+++|.++|+....+|+++|=.+
T Consensus 164 ~~~eRi~r~Af~~A~~rr~kVt~v~KaN 191 (352)
T TIGR02089 164 KGVERIMRFAFELAQKRRKHLTSATKSN 191 (352)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 6789999999999988766788888533
No 243
>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=38.16 E-value=1.1e+02 Score=19.88 Aligned_cols=98 Identities=12% Similarity=0.053 Sum_probs=55.6
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHH
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVI 122 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I 122 (181)
+|++.+..+ .-..++.++..+... |-+|+ ..+. ..+.+...++.++.......-...|
T Consensus 2 ~vl~s~~~~-~k~~~~~~~~~l~~~-G~~l~---aT~g-----------------T~~~l~~~gi~~~~v~~~~~~~~~i 59 (110)
T cd01424 2 TVFISVADR-DKPEAVEIAKRLAEL-GFKLV---ATEG-----------------TAKYLQEAGIPVEVVNKVSEGRPNI 59 (110)
T ss_pred eEEEEEEcC-cHhHHHHHHHHHHHC-CCEEE---EchH-----------------HHHHHHHcCCeEEEEeecCCCchhH
Confidence 467777665 345666777666653 54442 1110 1122333467665443322334778
Q ss_pred HHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 123 CKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 123 ~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
.+..++.++|+||-...+... .-.|...++.+-... +|++
T Consensus 60 ~~~i~~~~id~vIn~~~~~~~---~~~~~~iRR~Av~~~-ipl~ 99 (110)
T cd01424 60 VDLIKNGEIQLVINTPSGKRA---IRDGFSIRRAALEYK-VPYF 99 (110)
T ss_pred HHHHHcCCeEEEEECCCCCcc---CccHHHHHHHHHHhC-CCEE
Confidence 999999999999997653331 122445556666666 7776
No 244
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=38.09 E-value=1.4e+02 Score=21.04 Aligned_cols=34 Identities=9% Similarity=-0.095 Sum_probs=19.6
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLV 75 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~ll 75 (181)
.+|+++.-+......-.+.+.+..+..|-++.-.
T Consensus 13 prvlvak~GlDgHd~gakvia~~l~d~GfeVi~~ 46 (143)
T COG2185 13 PRVLVAKLGLDGHDRGAKVIARALADAGFEVINL 46 (143)
T ss_pred ceEEEeccCccccccchHHHHHHHHhCCceEEec
Confidence 4566666556555566666666665555544433
No 245
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=38.05 E-value=1.2e+02 Score=24.91 Aligned_cols=58 Identities=9% Similarity=0.122 Sum_probs=41.3
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc-cccCchhhHHHhcCCCccEEEE
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS-VLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~ll~~~~~~pVlvv 168 (181)
+.+..-....++++.|++.++-+|+..+.+.....+ -++.........+...+||.+-
T Consensus 23 fN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValH 81 (347)
T PRK09196 23 FNVNNLEQVQAIMEAADETDSPVILQASAGARKYAGEPFLRHLILAAVEEYPHIPVVMH 81 (347)
T ss_pred eeeCCHHHHHHHHHHHHHhCCCEEEECCccHhhhCCHHHHHHHHHHHHHhCCCCcEEEE
Confidence 345556889999999999999999998876533222 2456666777776632788765
No 246
>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=37.98 E-value=1.8e+02 Score=22.13 Aligned_cols=38 Identities=16% Similarity=0.019 Sum_probs=30.0
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.++|++|+|+...-..|...+.++....|-.+.++..-
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~lP 191 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIEIK 191 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeCC
Confidence 37899999999888888888888887777776666553
No 247
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=37.07 E-value=1.2e+02 Score=19.82 Aligned_cols=34 Identities=12% Similarity=0.193 Sum_probs=17.2
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
+++..-......-.+.+....++..|-++.++..
T Consensus 3 v~~~~~~~~~~~lGl~~la~~l~~~G~~v~~~d~ 36 (121)
T PF02310_consen 3 VVLACVPGEVHPLGLLYLAAYLRKAGHEVDILDA 36 (121)
T ss_dssp EEEEEBTTSSTSHHHHHHHHHHHHTTBEEEEEES
T ss_pred EEEEeeCCcchhHHHHHHHHHHHHCCCeEEEECC
Confidence 3444444444344555555566555666655533
No 248
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=36.98 E-value=1.5e+02 Score=20.80 Aligned_cols=101 Identities=10% Similarity=0.011 Sum_probs=57.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccC-CCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhc-CceEEEEEecCC-
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRL-ADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVA-MVRTKARIVEGD- 117 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~-~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~i~~~~~~~~g~- 117 (181)
..+|++.++.+. -..++.++..+.... |-+| ..... ..+.++.. |+.++..+ .+.
T Consensus 4 ~~~v~lsv~d~d-K~~l~~~a~~l~~ll~Gf~l---~AT~g-----------------Ta~~L~~~~Gi~v~~vi-~~~~ 61 (142)
T PRK05234 4 RKRIALIAHDHK-KDDLVAWVKAHKDLLEQHEL---YATGT-----------------TGGLIQEATGLDVTRLL-SGPL 61 (142)
T ss_pred CcEEEEEEeccc-hHHHHHHHHHHHHHhcCCEE---EEeCh-----------------HHHHHHhccCCeeEEEE-cCCC
Confidence 477888887765 356778887776653 4332 22221 11222333 67776553 331
Q ss_pred -hHHHHHHHHHHhCCCEEEEec--cCCCcccccccCchhhHHHhcCCCccEE
Q 030208 118 -AAKVICKEAERLKPAAVVIGS--RGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 118 -~~~~I~~~a~~~~~dliV~g~--~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
-...|.+..++.++|+||--. .++.... --|...++.+-... +|++
T Consensus 62 gg~~~i~~~I~~g~i~lVInt~dp~~~~~~~--~D~~~IRR~Av~~~-IP~~ 110 (142)
T PRK05234 62 GGDQQIGALIAEGKIDMLIFFRDPLTAQPHD--PDVKALLRLADVWN-IPVA 110 (142)
T ss_pred CCchhHHHHHHcCceeEEEEecCCCCCCccc--chHHHHHHHHHHcC-CCEE
Confidence 136699999999999999876 3322211 12334445555555 6665
No 249
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=36.94 E-value=90 Score=20.60 Aligned_cols=37 Identities=8% Similarity=0.055 Sum_probs=26.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.+.+++.+..+..+...++.+ +.++..|+++..+.-.
T Consensus 46 ~~d~~I~iS~sG~t~e~~~~~-~~a~~~g~~vi~iT~~ 82 (126)
T cd05008 46 EDTLVIAISQSGETADTLAAL-RLAKEKGAKTVAITNV 82 (126)
T ss_pred CCcEEEEEeCCcCCHHHHHHH-HHHHHcCCeEEEEECC
Confidence 477899999988887766665 6666777766665543
No 250
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=36.68 E-value=1.5e+02 Score=24.07 Aligned_cols=30 Identities=17% Similarity=0.202 Sum_probs=22.9
Q ss_pred CChhhHHHHHHHHHHhccC----C-CEEEEEEEec
Q 030208 50 HGPNSKHAFDWALIHLCRL----A-DTIHLVHAVS 79 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~----~-a~l~llhV~~ 79 (181)
....+++.+++|.++|+.. + .+++++|=.+
T Consensus 138 Tr~~~~Ri~r~Af~~A~~r~~~~~~k~Vt~v~KaN 172 (330)
T PRK14025 138 TRKASERIFRFAFEMAKRRKKMGKEGKVTCAHKAN 172 (330)
T ss_pred cHHHHHHHHHHHHHHHHhccccCCCCeEEEEECCC
Confidence 3377899999999999887 3 3688887533
No 251
>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=36.37 E-value=2.2e+02 Score=22.67 Aligned_cols=124 Identities=11% Similarity=0.045 Sum_probs=58.7
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCC-EEEEEEEecCC------chhhHHHHHHHHHHHHHHHHhhhcCceEEEEEe
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLAD-TIHLVHAVSSV------QNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIV 114 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a-~l~llhV~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~ 114 (181)
+.+.+-+-++.. ..+..|.+++...+. .|.+=.=++.+ .+....... +.+.++.+...+..++.++..++
T Consensus 54 ~p~~~Ql~g~~~--~~~~~aa~~~~~~~~~~IDlN~GCP~~~v~~~g~Ga~Ll~~p-~~~~~iv~~~~~~~~~pvsvKiR 130 (309)
T PF01207_consen 54 RPLIVQLFGNDP--EDLAEAAEIVAELGFDGIDLNMGCPAPKVTKGGAGAALLKDP-DLLAEIVKAVRKAVPIPVSVKIR 130 (309)
T ss_dssp -TEEEEEE-S-H--HHHHHHHHHHCCTT-SEEEEEE---SHHHHHCT-GGGGGC-H-HHHHHHHHHHHHH-SSEEEEEEE
T ss_pred cceeEEEeeccH--HHHHHHHHhhhccCCcEEeccCCCCHHHHhcCCcChhhhcCh-HHhhHHHHhhhcccccceEEecc
Confidence 457777766632 333444455555453 34332222221 122222212 34444455555555577777777
Q ss_pred cCCh-----HHHHHHHHHHhCCCEEEEeccCCCccc-ccccCchhhHHHhcCCCccEEEEc
Q 030208 115 EGDA-----AKVICKEAERLKPAAVVIGSRGRGLIQ-SVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 115 ~g~~-----~~~I~~~a~~~~~dliV~g~~~~~~~~-~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.|.- ...+++.+++.+++.|.+=.+.+.... +..--....++....+ +||+.-.
T Consensus 131 ~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~~i~~i~~~~~-ipvi~NG 190 (309)
T PF01207_consen 131 LGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGPADWEAIAEIKEALP-IPVIANG 190 (309)
T ss_dssp SECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS---HHHHHHCHHC-T-SEEEEES
T ss_pred cccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcccchHHHHHHhhccc-ceeEEcC
Confidence 6622 466777788889999988766433221 1222334456777777 8887643
No 252
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=36.35 E-value=1.5e+02 Score=20.59 Aligned_cols=24 Identities=13% Similarity=0.095 Sum_probs=14.9
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
-+.+.+++.|.+.++|+|.++...
T Consensus 41 vp~e~i~~~a~~~~~d~V~lS~~~ 64 (137)
T PRK02261 41 TSQEEFIDAAIETDADAILVSSLY 64 (137)
T ss_pred CCHHHHHHHHHHcCCCEEEEcCcc
Confidence 456666666666666666666543
No 253
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=36.26 E-value=65 Score=25.24 Aligned_cols=37 Identities=11% Similarity=0.100 Sum_probs=30.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.+.++++++++.+....++.+ +.|+..|+++..+.-.
T Consensus 177 ~~Dv~i~iS~sG~t~e~i~~a-~~ak~~ga~vIaiT~~ 213 (281)
T COG1737 177 PGDVVIAISFSGYTREIVEAA-ELAKERGAKVIAITDS 213 (281)
T ss_pred CCCEEEEEeCCCCcHHHHHHH-HHHHHCCCcEEEEcCC
Confidence 477999999999998888877 7788888887777654
No 254
>KOG1014 consensus 17 beta-hydroxysteroid dehydrogenase type 3, HSD17B3 [Lipid transport and metabolism]
Probab=36.26 E-value=2.3e+02 Score=22.85 Aligned_cols=82 Identities=16% Similarity=0.135 Sum_probs=53.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec---CC-
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE---GD- 117 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~---g~- 117 (181)
.+..|-+..++.--++ ||.++|++ |-++.|+. . .++.|++..+++.+..++++.+.+.. ++
T Consensus 49 g~WAVVTGaTDGIGKa--yA~eLAkr-G~nvvLIs--R----------t~~KL~~v~kEI~~~~~vev~~i~~Dft~~~~ 113 (312)
T KOG1014|consen 49 GSWAVVTGATDGIGKA--YARELAKR-GFNVVLIS--R----------TQEKLEAVAKEIEEKYKVEVRIIAIDFTKGDE 113 (312)
T ss_pred CCEEEEECCCCcchHH--HHHHHHHc-CCEEEEEe--C----------CHHHHHHHHHHHHHHhCcEEEEEEEecCCCch
Confidence 3566666666555443 67788874 66655443 2 34567777777777777666665542 44
Q ss_pred hHHHHHHHHHHhCCCEEEEec
Q 030208 118 AAKVICKEAERLKPAAVVIGS 138 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~ 138 (181)
.-+.|.+.....++..+|-..
T Consensus 114 ~ye~i~~~l~~~~VgILVNNv 134 (312)
T KOG1014|consen 114 VYEKLLEKLAGLDVGILVNNV 134 (312)
T ss_pred hHHHHHHHhcCCceEEEEecc
Confidence 378888899998888887543
No 255
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=36.24 E-value=2.8e+02 Score=23.77 Aligned_cols=85 Identities=15% Similarity=0.040 Sum_probs=50.5
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEEecCCchh-hH---HHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHH
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ-IV---YDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKE 125 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~-~~---~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~ 125 (181)
..-..-.++.+|++-... .+.++.+.+..... .. ..-..+.+.++. +.+...| ....+..|++...+.++
T Consensus 12 LR~~DN~aL~~A~~~~~~---~~~~vfi~~~~~~~~~~~~~~~Fl~~sL~~L~-~~L~~~g--i~L~v~~~~~~~~l~~~ 85 (461)
T COG0415 12 LRLTDNAALAAACQSGQP---VIIAVFILDPEQLGHASPRHAAFLLQSLQALQ-QSLAELG--IPLLVREGDPEQVLPEL 85 (461)
T ss_pred cccCChHHHHHHHhcCCC---ceEEEEEechhhccccCHHHHHHHHHHHHHHH-HHHHHcC--CceEEEeCCHHHHHHHH
Confidence 334445677777665543 23667776654332 11 122233344433 3334433 44567789999999999
Q ss_pred HHHhCCCEEEEeccC
Q 030208 126 AERLKPAAVVIGSRG 140 (181)
Q Consensus 126 a~~~~~dliV~g~~~ 140 (181)
+++.+++.|+....-
T Consensus 86 ~~~~~~~~v~~n~~~ 100 (461)
T COG0415 86 AKQLAATTVFWNRDY 100 (461)
T ss_pred HHHhCcceEEeeeee
Confidence 999888777776553
No 256
>KOG1466 consensus Translation initiation factor 2B, alpha subunit (eIF-2Balpha/GCN3) [Translation, ribosomal structure and biogenesis]
Probab=35.95 E-value=56 Score=25.68 Aligned_cols=43 Identities=21% Similarity=0.262 Sum_probs=31.1
Q ss_pred CCCEEEEeccCC---CcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 130 KPAAVVIGSRGR---GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 130 ~~dliV~g~~~~---~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.+|++++|+.|- +++-. .+|...-.++.++.+.|+.|+-..+.
T Consensus 198 ~vD~VlVGAEGVvEsGGIIN-~iGTyq~~v~Ak~~~kPfYV~AES~K 243 (313)
T KOG1466|consen 198 RVDLVLVGAEGVVESGGIIN-KIGTYQVAVCAKSMNKPFYVVAESHK 243 (313)
T ss_pred hccEEEEccceeeecCceee-ecccchhhhhHHhcCCCeEEEeeccc
Confidence 399999999873 33332 36888787777777799999965443
No 257
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=35.63 E-value=1.9e+02 Score=21.92 Aligned_cols=70 Identities=16% Similarity=0.138 Sum_probs=40.5
Q ss_pred HHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHh---cCCCccEEEEc
Q 030208 93 LMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLH---HCKTAPIIVVP 169 (181)
Q Consensus 93 ~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~---~~~~~pVlvv~ 169 (181)
.+.++....++..|..+... .+. ++..+.++.. +|+|++...-. +..++ ..-+-++ ... .||+++-
T Consensus 11 ~i~~~l~~~L~~~g~~v~~~---~~~-~~a~~~~~~~-~dlviLD~~lP-~~dG~----~~~~~iR~~~~~~-~PIi~Lt 79 (229)
T COG0745 11 ELAELLKEYLEEEGYEVDVA---ADG-EEALEAAREQ-PDLVLLDLMLP-DLDGL----ELCRRLRAKKGSG-PPIIVLT 79 (229)
T ss_pred HHHHHHHHHHHHCCCEEEEE---CCH-HHHHHHHhcC-CCEEEEECCCC-CCCHH----HHHHHHHhhcCCC-CcEEEEE
Confidence 34445566667766665532 222 6666667666 99999996533 22221 1223333 355 8899997
Q ss_pred CCCC
Q 030208 170 GKGT 173 (181)
Q Consensus 170 ~~~~ 173 (181)
....
T Consensus 80 a~~~ 83 (229)
T COG0745 80 ARDD 83 (229)
T ss_pred CCCc
Confidence 6644
No 258
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=35.43 E-value=2.7e+02 Score=23.64 Aligned_cols=52 Identities=17% Similarity=0.378 Sum_probs=29.0
Q ss_pred ecC-ChHHHHHHHH---HHh-CCCEEEEeccCCCccccc--ccCchhhHHHhcCCCccEEE
Q 030208 114 VEG-DAAKVICKEA---ERL-KPAAVVIGSRGRGLIQSV--LQGSVGEYCLHHCKTAPIIV 167 (181)
Q Consensus 114 ~~g-~~~~~I~~~a---~~~-~~dliV~g~~~~~~~~~~--~~gs~~~~ll~~~~~~pVlv 167 (181)
+.| +...+|++.. ++. ++|+||+|.-|.+ ++.+ |-.-..-+-+..+. +||+-
T Consensus 172 VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGS-iEDLW~FNdE~vaRAi~~s~-iPvIS 230 (440)
T COG1570 172 VQGEGAAEEIVEAIERANQRGDVDVLIVARGGGS-IEDLWAFNDEIVARAIAASR-IPVIS 230 (440)
T ss_pred ccCCCcHHHHHHHHHHhhccCCCCEEEEecCcch-HHHHhccChHHHHHHHHhCC-CCeEe
Confidence 456 6667766653 333 3899999955433 3332 22223334555677 77753
No 259
>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=35.39 E-value=2e+02 Score=22.60 Aligned_cols=107 Identities=13% Similarity=0.072 Sum_probs=53.3
Q ss_pred hhhHHHHHHHHHHhcc---CCCEE-EEEEEe--cC-CchhhHHHHHHHH-HHHHHHHHhhhcCceEEEEEecCChHHHHH
Q 030208 52 PNSKHAFDWALIHLCR---LADTI-HLVHAV--SS-VQNQIVYDMSQGL-MEKLAIEAMDVAMVRTKARIVEGDAAKVIC 123 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~---~~a~l-~llhV~--~~-~~~~~~~~~~~~~-l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~ 123 (181)
++-+.++++|.+++.. .+.++ .+.-+. .+ .+...+.....+- ++ +..+..+..++.+.+.+..-.-.+.+
T Consensus 27 es~e~~~~~A~~l~~~~~~~~~~i~~~~~~~~~KpRts~~~f~G~g~d~~L~-~l~~v~~~~glpv~tEv~~~~~~~~~- 104 (270)
T PF00793_consen 27 ESEEQALEYAERLKELGEKLGDRIPLRMRAYFEKPRTSPYSFQGLGLDPGLD-ILSEVKEGLGLPVATEVLDPEQAEYV- 104 (270)
T ss_dssp S-HHHHHHHHHHHHHHHHHHTTTEEEEEEECSC-TTSSTTST-CSTHHHHHH-HHHHHHHHHT-EEEEEESSGGGHHHH-
T ss_pred CCHHHHHHHHHHHHHhhhhcCcceEEEEEEEecCCccCCCCCCCCCCCccch-hHHHHHhhhCCeeeEEecCcccHHHH-
Confidence 3444566666555433 33334 444455 22 1222222222222 22 23444455578888777654444333
Q ss_pred HHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 124 KEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
++. +|++-+|++.-. ...-...+.++. +||.+=++..
T Consensus 105 --~d~--vd~lqIgAr~~~-------n~~ll~~as~~~-~pV~~K~g~~ 141 (270)
T PF00793_consen 105 --ADL--VDWLQIGARLME-------NQDLLEAASGTG-KPVGFKNGTF 141 (270)
T ss_dssp --HTT--ESEEEE-GGGTT-------CHHHHHHHHCTS-SEEEEEE-TT
T ss_pred --Hhc--CcEEEECcchhc-------CHHHHHHhccCC-CeEEeccCCc
Confidence 333 899999987432 223346777888 9998866543
No 260
>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=35.28 E-value=2.6e+02 Score=23.09 Aligned_cols=97 Identities=9% Similarity=0.004 Sum_probs=44.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK 120 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~ 120 (181)
.++|.+-.+.+......++...+.++..|-++...-.+......... ....... ........+.++-+.........
T Consensus 172 w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~~~~~~~~~--~~~~~~~-~~~~ik~~~a~vVvv~~~~~~~~ 248 (403)
T cd06361 172 WNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILPASLSDNTK--LNRIIRT-TEKIIEENKVNVIVVFARQFHVF 248 (403)
T ss_pred CcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEecCccCcchh--HHHHHHH-HHHHHhcCCCeEEEEEeChHHHH
Confidence 35555555555555555555555555555444333333221111000 0011111 11212222333332222334566
Q ss_pred HHHHHHHHhCCCEEEEeccC
Q 030208 121 VICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~ 140 (181)
.+++.+++.+.+.+.+|+.+
T Consensus 249 ~l~~~a~~~g~~~~wigs~~ 268 (403)
T cd06361 249 LLFNKAIERNINKVWIASDN 268 (403)
T ss_pred HHHHHHHHhCCCeEEEEECc
Confidence 67777777778888887665
No 261
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=35.03 E-value=2.4e+02 Score=22.66 Aligned_cols=109 Identities=9% Similarity=0.111 Sum_probs=57.2
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
..+++...+|......+..| +..+.++.++ |.++..... .... ...+.+.|+.+...+ .+ +
T Consensus 120 g~~IlTh~~S~~v~~~l~~A----~~~~k~~~V~-VtESRP~~e----G~~~-----ak~L~~~gI~~~~I~--Ds---a 180 (301)
T COG1184 120 GDVILTHSFSKTVLEVLKTA----ADRGKRFKVI-VTESRPRGE----GRIM-----AKELRQSGIPVTVIV--DS---A 180 (301)
T ss_pred CCEEEEecCcHHHHHHHHHh----hhcCCceEEE-EEcCCCcch----HHHH-----HHHHHHcCCceEEEe--ch---H
Confidence 44556666765555555544 3344444443 444332221 1122 233344456665432 22 3
Q ss_pred HHHHHHHhCCCEEEEeccCCC---cccccccCchhh-HHHhcCCCccEEEEcCCCC
Q 030208 122 ICKEAERLKPAAVVIGSRGRG---LIQSVLQGSVGE-YCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 122 I~~~a~~~~~dliV~g~~~~~---~~~~~~~gs~~~-~ll~~~~~~pVlvv~~~~~ 173 (181)
+..+.++ +|.+++|++.-. .+-.. .|...- -.+++.. .|++++-..+.
T Consensus 181 ~~~~~~~--vd~VivGad~I~~nG~lvnk-iGT~~lA~~A~e~~-~Pf~v~aesyK 232 (301)
T COG1184 181 VGAFMSR--VDKVLVGADAILANGALVNK-IGTSPLALAARELR-VPFYVVAESYK 232 (301)
T ss_pred HHHHHHh--CCEEEECccceecCCcEEec-cchHHHHHHHHHhC-CCEEEEeeeec
Confidence 3445566 999999998632 22222 354444 4556666 99999965554
No 262
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=34.96 E-value=2.2e+02 Score=22.32 Aligned_cols=88 Identities=18% Similarity=0.162 Sum_probs=51.8
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-----
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE----- 115 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~----- 115 (181)
..+++|++++...|.-.+..|...+ |..+..+.|..+.......+.+.. .++++ |+..++.-..
T Consensus 17 ~~kv~vAfSGGvDSslLa~la~~~l---G~~v~AvTv~sP~~p~~e~e~A~~----~A~~i----Gi~H~~i~~~~~~~~ 85 (269)
T COG1606 17 KKKVVVAFSGGVDSSLLAKLAKEAL---GDNVVAVTVDSPYIPRREIEEAKN----IAKEI----GIRHEFIKMNRMDPE 85 (269)
T ss_pred cCeEEEEecCCccHHHHHHHHHHHh---ccceEEEEEecCCCChhhhhHHHH----HHHHh----CCcceeeehhhcchh
Confidence 3589999999988876666664443 567777777664332211111111 12221 1221111100
Q ss_pred -------------CChHHHHHHHHHHhCCCEEEEecc
Q 030208 116 -------------GDAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 116 -------------g~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
....+.|.+.|.++++|.|+=|+.
T Consensus 86 ~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 86 FKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred hccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 234578899999999999999986
No 263
>cd01996 Alpha_ANH_like_III 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 domain has a strongly conserved motif SGGKD at the N terminus.
Probab=34.91 E-value=1.5e+02 Score=20.39 Aligned_cols=34 Identities=21% Similarity=0.097 Sum_probs=21.7
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
.++|++++...|..++..+.+.. +-++..+|+..
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~---~~~v~~v~~~~ 36 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKY---GLNPLAVTVDN 36 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHh---CCceEEEEeCC
Confidence 47888888887777766665432 22566667643
No 264
>PF01182 Glucosamine_iso: Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase; InterPro: IPR006148 This domain is characteristic of the enzymes 6-phosphogluconolactonase (3.1.1.31 from EC), Glucosamine-6-phosphate isomerase (3.5.99.6 from EC), and Galactosamine-6-phosphate isomerase. 6-Phosphogluconolactonase is the enzyme responsible for the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate, the second step in the pentose phosphate pathway. Glucosamine-6-phosphate isomerase (or Glucosamine 6-phosphate deaminase) is the enzyme responsible for the conversion of D-glucosamine 6-phosphate into D-fructose 6-phosphate []. It is the last specific step in the pathway for N-acetylglucosamine (GlcNAC) utilization in bacteria such as Escherichia coli (gene nagB) or in fungi such as Candida albicans (gene NAG1).; GO: 0005975 carbohydrate metabolic process; PDB: 3CSS_A 3CH7_A 1Y89_B 3TX2_A 2BKX_B 2BKV_B 3E15_B 1HOR_B 1JT9_A 1HOT_A ....
Probab=34.88 E-value=1.5e+02 Score=21.89 Aligned_cols=109 Identities=16% Similarity=0.190 Sum_probs=56.9
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhc-cCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEE-EEEec---
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLC-RLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTK-ARIVE--- 115 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~-~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~-~~~~~--- 115 (181)
.+..+++.+...-...++......+ ..+ .++++..+-+..-.....+.-...+++ ..+....+... ++...
T Consensus 21 ~~~~i~LsgGstp~~~y~~L~~~~~~~i~w~~v~~~~~DEr~v~~~~~~Sn~~~~~~---~l~~~~~i~~~~i~~~~~~~ 97 (199)
T PF01182_consen 21 GRAVIALSGGSTPKPLYQELAKLHKERIDWSRVHFFNVDERVVPPDDPDSNYRMLRE---HLLDPLPIPPENIHPIDGEA 97 (199)
T ss_dssp SSEEEEE--SCTHHHHHHHHHHHHHTCSCGGGEEEEESEEESSTTTSTTSHHHHHHH---HTGGGSGGGGGGEETSSTTT
T ss_pred CCEEEEEcCCHHHHHHHHHHhhhccccCChhHeEEEeCcccccCCCCCccHHHHHHH---HhhccCCCCcceEEeCCCCC
Confidence 4578888888777788888877762 122 578888886643111111111222222 22232222211 11122
Q ss_pred CChHHHHHHHHHHh----------CCCEEEEeccCCCcccccccCchh
Q 030208 116 GDAAKVICKEAERL----------KPAAVVIGSRGRGLIQSVLQGSVG 153 (181)
Q Consensus 116 g~~~~~I~~~a~~~----------~~dliV~g~~~~~~~~~~~~gs~~ 153 (181)
.++.++..+|.+.. ..|++++|--..+.....|-|+..
T Consensus 98 ~~~~~~~~~y~~~l~~~~~~~~~p~~Dl~lLG~G~DGH~aslfPg~~~ 145 (199)
T PF01182_consen 98 DDPEEAAERYEQELASLGGEAGFPGFDLVLLGMGEDGHTASLFPGSPA 145 (199)
T ss_dssp SSHHHHHHHHHHHHHHHSSSEECESBSEEEEE--TTS-BTTB-TTCHT
T ss_pred CCHHHHHHHHHHHHHHhccccCCCceeEEEeccccCCCeeccCCCCcc
Confidence 36667777765444 299999998878877777777654
No 265
>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=34.71 E-value=45 Score=27.28 Aligned_cols=29 Identities=10% Similarity=0.048 Sum_probs=23.6
Q ss_pred ChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 51 GPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 51 s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
...+++.+++|.++|+..+.+++++|=.+
T Consensus 162 r~~~eRI~r~AF~~A~~r~~~Vt~v~KaN 190 (349)
T TIGR00169 162 KPEIERIARVAFEMARKRRKKVTSVDKAN 190 (349)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEECCc
Confidence 36789999999999988777888887543
No 266
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=34.47 E-value=1.3e+02 Score=19.55 Aligned_cols=41 Identities=17% Similarity=0.077 Sum_probs=28.1
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
...++|.+.++..++|+||+-.. -+ ++-..++-+... |+|+
T Consensus 44 GK~eei~~~~~~~~~d~vvfd~~-Ls-------p~Q~rNLe~~~~-~~V~ 84 (95)
T PF13167_consen 44 GKVEEIKELIEELDADLVVFDNE-LS-------PSQQRNLEKALG-VKVI 84 (95)
T ss_pred hHHHHHHHHHhhcCCCEEEECCC-CC-------HHHHHHHHHHHC-Ceee
Confidence 56789999999999999999853 22 333345555555 6654
No 267
>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=34.29 E-value=1e+02 Score=25.36 Aligned_cols=25 Identities=28% Similarity=0.514 Sum_probs=12.8
Q ss_pred CChHHHHHHHH-HHhCCCEEEEeccC
Q 030208 116 GDAAKVICKEA-ERLKPAAVVIGSRG 140 (181)
Q Consensus 116 g~~~~~I~~~a-~~~~~dliV~g~~~ 140 (181)
|+-.+.+++.+ ++.+..+|.+-+.+
T Consensus 103 GdDi~~v~~~~~~~~~~~vi~v~t~g 128 (406)
T cd01967 103 GDDIEAVAKEASKELGIPVIPVNCEG 128 (406)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCC
Confidence 53344444443 34456666666554
No 268
>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=34.26 E-value=1.1e+02 Score=19.76 Aligned_cols=45 Identities=9% Similarity=-0.087 Sum_probs=24.0
Q ss_pred HHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCC
Q 030208 98 AIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 142 (181)
+++..++.|+.+.+......-...-+.-..-.++|+||+......
T Consensus 21 L~~aa~~~g~~~~ve~~~~~g~~~~l~~~~i~~Ad~vi~~~~~~~ 65 (96)
T cd05569 21 LEKAAKKLGWEIKVETQGSLGIENELTAEDIAEADAVILAADVPV 65 (96)
T ss_pred HHHHHHHCCCeEEEEEecCcCccCcCCHHHHhhCCEEEEecCCCC
Confidence 444555666666655444322222222233334999999887543
No 269
>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=34.21 E-value=1.8e+02 Score=20.90 Aligned_cols=43 Identities=7% Similarity=0.033 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEE
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIV 167 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlv 167 (181)
..+.+++.++..++|+|++|--.... +. .+.+...+.+ .+|++
T Consensus 87 ~~~~i~~~I~~~~pdiv~vglG~PkQ-E~-----~~~~~~~~l~-~~v~~ 129 (171)
T cd06533 87 EEEEIIERINASGADILFVGLGAPKQ-EL-----WIARHKDRLP-VPVAI 129 (171)
T ss_pred hHHHHHHHHHHcCCCEEEEECCCCHH-HH-----HHHHHHHHCC-CCEEE
Confidence 34558889999999999999543221 11 2244555555 66555
No 270
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=33.94 E-value=1.3e+02 Score=20.68 Aligned_cols=37 Identities=22% Similarity=0.266 Sum_probs=20.4
Q ss_pred CCeEEEEEcCC------hhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 41 GRDILIAVDHG------PNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s------~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
.++|.+++|.. .+..++++....+.+..|+++.++.-
T Consensus 68 gr~v~iaFD~D~~~~Tn~~V~~a~~~l~~~L~~~G~~v~~~~w 110 (130)
T PF12965_consen 68 GREVYIAFDADTKPKTNKNVRRAIKRLGKLLKEAGCKVKIITW 110 (130)
T ss_pred CceEEEEecCCCccchhHHHHHHHHHHHHHHHHCCCEEEEEEe
Confidence 36677777765 22334444444455555666666554
No 271
>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=33.89 E-value=1.6e+02 Score=20.21 Aligned_cols=29 Identities=7% Similarity=0.101 Sum_probs=24.7
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
..+..+++++.+.++..+.++.++++.+.
T Consensus 14 ~~t~~l~~~~~~~l~~~g~e~~~i~l~~~ 42 (152)
T PF03358_consen 14 SNTRKLAEAVAEQLEEAGAEVEVIDLADY 42 (152)
T ss_dssp SHHHHHHHHHHHHHHHTTEEEEEEECTTS
T ss_pred CHHHHHHHHHHHHHHHcCCEEEEEecccc
Confidence 56889999999999888999999988664
No 272
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=33.87 E-value=1.1e+02 Score=21.56 Aligned_cols=103 Identities=16% Similarity=0.089 Sum_probs=55.7
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhH----HHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHH
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIV----YDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAE 127 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~ 127 (181)
++....++.|.++. ..+.++-+-+......- .-..++. .+.+.. +.+.-.++.|.+.+.=.++.+
T Consensus 15 ~GHi~~L~~Ak~lG----d~liVv~a~de~~~~~~k~~pi~~~~qR-----~evl~s--~ryVD~vi~~~p~~~~~~~i~ 83 (140)
T COG0615 15 PGHIEFLRQAKKLG----DELIVVVARDETVIKRKKRKPIMPEEQR-----AEVLES--LRYVDEVILGAPWDIKFEDIE 83 (140)
T ss_pred hhHHHHHHHHHHhC----CeEEEEEeccHHHHHhcCCCCCCCHHHH-----HHHHHc--CcchheeeeCCccccChHHHH
Confidence 66778888887775 55655555442211000 0000111 111222 444446677877776688999
Q ss_pred HhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 128 RLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 128 ~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
+.++|.+++|-...... +..-.++.+ .. ..+-|.+-.+
T Consensus 84 ~~k~Div~lG~D~~~d~-----~~l~~~~~k-~G-~~~~v~R~~g 121 (140)
T COG0615 84 EYKPDIVVLGDDQKFDE-----DDLKYELVK-RG-LFVEVKRTEG 121 (140)
T ss_pred HhCCCEEEECCCCcCCh-----HHHHHHHHH-cC-CeeEEEeccC
Confidence 99999999997644221 223344444 44 5555555443
No 273
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=33.81 E-value=1.9e+02 Score=22.38 Aligned_cols=45 Identities=18% Similarity=0.133 Sum_probs=32.1
Q ss_pred HHHHhhhcCceEEEEEecCChHHHHHHHHHH----hCCCEEEEeccCCC
Q 030208 98 AIEAMDVAMVRTKARIVEGDAAKVICKEAER----LKPAAVVIGSRGRG 142 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~----~~~dliV~g~~~~~ 142 (181)
+++.++..++.-.+.+..|+..+.+-+.... ..+|+|.+-+....
T Consensus 120 Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK~~ 168 (247)
T PLN02589 120 GLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADKDN 168 (247)
T ss_pred HHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCCHHH
Confidence 4455555566656677889999888887653 47999999987443
No 274
>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=33.69 E-value=95 Score=22.29 Aligned_cols=67 Identities=12% Similarity=0.007 Sum_probs=29.6
Q ss_pred cCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCc-c---cccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 105 AMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGL-I---QSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 105 ~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~-~---~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
.+++.-......+..+....+++++++.++-++...... + ..-.+-...+-++.... -||+|.=..+
T Consensus 31 L~LKTII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~~ild~~n-~PvLiHC~~G 101 (164)
T PF03162_consen 31 LGLKTIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALEIILDPRN-YPVLIHCNHG 101 (164)
T ss_dssp HT-SEEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHHHHH-GGG--SEEEE-SSS
T ss_pred CCCceEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHHHHhCCCC-CCEEEEeCCC
Confidence 446655555445667778889999999999988765443 1 11111222234555666 8999885443
No 275
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=33.44 E-value=45 Score=27.99 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=20.7
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
.-.+.|+++|++.++||+|+|..
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCc
Confidence 45789999999999999999975
No 276
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=33.11 E-value=98 Score=21.07 Aligned_cols=36 Identities=17% Similarity=0.254 Sum_probs=22.5
Q ss_pred EEEEEcCChh-----hHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 44 ILIAVDHGPN-----SKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 44 Ilv~vd~s~~-----s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
|++++|-|-+ -...+.-...+++..+.+++++..-.
T Consensus 1 i~vaiDtSGSis~~~l~~fl~ev~~i~~~~~~~v~vi~~D~ 41 (126)
T PF09967_consen 1 IVVAIDTSGSISDEELRRFLSEVAGILRRFPAEVHVIQFDA 41 (126)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEEECC
Confidence 4677776632 22334445566777788999988643
No 277
>PRK04527 argininosuccinate synthase; Provisional
Probab=32.97 E-value=2.8e+02 Score=23.29 Aligned_cols=36 Identities=19% Similarity=0.316 Sum_probs=27.3
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
.++|+|+.++.-.|.-++.++.+ .|.+++.+++...
T Consensus 2 ~~kVvVA~SGGvDSSvla~~l~e----~G~~Viavt~d~g 37 (400)
T PRK04527 2 SKDIVLAFSGGLDTSFCIPYLQE----RGYAVHTVFADTG 37 (400)
T ss_pred CCcEEEEEcCChHHHHHHHHHHH----cCCcEEEEEEEeC
Confidence 37899999999888888777665 2667888888543
No 278
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=32.92 E-value=2.8e+02 Score=22.89 Aligned_cols=114 Identities=15% Similarity=0.115 Sum_probs=56.4
Q ss_pred CeEEEE-EcCChhhHHHHHHHHHHhccCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC-Ch
Q 030208 42 RDILIA-VDHGPNSKHAFDWALIHLCRLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG-DA 118 (181)
Q Consensus 42 ~~Ilv~-vd~s~~s~~a~~~a~~la~~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g-~~ 118 (181)
++|+.. -....++..+++|+++ ++| .+++++--.. .+..+..+.++++.++.... +--+.-+-.| .-
T Consensus 108 ~nviYtGa~PNQ~~~pl~~~~~~---~~G~~r~~lvGSdY-----v~pre~Nri~r~~l~~~Gge--vvgE~Y~plg~td 177 (363)
T PF13433_consen 108 PNVIYTGAAPNQQLLPLIDYLLE---NFGAKRFYLVGSDY-----VYPRESNRIIRDLLEARGGE--VVGERYLPLGATD 177 (363)
T ss_dssp TTEEE-S--GGGTHHHHHHHHHH---HS--SEEEEEEESS-----HHHHHHHHHHHHHHHHTT-E--EEEEEEE-S-HHH
T ss_pred CceEEcCCCchhhHHHHHHHHHh---ccCCceEEEecCCc-----cchHHHHHHHHHHHHHcCCE--EEEEEEecCCchh
Confidence 344433 2334556666666654 467 7888876633 44555555666555443211 2222222235 66
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEE
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv 168 (181)
.+.|++-++..+.|+|+-.--|.+... |+-...+.=+.... |||+-+
T Consensus 178 ~~~ii~~I~~~~Pd~V~stlvG~s~~a--F~r~~~~aG~~~~~-~Pi~S~ 224 (363)
T PF13433_consen 178 FDPIIAEIKAAKPDFVFSTLVGDSNVA--FYRAYAAAGLDPER-IPIASL 224 (363)
T ss_dssp HHHHHHHHHHHT-SEEEEE--TTCHHH--HHHHHHHHH-SSS----EEES
T ss_pred HHHHHHHHHhhCCCEEEEeCcCCcHHH--HHHHHHHcCCCccc-CeEEEE
Confidence 788888888889998877666654432 33344444444455 888754
No 279
>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=32.92 E-value=2.5e+02 Score=22.31 Aligned_cols=84 Identities=6% Similarity=-0.014 Sum_probs=46.3
Q ss_pred hHHHHHHHHHHHHHHHHhhhcCceEEEEEecCC--hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcC-C
Q 030208 85 IVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGD--AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHC-K 161 (181)
Q Consensus 85 ~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~--~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~-~ 161 (181)
...++..+.++...+... .++.+-.-+...+ -.-.+.+.|++.++|.+++-....-....--+=..-+.|+..+ .
T Consensus 58 Lt~eEr~~v~~~~~~~~~--grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~ 135 (309)
T cd00952 58 LTWEEKQAFVATVVETVA--GRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPE 135 (309)
T ss_pred CCHHHHHHHHHHHHHHhC--CCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCC
Confidence 344555666665544432 2355443333223 3455567788999998888865322221111112225677778 6
Q ss_pred CccEEEEcCC
Q 030208 162 TAPIIVVPGK 171 (181)
Q Consensus 162 ~~pVlvv~~~ 171 (181)
.||++...+
T Consensus 136 -lPv~iYn~P 144 (309)
T cd00952 136 -MAIAIYANP 144 (309)
T ss_pred -CcEEEEcCc
Confidence 999998543
No 280
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=32.61 E-value=1.1e+02 Score=21.93 Aligned_cols=38 Identities=16% Similarity=0.195 Sum_probs=28.3
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
.+.+++.++.+..+...++.+ +.|+..|+++.++.-..
T Consensus 72 ~~Dv~I~iS~sG~t~~~i~~~-~~ak~~g~~ii~IT~~~ 109 (179)
T TIGR03127 72 KGDLLIAISGSGETESLVTVA-KKAKEIGATVAAITTNP 109 (179)
T ss_pred CCCEEEEEeCCCCcHHHHHHH-HHHHHCCCeEEEEECCC
Confidence 477899999988887777766 56777788777766533
No 281
>PRK02628 nadE NAD synthetase; Reviewed
Probab=32.56 E-value=1.8e+02 Score=26.13 Aligned_cols=37 Identities=24% Similarity=0.271 Sum_probs=28.2
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCC---CEEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLA---DTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~---a~l~llhV 77 (181)
.++|+|++++...|.-++-.+.+.....+ .+++.++.
T Consensus 361 ~~~vvvglSGGiDSal~l~l~~~a~~~lg~~~~~v~~v~m 400 (679)
T PRK02628 361 LKKVVIGISGGLDSTHALLVAAKAMDRLGLPRKNILAYTM 400 (679)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHHhhCCCcceEEEEEC
Confidence 69999999999888877777766654444 57777777
No 282
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=32.54 E-value=2.5e+02 Score=22.16 Aligned_cols=63 Identities=10% Similarity=0.019 Sum_probs=37.9
Q ss_pred hcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccc--cccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 104 VAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQS--VLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 104 ~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
+.|++++. ...+....+ .++ +|.+++|+..-..-.. .-.|+..-.++.+..++||+|+-+.+.
T Consensus 158 ~~GI~vtl--I~Dsa~~~~---m~~--vd~VivGAD~I~~nG~v~NKiGT~~lA~~Ak~~~vPfyV~a~~~k 222 (275)
T PRK08335 158 FLGIEFEV--ITDAQLGLF---AKE--ATLALVGADNVTRDGYVVNKAGTYLLALACHDNGVPFYVAAETFK 222 (275)
T ss_pred HCCCCEEE--EeccHHHHH---HHh--CCEEEECccEEecCCCEeehhhHHHHHHHHHHcCCCEEEECccce
Confidence 34677764 334444333 344 9999999986322111 125777777775555599999955443
No 283
>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=32.53 E-value=1.4e+02 Score=20.86 Aligned_cols=40 Identities=18% Similarity=0.197 Sum_probs=22.4
Q ss_pred hCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 129 LKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 129 ~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.++|++|+-..+. ....+..+...-.+++... +||++|-.
T Consensus 98 ~~~D~viid~~g~-~~~~~~~~~~~~dl~~~~~-~~vilV~~ 137 (166)
T TIGR00347 98 QKYDFVLVEGAGG-LCVPITEEYTTADLIKLLQ-LPVILVVR 137 (166)
T ss_pred hcCCEEEEEcCCc-cccCCCCCCcHHHHHHHhC-CCEEEEEC
Confidence 4588888776652 1122222323345777777 77777743
No 284
>PLN02858 fructose-bisphosphate aldolase
Probab=32.20 E-value=1.2e+02 Score=29.72 Aligned_cols=59 Identities=15% Similarity=0.053 Sum_probs=43.6
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+.+-....++++.|++.++.+|+..+.+.-...+.-+.......++++. +||.+-=.
T Consensus 1119 fn~~n~e~~~avi~aAe~~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~-vpV~lHLD 1177 (1378)
T PLN02858 1119 FNVYNLEGIEAVVAAAEAEKSPAILQVHPGALKQGGIPLVSCCIAAAEQAS-VPITVHFD 1177 (1378)
T ss_pred EEeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCHHHHHHHHHHHHHCC-CCEEEECC
Confidence 344444889999999999999999998876433222225566778889998 99987643
No 285
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=32.11 E-value=1.9e+02 Score=22.94 Aligned_cols=58 Identities=14% Similarity=0.084 Sum_probs=40.1
Q ss_pred EEEecCChHHHHHHHHHHhCCCEEEEeccCCCcc-cc-cccCchhhHHHhcCC-CccEEEE
Q 030208 111 ARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLI-QS-VLQGSVGEYCLHHCK-TAPIIVV 168 (181)
Q Consensus 111 ~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~-~~~gs~~~~ll~~~~-~~pVlvv 168 (181)
+.+.+-....++++.|++.++.+|+..+.+.-.. .+ -.+....+.++.+.. ++||.+-
T Consensus 23 fN~~n~e~~~avi~AAe~~~sPvIiq~~~~~~~~~~~~~~~~~~~~~~a~~~~~~VPV~lH 83 (285)
T PRK07709 23 FNMNNLEWTQAILAAAEEEKSPVILGVSEGAARHMTGFKTVVAMVKALIEEMNITVPVAIH 83 (285)
T ss_pred EEECCHHHHHHHHHHHHHHCCCEEEEcCcchhhhcCCHHHHHHHHHHHHHHcCCCCcEEEE
Confidence 3444557899999999999999999987764333 22 134567777887764 1577654
No 286
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=31.99 E-value=2.5e+02 Score=21.97 Aligned_cols=82 Identities=11% Similarity=0.033 Sum_probs=49.2
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecCCchh-hHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHhC
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ-IVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERLK 130 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~ 130 (181)
.+.+.++++|.++.. .+.++......++.+.. .+....++.++. +.+..++.|+.+.+.+..-.-.+.+. +.
T Consensus 38 e~~~~~~~~A~~lk~-~g~~~~r~~~~kpRTs~~s~~G~g~~gl~~-l~~~~~~~Gl~~~te~~d~~~~~~l~----~~- 110 (266)
T PRK13398 38 ESEEQMVKVAEKLKE-LGVHMLRGGAFKPRTSPYSFQGLGEEGLKI-LKEVGDKYNLPVVTEVMDTRDVEEVA----DY- 110 (266)
T ss_pred CCHHHHHHHHHHHHH-cCCCEEEEeeecCCCCCCccCCcHHHHHHH-HHHHHHHcCCCEEEeeCChhhHHHHH----Hh-
Confidence 556678888877776 57777777777654432 222223455555 33445666787776665544444443 33
Q ss_pred CCEEEEeccC
Q 030208 131 PAAVVIGSRG 140 (181)
Q Consensus 131 ~dliV~g~~~ 140 (181)
+|++-+|++.
T Consensus 111 vd~~kIga~~ 120 (266)
T PRK13398 111 ADMLQIGSRN 120 (266)
T ss_pred CCEEEECccc
Confidence 6888888764
No 287
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=31.93 E-value=2.9e+02 Score=22.73 Aligned_cols=79 Identities=11% Similarity=0.053 Sum_probs=42.0
Q ss_pred hHHHHH-HHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhh-hcCceEEEEEecCChHHHHHHHHHHhCC
Q 030208 54 SKHAFD-WALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMD-VAMVRTKARIVEGDAAKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~-~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~i~~~~~~~~g~~~~~I~~~a~~~~~ 131 (181)
..++++ |..+.......++.+++....+. .++..+.+++.+.. ..+++++..-........+.....+ +
T Consensus 231 ~~~~~~~Y~~~~~~~~~~kv~IvY~S~~Gn-------Te~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~--~ 301 (394)
T PRK11921 231 PLQIVEKYLEWAANYQENQVTILYDTMWNS-------TRRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFK--S 301 (394)
T ss_pred HHHHHHHHHHHhhcCCcCcEEEEEECCchH-------HHHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHh--C
Confidence 334444 34333344456788887755332 22333333322221 3455665444444445566655555 9
Q ss_pred CEEEEeccCC
Q 030208 132 AAVVIGSRGR 141 (181)
Q Consensus 132 dliV~g~~~~ 141 (181)
|.||+|+...
T Consensus 302 d~ii~GspT~ 311 (394)
T PRK11921 302 KAILVGSSTI 311 (394)
T ss_pred CEEEEECCCc
Confidence 9999999764
No 288
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=31.90 E-value=91 Score=26.89 Aligned_cols=53 Identities=9% Similarity=0.089 Sum_probs=29.0
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
..+.|.+..+..+.++|++.+..-+.+-+--++++++.+-.... +||+.+.-.
T Consensus 73 L~~~I~~~~~~~~P~~I~V~tTC~~eiIGDDi~~v~~~~~~~~~-~pVi~v~t~ 125 (513)
T CHL00076 73 VVDNITRKDKEERPDLIVLTPTCTSSILQEDLQNFVDRASIESD-SDVILADVN 125 (513)
T ss_pred HHHHHHHHHHhcCCCEEEECCCCchhhhhcCHHHHHHHhhcccC-CCEEEeCCC
Confidence 34555555566666666666666555544444445444433444 666666543
No 289
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=31.89 E-value=2.4e+02 Score=22.58 Aligned_cols=112 Identities=12% Similarity=-0.054 Sum_probs=59.5
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEecCCchhh-------HHHHHHHHHHHHHHHHhhhcCceEEEEEec-----C-Ch
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQI-------VYDMSQGLMEKLAIEAMDVAMVRTKARIVE-----G-DA 118 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-----g-~~ 118 (181)
.....+++.|.++++..+....++...+.+.... .....++. .+.++..+++.-..+-. . ++
T Consensus 27 ~GHq~Ll~~a~~~a~~~~~~~~vitFd~~p~~~~~~~~~~~~l~t~eeR-----~~~l~~~gVD~~~~~~F~~~~~~ls~ 101 (305)
T PRK05627 27 RGHQALLARAREIARERGLPSVVMTFEPHPREVFAPDKAPARLTPLRDK-----AELLAELGVDYVLVLPFDEEFAKLSA 101 (305)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEecCCHHHHcCCCCCCcCCCCHHHH-----HHHHHHcCCCEEEEecCCHHHhcCCH
Confidence 7788999999999998887666666533221100 00011122 22333334444333221 2 44
Q ss_pred HHHHHHH-HHHhCCCEEEEeccCCCcccccccCch--hhHHHhcCCCccEEEEcCC
Q 030208 119 AKVICKE-AERLKPAAVVIGSRGRGLIQSVLQGSV--GEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 119 ~~~I~~~-a~~~~~dliV~g~~~~~~~~~~~~gs~--~~~ll~~~~~~pVlvv~~~ 171 (181)
.+-|-++ .+..+++.||+|..-+=+-.+ .|.. ..+...... ..|.+++..
T Consensus 102 e~Fi~~~l~~~l~~~~iVvG~Df~FG~~~--~G~~~~L~~~~~~~g-~~v~~v~~~ 154 (305)
T PRK05627 102 EEFIEDLLVKGLNAKHVVVGFDFRFGKKR--AGDFELLKEAGKEFG-FEVTIVPEV 154 (305)
T ss_pred HHHHHHHHHhccCCCEEEECCCCCCCCCC--CCCHHHHHHHHHHcC-cEEEEeccE
Confidence 4455453 456899999999764322221 1222 223344445 788888653
No 290
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=31.73 E-value=1.5e+02 Score=22.47 Aligned_cols=52 Identities=19% Similarity=0.162 Sum_probs=34.4
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
...+.+.+++.++|.|++......+....+.-....++.+... +||++.-.-
T Consensus 151 ~~~~~~~l~~~G~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~~-~pvia~GGi 202 (243)
T cd04731 151 AVEWAKEVEELGAGEILLTSMDRDGTKKGYDLELIRAVSSAVN-IPVIASGGA 202 (243)
T ss_pred HHHHHHHHHHCCCCEEEEeccCCCCCCCCCCHHHHHHHHhhCC-CCEEEeCCC
Confidence 4566677788899988886655433322233455677888888 999887543
No 291
>PHA02546 47 endonuclease subunit; Provisional
Probab=31.72 E-value=1.6e+02 Score=23.83 Aligned_cols=20 Identities=5% Similarity=-0.173 Sum_probs=10.8
Q ss_pred HHHHHHHHHHhCCCEEEEec
Q 030208 119 AKVICKEAERLKPAAVVIGS 138 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~ 138 (181)
.+.+++++++.++|+|+++-
T Consensus 28 l~~ii~~a~~~~vD~VliaG 47 (340)
T PHA02546 28 IKQAIEYSKAHGITTWIQLG 47 (340)
T ss_pred HHHHHHHHHHcCCCEEEECC
Confidence 44455555555555555553
No 292
>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=31.62 E-value=96 Score=23.17 Aligned_cols=43 Identities=26% Similarity=0.264 Sum_probs=29.6
Q ss_pred HHHhhhcCceEEEEEecCChHHHHHHHHHHh---CCCEEEEeccCC
Q 030208 99 IEAMDVAMVRTKARIVEGDAAKVICKEAERL---KPAAVVIGSRGR 141 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~---~~dliV~g~~~~ 141 (181)
++.++..++.-.+.+..|+..+.|-++..+. .+|+|.+-+...
T Consensus 87 ~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~ 132 (205)
T PF01596_consen 87 RENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDADKR 132 (205)
T ss_dssp HHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGG
T ss_pred HHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEccccc
Confidence 3444444454455667899999998888765 599999998644
No 293
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=31.61 E-value=1.1e+02 Score=20.24 Aligned_cols=57 Identities=9% Similarity=0.043 Sum_probs=35.0
Q ss_pred cCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 105 AMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 105 ~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.+.++++.... ..++.++.. ++|++.+|..-+ +.+ ...++++.... +||-+++..++
T Consensus 28 kg~~~~I~A~s---~~e~~~~~~--~~DvvLlGPQv~-----y~~-~~~~~~~~~~g-iPV~vI~~~dY 84 (102)
T COG1440 28 KGKDVTIEAYS---ETELSEYID--NADVVLLGPQVR-----YML-KQLKEAAEEKG-IPVEVIDMLDY 84 (102)
T ss_pred CCCceEEEEec---hhHHHHhhh--cCCEEEEChHHH-----HHH-HHHHHHhcccC-CCeEEeCHHHc
Confidence 44556554433 333444444 499999997633 222 23367777777 89999986554
No 294
>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional
Probab=31.53 E-value=3.3e+02 Score=23.26 Aligned_cols=37 Identities=16% Similarity=0.124 Sum_probs=29.2
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecC
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSS 80 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~ 80 (181)
...++++.+++...|..++.++++. |..++.+|+...
T Consensus 176 ~~gk~lvllSGGiDS~va~~~~~kr----G~~v~~l~f~~g 212 (482)
T PRK01269 176 TQEDVLSLISGGFDSGVASYMLMRR----GSRVHYCFFNLG 212 (482)
T ss_pred ccCeEEEEEcCCchHHHHHHHHHHc----CCEEEEEEEecC
Confidence 3478999999999888877665543 779999999653
No 295
>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=31.40 E-value=1.2e+02 Score=24.33 Aligned_cols=53 Identities=19% Similarity=0.249 Sum_probs=37.8
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.+....++..++ +|+||+|-..- |-+..+++..+.+. ++.++ +|++.|.+--.
T Consensus 164 ~~~~~a~~AI~~--AD~Iv~gPGSlyTSI~P~Llv~gI~eA-i~~s~-a~kV~v~N~~~ 218 (308)
T cd07187 164 KANPEALEAIEE--ADLIVYGPGSLYTSILPNLLVKGIAEA-IRASK-APKVYICNLMT 218 (308)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHHhhhhcCchhHHHH-HHhCC-CCEEEEecCCC
Confidence 567889999988 99999996542 22445556666554 56778 89888876544
No 296
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=31.40 E-value=1.1e+02 Score=20.18 Aligned_cols=36 Identities=19% Similarity=0.299 Sum_probs=23.9
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
+.+++.++.+..+...++.+ +.|+..|+++..+.-.
T Consensus 48 ~d~vi~iS~sG~t~~~~~~~-~~a~~~g~~vi~iT~~ 83 (128)
T cd05014 48 GDVVIAISNSGETDELLNLL-PHLKRRGAPIIAITGN 83 (128)
T ss_pred CCEEEEEeCCCCCHHHHHHH-HHHHHCCCeEEEEeCC
Confidence 56788888877777766666 4456667666665543
No 297
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=31.40 E-value=93 Score=24.95 Aligned_cols=47 Identities=21% Similarity=0.299 Sum_probs=34.8
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.+..+.++..++ +|+||+|-... |-..-+.+..+.+.| ++ .||+.|-
T Consensus 174 ~a~p~vl~AI~~--AD~IiiGPgnp~TSI~P~L~v~gi~eAL---~~-a~vV~Vs 222 (303)
T PRK13606 174 KPAPGVLEAIEE--ADAVIIGPSNPVTSIGPILAVPGIREAL---TE-APVVAVS 222 (303)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHhhchhccchhHHHHH---hC-CCEEEEc
Confidence 478899999988 99999997652 333456677777777 66 7888553
No 298
>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=31.39 E-value=1.2e+02 Score=18.17 Aligned_cols=28 Identities=32% Similarity=0.379 Sum_probs=15.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA 69 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~ 69 (181)
++|+++.|....-..+.+.+.+.+...+
T Consensus 44 ~~vii~~D~D~~G~~~~~~~~~~~~~~~ 71 (79)
T cd01029 44 RTVILAFDNDEAGKKAAARALELLLALG 71 (79)
T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHCC
Confidence 6677777766555455555444444433
No 299
>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=31.36 E-value=87 Score=26.13 Aligned_cols=14 Identities=0% Similarity=-0.035 Sum_probs=6.9
Q ss_pred CCeEEEEEcCChhh
Q 030208 41 GRDILIAVDHGPNS 54 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s 54 (181)
++..+.-+.++..+
T Consensus 23 i~~~~~l~Hgp~GC 36 (430)
T cd01981 23 FKNVHAVMHAPLGD 36 (430)
T ss_pred cCCcEEEEeCCCCc
Confidence 34555555555444
No 300
>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=31.26 E-value=2.1e+02 Score=20.84 Aligned_cols=71 Identities=17% Similarity=0.118 Sum_probs=38.5
Q ss_pred HHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC--C--hHHHHHHHHHHhCC
Q 030208 56 HAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG--D--AAKVICKEAERLKP 131 (181)
Q Consensus 56 ~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g--~--~~~~I~~~a~~~~~ 131 (181)
+.+...++.+...+.+++++--.+ +..++..+.+. +.. .++++... .| + -.+++++.+++.++
T Consensus 35 dl~~~l~~~~~~~~~~vfllG~~~--------~v~~~~~~~l~-~~y--P~l~i~g~--~g~f~~~~~~~i~~~I~~s~~ 101 (177)
T TIGR00696 35 DLMEELCQRAGKEKLPIFLYGGKP--------DVLQQLKVKLI-KEY--PKLKIVGA--FGPLEPEERKAALAKIARSGA 101 (177)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCH--------HHHHHHHHHHH-HHC--CCCEEEEE--CCCCChHHHHHHHHHHHHcCC
Confidence 455555555555566777764422 22223333322 211 23444332 33 2 23678888888899
Q ss_pred CEEEEecc
Q 030208 132 AAVVIGSR 139 (181)
Q Consensus 132 dliV~g~~ 139 (181)
|+|++|--
T Consensus 102 dil~VglG 109 (177)
T TIGR00696 102 GIVFVGLG 109 (177)
T ss_pred CEEEEEcC
Confidence 99999854
No 301
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=31.16 E-value=1.1e+02 Score=18.40 Aligned_cols=35 Identities=11% Similarity=0.066 Sum_probs=24.3
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVH 76 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llh 76 (181)
.+.+++.++.+..+.+..+.+ +.++..|+++..+.
T Consensus 47 ~~d~~i~iS~sg~t~~~~~~~-~~a~~~g~~ii~it 81 (87)
T cd04795 47 KGDVVIALSYSGRTEELLAAL-EIAKELGIPVIAIT 81 (87)
T ss_pred CCCEEEEEECCCCCHHHHHHH-HHHHHcCCeEEEEe
Confidence 467888888887776665544 66666677766554
No 302
>TIGR03183 DNA_S_dndC putative sulfurtransferase DndC. Members of this protein family are the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulfur-containing modification to DNA. This operon is sparsely and sporadically distributed among bactera; among the first eight examples are members from the Actinobacteria, Firmicutes, Gammaproteobacteria, Cyanobacteria. DndC is suggested to be a sulfurtransferase.
Probab=31.07 E-value=3.3e+02 Score=23.16 Aligned_cols=55 Identities=20% Similarity=0.281 Sum_probs=31.2
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccC-----CCEEEEEEEecCCchhhHHHHHHHHHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRL-----ADTIHLVHAVSSVQNQIVYDMSQGLMEK 96 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~-----~a~l~llhV~~~~~~~~~~~~~~~~l~~ 96 (181)
+..+|++++++.|-.++..+....... ...+++++.-..-......+..++.++.
T Consensus 14 ~p~vV~fSGGKDSta~L~Lv~~Al~~lp~e~~~k~v~VI~~DTgvE~Pe~~~~v~~~l~~ 73 (447)
T TIGR03183 14 IPWVVGYSGGKDSTAVLQLIWNALAALPAEQRTKKIHVISTDTLVENPIVAAWVNASLER 73 (447)
T ss_pred CceEEEeCCCHHHHHHHHHHHHHHHhccccccCcceEEEECcCCCccHHHHHHHHHHHHH
Confidence 457899999999998888776554322 1345555552222222333444444444
No 303
>PRK13964 coaD phosphopantetheine adenylyltransferase; Provisional
Probab=31.06 E-value=1.9e+02 Score=20.26 Aligned_cols=26 Identities=15% Similarity=0.128 Sum_probs=22.5
Q ss_pred HHHHHHHHhCCCEEEEeccCCCcccc
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQS 146 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~~ 146 (181)
-+.++|++.+++.+|-|-+..++++-
T Consensus 73 l~v~~~~~~~a~~ivrGlR~~~Dfey 98 (140)
T PRK13964 73 LTAEIAKKLGANFLIRSARNNIDFQY 98 (140)
T ss_pred cHHHHHHHCCCeEEEEecCCCccHHH
Confidence 45789999999999999999888763
No 304
>PRK09762 galactosamine-6-phosphate isomerase; Provisional
Probab=31.02 E-value=2.4e+02 Score=21.41 Aligned_cols=101 Identities=9% Similarity=0.096 Sum_probs=49.3
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccC--C-CEEEEEEEecC-CchhhHHHHHHHHHHHHHHHHhhhcCceE-EEEEecC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRL--A-DTIHLVHAVSS-VQNQIVYDMSQGLMEKLAIEAMDVAMVRT-KARIVEG 116 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~--~-a~l~llhV~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~i~~-~~~~~~g 116 (181)
..+.+++.+...-...++...+..... + .+++++++-+. .-.....+.-...+++ ..+...++.. .+....+
T Consensus 28 ~~~~l~lsgGstP~~~y~~L~~~~~~~~l~w~~v~~f~~DE~v~vp~~~~~Sn~~~~~~---~ll~~~~i~~~~~~~~~~ 104 (232)
T PRK09762 28 PDAVICLATGATPLLTYHYLVEKIHQQQVDVSQLTFVKLDEWVDLPLTMPGTCETFLQQ---HIVQPLGLREDQLISFRS 104 (232)
T ss_pred CCeEEEECCCCCHHHHHHHHHHHHhhcCCCHHHeEEEcCcEEecCCCCccHHHHHHHHH---HhcCCCCCCHHHEECCCC
Confidence 356778887777777777776654332 3 47777777653 1111111112222222 2222222221 1111111
Q ss_pred --ChHHHHHHHH---HHh-CCCEEEEeccCCCccc
Q 030208 117 --DAAKVICKEA---ERL-KPAAVVIGSRGRGLIQ 145 (181)
Q Consensus 117 --~~~~~I~~~a---~~~-~~dliV~g~~~~~~~~ 145 (181)
...++..+|. ++. ..|++++|--..+...
T Consensus 105 ~~~~~~~~~~y~~~i~~~~~~Dl~lLGmG~DGH~A 139 (232)
T PRK09762 105 EEINETECERVTNLIARKGGLDLCVLGLGKNGHLG 139 (232)
T ss_pred CcccHHHHHHHHHHHHhcCCCCEEEEccCCCCcee
Confidence 2234444443 222 6899999987666665
No 305
>TIGR02700 flavo_MJ0208 archaeoflavoprotein, MJ0208 family. This model describes one of two paralogous families of archaealflavoprotein. The other, described by TIGR02699 and typified by the partially characterized AF1518 of Archaeoglobus fulgidus, is a homodimeric FMN-containing flavoprotein that accepts electrons from ferredoxin and can transfer them to various oxidoreductases. The function of this protein family is unknown.
Probab=30.70 E-value=1.1e+02 Score=23.38 Aligned_cols=35 Identities=6% Similarity=-0.084 Sum_probs=26.5
Q ss_pred eEEEEEcCChhh-HHHHHHHHHHhccC-CCEEEEEEE
Q 030208 43 DILIAVDHGPNS-KHAFDWALIHLCRL-ADTIHLVHA 77 (181)
Q Consensus 43 ~Ilv~vd~s~~s-~~a~~~a~~la~~~-~a~l~llhV 77 (181)
+|++++.++..+ ..+++.+..|.+.+ |.+++++..
T Consensus 1 ~i~~~itGs~~~~~~~~~l~~~L~~~~~g~~V~vv~T 37 (234)
T TIGR02700 1 RIGWGITGAGHLLVESFQVMKELKREIEELRVSTFVS 37 (234)
T ss_pred CeEEEEeCccHhHHHHHHHHHHHHhhcCCCeEEEEEC
Confidence 589999997555 68888887777664 577777664
No 306
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=30.52 E-value=2.3e+02 Score=21.11 Aligned_cols=36 Identities=17% Similarity=0.062 Sum_probs=24.1
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSV 81 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~ 81 (181)
.++|+-+++.-.|.-|. +++...|.+++.||....+
T Consensus 4 gk~l~LlSGGiDSpVAa----~lm~krG~~V~~l~f~~~~ 39 (197)
T PF02568_consen 4 GKALALLSGGIDSPVAA----WLMMKRGCEVIALHFDSPP 39 (197)
T ss_dssp -EEEEE-SSCCHHHHHH----HHHHCBT-EEEEEEEE-TT
T ss_pred ceEEEEecCCccHHHHH----HHHHHCCCEEEEEEEECCC
Confidence 67899999998886554 4444569999999997543
No 307
>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=30.50 E-value=85 Score=26.23 Aligned_cols=50 Identities=20% Similarity=0.155 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.+.|.+..+.++.++|++-+..-+.+-+.-+.++++.+-.... +||+.+.
T Consensus 78 ~~aI~~~~~~~~P~~I~V~ttC~~~iIGdDi~~v~~~~~~~~~-~pvi~v~ 127 (426)
T cd01972 78 EDTIKEAYSRYKPKAIFVATSCATGIIGDDVESVVEELEDEIG-IPVVALH 127 (426)
T ss_pred HHHHHHHHHhCCCCEEEEECCChHHHhccCHHHHHHHHHHhhC-CCEEEEe
Confidence 3444444444455555555444444333333333333333334 5555554
No 308
>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=30.47 E-value=1.3e+02 Score=24.84 Aligned_cols=25 Identities=28% Similarity=0.579 Sum_probs=11.0
Q ss_pred CChHHHHHHHHH-HhCCCEEEEeccC
Q 030208 116 GDAAKVICKEAE-RLKPAAVVIGSRG 140 (181)
Q Consensus 116 g~~~~~I~~~a~-~~~~dliV~g~~~ 140 (181)
|+=.+.+++.++ +.+..++.+.+.+
T Consensus 102 GdDi~~v~~~~~~~~~~~vi~v~t~g 127 (410)
T cd01968 102 GDDIDAVCKTASEKFGIPVIPVHSPG 127 (410)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCC
Confidence 433344444332 3345555555444
No 309
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=30.45 E-value=59 Score=26.69 Aligned_cols=29 Identities=7% Similarity=-0.050 Sum_probs=23.7
Q ss_pred ChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 51 GPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 51 s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
...+++.+++|.++|+..+.+|+++|=.+
T Consensus 165 r~~~~Ri~r~Af~~A~~r~~~Vt~v~KaN 193 (358)
T PRK00772 165 REEIERIARVAFELARKRRKKVTSVDKAN 193 (358)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEECcc
Confidence 36789999999999988777888888544
No 310
>PRK11914 diacylglycerol kinase; Reviewed
Probab=30.45 E-value=2.7e+02 Score=21.88 Aligned_cols=34 Identities=12% Similarity=0.060 Sum_probs=20.0
Q ss_pred CCeEEEEEcCChh---hHHHHHHHHHHhccCCCEEEE
Q 030208 41 GRDILIAVDHGPN---SKHAFDWALIHLCRLADTIHL 74 (181)
Q Consensus 41 ~~~Ilv~vd~s~~---s~~a~~~a~~la~~~~a~l~l 74 (181)
++++++-++.... +.+.++...+..+..+.++.+
T Consensus 8 ~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~~~~ 44 (306)
T PRK11914 8 IGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVDVVE 44 (306)
T ss_pred CceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCeEEE
Confidence 5778887775543 345555555655555555544
No 311
>PLN02329 3-isopropylmalate dehydrogenase
Probab=30.39 E-value=62 Score=27.08 Aligned_cols=27 Identities=7% Similarity=-0.070 Sum_probs=22.5
Q ss_pred hhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 52 PNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
..+++.+++|.++|+..+.+++++|=.
T Consensus 211 ~~~eRI~r~AFe~A~~r~~kVT~v~Ka 237 (409)
T PLN02329 211 HEIDRIARVAFETARKRRGKLCSVDKA 237 (409)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEEECC
Confidence 679999999999998877788887743
No 312
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=30.06 E-value=2.8e+02 Score=21.94 Aligned_cols=82 Identities=12% Similarity=-0.022 Sum_probs=47.7
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEec-C---
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVE-G--- 116 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~-g--- 116 (181)
..+|.|-..++.+...++-.+.+--. .++++.++-...+. +.. ..+..++++...... .
T Consensus 89 ~~ri~vl~Sg~g~nl~al~~~~~~~~-~~~~i~~visn~~~------------~~~----lA~~~gIp~~~~~~~~~~~~ 151 (286)
T PRK13011 89 RPKVLIMVSKFDHCLNDLLYRWRIGE-LPMDIVGVVSNHPD------------LEP----LAAWHGIPFHHFPITPDTKP 151 (286)
T ss_pred CceEEEEEcCCcccHHHHHHHHHcCC-CCcEEEEEEECCcc------------HHH----HHHHhCCCEEEeCCCcCchh
Confidence 35899998888666666655543332 34555554443211 111 134445665532111 1
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
+....+.+..+..++|++|+...
T Consensus 152 ~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 152 QQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred hhHHHHHHHHHHhCcCEEEEeCh
Confidence 23456888899999999999975
No 313
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=29.91 E-value=53 Score=22.89 Aligned_cols=47 Identities=13% Similarity=-0.015 Sum_probs=25.3
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
..+.+.++++++++|.|++.-.....- . +... -..+++.. |.|.++|
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~~-~--i~~i-i~~~~~~~-v~v~~vP 175 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEEE-Q--IKRI-IEELENHG-VRVRVVP 175 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-HH-H--HHHH-HHHHHTTT--EEEE--
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCHH-H--HHHH-HHHHHhCC-CEEEEeC
Confidence 347889999999999999996643321 1 1112 24566777 8888886
No 314
>PF13362 Toprim_3: Toprim domain
Probab=29.86 E-value=1.5e+02 Score=18.71 Aligned_cols=38 Identities=24% Similarity=0.307 Sum_probs=25.8
Q ss_pred CCCeEEEEEcCChh--hHHHHHHHHHHhccCCCEEEEEEE
Q 030208 40 RGRDILIAVDHGPN--SKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~--s~~a~~~a~~la~~~~a~l~llhV 77 (181)
..++|+++.|.... ...+...+.+.+...+..+.++-.
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p 79 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP 79 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC
Confidence 45888999988766 666666666666666666655544
No 315
>TIGR01198 pgl 6-phosphogluconolactonase. This enzyme of the pentose phosphate pathway is often found as a part of a multifunctional protein with
Probab=29.85 E-value=2.5e+02 Score=21.29 Aligned_cols=106 Identities=14% Similarity=0.123 Sum_probs=59.3
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEE-EEEec--C-
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTK-ARIVE--G- 116 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~-~~~~~--g- 116 (181)
.+..+++.+...-...++..... ..+ .++++..+-+.--.....+.-...+++ ..++...+..+ +.... .
T Consensus 28 ~~~~lalsGGstp~~~y~~L~~~--~i~w~~v~~f~~DER~Vp~~~~~SN~~~~~~---~Ll~~~~i~~~~i~~~~~~~~ 102 (233)
T TIGR01198 28 GQFSLALSGGRSPIALLEALAAQ--PLDWSRIHLFLGDERYVPLDHADSNTGLARE---ALLDRVAIPASNIHPMPTELS 102 (233)
T ss_pred CcEEEEECCCccHHHHHHHHhhC--CCCcceEEEEEecccccCCCCccchHHHHHH---HHhccCCCChhheeeCCCccC
Confidence 46788998888877888777653 333 688888886643111111111122222 22222122211 12222 2
Q ss_pred ChHHHHHHHHHHh----C------CCEEEEeccCCCcccccccCch
Q 030208 117 DAAKVICKEAERL----K------PAAVVIGSRGRGLIQSVLQGSV 152 (181)
Q Consensus 117 ~~~~~I~~~a~~~----~------~dliV~g~~~~~~~~~~~~gs~ 152 (181)
++.++..+|.+.. + .|++++|--..+.....|-|+.
T Consensus 103 ~~~~~a~~y~~~i~~~~~~~~~p~fDl~lLGmG~DGHtASlFPg~~ 148 (233)
T TIGR01198 103 DIEEAAELYEQELAAAFQPIVFPVFDLLLLGMGPDGHTASLFPHTP 148 (233)
T ss_pred CHHHHHHHHHHHHHHhhcccCCCcccEEEECCcCCccceeCCCCCh
Confidence 4667777776443 2 3999999887777777777754
No 316
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=29.60 E-value=1.5e+02 Score=19.74 Aligned_cols=36 Identities=17% Similarity=0.151 Sum_probs=25.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
.+.++++++.+..+...++.+ +.|+..|+++..+.-
T Consensus 47 ~~dl~I~iS~SG~t~~~~~~~-~~a~~~g~~vi~iT~ 82 (120)
T cd05710 47 EKSVVILASHSGNTKETVAAA-KFAKEKGATVIGLTD 82 (120)
T ss_pred CCcEEEEEeCCCCChHHHHHH-HHHHHcCCeEEEEEC
Confidence 367899999887777666655 666667776666554
No 317
>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=29.42 E-value=1.1e+02 Score=25.80 Aligned_cols=55 Identities=22% Similarity=0.166 Sum_probs=35.5
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
...+.|.+..++++.++|++-+..-+.+-+.-+.++++++-.... +||+.|.-.+
T Consensus 108 kL~~~I~e~~~~~~P~~I~V~ttC~~~lIGdDi~~v~~e~~~~~~-~~vi~v~t~g 162 (456)
T TIGR01283 108 KLFHAIREIVERYHPPAVFVYSTCVPGLIGDDLEAVCKAAAEKTG-IPVIPVDSEG 162 (456)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCChHHHhcCCHHHHHHHHHHHhC-CCEEEEECCC
Confidence 456677777777777877777776666555445555555544556 7777776544
No 318
>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=29.40 E-value=2.6e+02 Score=21.44 Aligned_cols=76 Identities=11% Similarity=0.024 Sum_probs=44.0
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCC--chhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecC------ChHHHHHHH
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSV--QNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEG------DAAKVICKE 125 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g------~~~~~I~~~ 125 (181)
+..-++.++++|+..|++..++|..... ......+...+.++++.+ ..+..++.+..+...+ +..+.+.++
T Consensus 83 ~~~~~~~~i~~A~~lG~~~v~~~~g~~~~~~~~~~~~~~~~~l~~l~~-~a~~~gi~l~lEn~~~~~~~~~~t~~~~~~l 161 (279)
T cd00019 83 SIERLKDEIERCEELGIRLLVFHPGSYLGQSKEEGLKRVIEALNELID-KAETKGVVIALETMAGQGNEIGSSFEELKEI 161 (279)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHH-hccCCCCEEEEeCCCCCCCCCCCCHHHHHHH
Confidence 4566788899999999998777765432 112222333444444332 2334456655544332 234777788
Q ss_pred HHHhC
Q 030208 126 AERLK 130 (181)
Q Consensus 126 a~~~~ 130 (181)
.++.+
T Consensus 162 i~~v~ 166 (279)
T cd00019 162 IDLIK 166 (279)
T ss_pred HHhcC
Confidence 88754
No 319
>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=29.30 E-value=1.5e+02 Score=18.57 Aligned_cols=50 Identities=16% Similarity=0.105 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
.++.+++.++..+|++++...-.. ..+ -.+.+++-+..+++|++++-...
T Consensus 32 ~~~~~~~~~~~~~d~iiid~~~~~-~~~---~~~~~~i~~~~~~~~ii~~t~~~ 81 (112)
T PF00072_consen 32 GEEALELLKKHPPDLIIIDLELPD-GDG---LELLEQIRQINPSIPIIVVTDED 81 (112)
T ss_dssp HHHHHHHHHHSTESEEEEESSSSS-SBH---HHHHHHHHHHTTTSEEEEEESST
T ss_pred HHHHHHHhcccCceEEEEEeeecc-ccc---cccccccccccccccEEEecCCC
Confidence 555567778888999999966433 222 24455665555448998886543
No 320
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=29.25 E-value=1.3e+02 Score=21.46 Aligned_cols=37 Identities=14% Similarity=0.043 Sum_probs=27.0
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.+.+++.++.+..+...++.+ +.|+..|+++..+.-.
T Consensus 101 ~~Dv~I~iS~SG~t~~~i~~~-~~ak~~Ga~vI~IT~~ 137 (177)
T cd05006 101 PGDVLIGISTSGNSPNVLKAL-EAAKERGMKTIALTGR 137 (177)
T ss_pred CCCEEEEEeCCCCCHHHHHHH-HHHHHCCCEEEEEeCC
Confidence 367889998888887777766 6666677777666543
No 321
>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase. S-methyltransferase (MetE, EC 2.1.1.14, the cobalamin-independent methionine synthase) and betaine-homocysteine methyltransferase.
Probab=29.19 E-value=5.3e+02 Score=25.09 Aligned_cols=71 Identities=10% Similarity=0.026 Sum_probs=46.4
Q ss_pred HHHHHHHhhhcCceEEEEEecC--ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 95 EKLAIEAMDVAMVRTKARIVEG--DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 95 ~~~~~~~~~~~~i~~~~~~~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+.+..-.++..|.++. .-| -+.+.|++.++++++|+|.|..--...... +..+.+.+-+....+||+|--.
T Consensus 749 KnIV~~~L~~~GfeVI---dLG~dVp~e~iv~aa~e~~~diVgLS~Lmt~t~~~--m~~vi~~L~~~g~~v~v~vGGa 821 (1178)
T TIGR02082 749 KNIVGVVLSCNGYEVV---DLGVMVPIEKILEAAKDHNADVIGLSGLITPSLDE--MKEVAEEMNRRGITIPLLIGGA 821 (1178)
T ss_pred HHHHHHHHHhCCCEEE---ECCCCCCHHHHHHHHHHhCCCEEEEcCcccccHHH--HHHHHHHHHhcCCCceEEEecc
Confidence 4455566666666543 344 579999999999999999998654444433 2455555555544377777543
No 322
>COG0163 UbiX 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]
Probab=29.07 E-value=1.7e+02 Score=21.74 Aligned_cols=36 Identities=14% Similarity=0.135 Sum_probs=26.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
.++|+|++.+......+++....+.. .+.+++++-.
T Consensus 2 ~~riivgisGASG~iygvrlLe~L~~-~~~e~hlviS 37 (191)
T COG0163 2 MKRIIVGISGASGAIYGVRLLEVLRE-LGVETHLVIS 37 (191)
T ss_pred CcEEEEEEeccccHHHHHHHHHHHHh-cCceEEEEEc
Confidence 47899999999998888888755544 3566666543
No 323
>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=28.96 E-value=76 Score=22.20 Aligned_cols=40 Identities=25% Similarity=0.364 Sum_probs=26.3
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
|...+...+....+ +|+||+-...++ ..+.+..++. +||+
T Consensus 81 ~Esl~Dtar~ls~~-~D~iv~R~~~~~---------~~~~~a~~~~-vPVI 120 (142)
T PF02729_consen 81 GESLEDTARVLSRY-VDAIVIRHPSHG---------ALEELAEHSS-VPVI 120 (142)
T ss_dssp SSEHHHHHHHHHHH-CSEEEEEESSHH---------HHHHHHHHCS-SEEE
T ss_pred CCCHHHHHHHHHHh-hheEEEEeccch---------HHHHHHHhcc-CCeE
Confidence 44455555565565 898888755332 3467788888 8886
No 324
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=28.84 E-value=1.2e+02 Score=19.99 Aligned_cols=34 Identities=15% Similarity=0.172 Sum_probs=20.2
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVH 76 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llh 76 (181)
+.+++.++.+-++...++.+ +.|+..|+++..+.
T Consensus 44 ~dl~I~iS~SG~t~e~i~~~-~~a~~~g~~iI~IT 77 (119)
T cd05017 44 KTLVIAVSYSGNTEETLSAV-EQAKERGAKIVAIT 77 (119)
T ss_pred CCEEEEEECCCCCHHHHHHH-HHHHHCCCEEEEEe
Confidence 56777777776666665554 44555566554444
No 325
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=28.81 E-value=1.7e+02 Score=24.47 Aligned_cols=56 Identities=11% Similarity=-0.052 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGTS 174 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~~ 174 (181)
-.+.|.+.+++.++|-||.-....-....+-...+-+.+..... +|+|.+-..+..
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~~~~~l~e~~G-IP~L~iE~D~~d 393 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSAGQLLMMREIEKRTG-KPAAFIETDLVD 393 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchhhhHHHHHHHHHHcC-CCEEEEEcCCCC
Confidence 57889999999999999998876544433222233345555578 999999655543
No 326
>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=28.63 E-value=1.8e+02 Score=21.20 Aligned_cols=18 Identities=28% Similarity=0.141 Sum_probs=8.2
Q ss_pred HHHHHHHHHhCCCEEEEe
Q 030208 120 KVICKEAERLKPAAVVIG 137 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g 137 (181)
+.+++.+++.++|+|+++
T Consensus 31 ~~~~~~~~~~~~d~i~~~ 48 (223)
T cd00840 31 EEIVELAIEEKVDFVLIA 48 (223)
T ss_pred HHHHHHHHhcCCCEEEEC
Confidence 444444444445544443
No 327
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=28.62 E-value=64 Score=26.30 Aligned_cols=30 Identities=13% Similarity=0.117 Sum_probs=25.2
Q ss_pred CChhhHHHHHHHHHHhccC-CCEEEEEEEec
Q 030208 50 HGPNSKHAFDWALIHLCRL-ADTIHLVHAVS 79 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~-~a~l~llhV~~ 79 (181)
....+++.+++|.++|+.. ..+++.+|=.+
T Consensus 154 Tr~~~eRI~r~AFe~A~~R~~kkvTsv~KaN 184 (348)
T COG0473 154 TRKGSERIARFAFELARKRGRKKVTSVHKAN 184 (348)
T ss_pred cHHHHHHHHHHHHHHHHhhCCCceEEEehhh
Confidence 3477999999999999998 58999998644
No 328
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=28.57 E-value=54 Score=28.55 Aligned_cols=23 Identities=13% Similarity=0.137 Sum_probs=20.4
Q ss_pred ChHHHHHHHHHHhCCCEEEEecc
Q 030208 117 DAAKVICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~ 139 (181)
...++|+.+|++.++|||++|-.
T Consensus 39 ~tFeEIl~iA~e~~VDmiLlGGD 61 (646)
T KOG2310|consen 39 VTFEEILEIAQENDVDMILLGGD 61 (646)
T ss_pred HHHHHHHHHHHhcCCcEEEecCc
Confidence 35699999999999999999964
No 329
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=28.46 E-value=1.2e+02 Score=23.50 Aligned_cols=37 Identities=16% Similarity=0.081 Sum_probs=28.9
Q ss_pred CCCCeEEEEEcCChhhHHHHHHHHHHhccCC-CEEEEE
Q 030208 39 RRGRDILIAVDHGPNSKHAFDWALIHLCRLA-DTIHLV 75 (181)
Q Consensus 39 ~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~-a~l~ll 75 (181)
....-|++.+|.|..|....+...+++...+ .+++++
T Consensus 154 ~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V 191 (255)
T COG3640 154 EGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVV 191 (255)
T ss_pred cCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEE
Confidence 3457788899999888888888889988888 555444
No 330
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=28.39 E-value=2.4e+02 Score=21.49 Aligned_cols=34 Identities=6% Similarity=0.082 Sum_probs=27.1
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
.+|+|++++.+.|..++..+.+. +.++.++++..
T Consensus 41 ~~i~vs~SGGKDS~vlL~L~~~~----~~~i~vvfiDT 74 (241)
T PRK02090 41 GRLALVSSFGAEDAVLLHLVAQV----DPDIPVIFLDT 74 (241)
T ss_pred CCEEEEecCCHHHHHHHHHHHhc----CCCCcEEEecC
Confidence 56999999999999988887764 45688888844
No 331
>PRK01060 endonuclease IV; Provisional
Probab=28.32 E-value=2.8e+02 Score=21.31 Aligned_cols=77 Identities=8% Similarity=0.013 Sum_probs=41.9
Q ss_pred hhHHHHHHHHHHhccCCCEEEEEEEecCCchh---hHHHHHHHHHHHHHHHHhhhcCceEEEEEec------CChHHHHH
Q 030208 53 NSKHAFDWALIHLCRLADTIHLVHAVSSVQNQ---IVYDMSQGLMEKLAIEAMDVAMVRTKARIVE------GDAAKVIC 123 (181)
Q Consensus 53 ~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~------g~~~~~I~ 123 (181)
.+...++.++++|+..|+...++|.-...... ...+...+.++++.. ...++.+..+... ++..+.+.
T Consensus 86 ~s~~~~~~~i~~A~~lga~~vv~h~G~~~~~~~~~~~~~~~~e~l~~l~~---~~~gv~l~iEn~~~~~~~~~~~~~~~~ 162 (281)
T PRK01060 86 KSRDFLIQEIERCAALGAKLLVFHPGSHLGDIDEEDCLARIAESLNEALD---KTQGVTIVLENTAGQGSELGRRFEELA 162 (281)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEcCCcCCCCCcHHHHHHHHHHHHHHHHh---cCCCCEEEEecCCCCCCcccCCHHHHH
Confidence 45667888899999999998888864321111 112222333333221 2234544443322 23456777
Q ss_pred HHHHHhCCC
Q 030208 124 KEAERLKPA 132 (181)
Q Consensus 124 ~~a~~~~~d 132 (181)
++.+..+.+
T Consensus 163 ~l~~~v~~~ 171 (281)
T PRK01060 163 RIIDGVEDK 171 (281)
T ss_pred HHHHhcCCc
Confidence 777775543
No 332
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=28.23 E-value=1.4e+02 Score=24.93 Aligned_cols=57 Identities=21% Similarity=0.298 Sum_probs=45.7
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCCccc--ccccCchhhHHHhcC---CCccEEEEcCCCC
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGRGLIQ--SVLQGSVGEYCLHHC---KTAPIIVVPGKGT 173 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~--~~~~gs~~~~ll~~~---~~~pVlvv~~~~~ 173 (181)
....+.+..+++..++..+|+|..-.+..+ +.++.++++++.++. . -|++++-..+.
T Consensus 257 ~~sleaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~g~Pf~-~P~~llsGGET 318 (422)
T COG2379 257 RLSLEAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARRGRPFK-KPVVLLSGGET 318 (422)
T ss_pred HHHHHHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHcCCCCC-CCEEEEECCce
Confidence 467888999999999999999987665544 357899999999988 6 88888865543
No 333
>PRK00766 hypothetical protein; Provisional
Probab=28.23 E-value=2.4e+02 Score=21.06 Aligned_cols=57 Identities=21% Similarity=0.201 Sum_probs=33.6
Q ss_pred ceEEEEEecC-ChHHHHHHHHHH----hCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEE
Q 030208 107 VRTKARIVEG-DAAKVICKEAER----LKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 107 i~~~~~~~~g-~~~~~I~~~a~~----~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv 168 (181)
+-.....+.| |..+.|+++.+. .+..+|++.--.-+++.= --.+.|-+.+. .||++|
T Consensus 43 v~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNv----vD~~~l~~~tg-~PVI~V 104 (194)
T PRK00766 43 VLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNV----VDIEELYRETG-LPVIVV 104 (194)
T ss_pred EEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEE----ecHHHHHHHHC-CCEEEE
Confidence 3444445566 888888888765 244456555333333221 01246777777 888888
No 334
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=28.12 E-value=1.4e+02 Score=21.14 Aligned_cols=122 Identities=13% Similarity=0.009 Sum_probs=62.5
Q ss_pred CeEEEEEcCC----hhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhH-------HHHHHHHHHHHHHHHhhhcCceEE
Q 030208 42 RDILIAVDHG----PNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIV-------YDMSQGLMEKLAIEAMDVAMVRTK 110 (181)
Q Consensus 42 ~~Ilv~vd~s----~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~i~~~ 110 (181)
+...+++... ......++.+++.|+..+....++...+.+..... ....++.+ +.++..|++.-
T Consensus 5 ~~~~v~iG~FDGvH~GHq~Li~~~~~~a~~~~~~~~v~tF~~~P~~~~~~~~~~~~l~s~~ek~-----~~l~~~Gvd~~ 79 (157)
T PF06574_consen 5 KKSVVAIGNFDGVHLGHQKLIKKAVEIAKEKGLKSVVLTFDPHPKEVLNPDKPPKLLTSLEEKL-----ELLESLGVDYV 79 (157)
T ss_dssp S-EEEEES--TT--HHHHHHHHHHHHHHHHCT-EEEEEEESS-CHHHHSCTCCGGBSS-HHHHH-----HHHHHTTESEE
T ss_pred CCcEEEEeCCCCccHHHHHHHHHHhhhhhhcccceEEEEcccCHHHHhcCCCcccCCCCHHHHH-----HHHHHcCCCEE
Confidence 4445555322 67889999999999998988888877654321111 11122222 33344455544
Q ss_pred EEEec-----C-ChHHHHHHHHH-HhCCCEEEEeccCCCcccccccCch--hhHHHhcCCCccEEEEcCC
Q 030208 111 ARIVE-----G-DAAKVICKEAE-RLKPAAVVIGSRGRGLIQSVLQGSV--GEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 111 ~~~~~-----g-~~~~~I~~~a~-~~~~dliV~g~~~~~~~~~~~~gs~--~~~ll~~~~~~pVlvv~~~ 171 (181)
..+-. . ++.+-|-.+.. ..++.-||+|..-+=+-.+. |.+ -.++.+... ..|.+++.-
T Consensus 80 ~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ivvG~DfrFG~~~~--G~~~~L~~~~~~~g-~~v~~v~~~ 146 (157)
T PF06574_consen 80 IVIPFTEEFANLSPEDFIEKILKEKLNVKHIVVGEDFRFGKNRS--GDVELLKELGKEYG-FEVEVVPPV 146 (157)
T ss_dssp EEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEEEETT-EESGGGE--EEHHHHHHCTTTT--SEEEEE---
T ss_pred EEecchHHHHcCCHHHHHHHHHHhcCCccEEEEccCccCCCCCC--CCHHHHHHhcccCc-eEEEEECCE
Confidence 33321 3 55666666555 88999999997633222221 222 122333334 788888754
No 335
>TIGR00364 exsB protein. 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=28.02 E-value=2.4e+02 Score=20.57 Aligned_cols=23 Identities=26% Similarity=0.287 Sum_probs=18.5
Q ss_pred HHHHHHHHHhCCCEEEEeccCCC
Q 030208 120 KVICKEAERLKPAAVVIGSRGRG 142 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~~~~ 142 (181)
..+..+|++.+++.|++|.+...
T Consensus 101 ~~a~~~A~~~g~~~v~~G~~~~d 123 (201)
T TIGR00364 101 SIAASYAEALGAEAVITGVCETD 123 (201)
T ss_pred HHHHHHHHHCCCCEEEEEeccCc
Confidence 44668899999999999987533
No 336
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=27.98 E-value=2.2e+02 Score=22.20 Aligned_cols=40 Identities=18% Similarity=0.161 Sum_probs=27.6
Q ss_pred HHHHHhhhcCceEEEEEecCChHHHHHH---HHHHhCCCEEEEe
Q 030208 97 LAIEAMDVAMVRTKARIVEGDAAKVICK---EAERLKPAAVVIG 137 (181)
Q Consensus 97 ~~~~~~~~~~i~~~~~~~~g~~~~~I~~---~a~~~~~dliV~g 137 (181)
++.+.+...|+.+......||-.+.|.+ .+.++ +|+||..
T Consensus 25 ~la~~L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~r-~D~vI~t 67 (255)
T COG1058 25 FLADELTELGVDLARITTVGDNPDRIVEALREASER-ADVVITT 67 (255)
T ss_pred HHHHHHHhcCceEEEEEecCCCHHHHHHHHHHHHhC-CCEEEEC
Confidence 4445556667888888888876666555 45555 8998876
No 337
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=27.93 E-value=1.1e+02 Score=18.17 Aligned_cols=9 Identities=22% Similarity=0.516 Sum_probs=3.6
Q ss_pred EEEEEcCCh
Q 030208 44 ILIAVDHGP 52 (181)
Q Consensus 44 Ilv~vd~s~ 52 (181)
|.+++|...
T Consensus 50 Iii~~D~D~ 58 (76)
T smart00493 50 VILATDPDR 58 (76)
T ss_pred EEEEcCCCh
Confidence 444444333
No 338
>cd00458 SugarP_isomerase SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium, the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate. 6PGL converts 6-phosphoglucono-1,5-lactone to 6-phosphogluconate, the second step of the oxidative phase of the pentose phosphate pathway.
Probab=27.80 E-value=2.3e+02 Score=20.21 Aligned_cols=38 Identities=16% Similarity=0.103 Sum_probs=26.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC-CEEEEEEEec
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA-DTIHLVHAVS 79 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~-a~l~llhV~~ 79 (181)
+...+++.+...-...++...+.....+ .+++++++.+
T Consensus 20 ~~~~i~lsgGsTp~~~y~~L~~~~~~~~w~~v~~f~~DE 58 (169)
T cd00458 20 DDMVIGLGTGSTPAYFYKLLGEKLKRGEISDIVGFPTDE 58 (169)
T ss_pred CCEEEEECCCccHHHHHHHHHhhhhhCCccceEEEECcc
Confidence 4678888888777788887766644322 4678777755
No 339
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=27.78 E-value=3.9e+02 Score=22.84 Aligned_cols=87 Identities=14% Similarity=0.039 Sum_probs=49.6
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAK 120 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~ 120 (181)
.++|++-.|....-..+...+....++.|.++++.-...-..... . .. .....+.+.-+.+-.|...-
T Consensus 36 ~~~I~I~~d~DaDGitS~ail~~~L~~~g~~~~~~ip~~~~~~~g-------~----~~-~~~~~~~~liItvD~G~~~~ 103 (491)
T COG0608 36 GEKILIYGDYDADGITSAAILAKALRRLGADVDYYIPNRFEEGYG-------A----IR-KLKEEGADLIITVDNGSGSL 103 (491)
T ss_pred CCEEEEEEecCcccHHHHHHHHHHHHHcCCceEEEeCCCccccch-------H----HH-HHHhcCCCEEEEECCCcccH
Confidence 477888877775555555555566666666555544433211111 1 11 11222344555566676666
Q ss_pred HHHHHHHHhCCCEEEEecc
Q 030208 121 VICKEAERLKPAAVVIGSR 139 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~ 139 (181)
.-++++++.+.|.||.-.|
T Consensus 104 ~~i~~~~~~g~~vIVtDHH 122 (491)
T COG0608 104 EEIARAKELGIDVIVTDHH 122 (491)
T ss_pred HHHHHHHhCCCcEEEECCC
Confidence 6666676778888888877
No 340
>PRK13936 phosphoheptose isomerase; Provisional
Probab=27.64 E-value=1.4e+02 Score=21.90 Aligned_cols=37 Identities=14% Similarity=0.097 Sum_probs=25.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.+.+++.++.+..+...++.+ +.|+..|+++..+.-.
T Consensus 111 ~~Dv~i~iS~sG~t~~~~~~~-~~ak~~g~~iI~IT~~ 147 (197)
T PRK13936 111 PGDVLLAISTSGNSANVIQAI-QAAHEREMHVVALTGR 147 (197)
T ss_pred CCCEEEEEeCCCCcHHHHHHH-HHHHHCCCeEEEEECC
Confidence 467888888887776666555 6666677776666543
No 341
>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=27.45 E-value=77 Score=26.00 Aligned_cols=63 Identities=22% Similarity=0.167 Sum_probs=44.5
Q ss_pred ceEEEEEec--CChHHHHHHHH--HHhCC-CEEEEeccCCCc----ccccccCchhhHHHhcCCCccEEEEcC
Q 030208 107 VRTKARIVE--GDAAKVICKEA--ERLKP-AAVVIGSRGRGL----IQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 107 i~~~~~~~~--g~~~~~I~~~a--~~~~~-dliV~g~~~~~~----~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
..+....-+ ||....|..++ .-+++ =++++|.+|..+ .++.++|.++..+|.... +|..+++.
T Consensus 52 ~~~v~mQnSGlGn~vN~l~SL~~~~~y~iP~l~~i~~RG~~g~~depqh~~~G~~t~~lL~~~~-i~~~~~~~ 123 (361)
T TIGR03297 52 RAAVYMQNSGLGNAVNPLTSLADTEVYDIPLLLIVGWRGEPGVHDEPQHVKQGRITLSLLDALE-IPWEVLST 123 (361)
T ss_pred ccEEEEecCchhhhhhHHHhhccccccCcCeeEEEecCCCCCCCCCchhhHHhHHHHHHHHHcC-CCEEECCC
Confidence 444443333 47888888885 33343 347788888654 345678999999999999 99999964
No 342
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=27.09 E-value=2.1e+02 Score=23.89 Aligned_cols=13 Identities=15% Similarity=0.166 Sum_probs=7.3
Q ss_pred hHHHhcCCCccEEE
Q 030208 154 EYCLHHCKTAPIIV 167 (181)
Q Consensus 154 ~~ll~~~~~~pVlv 167 (181)
..++.... +-|+-
T Consensus 94 ~~~l~~~g-i~vl~ 106 (407)
T PRK10966 94 RDLLAFLN-TTVIA 106 (407)
T ss_pred HHHHHHCC-cEEEe
Confidence 46666665 55443
No 343
>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=27.03 E-value=2.1e+02 Score=21.75 Aligned_cols=21 Identities=19% Similarity=0.115 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHhCCCEEEEec
Q 030208 118 AAKVICKEAERLKPAAVVIGS 138 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~ 138 (181)
..+.+++.+++.++|+||+.-
T Consensus 19 ~le~l~~~~~~~~~D~vv~~G 39 (224)
T cd07388 19 ALEKLVGLAPETGADAIVLIG 39 (224)
T ss_pred HHHHHHHHHhhcCCCEEEECC
Confidence 346666666666777777653
No 344
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=26.96 E-value=1.3e+02 Score=25.66 Aligned_cols=54 Identities=19% Similarity=0.103 Sum_probs=29.3
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
...+.|.+..+..+.++|++-+..-+.+-+.-+.++++.+-.... +||+.|.-.
T Consensus 106 kL~~~I~ei~~~~~P~~I~V~tTC~~~lIGdDi~~v~~~~~~~~~-~pvi~v~t~ 159 (475)
T PRK14478 106 KLFKAIDEIIEKYAPPAVFVYQTCVVALIGDDIDAVCKRAAEKFG-IPVIPVNSP 159 (475)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCChHHHhccCHHHHHHHHHHhhC-CCEEEEECC
Confidence 345566666666666666666655555444444444444444445 666666433
No 345
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=26.95 E-value=1.9e+02 Score=18.99 Aligned_cols=36 Identities=8% Similarity=0.168 Sum_probs=26.0
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
.+.+++.++.+..+...++.+. .++..|.++.++.-
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~-~ak~~g~~vi~iT~ 88 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLR-FAKERGAPVILITS 88 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHH-HHHHTTSEEEEEES
T ss_pred ccceeEeeeccccchhhhhhhH-HHHhcCCeEEEEeC
Confidence 3678888888877777777775 77777887754443
No 346
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=26.73 E-value=1.3e+02 Score=18.84 Aligned_cols=19 Identities=5% Similarity=-0.057 Sum_probs=9.0
Q ss_pred HHHHHHHHHHhCCCEEEEe
Q 030208 119 AKVICKEAERLKPAAVVIG 137 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g 137 (181)
.+.|.++|+++++.++.++
T Consensus 42 ~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 42 TEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHHHHcCCCEEEEC
Confidence 3344444555555554444
No 347
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=26.72 E-value=1.7e+02 Score=19.85 Aligned_cols=39 Identities=15% Similarity=0.304 Sum_probs=29.1
Q ss_pred hCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 129 LKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 129 ~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
.+.+.||+|+-..+.+ -++.-+....+.-. |-|.+.|-+
T Consensus 60 e~~E~ivvGTG~~G~l---~l~~ea~e~~r~k~-~~vi~~pT~ 98 (121)
T COG1504 60 EGPEVIVVGTGQSGML---ELSEEAREFFRKKG-CEVIELPTP 98 (121)
T ss_pred cCCcEEEEecCceeEE---EeCHHHHHHHHhcC-CeEEEeCCH
Confidence 5799999997644433 25677788888888 999888743
No 348
>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=26.51 E-value=2.5e+02 Score=20.29 Aligned_cols=88 Identities=11% Similarity=-0.007 Sum_probs=45.6
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccC--CCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRL--ADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~--~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
|++-+-++..+..+.+.+..+.+.. +-++.+....+.. ...+.+++ .++....+++-+-..+...+.++.
T Consensus 3 ~V~vtld~~~~~al~~aa~~l~~~~~p~l~l~~~~~~el~-------~~~~~~~~-~~~aia~ADii~~smlF~ed~v~~ 74 (164)
T PF11965_consen 3 FVIVTLDEHYNSALYRAAARLNRDHCPGLELSVFAAAELE-------RDPEALEE-CEAAIARADIIFGSMLFIEDHVRP 74 (164)
T ss_pred EEEEeCchhhhHHHHHHHHHHhhccCCCeEEEEEeHHHhh-------cChHHHHH-HHHHHHhCCEEEeehhhhHHHHHH
Confidence 4444444445556666666666552 3455544443321 12223343 234444445555555555567777
Q ss_pred HHHHHHHh--CCCEEEEecc
Q 030208 122 ICKEAERL--KPAAVVIGSR 139 (181)
Q Consensus 122 I~~~a~~~--~~dliV~g~~ 139 (181)
|....+.+ ++|.+|+-..
T Consensus 75 l~~~L~~~r~~~~a~i~~~s 94 (164)
T PF11965_consen 75 LLPALEARRDHCPAMIIFES 94 (164)
T ss_pred HHHHHHHHHccCCEEEEEcC
Confidence 77776655 6777666554
No 349
>PRK08299 isocitrate dehydrogenase; Validated
Probab=26.41 E-value=60 Score=27.10 Aligned_cols=28 Identities=4% Similarity=-0.221 Sum_probs=23.0
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
....+++.+++|.++|+..+.+++++|=
T Consensus 183 Tr~~~eRIa~~AF~~A~~r~~kVt~v~K 210 (402)
T PRK08299 183 LDESIRDFARASFNYGLDRKYPVYLSTK 210 (402)
T ss_pred cHHHHHHHHHHHHHHHHHcCCCEEEECC
Confidence 3458999999999999888877777764
No 350
>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=26.27 E-value=2.7e+02 Score=20.50 Aligned_cols=60 Identities=3% Similarity=0.003 Sum_probs=37.6
Q ss_pred HHHHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhc
Q 030208 97 LAIEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHH 159 (181)
Q Consensus 97 ~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~ 159 (181)
+....++..|.++... -..-+.+.+++.+++.++|+|.+..........+ ..+.+.+-+.
T Consensus 103 ~v~~~l~~~G~~vi~L-G~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~~--~~~i~~l~~~ 162 (197)
T TIGR02370 103 IVVTMLRANGFDVIDL-GRDVPIDTVVEKVKKEKPLMLTGSALMTTTMYGQ--KDINDKLKEE 162 (197)
T ss_pred HHHHHHHhCCcEEEEC-CCCCCHHHHHHHHHHcCCCEEEEccccccCHHHH--HHHHHHHHHc
Confidence 3445556656554321 1235789999999999999999997655544432 4444444444
No 351
>PRK06247 pyruvate kinase; Provisional
Probab=26.23 E-value=2.2e+02 Score=24.50 Aligned_cols=46 Identities=22% Similarity=0.191 Sum_probs=34.9
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
......+.|+..++.+||+-++ -|+++..+.+.-+.|||+.+-+..
T Consensus 357 ia~sa~~~A~~l~a~~Iv~~T~---------sG~ta~~isk~RP~~pI~a~t~~~ 402 (476)
T PRK06247 357 ISYAARDIAERLDLAALVAYTS---------SGDTALRAARERPPLPILALTPNP 402 (476)
T ss_pred HHHHHHHHHHhCCCCEEEEEcC---------CcHHHHHHHhhCCCCCEEEECCCH
Confidence 4556667788889998888754 277888898887779999996543
No 352
>PLN02476 O-methyltransferase
Probab=26.21 E-value=2.2e+02 Score=22.49 Aligned_cols=44 Identities=18% Similarity=0.131 Sum_probs=30.7
Q ss_pred HHHHhhhcCceEEEEEecCChHHHHHHHHHH---hCCCEEEEeccCC
Q 030208 98 AIEAMDVAMVRTKARIVEGDAAKVICKEAER---LKPAAVVIGSRGR 141 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~---~~~dliV~g~~~~ 141 (181)
+++.++..++.-.+.+..|+..+.+-++..+ ..+|+|++.....
T Consensus 159 Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K~ 205 (278)
T PLN02476 159 AKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADKR 205 (278)
T ss_pred HHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCHH
Confidence 4444555566656677789999888776532 4699999998743
No 353
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=26.19 E-value=1.7e+02 Score=20.47 Aligned_cols=35 Identities=14% Similarity=0.097 Sum_probs=23.4
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
+.+++.++.+-.+...++.+ +.|+..|+++..+.-
T Consensus 80 ~D~~i~iS~sG~t~~~~~~~-~~a~~~g~~ii~iT~ 114 (154)
T TIGR00441 80 GDVLLGISTSGNSKNVLKAI-EAAKDKGMKTITLAG 114 (154)
T ss_pred CCEEEEEcCCCCCHHHHHHH-HHHHHCCCEEEEEeC
Confidence 56788887776666666555 666666776666654
No 354
>PRK14561 hypothetical protein; Provisional
Probab=26.04 E-value=2.7e+02 Score=20.44 Aligned_cols=32 Identities=16% Similarity=-0.029 Sum_probs=21.6
Q ss_pred eEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 43 DILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 43 ~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
+|+|++++...|.-++..+.++ .++.++|+..
T Consensus 2 kV~ValSGG~DSslll~~l~~~-----~~v~a~t~~~ 33 (194)
T PRK14561 2 KAGVLFSGGKDSSLAAILLERF-----YDVELVTVNF 33 (194)
T ss_pred EEEEEEechHHHHHHHHHHHhc-----CCeEEEEEec
Confidence 4889999998887776655433 3456666644
No 355
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=25.91 E-value=1.7e+02 Score=21.76 Aligned_cols=38 Identities=21% Similarity=0.218 Sum_probs=28.8
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
...+++.++.+-.+...++ +.+.|+..|.++..+.-..
T Consensus 109 ~gDvli~iS~SG~s~~v~~-a~~~Ak~~G~~vI~IT~~~ 146 (196)
T PRK10886 109 AGDVLLAISTRGNSRDIVK-AVEAAVTRDMTIVALTGYD 146 (196)
T ss_pred CCCEEEEEeCCCCCHHHHH-HHHHHHHCCCEEEEEeCCC
Confidence 4779999999877766555 4488888898888777644
No 356
>COG5214 POL12 DNA polymerase alpha-primase complex, polymerase-associated subunit B [DNA replication, recombination, and repair]
Probab=25.76 E-value=1.1e+02 Score=25.78 Aligned_cols=64 Identities=13% Similarity=0.295 Sum_probs=41.8
Q ss_pred CChHHHHHHHHHHhCCCEEEEecc-----------C------CCcccccccCchhhHHHhcCCCcc-EEEEcCCCCCCCC
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSR-----------G------RGLIQSVLQGSVGEYCLHHCKTAP-IIVVPGKGTSPSC 177 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~-----------~------~~~~~~~~~gs~~~~ll~~~~~~p-Vlvv~~~~~~~~~ 177 (181)
+++....++++..+++|++||-.. | .+.++++|..-+ .-++.+.. || .+++|+..+...|
T Consensus 322 ~~pl~~~id~vn~n~vdvlIl~GPFidi~h~li~~G~~~~t~~~~l~ElF~~r~-tpiL~~~~-~p~~vLIPstnDa~s~ 399 (581)
T COG5214 322 GSPLFDAIDRVNANDVDVLILIGPFIDINHILIQYGATQSTPDSMLKELFIPRI-TPILDRNA-GPKAVLIPSTNDATSC 399 (581)
T ss_pred cChHHHHHHHhccCCccEEEEeccccCcchhhhhhCCCCCCChhHHHHHHHHhh-hHHHhccC-CCceEEeccccchhhc
Confidence 457788899999889998887532 1 112233333333 45777888 89 7788888776666
Q ss_pred CCCC
Q 030208 178 IPCF 181 (181)
Q Consensus 178 ~~~~ 181 (181)
.++|
T Consensus 400 h~a~ 403 (581)
T COG5214 400 HNAF 403 (581)
T ss_pred cccC
Confidence 6554
No 357
>PTZ00300 pyruvate kinase; Provisional
Probab=25.26 E-value=2e+02 Score=24.48 Aligned_cols=45 Identities=18% Similarity=0.223 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
......+.|...++++||+=++ -|.++..+.+.-+.||++.+-+.
T Consensus 336 ia~sa~~~a~~l~a~aIiv~T~---------sG~tA~~vs~~RP~~pIia~t~~ 380 (454)
T PTZ00300 336 VCSSAVNSVYETKAKALVVLSN---------TGRSARLVAKYRPNCPIVCVTTR 380 (454)
T ss_pred HHHHHHHHHHhCCCCEEEEECC---------CcHHHHHHHhhCCCCCEEEECCC
Confidence 4456667788889998887654 27788889998777999998543
No 358
>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=25.22 E-value=3.1e+02 Score=20.89 Aligned_cols=51 Identities=14% Similarity=0.134 Sum_probs=26.0
Q ss_pred cCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 115 EGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 115 ~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
.|+..+.++... .++|++++-.+.+....++| ++++-.+.-.|+|..+-.+
T Consensus 102 vg~~~e~~~~~~--~~iDF~vVDc~~~d~~~~vl------~~~~~~~~GaVVV~~Na~~ 152 (218)
T PF07279_consen 102 VGEAPEEVMPGL--KGIDFVVVDCKREDFAARVL------RAAKLSPRGAVVVCYNAFS 152 (218)
T ss_pred ecCCHHHHHhhc--cCCCEEEEeCCchhHHHHHH------HHhccCCCceEEEEecccc
Confidence 465444444333 35888888877544331221 2333332255666665544
No 359
>PLN02285 methionyl-tRNA formyltransferase
Probab=25.14 E-value=3.4e+02 Score=21.95 Aligned_cols=97 Identities=8% Similarity=0.015 Sum_probs=44.6
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCC-hHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGD-AAK 120 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~-~~~ 120 (181)
.+|++.-+. ..+...++...+..+..+..+.++.|+..+....... ......-..+...+.++.......... -.+
T Consensus 7 ~kI~f~Gt~-~fa~~~L~~L~~~~~~~~~~~~iv~Vvt~~~~~~gr~--~~~~~~pv~~~A~~~gIp~~~v~~~~~~~~~ 83 (334)
T PLN02285 7 KRLVFLGTP-EVAATVLDALLDASQAPDSAFEVAAVVTQPPARRGRG--RKLMPSPVAQLALDRGFPPDLIFTPEKAGEE 83 (334)
T ss_pred cEEEEEECC-HHHHHHHHHHHhhhhccCCCCeEEEEEeCCCCcccCC--cccCCCHHHHHHHHcCCCcceecCccccCCH
Confidence 446665433 2344555555544443333456666665432211100 000000011222334565332211121 234
Q ss_pred HHHHHHHHhCCCEEEEeccCC
Q 030208 121 VICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~ 141 (181)
.+++..+..++|++|+...++
T Consensus 84 ~~~~~l~~~~~Dliv~~~~~~ 104 (334)
T PLN02285 84 DFLSALRELQPDLCITAAYGN 104 (334)
T ss_pred HHHHHHHhhCCCEEEhhHhhh
Confidence 567777888999999997643
No 360
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=25.14 E-value=2.9e+02 Score=20.97 Aligned_cols=43 Identities=23% Similarity=0.194 Sum_probs=28.7
Q ss_pred HHHHhhhcCceEEEEEec-CChHHHHHHHHHHhCCCEEEEeccCC
Q 030208 98 AIEAMDVAMVRTKARIVE-GDAAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 98 ~~~~~~~~~i~~~~~~~~-g~~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
+++.+...++.-.+.... |+..+.+.+ -....+|+|.+-+...
T Consensus 100 A~~n~~~ag~~~~i~~~~~gdal~~l~~-~~~~~fDliFIDadK~ 143 (219)
T COG4122 100 ARENLAEAGVDDRIELLLGGDALDVLSR-LLDGSFDLVFIDADKA 143 (219)
T ss_pred HHHHHHHcCCcceEEEEecCcHHHHHHh-ccCCCccEEEEeCChh
Confidence 445555656665555666 688888887 2234589999987643
No 361
>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=24.94 E-value=1.1e+02 Score=25.28 Aligned_cols=49 Identities=6% Similarity=-0.025 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhhhcCceEEEEEec------CChHHHHHHHHH-HhCCCEEEEeccC
Q 030208 92 GLMEKLAIEAMDVAMVRTKARIVE------GDAAKVICKEAE-RLKPAAVVIGSRG 140 (181)
Q Consensus 92 ~~l~~~~~~~~~~~~i~~~~~~~~------g~~~~~I~~~a~-~~~~dliV~g~~~ 140 (181)
+.+++...+..+....+.-..+.. |+-.+.+++.++ +.+..+|.+-+.+
T Consensus 73 ~~L~~aI~ei~~~~~P~~I~V~sTCv~e~IGDDi~~v~~~~~~~~~~pvi~v~t~g 128 (396)
T cd01979 73 AELDRVVTQIKRDRNPSVIFLIGSCTTEVIKMDLEGAAPRLSAEIGVPILVASASG 128 (396)
T ss_pred HHHHHHHHHHHHhcCCCEEEEECCCHHHHHhcCHHHHHHHHhhcCCCcEEEeeCCC
Confidence 444554555555433333222211 555555555554 4466777766554
No 362
>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=24.91 E-value=1.1e+02 Score=25.82 Aligned_cols=50 Identities=10% Similarity=0.090 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
.+.|++++++.++|++|.|--=..+--+..-|.++..+-.+.. +|++.-=
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrYG~acg~va~aV~e~~~-IP~vt~M 114 (431)
T TIGR01918 65 VARVLEMLKDKEPDIFIAGPAFNAGRYGVACGEICKVVQDKLN-VPAVTSM 114 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccHHHHHHHHHHHHHHhhC-CCeEEEe
Confidence 3678899999999999999542222222345677777788888 9988654
No 363
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=24.87 E-value=3e+02 Score=20.62 Aligned_cols=87 Identities=14% Similarity=0.079 Sum_probs=41.9
Q ss_pred EEEcCChhhHHHHHHHHHHhccCCCEEE-EEEEecCCchhhH-HHHHHHHHHHHHHHHhhhcCceEEEEEecC---C---
Q 030208 46 IAVDHGPNSKHAFDWALIHLCRLADTIH-LVHAVSSVQNQIV-YDMSQGLMEKLAIEAMDVAMVRTKARIVEG---D--- 117 (181)
Q Consensus 46 v~vd~s~~s~~a~~~a~~la~~~~a~l~-llhV~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g---~--- 117 (181)
+.+++...|--++.++.+ .|.+++ ++++......... .....+. ++...+..+++....-..+ .
T Consensus 2 vl~SGGkDS~~al~~a~~----~G~~v~~l~~~~~~~~~~~~~~~~~~~~----~~~~A~~lgip~~~i~~~~~~~~~~~ 73 (218)
T TIGR03679 2 ALYSGGKDSNYALYKALE----EGHEVRCLITVVPENEESYMFHTPNIEL----TRLQAEALGIPLVKIETSGEKEKEVE 73 (218)
T ss_pred eeecCcHHHHHHHHHHHH----cCCEEEEEEEeccCCCCccccCCCCHHH----HHHHHHHhCCCEEEEECCCCChHHHH
Confidence 456777777777766655 355665 5566543211101 1111112 2222333345544332222 1
Q ss_pred -hHHHHHHHHHHhCCCEEEEeccCC
Q 030208 118 -AAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 118 -~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
....+.++ ++.+++.|+.|.-..
T Consensus 74 ~l~~~l~~~-~~~g~~~vv~G~i~s 97 (218)
T TIGR03679 74 DLKGALKEL-KREGVEGIVTGAIAS 97 (218)
T ss_pred HHHHHHHHH-HHcCCCEEEECCccc
Confidence 22333333 334899999998643
No 364
>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=24.73 E-value=1.1e+02 Score=25.79 Aligned_cols=51 Identities=6% Similarity=-0.010 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+.|++++++.++|++|.|--=..+--+..-|.++..+-.+.. +|++.-=.
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrYG~acg~va~aV~e~~~-IP~vtaMy 115 (431)
T TIGR01917 65 KAKVLEMIKGANPDIFIAGPAFNAGRYGMAAGAITKAVQDELG-IKAFTAMY 115 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccHHHHHHHHHHHHHHhhC-CCeEEEec
Confidence 3678899999999999999542222222345677777788888 99886543
No 365
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=24.53 E-value=3.2e+02 Score=20.87 Aligned_cols=89 Identities=4% Similarity=-0.087 Sum_probs=53.0
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCc--eEEEEEecCChHHHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMV--RTKARIVEGDAAKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i--~~~~~~~~g~~~~~I~~~a~~~~~ 131 (181)
..+-.+|.-.+++. |+.+..+|+-... .+.+..+.. ++.|. +.-..+--+.+.+.+..+... .
T Consensus 77 v~~P~~~i~~~~~a-Gad~It~H~Ea~~-----------~~~~~l~~I-k~~g~~~kaGlalnP~Tp~~~i~~~l~~--v 141 (228)
T PRK08091 77 VRDQFEVAKACVAA-GADIVTLQVEQTH-----------DLALTIEWL-AKQKTTVLIGLCLCPETPISLLEPYLDQ--I 141 (228)
T ss_pred cCCHHHHHHHHHHh-CCCEEEEcccCcc-----------cHHHHHHHH-HHCCCCceEEEEECCCCCHHHHHHHHhh--c
Confidence 33456677666654 7788888884321 122222222 22334 555555567899999999998 8
Q ss_pred CEEEEeccCCCcccccccCchhhHHH
Q 030208 132 AAVVIGSRGRGLIQSVLQGSVGEYCL 157 (181)
Q Consensus 132 dliV~g~~~~~~~~~~~~gs~~~~ll 157 (181)
|+|.+=+...++-.+.|..+..++|-
T Consensus 142 D~VLiMtV~PGfgGQ~f~~~~l~KI~ 167 (228)
T PRK08091 142 DLIQILTLDPRTGTKAPSDLILDRVI 167 (228)
T ss_pred CEEEEEEECCCCCCccccHHHHHHHH
Confidence 87777666555545555555545444
No 366
>PRK08417 dihydroorotase; Provisional
Probab=24.48 E-value=62 Score=26.58 Aligned_cols=26 Identities=0% Similarity=-0.236 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEec
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~ 79 (181)
...++..++.+|+..++++|++|+..
T Consensus 180 E~~~v~~~~~la~~~~~~lhi~hvS~ 205 (386)
T PRK08417 180 ETKEVAKMKELAKFYKNKVLFDTLAL 205 (386)
T ss_pred HHHHHHHHHHHHHHhCCCEEEEeCCC
Confidence 34678899999999999999999965
No 367
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=24.32 E-value=1.2e+02 Score=17.66 Aligned_cols=23 Identities=9% Similarity=-0.046 Sum_probs=17.1
Q ss_pred hhhHHHHHHHHHHhccC-CCEEEE
Q 030208 52 PNSKHAFDWALIHLCRL-ADTIHL 74 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~-~a~l~l 74 (181)
+.-..|+++|.++|+.. +++|.+
T Consensus 26 ~Tk~eAi~~Ar~~a~~~~~~el~I 49 (62)
T PF09954_consen 26 DTKAEAIEAARELAKNQGGGELII 49 (62)
T ss_pred CcHHHHHHHHHHHHHhCCCcEEEE
Confidence 45678999999999886 555543
No 368
>COG0358 DnaG DNA primase (bacterial type) [DNA replication, recombination, and repair]
Probab=24.14 E-value=2.3e+02 Score=24.83 Aligned_cols=32 Identities=19% Similarity=0.223 Sum_probs=24.5
Q ss_pred CCCCeEEEEEcCChhhHHHHHHHHHHhccCCC
Q 030208 39 RRGRDILIAVDHGPNSKHAFDWALIHLCRLAD 70 (181)
Q Consensus 39 ~~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a 70 (181)
++-++|++|.|+...-..|+..+.+.+...+.
T Consensus 288 r~~~~vil~fDgD~AG~~Aa~ral~~~~~~~~ 319 (568)
T COG0358 288 RGKKKVILCFDGDRAGRKAAKRALQLVLPLDF 319 (568)
T ss_pred hcCCCEEEEeCChHHHHHHHHHHHHHhhhhcc
Confidence 34577999999998888888878776655543
No 369
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=24.12 E-value=1.8e+02 Score=19.92 Aligned_cols=34 Identities=18% Similarity=0.170 Sum_probs=21.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEE
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLV 75 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~ll 75 (181)
...+|+.++.|-.+...++.+ +.|+..|..+..+
T Consensus 103 ~gDvli~iS~SG~s~~vi~a~-~~Ak~~G~~vIal 136 (138)
T PF13580_consen 103 PGDVLIVISNSGNSPNVIEAA-EEAKERGMKVIAL 136 (138)
T ss_dssp TT-EEEEEESSS-SHHHHHHH-HHHHHTT-EEEEE
T ss_pred CCCEEEEECCCCCCHHHHHHH-HHHHHCCCEEEEE
Confidence 467888888887776666655 6666677766654
No 370
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=24.07 E-value=2e+02 Score=22.06 Aligned_cols=55 Identities=24% Similarity=0.368 Sum_probs=34.8
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCch--hh-----HHHhcCCCccEEEEcCCCCCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSV--GE-----YCLHHCKTAPIIVVPGKGTSPS 176 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~--~~-----~ll~~~~~~pVlvv~~~~~~~~ 176 (181)
...+.++..+.+.++|++|++-.-- -+-+|.. +. .-+.... .||+.+|..++.+.
T Consensus 17 ~~~~k~~~~~~~~~~D~lviaGDlt----~~~~~~~~~~~~~~~~e~l~~~~-~~v~avpGNcD~~~ 78 (226)
T COG2129 17 DSLKKLLNAAADIRADLLVIAGDLT----YFHFGPKEVAEELNKLEALKELG-IPVLAVPGNCDPPE 78 (226)
T ss_pred HHHHHHHHHHhhccCCEEEEeccee----hhhcCchHHHHhhhHHHHHHhcC-CeEEEEcCCCChHH
Confidence 3468888888888899999984322 1111221 11 2344456 99999998877554
No 371
>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ. This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr
Probab=23.95 E-value=2.2e+02 Score=21.30 Aligned_cols=51 Identities=18% Similarity=0.182 Sum_probs=33.7
Q ss_pred HHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCC
Q 030208 120 KVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
..+.+.+++.++|.|++......+...-..-...+++.+... .||+..-.-
T Consensus 156 ~~~~~~~~~~G~d~i~i~~i~~~g~~~g~~~~~~~~i~~~~~-ipvia~GGi 206 (232)
T TIGR03572 156 VEWAREAEQLGAGEILLNSIDRDGTMKGYDLELIKTVSDAVS-IPVIALGGA 206 (232)
T ss_pred HHHHHHHHHcCCCEEEEeCCCccCCcCCCCHHHHHHHHhhCC-CCEEEECCC
Confidence 456666777799988888754443222223355677888888 999887543
No 372
>TIGR00127 nadp_idh_euk isocitrate dehydrogenase, NADP-dependent, eukaryotic type. This model does not discriminate cytosolic, mitochondrial, and chloroplast proteins. However, the model starts very near the amino end of the cytosolic form; the finding of additional amino-terminal sequence may indicate a transit peptide.
Probab=23.83 E-value=79 Score=26.50 Aligned_cols=29 Identities=3% Similarity=-0.218 Sum_probs=23.7
Q ss_pred CChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 50 HGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
....+++.+++|.++|+..+.+|+++|=.
T Consensus 184 T~~~~eRIar~AF~~A~~~~~~Vt~v~Ka 212 (409)
T TIGR00127 184 TDESIEGFAHSSFQLALEKKWPLYLSTKN 212 (409)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCEEEEcCc
Confidence 34789999999999998888777777743
No 373
>PLN02461 Probable pyruvate kinase
Probab=23.82 E-value=2.2e+02 Score=24.70 Aligned_cols=43 Identities=21% Similarity=0.333 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
......+.|.+.++.+||+=++ -|.++..+.+.-+.|||+.+-
T Consensus 383 ia~sav~~A~~l~a~aIiv~T~---------sG~tA~~iSk~RP~~pIia~t 425 (511)
T PLN02461 383 LASSAVRTANKVKASLIVVLTR---------GGTTARLVAKYRPAVPILSVV 425 (511)
T ss_pred HHHHHHHHHHhCCCCEEEEECC---------CcHHHHHHHhhCCCCCEEEEe
Confidence 4556667788889998888755 277888999987779999994
No 374
>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=23.81 E-value=3.5e+02 Score=20.97 Aligned_cols=113 Identities=12% Similarity=0.058 Sum_probs=57.8
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe-cCCc------hhhHHHHHHHHHHHH---HHHHhhhcCceEEE
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV-SSVQ------NQIVYDMSQGLMEKL---AIEAMDVAMVRTKA 111 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~-~~~~------~~~~~~~~~~~l~~~---~~~~~~~~~i~~~~ 111 (181)
...=++-.+.......++..+++|+.+|..|= -|.. ++.. .....++....+... +..+....+.+...
T Consensus 28 ~saNIACG~HAGDp~~M~~tv~lA~~~gV~iG-AHPsyPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~a~~~g~~l~h 106 (242)
T PF03746_consen 28 SSANIACGFHAGDPETMRRTVRLAKEHGVAIG-AHPSYPDREGFGRRSMDISPEELRDSVLYQIGALQAIAAAEGVPLHH 106 (242)
T ss_dssp SEEEEE-SSSS--HHHHHHHHHHHHHTT-EEE-EE---S-TTTTT-S-----HHHHHHHHHHHHHHHHHHHHHTT--EEE
T ss_pred hhHHHhhcccccCHHHHHHHHHHHHHcCCEec-cCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCeeEE
Confidence 44456666777788899999999999886544 3442 2221 111122222222221 12333444555554
Q ss_pred EEec----------CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEE
Q 030208 112 RIVE----------GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 112 ~~~~----------g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
.--. ....+.|++.++..+.++.++|.. ||...+..+... .+++
T Consensus 107 VKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a----------gs~~~~~A~~~G-l~~~ 160 (242)
T PF03746_consen 107 VKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA----------GSELEKAAKELG-LPVV 160 (242)
T ss_dssp E---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET----------TSHHHHHHHHCT---EE
T ss_pred ecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC----------CcHHHHHHHHCC-CcEE
Confidence 3322 245788999999999999999965 566667777666 6654
No 375
>KOG0784 consensus Isocitrate dehydrogenase, gamma subunit [Amino acid transport and metabolism]
Probab=23.55 E-value=93 Score=25.40 Aligned_cols=28 Identities=14% Similarity=0.116 Sum_probs=23.9
Q ss_pred hhhHHHHHHHHHHhccCC-CEEEEEEEec
Q 030208 52 PNSKHAFDWALIHLCRLA-DTIHLVHAVS 79 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~-a~l~llhV~~ 79 (181)
..+++..+||.++|..+| .+++.+|=..
T Consensus 184 ~kseRIaryAF~yA~k~gRKkVTaVHKAn 212 (375)
T KOG0784|consen 184 FKSERIARYAFEYAKKNGRKKVTAVHKAN 212 (375)
T ss_pred hhhHHHHHHHHHHHHHhCCceEEEEeccC
Confidence 568999999999998887 4999999644
No 376
>PLN02417 dihydrodipicolinate synthase
Probab=23.50 E-value=3.6e+02 Score=21.03 Aligned_cols=85 Identities=8% Similarity=-0.044 Sum_probs=40.0
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCCh--HHHHHHHHHHhCC
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDA--AKVICKEAERLKP 131 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~--~~~I~~~a~~~~~ 131 (181)
...+++.-++.....|.+=.++.-..........++..+.++...+. .. ..+.+-.-+-.-+. .-.+.+.|++.++
T Consensus 20 D~~~~~~~i~~l~~~Gv~Gi~~~GstGE~~~ls~~Er~~~~~~~~~~-~~-~~~pvi~gv~~~~t~~~i~~a~~a~~~Ga 97 (280)
T PLN02417 20 DLEAYDSLVNMQIENGAEGLIVGGTTGEGQLMSWDEHIMLIGHTVNC-FG-GKIKVIGNTGSNSTREAIHATEQGFAVGM 97 (280)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECccCcchhhCCHHHHHHHHHHHHHH-hC-CCCcEEEECCCccHHHHHHHHHHHHHcCC
Confidence 44555555555444453333322222222233345555555543333 22 22443322211123 3444556789999
Q ss_pred CEEEEeccC
Q 030208 132 AAVVIGSRG 140 (181)
Q Consensus 132 dliV~g~~~ 140 (181)
|.+++....
T Consensus 98 dav~~~~P~ 106 (280)
T PLN02417 98 HAALHINPY 106 (280)
T ss_pred CEEEEcCCc
Confidence 999998653
No 377
>COG0707 MurG UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]
Probab=23.49 E-value=4.2e+02 Score=21.73 Aligned_cols=101 Identities=17% Similarity=0.153 Sum_probs=55.6
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
+..++-+.+|..+...-+...+........+.++|...... +++ ........++ ++. -...+.
T Consensus 183 ~~~ilV~GGS~Ga~~ln~~v~~~~~~l~~~~~v~~~~G~~~-----------~~~-~~~~~~~~~~-~~v----~~f~~d 245 (357)
T COG0707 183 KKTILVTGGSQGAKALNDLVPEALAKLANRIQVIHQTGKND-----------LEE-LKSAYNELGV-VRV----LPFIDD 245 (357)
T ss_pred CcEEEEECCcchhHHHHHHHHHHHHHhhhCeEEEEEcCcch-----------HHH-HHHHHhhcCc-EEE----eeHHhh
Confidence 55677778888887755555555544444799999876431 111 1122222222 221 123344
Q ss_pred HHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 122 ICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 122 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
+.++-+. +||+|-- .| +++...++... .|+++||..+-
T Consensus 246 m~~~~~~--ADLvIsR-aG---------a~Ti~E~~a~g--~P~IliP~p~~ 283 (357)
T COG0707 246 MAALLAA--ADLVISR-AG---------ALTIAELLALG--VPAILVPYPPG 283 (357)
T ss_pred HHHHHHh--ccEEEeC-Cc---------ccHHHHHHHhC--CCEEEeCCCCC
Confidence 5555555 7777753 21 23444555544 79999987654
No 378
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=23.43 E-value=90 Score=25.50 Aligned_cols=29 Identities=14% Similarity=0.102 Sum_probs=23.0
Q ss_pred ChhhHHHHHHHHHHhccCC-CEEEEEEEec
Q 030208 51 GPNSKHAFDWALIHLCRLA-DTIHLVHAVS 79 (181)
Q Consensus 51 s~~s~~a~~~a~~la~~~~-a~l~llhV~~ 79 (181)
...+++.+++|.++|+..+ .+++++|=.+
T Consensus 159 r~~~~RIa~~AF~~A~~r~~k~Vt~v~KaN 188 (344)
T PRK03437 159 AFGVERVVRDAFERAQKRPRKHLTLVHKTN 188 (344)
T ss_pred HHHHHHHHHHHHHHHHhCCCCeEEEEECCc
Confidence 3778999999999998875 4688888543
No 379
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=23.41 E-value=4.6e+02 Score=22.26 Aligned_cols=115 Identities=9% Similarity=-0.010 Sum_probs=55.3
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVIC 123 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~ 123 (181)
.+++..+.--+--+...|..+.. .+.++-++..-. . . -.+.+.+. ...+..++.+.......+..+.|-
T Consensus 245 ~LVGptGvGKTTTiaKLA~~L~~-~GkkVglI~aDt-~-R----iaAvEQLk----~yae~lgipv~v~~d~~~L~~aL~ 313 (436)
T PRK11889 245 ALIGPTGVGKTTTLAKMAWQFHG-KKKTVGFITTDH-S-R----IGTVQQLQ----DYVKTIGFEVIAVRDEAAMTRALT 313 (436)
T ss_pred EEECCCCCcHHHHHHHHHHHHHH-cCCcEEEEecCC-c-c----hHHHHHHH----HHhhhcCCcEEecCCHHHHHHHHH
Confidence 34555666556666666766653 355566554421 1 0 01111222 222233455442211123444443
Q ss_pred HHHHHhCCCEEEEeccCCCcccccccCchhhHHHhc-CCCccEEEEcC
Q 030208 124 KEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHH-CKTAPIIVVPG 170 (181)
Q Consensus 124 ~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~-~~~~pVlvv~~ 170 (181)
.+.+..+.|+|++-+-|++......+... .+++.. .+.-.+|++..
T Consensus 314 ~lk~~~~~DvVLIDTaGRs~kd~~lm~EL-~~~lk~~~PdevlLVLsA 360 (436)
T PRK11889 314 YFKEEARVDYILIDTAGKNYRASETVEEM-IETMGQVEPDYICLTLSA 360 (436)
T ss_pred HHHhccCCCEEEEeCccccCcCHHHHHHH-HHHHhhcCCCeEEEEECC
Confidence 44344579999999998876544333444 234432 33123566654
No 380
>KOG2584 consensus Dihydroorotase and related enzymes [Nucleotide transport and metabolism]
Probab=23.36 E-value=95 Score=26.35 Aligned_cols=29 Identities=17% Similarity=0.134 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHhccCCCEEEEEEEecCCc
Q 030208 54 SKHAFDWALIHLCRLADTIHLVHAVSSVQ 82 (181)
Q Consensus 54 s~~a~~~a~~la~~~~a~l~llhV~~~~~ 82 (181)
..+|...|+.+|++.+..++++||....+
T Consensus 231 EaEA~~rai~ia~~~ncPlyvvhVmsksa 259 (522)
T KOG2584|consen 231 EAEATNRAITIARQANCPLYVVHVMSKSA 259 (522)
T ss_pred hHHHHHHHHHHHHhcCCCcceEEEeehhH
Confidence 44789999999999999999999987543
No 381
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=23.35 E-value=1.8e+02 Score=20.80 Aligned_cols=37 Identities=16% Similarity=0.203 Sum_probs=27.5
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEe
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAV 78 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~ 78 (181)
.+.+++.++.+..+...++.+ +.|+..|+++..+.-.
T Consensus 75 ~~D~vI~iS~sG~t~~~i~~~-~~ak~~g~~iI~IT~~ 111 (179)
T cd05005 75 PGDLLIAISGSGETSSVVNAA-EKAKKAGAKVVLITSN 111 (179)
T ss_pred CCCEEEEEcCCCCcHHHHHHH-HHHHHCCCeEEEEECC
Confidence 477899999988887777655 6777778877666553
No 382
>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=23.20 E-value=2e+02 Score=18.07 Aligned_cols=43 Identities=9% Similarity=0.004 Sum_probs=21.5
Q ss_pred HHHhhhcCceEEEEEecCChHHHHHHHHHHhCCCEEEEeccCC
Q 030208 99 IEAMDVAMVRTKARIVEGDAAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
+...+..|+.+.++.....-.+.-+.-.+-..+|++|+.....
T Consensus 21 ~~aA~~~G~~i~VE~qg~~g~~~~lt~~~i~~Ad~viia~d~~ 63 (85)
T TIGR00829 21 EKAAKKRGWEVKVETQGSVGAQNALTAEDIAAADGVILAADRE 63 (85)
T ss_pred HHHHHHCCCeEEEEecCCcCccCCCCHHHHHhCCEEEEeccCC
Confidence 3334445555555544333222223222223499999987654
No 383
>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=23.14 E-value=1e+02 Score=25.09 Aligned_cols=80 Identities=13% Similarity=0.175 Sum_probs=45.7
Q ss_pred ChhhHHHHHHHHHHhccC-CCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHHHHHHh
Q 030208 51 GPNSKHAFDWALIHLCRL-ADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICKEAERL 129 (181)
Q Consensus 51 s~~s~~a~~~a~~la~~~-~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~~ 129 (181)
.+.+++.+++|.++|+.. ..+++++|=.+.-. . .+...+..++..++ +..++.++... ..+....|+.-=+
T Consensus 159 ~~~~eRi~r~AF~~A~~r~~k~Vt~v~KaNvl~--~-~~lf~~~~~eva~~--~yp~I~~~~~~-vD~~~~~Lv~~P~-- 230 (348)
T PF00180_consen 159 REGIERIARFAFEYARKRGRKKVTVVHKANVLK--S-TDLFREVFQEVAKQ--EYPDIEVEHML-VDAAAMQLVKNPE-- 230 (348)
T ss_dssp HHHHHHHHHHHHHHHHHTTTSEEEEEESTTTST--T-HHHHHHHHHHHHHH--THTTSEEEEEE-HHHHHHHHHHSGG--
T ss_pred cchhhHHHHHHHHHHHHhCCceEEEEeccchhH--H-HHHHHHHHHHHHHh--hcceeEeeeee-chhhhheeecCCc--
Confidence 377999999999999998 67999998644211 1 11233333332221 23456666543 2344444444443
Q ss_pred CCCEEEEec
Q 030208 130 KPAAVVIGS 138 (181)
Q Consensus 130 ~~dliV~g~ 138 (181)
+.|.||+..
T Consensus 231 ~fdViv~~N 239 (348)
T PF00180_consen 231 QFDVIVTPN 239 (348)
T ss_dssp GESEEEEEH
T ss_pred ceeEEeecc
Confidence 478666653
No 384
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=22.95 E-value=4.2e+02 Score=21.56 Aligned_cols=10 Identities=20% Similarity=0.265 Sum_probs=4.5
Q ss_pred CeEEEEEcCC
Q 030208 42 RDILIAVDHG 51 (181)
Q Consensus 42 ~~Ilv~vd~s 51 (181)
+++|+-+|.+
T Consensus 30 ~~~livtd~~ 39 (366)
T PRK09423 30 KRALVIADEF 39 (366)
T ss_pred CEEEEEEChh
Confidence 4444444433
No 385
>PF02952 Fucose_iso_C: L-fucose isomerase, C-terminal domain; InterPro: IPR015888 L-fucose isomerase (5.3.1.25 from EC) converts the aldose L-fucose into the corresponding ketose L-fuculose during the first step in fucose metabolism using Mn2+ as a cofactor. The enzyme is a hexamer, forming the largest structurally known ketol isomerase, and has no sequence or structural similarity with other ketol isomerases. The structure was determined by X-ray crystallography at 2.5 A resolution []. This entry represents the C-terminal domain of L-fucose isomerase.; GO: 0008736 L-fucose isomerase activity, 0006004 fucose metabolic process, 0005737 cytoplasm; PDB: 1FUI_E 3A9R_A 3A9T_C 3A9S_C.
Probab=22.93 E-value=1.5e+02 Score=20.31 Aligned_cols=31 Identities=23% Similarity=0.192 Sum_probs=21.7
Q ss_pred CceEEEEEecCChHHHHHHHHHHhCCCEEEE
Q 030208 106 MVRTKARIVEGDAAKVICKEAERLKPAAVVI 136 (181)
Q Consensus 106 ~i~~~~~~~~g~~~~~I~~~a~~~~~dliV~ 136 (181)
++.-+..+..|+..++|..+++..+++.+.|
T Consensus 111 g~~hH~~~~~G~~~~~l~~~~~~lgi~v~~~ 141 (142)
T PF02952_consen 111 GIAHHVALVYGDYAEELKELAKYLGIEVVEM 141 (142)
T ss_dssp -SSSEEEEEES--HHHHHHHHHHHT--EE-E
T ss_pred CCCCeEEEEcCcHHHHHHHHHHHcCCEEEEc
Confidence 4566778889999999999999999988765
No 386
>TIGR02873 spore_ylxY probable sporulation protein, polysaccharide deacetylase family. Members of this protein family are most closely related to TIGR02764, a subset of polysaccharide deacetylase family proteins found in a species if and only if the species forms endospores like those of Bacillus subtilis or Clostridium tetani. This family is likewise restricted to spore-formers, but is not universal among them in having sequences with full-length matches to the model.
Probab=22.87 E-value=3.7e+02 Score=20.95 Aligned_cols=130 Identities=8% Similarity=-0.031 Sum_probs=71.4
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCch--h------------------------hHHHHHHHHH
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQN--Q------------------------IVYDMSQGLM 94 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~--~------------------------~~~~~~~~~l 94 (181)
.+.|.+.+|..+.. .-...++.+.+.++.+-+++-+-..-.. . ...++..+.+
T Consensus 84 ~k~VaLTFDdg~~~-~~t~~iL~iLkk~~vkATFFv~G~~i~~~p~l~k~i~~~GheIGnHT~sH~~l~~ls~~~~~~Ei 162 (268)
T TIGR02873 84 KPMVALLINVAWGN-EYLPEILQILKKHDVKATFFLEGKWVKENSQLAKMIVEQGHEIGNHAYNHPDMATLSKEEIYDQI 162 (268)
T ss_pred CCEEEEEEeCCCCc-chHHHHHHHHHHCCCCEEEEeehHhhhHCHHHHHHHHHCCCEEEecCCcCCCcccCCHHHHHHHH
Confidence 47789989987655 3445666777778877776665321100 0 0112223333
Q ss_pred HHHHHHHhhhcCceEEE-EEecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 95 EKLAIEAMDVAMVRTKA-RIVEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 95 ~~~~~~~~~~~~i~~~~-~~~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
.+..+.+.+..+....+ +.-.|.....+++.+++.+...+.. +-...++...-...+.++++++..+-.|++++...
T Consensus 163 ~~~~~~i~~~~G~~p~~fRpP~G~~n~~~~~~l~~~G~~~v~W-svd~~Dw~~~~~~~i~~~v~~~~~~G~IILmHd~~ 240 (268)
T TIGR02873 163 NQTNEIIEATIGVTPKWFAPPSGSFNDNVVQIAADLQMGTIMW-TVDTIDWKNPSPSVMVNRVLSKIHPGAMVLMHPTA 240 (268)
T ss_pred HHHHHHHHHHhCCCCCEEECCCCCCCHHHHHHHHHCCCeEEEe-ccCCCCCCCCCHHHHHHHHHhcCCCCcEEEEcCCc
Confidence 33222222222333332 2235788889999999988776533 33333443322234456677766557888887643
No 387
>PF09370 TIM-br_sig_trns: TIM-barrel signal transduction protein; InterPro: IPR009215 Members of this family are predicted to have a TIM barrel fold, based on PSI-BLAST analysis (iteration 4) and on SCOP prediction (using SMART). Interestingly, this novel domain also exists as an N-terminal domain of sigma54-dependent transcriptional activators (enhancer-binding proteins). Because sigma54 dependent activators typically have a three-domain structure: the variable N-terminal regulatory (activation) domain involved in signal recognition/receiving, the central AAA-type ATPase domain, and the DNA-binding domain (see PIRSF003187 from PIRSF, PIRSF005263 from PIRSF, PIRSF003184 from PIRSF, PIRSF005263 from PIRSF, IPR014443 from INTERPRO for details), the proteins of the current entry may be predicted to play a role in signal recognition/receiving and signal transduction.; PDB: 2P10_C.
Probab=22.86 E-value=1.8e+02 Score=22.86 Aligned_cols=50 Identities=26% Similarity=0.371 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCC------Ccccccc-cCch-------hhHHHhcCCCccEEE
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGR------GLIQSVL-QGSV-------GEYCLHHCKTAPIIV 167 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~------~~~~~~~-~gs~-------~~~ll~~~~~~pVlv 167 (181)
-.--..++++..++|+|++-..++ +.+..++ +|.. +++++-..++.||+.
T Consensus 23 GtGlsAk~ae~gGaDlI~~ynsGrfR~~G~~SlagllpygnaN~iv~em~~eiLp~v~~tPVia 86 (268)
T PF09370_consen 23 GTGLSAKCAEKGGADLILIYNSGRFRMAGRGSLAGLLPYGNANEIVMEMAREILPVVKDTPVIA 86 (268)
T ss_dssp SSHHHHHHHHHTT-SEEEE-HHHHHHHTT--GGGGGBTEEEHHHHHHHHHHHHGGG-SSS-EEE
T ss_pred ccchhhHHHHhcCCCEEEEecchhHhhCCCcchhhhhcccCHhHHHHHHHHhhhhhccCCCEEE
Confidence 344456788999999999987643 3333322 2221 356666666677775
No 388
>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=22.82 E-value=2.3e+02 Score=23.63 Aligned_cols=25 Identities=20% Similarity=0.141 Sum_probs=12.7
Q ss_pred CChHHHHHHHHHH-----hCCCEEEEeccC
Q 030208 116 GDAAKVICKEAER-----LKPAAVVIGSRG 140 (181)
Q Consensus 116 g~~~~~I~~~a~~-----~~~dliV~g~~~ 140 (181)
|+-.+.+++.+++ .+..++.+.+.+
T Consensus 97 GdDi~~v~~~~~~~~~~~~~~~vi~v~tpg 126 (428)
T cd01965 97 GDDVAGFIKEFRAEGPEPADFPVVYASTPS 126 (428)
T ss_pred CCCHHHHHHHHHhhccCCCCCeEEEeeCCC
Confidence 5445555555543 345555555443
No 389
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=22.57 E-value=1.8e+02 Score=22.98 Aligned_cols=92 Identities=10% Similarity=0.016 Sum_probs=53.3
Q ss_pred EEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhh-HHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHH
Q 030208 44 ILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQI-VYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVI 122 (181)
Q Consensus 44 Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I 122 (181)
++++=-=+-.+..-+..+.+..+..|+++.---...+..... .+...++.++. ..+..+..|+.+.+++..-.-.+.+
T Consensus 47 ~viAGPCsvEs~E~i~~~A~~vk~~Ga~~lRGgafKPRTSPYsFQGlge~gL~~-l~~a~~~~Gl~vvtEvm~~~~~e~~ 125 (286)
T COG2876 47 RVIAGPCSVESEEQVRETAESVKAAGAKALRGGAFKPRTSPYSFQGLGEEGLKL-LKRAADETGLPVVTEVMDVRDVEAA 125 (286)
T ss_pred EEEecCcccCCHHHHHHHHHHHHHcchhhccCCcCCCCCCcccccccCHHHHHH-HHHHHHHcCCeeEEEecCHHHHHHH
Confidence 444444444555666666666777788777666666543332 23333445544 4566677788888777653333333
Q ss_pred HHHHHHhCCCEEEEeccCC
Q 030208 123 CKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 123 ~~~a~~~~~dliV~g~~~~ 141 (181)
. +. +|+|=+|++.-
T Consensus 126 ~---~y--~DilqvGARNM 139 (286)
T COG2876 126 A---EY--ADILQVGARNM 139 (286)
T ss_pred H---hh--hhHHHhcccch
Confidence 3 33 77787887753
No 390
>COG1251 NirB NAD(P)H-nitrite reductase [Energy production and conversion]
Probab=22.48 E-value=3.1e+02 Score=25.14 Aligned_cols=69 Identities=13% Similarity=0.110 Sum_probs=37.7
Q ss_pred cCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHHHHH--------HH--HHhCCCEEEE
Q 030208 67 RLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKVICK--------EA--ERLKPAAVVI 136 (181)
Q Consensus 67 ~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~I~~--------~a--~~~~~dliV~ 136 (181)
..+-+.+++|+.+..... +.++...+++...+++.++.+.. +...++|.. ++ ....+|+|||
T Consensus 166 ~~Gm~~~Vvh~~~~lMer----QLD~~ag~lL~~~le~~Gi~~~l----~~~t~ei~g~~~~~~vr~~DG~~i~ad~VV~ 237 (793)
T COG1251 166 DLGMEVTVVHIAPTLMER----QLDRTAGRLLRRKLEDLGIKVLL----EKNTEEIVGEDKVEGVRFADGTEIPADLVVM 237 (793)
T ss_pred hCCCceEEEeecchHHHH----hhhhHHHHHHHHHHHhhcceeec----ccchhhhhcCcceeeEeecCCCcccceeEEE
Confidence 347789999997753322 22233333344445555555543 444444442 22 2334899999
Q ss_pred eccCCCc
Q 030208 137 GSRGRGL 143 (181)
Q Consensus 137 g~~~~~~ 143 (181)
+..-+..
T Consensus 238 a~GIrPn 244 (793)
T COG1251 238 AVGIRPN 244 (793)
T ss_pred ecccccc
Confidence 9865544
No 391
>COG1103 Archaea-specific pyridoxal phosphate-dependent enzymes [General function prediction only]
Probab=22.44 E-value=4.1e+02 Score=21.34 Aligned_cols=55 Identities=13% Similarity=0.141 Sum_probs=43.1
Q ss_pred CCh--HHHHHHHHHHhCCCEEEEeccCCCcc--------cccccCchhhHHHhcCCCccEEEEcCC
Q 030208 116 GDA--AKVICKEAERLKPAAVVIGSRGRGLI--------QSVLQGSVGEYCLHHCKTAPIIVVPGK 171 (181)
Q Consensus 116 g~~--~~~I~~~a~~~~~dliV~g~~~~~~~--------~~~~~gs~~~~ll~~~~~~pVlvv~~~ 171 (181)
||. ++.+.+.|++.++-+++-+++.-+.+ ..|..||--...+...+ |=||-+...
T Consensus 170 GNl~Dakkva~ic~e~gvPlllN~AYt~Grmpvs~ke~g~DFiVgSGHKsmAAs~P-iGvl~~~eE 234 (382)
T COG1103 170 GNLADAKKVAKICREYGVPLLLNCAYTVGRMPVSGKEIGADFIVGSGHKSMAASAP-IGVLAMSEE 234 (382)
T ss_pred CCchhhHHHHHHHHHcCCceEeecceeeccccccccccCCCEEEecCccchhccCC-eeEEeehhH
Confidence 654 67899999999999999888643332 34778888888999999 999988643
No 392
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=22.41 E-value=1.2e+02 Score=19.31 Aligned_cols=61 Identities=13% Similarity=0.020 Sum_probs=33.3
Q ss_pred hhhcCceEEEEE-ecCChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEE
Q 030208 102 MDVAMVRTKARI-VEGDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 102 ~~~~~i~~~~~~-~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv 168 (181)
+...|++..... ...+..+.+.++.++.++.+|++..+-...+ ....+++..... .|+++.
T Consensus 13 FrLaGv~~~~~~~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~~-----~~~l~~~~~~~~-~P~iv~ 74 (95)
T PF01990_consen 13 FRLAGVEGVYVNTDPEEAEEALKELLKDEDVGIIIITEDLAEKI-----RDELDEYREESS-LPLIVE 74 (95)
T ss_dssp HHHTTSEEEEESHSHHHHHHHHHHHHHHTTEEEEEEEHHHHTTH-----HHHHHHHHHTSS-SSEEEE
T ss_pred HHHcCCCCccCCCCHHHHHHHHHHHhcCCCccEEEeeHHHHHHH-----HHHHHHHHhccC-CceEEE
Confidence 344455544332 2235666667777777777777775533322 233345555555 676665
No 393
>cd04732 HisA HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene.
Probab=22.38 E-value=2.5e+02 Score=20.95 Aligned_cols=50 Identities=16% Similarity=0.036 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
...+.+..++.+++.+++....+.+...-..-....++.+... +||++--
T Consensus 148 ~~~~~~~~~~~ga~~iii~~~~~~g~~~g~~~~~i~~i~~~~~-ipvi~~G 197 (234)
T cd04732 148 LEELAKRFEELGVKAIIYTDISRDGTLSGPNFELYKELAAATG-IPVIASG 197 (234)
T ss_pred HHHHHHHHHHcCCCEEEEEeecCCCccCCCCHHHHHHHHHhcC-CCEEEec
Confidence 3456666677788988887655444332233345577777888 9988754
No 394
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=22.29 E-value=2.5e+02 Score=21.07 Aligned_cols=41 Identities=17% Similarity=0.237 Sum_probs=32.5
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCC
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSV 81 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~ 81 (181)
....|+++++.|-++...+..+ ..+++.++++..+...+.+
T Consensus 85 ~~~DvviaiS~SGeT~el~~~~-~~aK~~g~~liaiT~~~~S 125 (202)
T COG0794 85 TPGDVVIAISGSGETKELLNLA-PKAKRLGAKLIAITSNPDS 125 (202)
T ss_pred CCCCEEEEEeCCCcHHHHHHHH-HHHHHcCCcEEEEeCCCCC
Confidence 3578999999998887776665 8888889988888876543
No 395
>PRK04527 argininosuccinate synthase; Provisional
Probab=22.19 E-value=4.7e+02 Score=21.92 Aligned_cols=91 Identities=14% Similarity=0.063 Sum_probs=53.4
Q ss_pred CCeEEEEEcCChhhHHHHHHHHHHhccCCC-EEEEEEEecCCchhhHHHHHHHHHHHHHHH-HhhhcCceEEEEEecC-C
Q 030208 41 GRDILIAVDHGPNSKHAFDWALIHLCRLAD-TIHLVHAVSSVQNQIVYDMSQGLMEKLAIE-AMDVAMVRTKARIVEG-D 117 (181)
Q Consensus 41 ~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a-~l~llhV~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~i~~~~~~~~g-~ 117 (181)
.+-+.|.+|....+..-++.|.++|...|. +.+++-+.+ ...++....+.+. ...++.-..-. . .. -
T Consensus 27 ~~Viavt~d~gq~~~~El~~a~~~A~~lG~~~~~viD~~e--------ef~e~vi~p~i~aNa~y~G~yPl~~-~-nR~~ 96 (400)
T PRK04527 27 YAVHTVFADTGGVDAEERDFIEKRAAELGAASHVTVDGGP--------AIWEGFVKPLVWAGEGYQGQYPLLV-S-DRYL 96 (400)
T ss_pred CcEEEEEEEeCCCCHHHHHHHHHHHHHcCCCeEEEecCHH--------HHHHHHHHHHHhcchhhcCCCCCcc-c-cHHH
Confidence 356777788776556778899999999887 465554422 1122222222211 11111111000 1 11 2
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGR 141 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~ 141 (181)
..+.++++|++.++|.|+=|+.+.
T Consensus 97 ~~~~l~e~A~~~G~~~IA~G~tgk 120 (400)
T PRK04527 97 IVDAALKRAEELGTRIIAHGCTGM 120 (400)
T ss_pred HHHHHHHHHHHCCCCEEEecCcCC
Confidence 677899999999999999999754
No 396
>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=22.18 E-value=2.2e+02 Score=22.90 Aligned_cols=50 Identities=22% Similarity=0.304 Sum_probs=35.3
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCC--CcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGR--GLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
.+..+.++..++ +|+||+|-... |-...+.+..+.+ -+++++ .|++.|-+
T Consensus 172 ~~~p~vl~AI~~--AD~IVlGPgsp~TSI~P~LlVpgI~e-AL~~s~-A~vV~Vsp 223 (303)
T cd07186 172 RPAPEVLEAIED--ADLVIIGPSNPVTSIGPILALPGIRE-ALRDKK-APVVAVSP 223 (303)
T ss_pred CCCHHHHHHHHh--CCEEEECCCccHHHhhhhccchhHHH-HHHhCC-CCEEEEcC
Confidence 578899999999 99999997652 2234455556644 556677 88887754
No 397
>cd00316 Oxidoreductase_nitrogenase The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and 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) and, both subunits of Protochlorophyllide (Pchlide) reductase and chlorophyllide (chlide) reductase. The 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 nitrogenase is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers whose alpha and beta subunits are similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molec
Probab=22.13 E-value=1.7e+02 Score=23.76 Aligned_cols=12 Identities=17% Similarity=0.221 Sum_probs=5.7
Q ss_pred hCCCEEEEeccC
Q 030208 129 LKPAAVVIGSRG 140 (181)
Q Consensus 129 ~~~dliV~g~~~ 140 (181)
.+..++.+...+
T Consensus 110 ~~~~vv~~~~~g 121 (399)
T cd00316 110 IGIPVVPASTPG 121 (399)
T ss_pred hCCceEEeeCCC
Confidence 345555554443
No 398
>PF03373 Octapeptide: Octapeptide repeat; InterPro: IPR005038 This octapeptide repeat is found in several bacterial proteins. The function of this repeat is unknown.; GO: 0019865 immunoglobulin binding
Probab=22.09 E-value=32 Score=11.80 Aligned_cols=7 Identities=43% Similarity=0.743 Sum_probs=3.0
Q ss_pred Ccchhhh
Q 030208 3 PVKEEEE 9 (181)
Q Consensus 3 ~~~~~~~ 9 (181)
|-+++||
T Consensus 1 PgkeDnn 7 (8)
T PF03373_consen 1 PGKEDNN 7 (8)
T ss_pred Ccccccc
Confidence 3344443
No 399
>PLN02762 pyruvate kinase complex alpha subunit
Probab=22.07 E-value=2.8e+02 Score=24.09 Aligned_cols=46 Identities=15% Similarity=0.230 Sum_probs=35.4
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
......+.|+..++.+||+=++ -|.++..+.+.-+.|||+.+-+..
T Consensus 397 ia~sa~~~A~~l~a~aIv~~T~---------sG~tA~~iSk~RP~~pIia~t~~~ 442 (509)
T PLN02762 397 ICNSAAKMANNLGVDAIFVYTK---------HGHMASLLSRNRPDCPIFAFTDTT 442 (509)
T ss_pred HHHHHHHHHhhcCCCEEEEECC---------CcHHHHHHHhhCCCCCEEEECCCH
Confidence 4556667788889998888654 277888899987779999986543
No 400
>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=22.02 E-value=1.3e+02 Score=25.03 Aligned_cols=26 Identities=4% Similarity=0.013 Sum_probs=14.1
Q ss_pred CChHHHHHHHHH-HhCCCEEEEeccCC
Q 030208 116 GDAAKVICKEAE-RLKPAAVVIGSRGR 141 (181)
Q Consensus 116 g~~~~~I~~~a~-~~~~dliV~g~~~~ 141 (181)
|+-.+.+++.++ +.+..+|.+-+.+-
T Consensus 100 GDDi~~v~~~~~~~~~~pVi~v~tpgf 126 (407)
T TIGR01279 100 KMDLEGLAERLSTNFGVPVLFAPASGL 126 (407)
T ss_pred HhhHHHHHHHHHHhhCCCEEEeeCCCc
Confidence 544555555543 34666666665543
No 401
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=21.97 E-value=3.8e+02 Score=20.67 Aligned_cols=42 Identities=7% Similarity=0.087 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEE
Q 030208 119 AKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIV 167 (181)
Q Consensus 119 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlv 167 (181)
.+.+++.++..++|+|++|--... ++. ...+.....+ .+|++
T Consensus 146 ~~~i~~~I~~s~~dil~VglG~Pk--QE~----~~~~~~~~~~-~~v~~ 187 (243)
T PRK03692 146 RQALFERIHASGAKIVTVAMGSPK--QEI----FMRDCRLVYP-DALYM 187 (243)
T ss_pred HHHHHHHHHhcCCCEEEEECCCcH--HHH----HHHHHHHhCC-CCEEE
Confidence 466899999999999999954322 112 2245566666 77654
No 402
>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=21.82 E-value=4.1e+02 Score=21.08 Aligned_cols=47 Identities=15% Similarity=0.150 Sum_probs=32.1
Q ss_pred HHHHHHHHHhhhcCceEEE-EEecCChHHHHHHHHHHhCCCEEEEeccC
Q 030208 93 LMEKLAIEAMDVAMVRTKA-RIVEGDAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 93 ~l~~~~~~~~~~~~i~~~~-~~~~g~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
.|+.++. ..++.++++.- .+.+..-.+.|.++.+++..|++|+.-|.
T Consensus 116 YL~~Cl~-~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 116 YLRKCLK-LYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHH-HHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 4444433 23333566553 44456888999999999999999998764
No 403
>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=21.76 E-value=2.8e+02 Score=19.13 Aligned_cols=18 Identities=11% Similarity=-0.055 Sum_probs=8.6
Q ss_pred HHHhccCCCEEEEEEEec
Q 030208 62 LIHLCRLADTIHLVHAVS 79 (181)
Q Consensus 62 ~~la~~~~a~l~llhV~~ 79 (181)
.++.++.|.++.-..++.
T Consensus 33 ~~~l~~~G~~v~~~~~v~ 50 (144)
T TIGR00177 33 AALLEEAGFNVSRLGIVP 50 (144)
T ss_pred HHHHHHCCCeEEEEeecC
Confidence 344444555555444443
No 404
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=21.76 E-value=2.9e+02 Score=20.39 Aligned_cols=13 Identities=23% Similarity=0.386 Sum_probs=6.2
Q ss_pred HHHhcCCCccEEEE
Q 030208 155 YCLHHCKTAPIIVV 168 (181)
Q Consensus 155 ~ll~~~~~~pVlvv 168 (181)
.++.... +||++|
T Consensus 127 dl~~~l~-~pvilV 139 (222)
T PRK00090 127 DLAKQLQ-LPVILV 139 (222)
T ss_pred HHHHHhC-CCEEEE
Confidence 3444444 555444
No 405
>PTZ00435 isocitrate dehydrogenase; Provisional
Probab=21.73 E-value=86 Score=26.33 Aligned_cols=29 Identities=3% Similarity=-0.170 Sum_probs=23.7
Q ss_pred cCChhhHHHHHHHHHHhccCCCEEEEEEE
Q 030208 49 DHGPNSKHAFDWALIHLCRLADTIHLVHA 77 (181)
Q Consensus 49 d~s~~s~~a~~~a~~la~~~~a~l~llhV 77 (181)
.....+++.+++|.++|+..+.+++++|=
T Consensus 185 ~Tr~~~eRIar~AF~~A~~r~~~Vt~v~K 213 (413)
T PTZ00435 185 NTDESIEGFARSCFQYALDRKMPLYLSTK 213 (413)
T ss_pred eCHHHHHHHHHHHHHHHHHcCCCEEEECC
Confidence 44477999999999999888777777764
No 406
>PRK02122 glucosamine-6-phosphate deaminase-like protein; Validated
Probab=21.68 E-value=6e+02 Score=22.87 Aligned_cols=108 Identities=10% Similarity=0.063 Sum_probs=55.2
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCC---CEEEEEEEecCCc-hhhHHHHHHHHHHHHHHHHhhhcCceE-EEEEecC
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLA---DTIHLVHAVSSVQ-NQIVYDMSQGLMEKLAIEAMDVAMVRT-KARIVEG 116 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~---a~l~llhV~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~i~~-~~~~~~g 116 (181)
+...+++.+...-...++...++.+..+ .+++++++-+... .....+.-...+++ ..+..-++.. .+....|
T Consensus 59 ~~~~laLsGGsTP~~~Y~~L~~~~~~~~l~w~~V~~F~~DEr~~vp~d~~~Sn~~~~re---~L~~~i~Ip~~ni~~~dg 135 (652)
T PRK02122 59 KPCVLGLATGSSPIGVYAELIRMHREEGLSFKNVITFNLDEYYPMQPDSLQSYHRFMKE---NLFDHVDIPPENIHIPDG 135 (652)
T ss_pred CCEEEEEcCCcCHHHHHHHHHhhhhccCCCchheEEEeCeeccCCCCCcHHHHHHHHHH---HhhccCCCCHHHeecCCC
Confidence 4577777777767777777777654433 4677777755331 11111111112222 2222222221 1122223
Q ss_pred -----ChHHHHHHHHHH----hCCCEEEEeccCCCcccccccCch
Q 030208 117 -----DAAKVICKEAER----LKPAAVVIGSRGRGLIQSVLQGSV 152 (181)
Q Consensus 117 -----~~~~~I~~~a~~----~~~dliV~g~~~~~~~~~~~~gs~ 152 (181)
++.+...+|.+. .+.|++++|--..+.....+-||.
T Consensus 136 ~~~~~~~~~~~~~Ye~~I~~~gg~DlvLLGiG~DGHiAsnfPgs~ 180 (652)
T PRK02122 136 TIPKEEIDEYCRDYEEKIEAAGGIDFQLLGIGRTGHIGFNEPGSG 180 (652)
T ss_pred ccCcCCHHHHHHHHHHHHHhhCCCcEEEeCCCCCCceeccCCCCc
Confidence 233344344322 268999999877777776676763
No 407
>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=21.63 E-value=1.6e+02 Score=22.94 Aligned_cols=46 Identities=20% Similarity=0.196 Sum_probs=28.2
Q ss_pred HHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcC
Q 030208 120 KVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPG 170 (181)
Q Consensus 120 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~ 170 (181)
+......++.+.|++|+.+...... -..-++.++.... +|.+|+..
T Consensus 49 ~~~~~~~~~~~pdf~I~isPN~~~P----GP~~ARE~l~~~~-iP~IvI~D 94 (276)
T PF01993_consen 49 EVVTKMLKEWDPDFVIVISPNAAAP----GPTKAREMLSAKG-IPCIVISD 94 (276)
T ss_dssp HHHHHHHHHH--SEEEEE-S-TTSH----HHHHHHHHHHHSS-S-EEEEEE
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCC----CcHHHHHHHHhCC-CCEEEEcC
Confidence 3444556788999999987754432 2345678888888 99999854
No 408
>TIGR01064 pyruv_kin pyruvate kinase. This enzyme is a homotetramer. Some forms are active only in the presence of fructose-1,6-bisphosphate or similar phosphorylated sugars.
Probab=21.60 E-value=2.7e+02 Score=23.82 Aligned_cols=47 Identities=26% Similarity=0.294 Sum_probs=35.7
Q ss_pred ChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 117 DAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 117 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
.......+.|+..++++||+=+. -|+++..+.+.-+.|||+++-+..
T Consensus 360 ~ia~~a~~~a~~~~akaIVv~T~---------SG~TA~~vSr~rp~~PIiAvT~~~ 406 (473)
T TIGR01064 360 AIALSAVEAAEKLDAKAIVVLTE---------SGRTARLLSKYRPNAPIIAVTPNE 406 (473)
T ss_pred HHHHHHHHHHhhcCCCEEEEEcC---------ChHHHHHHHhhCCCCCEEEEcCCH
Confidence 34556667788889998888765 277888888887779999996543
No 409
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=21.57 E-value=1.6e+02 Score=19.32 Aligned_cols=17 Identities=6% Similarity=-0.017 Sum_probs=10.5
Q ss_pred HHHHHhccCCCEEEEEE
Q 030208 60 WALIHLCRLADTIHLVH 76 (181)
Q Consensus 60 ~a~~la~~~~a~l~llh 76 (181)
.+.++|+..|+++.++-
T Consensus 5 ~a~q~ak~~G~~vi~~~ 21 (130)
T PF00107_consen 5 MAIQLAKAMGAKVIATD 21 (130)
T ss_dssp HHHHHHHHTTSEEEEEE
T ss_pred HHHHHHHHcCCEEEEEE
Confidence 45677777775555444
No 410
>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=21.57 E-value=2.6e+02 Score=18.62 Aligned_cols=58 Identities=7% Similarity=-0.149 Sum_probs=35.2
Q ss_pred cCceEEEEEec--CChHHHHHHHHHHhCCCEEEEecc--CCCcccccccCchhhHHHhcCCCccEE
Q 030208 105 AMVRTKARIVE--GDAAKVICKEAERLKPAAVVIGSR--GRGLIQSVLQGSVGEYCLHHCKTAPII 166 (181)
Q Consensus 105 ~~i~~~~~~~~--g~~~~~I~~~a~~~~~dliV~g~~--~~~~~~~~~~gs~~~~ll~~~~~~pVl 166 (181)
.|+.++.. .. ..-...|.+..++.++|+||--.. ++.... .-|...++..-... +|++
T Consensus 44 ~Gi~v~~v-k~~~~~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~--~dg~~iRr~a~~~~-Ip~~ 105 (115)
T cd01422 44 TGLTVNRM-KSGPLGGDQQIGALIAEGEIDAVIFFRDPLTAQPHE--PDVKALLRLCDVYN-IPLA 105 (115)
T ss_pred hCCcEEEE-ecCCCCchhHHHHHHHcCceeEEEEcCCCCCCCccc--ccHHHHHHHHHHcC-CCEE
Confidence 46777755 33 122367999999999999998866 322211 12444455555555 6655
No 411
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=21.56 E-value=2.6e+02 Score=18.61 Aligned_cols=90 Identities=12% Similarity=0.015 Sum_probs=48.1
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEEEEEecCChHHH
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTKARIVEGDAAKV 121 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~~~~~g~~~~~ 121 (181)
.+|+++..+. -+....+.+.-++ .....+..+....... .+...+.+++..++..+..++-+-+-+..|+|...
T Consensus 2 ~~ili~sHG~-~A~gl~~s~~~i~-G~~~~i~~i~~~~~~~----~~~~~~~l~~~i~~~~~~~~vivltDl~GGSp~n~ 75 (116)
T TIGR00824 2 IAIIISGHGQ-AAIALLKSAEMIF-GEQNNVGAVPFVPGEN----AETLQEKYNAALADLDTEEEVLFLVDIFGGSPYNA 75 (116)
T ss_pred cEEEEEecHH-HHHHHHHHHHHHc-CCcCCeEEEEcCCCcC----HHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCHHHH
Confidence 4678888776 5555555554444 3344577777654332 33344445554544433344444444455799888
Q ss_pred HHHHHHHhCCCEEEEe
Q 030208 122 ICKEAERLKPAAVVIG 137 (181)
Q Consensus 122 I~~~a~~~~~dliV~g 137 (181)
...+..+++-=-+|-|
T Consensus 76 a~~~~~~~~~~~vIsG 91 (116)
T TIGR00824 76 AARIIVDKPHMDVIAG 91 (116)
T ss_pred HHHHHhhcCCEEEEEe
Confidence 8877644321124444
No 412
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=21.54 E-value=4.2e+02 Score=21.10 Aligned_cols=47 Identities=15% Similarity=0.211 Sum_probs=32.3
Q ss_pred HHHHHHHHHhhhcCceEEEE-EecCChHHHHHHHHHHhCCCEEEEeccC
Q 030208 93 LMEKLAIEAMDVAMVRTKAR-IVEGDAAKVICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 93 ~l~~~~~~~~~~~~i~~~~~-~~~g~~~~~I~~~a~~~~~dliV~g~~~ 140 (181)
.|+.++ ..-++.++++.-. +.+..-.+.|.++.+++..|.||+.-|.
T Consensus 117 YL~~Cl-~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 164 (287)
T PF05582_consen 117 YLNKCL-KVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGHD 164 (287)
T ss_pred HHHHHH-HHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCch
Confidence 444443 3333445666544 4455888999999999999999998763
No 413
>TIGR02924 ICDH_alpha isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear.
Probab=21.44 E-value=1e+02 Score=26.40 Aligned_cols=29 Identities=7% Similarity=0.030 Sum_probs=23.6
Q ss_pred CChhhHHHHHHHHHHhccCC-CEEEEEEEe
Q 030208 50 HGPNSKHAFDWALIHLCRLA-DTIHLVHAV 78 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~-a~l~llhV~ 78 (181)
....+++.+++|.++|+..+ .+++++|=.
T Consensus 143 Tr~g~eRI~r~AFe~A~~r~rkkVT~v~Ka 172 (473)
T TIGR02924 143 TRSGSEKICRYAFEYARKHNRKKVTCLTKD 172 (473)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence 34779999999999998886 468888753
No 414
>PLN02765 pyruvate kinase
Probab=21.42 E-value=2.6e+02 Score=24.43 Aligned_cols=43 Identities=16% Similarity=0.263 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEc
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~ 169 (181)
......+.|...++.+||+-+. -|.++..+.+.-+.|||+.+-
T Consensus 396 ia~sav~~A~~l~a~aIvv~T~---------sG~tAr~isk~RP~~pIla~t 438 (526)
T PLN02765 396 IASSAVRAAIKVKASVIIVFTS---------SGRAARLIAKYRPTMPVLSVV 438 (526)
T ss_pred HHHHHHHHHhhCCCCEEEEECC---------CcHHHHHHHhhCCCCCEEEEe
Confidence 4556667788889988888655 277888999987779999986
No 415
>PRK06683 hypothetical protein; Provisional
Probab=21.36 E-value=1.9e+02 Score=18.14 Aligned_cols=20 Identities=15% Similarity=0.016 Sum_probs=9.6
Q ss_pred HHHHHHHHhCCCEEEEeccC
Q 030208 121 VICKEAERLKPAAVVIGSRG 140 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~ 140 (181)
..++..+..++-+|+++...
T Consensus 18 ~v~kaik~gkaklViiA~Da 37 (82)
T PRK06683 18 RTLEAIKNGIVKEVVIAEDA 37 (82)
T ss_pred HHHHHHHcCCeeEEEEECCC
Confidence 33444444555555555443
No 416
>KOG1503 consensus Phosphoribosylpyrophosphate synthetase-associated protein [Amino acid transport and metabolism; Nucleotide transport and metabolism]
Probab=21.25 E-value=2.4e+02 Score=21.99 Aligned_cols=38 Identities=24% Similarity=0.141 Sum_probs=30.3
Q ss_pred CCCeEEEEEcCChhhHHHHHHHHHHhccCCC-EEEEEEE
Q 030208 40 RGRDILIAVDHGPNSKHAFDWALIHLCRLAD-TIHLVHA 77 (181)
Q Consensus 40 ~~~~Ilv~vd~s~~s~~a~~~a~~la~~~~a-~l~llhV 77 (181)
...+|.+-+|+--....++-.|.+..+..|+ +++++..
T Consensus 245 vggriaimvddiiddvqsfvaaae~lkergaykiyv~at 283 (354)
T KOG1503|consen 245 VGGRIAIMVDDIIDDVQSFVAAAEVLKERGAYKIYVMAT 283 (354)
T ss_pred cCceEEEEehhhHHhHHHHHHHHHHHHhcCceEEEEEee
Confidence 3578899999887777888888899998887 7777655
No 417
>PF06050 HGD-D: 2-hydroxyglutaryl-CoA dehydratase, D-component ; InterPro: IPR010327 Degradation of glutamate via the hydroxyglutarate pathway involves the syn-elimination of water from 2-hydroxyglutaryl-CoA. This anaerobic process is catalysed by 2-hydroxyglutaryl-CoA dehydratase, an enzyme with two components (A and D) that reversibly associate during reaction cycles. This component contains one non-reducible [4Fe-4S]2+ cluster and a reduced riboflavin 5'-monophosphate [].; PDB: 3O3O_B 3O3N_D 3O3M_D.
Probab=21.16 E-value=1e+02 Score=24.51 Aligned_cols=55 Identities=13% Similarity=0.086 Sum_probs=36.6
Q ss_pred CChHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcC-CCccEEEEcCCC
Q 030208 116 GDAAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHC-KTAPIIVVPGKG 172 (181)
Q Consensus 116 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~-~~~pVlvv~~~~ 172 (181)
.+-.+.+.+.+++.++|.+|......-..... .-...++.++.. . +|++.+-...
T Consensus 272 ~~r~~~~~~~~~~~~~dgvi~~~~~~C~~~~~-~~~~l~~~~~~~~g-IP~l~le~d~ 327 (349)
T PF06050_consen 272 ERRIEYIDDLIEKYGADGVIFHGHKGCDPYSY-DQPLLKEALREFLG-IPVLFLEGDY 327 (349)
T ss_dssp HCHHHHHHHHHHHTT-SEEEEEEETT-HHHHC-CHHHHHHHHHCCHT---EEEEEE-T
T ss_pred HhHHHHHHHHHHHhCCCEEEEhHhcCCCcHHH-HHHHHHHHHHHhcC-CCeEeecccc
Confidence 57789999999999999999998755332222 233446777777 7 9999997554
No 418
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=21.05 E-value=1.9e+02 Score=24.31 Aligned_cols=26 Identities=23% Similarity=0.438 Sum_probs=13.7
Q ss_pred CChHHHHHHHH-HHhCCCEEEEeccCC
Q 030208 116 GDAAKVICKEA-ERLKPAAVVIGSRGR 141 (181)
Q Consensus 116 g~~~~~I~~~a-~~~~~dliV~g~~~~ 141 (181)
|+=.+.+++.+ ++.+..+|.+-+.+-
T Consensus 134 GdDi~~v~~~~~~~~~~pvi~v~t~gf 160 (443)
T TIGR01862 134 GDDIEAVAKEVSKEIGKDVVAVNCPGF 160 (443)
T ss_pred ccCHHHHHHHHHHhcCCCEEEEecCCc
Confidence 54444555444 344566666665543
No 419
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=21.01 E-value=2.1e+02 Score=22.42 Aligned_cols=65 Identities=18% Similarity=0.207 Sum_probs=35.9
Q ss_pred eEEEEEecC-ChHHH-HHHHHHHhCCCEEEEeccCCCcccccc--------cCchh-hHHHhcCCCccEEEEcCCCC
Q 030208 108 RTKARIVEG-DAAKV-ICKEAERLKPAAVVIGSRGRGLIQSVL--------QGSVG-EYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 108 ~~~~~~~~g-~~~~~-I~~~a~~~~~dliV~g~~~~~~~~~~~--------~gs~~-~~ll~~~~~~pVlvv~~~~~ 173 (181)
+.+..+..| ++... .+++|.+...+.+|+-+.=-++++-++ +.-.. ..=+++.. |||+|+...++
T Consensus 128 ~~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S~~rv~~~~~~~~~~~d~f~~i~kI~~i~-~PVLiiHgtdD 203 (258)
T KOG1552|consen 128 SPERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTSGMRVAFPDTKTTYCFDAFPNIEKISKIT-CPVLIIHGTDD 203 (258)
T ss_pred CCceEEEEEecCCchhhhhHhhcCCcceEEEeccchhhhhhhccCcceEEeeccccccCcceecc-CCEEEEecccC
Confidence 344455555 44322 578887777888888764333322111 10000 22345677 99999987665
No 420
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=20.99 E-value=3.3e+02 Score=20.59 Aligned_cols=41 Identities=15% Similarity=0.141 Sum_probs=27.6
Q ss_pred HHHhhhcCceEEEEEecCChHHHHHHHHHH---hCCCEEEEecc
Q 030208 99 IEAMDVAMVRTKARIVEGDAAKVICKEAER---LKPAAVVIGSR 139 (181)
Q Consensus 99 ~~~~~~~~i~~~~~~~~g~~~~~I~~~a~~---~~~dliV~g~~ 139 (181)
++.+...++.-.+.+..|+..+.+-++... ..+|+|++...
T Consensus 110 ~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 110 LEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred HHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 344444455545667789988877776543 46999999864
No 421
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=20.88 E-value=4.3e+02 Score=20.95 Aligned_cols=36 Identities=22% Similarity=0.177 Sum_probs=17.2
Q ss_pred hhhcCceEEEEEecCC-hHHHHHHHHHHhCCCEEEEe
Q 030208 102 MDVAMVRTKARIVEGD-AAKVICKEAERLKPAAVVIG 137 (181)
Q Consensus 102 ~~~~~i~~~~~~~~g~-~~~~I~~~a~~~~~dliV~g 137 (181)
++..+...+.+..... -...+.+.+...++|.||.+
T Consensus 29 l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~ 65 (301)
T COG1597 29 LEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAA 65 (301)
T ss_pred HHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEe
Confidence 3333444444444332 44444444444466666665
No 422
>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=20.88 E-value=4.8e+02 Score=21.50 Aligned_cols=120 Identities=17% Similarity=0.200 Sum_probs=67.6
Q ss_pred CeEEEEEcCChhh-----------HHHHHHHHHHhccCCCEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEE
Q 030208 42 RDILIAVDHGPNS-----------KHAFDWALIHLCRLADTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTK 110 (181)
Q Consensus 42 ~~Ilv~vd~s~~s-----------~~a~~~a~~la~~~~a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~ 110 (181)
+-|.+.+|..+.| +..+.|--+.++-.|.-+. .|.-..+....+. .+.++.+...+..++.+.
T Consensus 120 nCIfCSVdeGp~SrtR~~dy~Vd~eyLl~w~~kVa~~KgkglE-aHlDGqGEP~lYP-----~l~~lVqalk~~~~v~vV 193 (414)
T COG2100 120 NCIFCSVDEGPYSRTRKLDYVVDPEYLLEWFEKVARFKGKGLE-AHLDGQGEPLLYP-----HLVDLVQALKEHKGVEVV 193 (414)
T ss_pred eeEEEeccCCcccceeccceEecHHHHHHHHHHHHhhhCCCeE-EEecCCCCCccch-----hHHHHHHHHhcCCCceEE
Confidence 4456667766554 3455555555554433222 3443322222211 122223333333456666
Q ss_pred EEEecC-ChHHHHHHHHHHhCCCEEEEeccCC-CcccccccC----------chhhHHHhcCCCccEEEEc
Q 030208 111 ARIVEG-DAAKVICKEAERLKPAAVVIGSRGR-GLIQSVLQG----------SVGEYCLHHCKTAPIIVVP 169 (181)
Q Consensus 111 ~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~-~~~~~~~~g----------s~~~~ll~~~~~~pVlvv~ 169 (181)
....+| ...+.+++..++.+.|-+=+.-+.. ....+++.| .+++.++. +. +.|+|-|
T Consensus 194 SmQTng~~L~~~lv~eLeeAGLdRiNlSv~aLDpk~Ak~L~G~~dYdv~kvle~aE~i~~-a~-idvlIaP 262 (414)
T COG2100 194 SMQTNGVLLSKKLVDELEEAGLDRINLSVDALDPKLAKMLAGRKDYDVKKVLEVAEYIAN-AG-IDVLIAP 262 (414)
T ss_pred EEeeCceeccHHHHHHHHHhCCceEEeecccCCHHHHHHhcCccccCHHHHHHHHHHHHh-CC-CCEEEee
Confidence 666677 6788999998888888887776653 223345555 35555555 77 9998876
No 423
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=20.74 E-value=1.1e+02 Score=25.36 Aligned_cols=30 Identities=10% Similarity=0.100 Sum_probs=23.5
Q ss_pred CChhhHHHHHHHHHHhccCCC-EEEEEEEec
Q 030208 50 HGPNSKHAFDWALIHLCRLAD-TIHLVHAVS 79 (181)
Q Consensus 50 ~s~~s~~a~~~a~~la~~~~a-~l~llhV~~ 79 (181)
....+++.+++|.++|+..+. +|+++|=.+
T Consensus 182 Tr~~~eRIar~AF~~A~~r~~k~Vt~v~KaN 212 (372)
T PLN00118 182 TRQASLRVAEYAFHYAKTHGRKRVSAIHKAN 212 (372)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence 447789999999999988764 588887533
No 424
>PLN02360 probable 6-phosphogluconolactonase
Probab=20.69 E-value=4.1e+02 Score=20.62 Aligned_cols=107 Identities=12% Similarity=0.042 Sum_probs=53.7
Q ss_pred CeEEEEEcCChhhHHHHHHHHHHhc--cCC-CEEEEEEEecCCchhhHHHHHHHHHHHHHHHHhhhcCceEE-EEEecC-
Q 030208 42 RDILIAVDHGPNSKHAFDWALIHLC--RLA-DTIHLVHAVSSVQNQIVYDMSQGLMEKLAIEAMDVAMVRTK-ARIVEG- 116 (181)
Q Consensus 42 ~~Ilv~vd~s~~s~~a~~~a~~la~--~~~-a~l~llhV~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~-~~~~~g- 116 (181)
..+.+++.++.. ...+........ ..+ .++++.++-+..-.....+.-...+++ ..+....+... +....+
T Consensus 42 ~~~~lalsGGS~-~~~~~~L~~~~~~~~idW~~v~~f~~DER~Vp~~~~~SN~~~~r~---~Ll~~~~i~~~~i~~~~~~ 117 (268)
T PLN02360 42 GVFAIALSGGSL-ISFMGKLCEAPYNKTVDWAKWYIFWADERVVAKNHADSNYKLAKD---GLLSKVPVVPSHVYSINDT 117 (268)
T ss_pred CcEEEEECCCCH-HHHHHHHhccccccCCCCceEEEEeeecccCCCCCcchHHHHHHH---HhhccCCCChhhcccCCCC
Confidence 467888777643 455555433211 122 578888886643111111111122222 22222222221 111122
Q ss_pred -ChHHHHHHHHHHh------------------CCCEEEEeccCCCcccccccCch
Q 030208 117 -DAAKVICKEAERL------------------KPAAVVIGSRGRGLIQSVLQGSV 152 (181)
Q Consensus 117 -~~~~~I~~~a~~~------------------~~dliV~g~~~~~~~~~~~~gs~ 152 (181)
++.++..+|.+.. ..|++++|--..+....+|-|+.
T Consensus 118 ~~~~~~a~~ye~~l~~~~~~~~~~~~~~~~~p~fDlvlLGmG~DGHtASlFPg~~ 172 (268)
T PLN02360 118 VTAEEAATDYEFAIRQLVKTRTIGVSDISDCPKFDLILLGMGSDGHVASLFPNHP 172 (268)
T ss_pred CCHHHHHHHHHHHHHHHhhccccccccccCCCcccEEEEccCCCCceeccCCCCc
Confidence 4556666655332 47999999887887777777754
No 425
>PRK06354 pyruvate kinase; Provisional
Probab=20.64 E-value=2.9e+02 Score=24.51 Aligned_cols=46 Identities=20% Similarity=0.273 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCC
Q 030208 118 AAKVICKEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKG 172 (181)
Q Consensus 118 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~ 172 (181)
......+.|++.++++||+-++ -|.++..+.+.-+.|||+.+-+..
T Consensus 365 ia~aa~~~a~~~~a~~Iv~~T~---------sG~ta~~vsk~Rp~~pI~a~t~~~ 410 (590)
T PRK06354 365 ISQAVSHIALQLDAAAIVTLTK---------SGATARNVSKYRPKTPILAVTPNE 410 (590)
T ss_pred HHHHHHHHHhhcCCCEEEEECC---------ChHHHHHHHhhCCCCCEEEECCCH
Confidence 3455556778888988888754 277888899887779999986543
No 426
>PF10649 DUF2478: Protein of unknown function (DUF2478); InterPro: IPR018912 This is a family of hypothetical bacterial proteins encoded in the vicinity of molybdenum ABC transporter gene-products MobA, MobB and MobC. However the function could not be confirmed.
Probab=20.52 E-value=1.8e+02 Score=20.87 Aligned_cols=45 Identities=9% Similarity=0.165 Sum_probs=24.9
Q ss_pred HHHHHHHHhCCCEEEEeccCCCccccc-ccCchhhHHHhcCCCccEEEE
Q 030208 121 VICKEAERLKPAAVVIGSRGRGLIQSV-LQGSVGEYCLHHCKTAPIIVV 168 (181)
Q Consensus 121 ~I~~~a~~~~~dliV~g~~~~~~~~~~-~~gs~~~~ll~~~~~~pVlvv 168 (181)
..++-+-..++||+|+...++-...+. +..-+.+.+ ... +||++.
T Consensus 84 ~~l~~al~~~~DLlivNkFGk~Ea~G~Glr~~i~~A~--~~g-iPVLt~ 129 (159)
T PF10649_consen 84 AALRRALAEGADLLIVNKFGKQEAEGRGLRDEIAAAL--AAG-IPVLTA 129 (159)
T ss_pred HHHHHHHhcCCCEEEEcccHHhhhcCCCHHHHHHHHH--HCC-CCEEEE
Confidence 334444555799999998876554432 222222222 233 778775
No 427
>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=20.41 E-value=1.1e+02 Score=24.85 Aligned_cols=29 Identities=14% Similarity=0.134 Sum_probs=22.8
Q ss_pred ChhhHHHHHHHHHHhccCCC-EEEEEEEec
Q 030208 51 GPNSKHAFDWALIHLCRLAD-TIHLVHAVS 79 (181)
Q Consensus 51 s~~s~~a~~~a~~la~~~~a-~l~llhV~~ 79 (181)
...+++.+++|.++|+..+. +++++|=.+
T Consensus 144 r~~~eRi~r~Af~~A~~r~~k~Vt~v~KaN 173 (333)
T TIGR00175 144 RDKSERIARYAFEYARKNGRKKVTAVHKAN 173 (333)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence 37789999999999988764 588887533
No 428
>PRK04148 hypothetical protein; Provisional
Probab=20.37 E-value=3e+02 Score=19.15 Aligned_cols=39 Identities=15% Similarity=0.151 Sum_probs=28.4
Q ss_pred ceEEEEEecC-ChHHHHHHHHHHhCCCEEEEeccCCCccc
Q 030208 107 VRTKARIVEG-DAAKVICKEAERLKPAAVVIGSRGRGLIQ 145 (181)
Q Consensus 107 i~~~~~~~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 145 (181)
.+.-+.++-. +....|++.|++.++|++|.--.+.....
T Consensus 78 a~liysirpp~el~~~~~~la~~~~~~~~i~~l~~e~~~~ 117 (134)
T PRK04148 78 AKLIYSIRPPRDLQPFILELAKKINVPLIIKPLSGEEPIK 117 (134)
T ss_pred CCEEEEeCCCHHHHHHHHHHHHHcCCCEEEEcCCCCCCCc
Confidence 3444445544 77888999999999999998877765443
No 429
>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=20.34 E-value=2.6e+02 Score=20.70 Aligned_cols=18 Identities=22% Similarity=0.418 Sum_probs=9.8
Q ss_pred HHHhcCCCccEEEEcCCCC
Q 030208 155 YCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 155 ~ll~~~~~~pVlvv~~~~~ 173 (181)
+++.... +|++.++..+.
T Consensus 64 ~~l~~~~-~p~~~v~GNHD 81 (240)
T cd07402 64 ELLAALP-IPVYLLPGNHD 81 (240)
T ss_pred HHHhhcC-CCEEEeCCCCC
Confidence 3444555 66666655443
No 430
>PRK09222 isocitrate dehydrogenase; Validated
Probab=20.21 E-value=1.1e+02 Score=26.21 Aligned_cols=27 Identities=11% Similarity=0.105 Sum_probs=22.6
Q ss_pred hhhHHHHHHHHHHhccCCC-EEEEEEEe
Q 030208 52 PNSKHAFDWALIHLCRLAD-TIHLVHAV 78 (181)
Q Consensus 52 ~~s~~a~~~a~~la~~~~a-~l~llhV~ 78 (181)
+.+++.+++|.++|+..+. +++++|=.
T Consensus 149 ~~~eRI~r~AFe~A~~r~rkkVt~v~Ka 176 (482)
T PRK09222 149 PGSEKIIRYAFEYARANGRKKVTCLTKD 176 (482)
T ss_pred HHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence 7799999999999988864 68888743
No 431
>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=20.20 E-value=2.3e+02 Score=21.92 Aligned_cols=53 Identities=13% Similarity=0.110 Sum_probs=33.5
Q ss_pred ecCChHHHHH-HHHHHhCCCEEEEeccCCCcccccccCchhhHHHhcCCCccEEEEcCCCC
Q 030208 114 VEGDAAKVIC-KEAERLKPAAVVIGSRGRGLIQSVLQGSVGEYCLHHCKTAPIIVVPGKGT 173 (181)
Q Consensus 114 ~~g~~~~~I~-~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ll~~~~~~pVlvv~~~~~ 173 (181)
..|....++- .+.+++++|.||.=.+|..+...- -..++... +||++++.+..
T Consensus 177 ~~GPfs~e~n~al~~~~~i~~lVtK~SG~~g~~eK------i~AA~~lg-i~vivI~RP~~ 230 (249)
T PF02571_consen 177 MQGPFSKELNRALFRQYGIDVLVTKESGGSGFDEK------IEAARELG-IPVIVIKRPPE 230 (249)
T ss_pred EeCCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHH------HHHHHHcC-CeEEEEeCCCC
Confidence 3454444443 346888999988876665543322 25667777 99999965544
Done!