Query 044140
Match_columns 166
No_of_seqs 140 out of 1799
Neff 10.0
Searched_HMMs 46136
Date Fri Mar 29 11:50:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044140.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044140hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 100.0 5.6E-29 1.2E-33 166.8 15.5 140 5-160 1-142 (142)
2 PRK15005 universal stress prot 100.0 1.3E-28 2.8E-33 165.3 15.2 142 5-160 1-144 (144)
3 PRK09982 universal stress prot 100.0 1.7E-28 3.8E-33 164.5 14.2 141 4-163 1-141 (142)
4 cd01989 STK_N The N-terminal d 100.0 1.1E-27 2.3E-32 161.2 16.2 141 8-161 1-145 (146)
5 PRK15118 universal stress glob 100.0 3.5E-27 7.5E-32 158.4 14.6 142 4-165 1-143 (144)
6 PRK10116 universal stress prot 99.9 1.1E-25 2.3E-30 150.8 15.8 140 4-163 1-141 (142)
7 PF00582 Usp: Universal stress 99.9 1.5E-25 3.2E-30 148.4 13.1 140 5-160 1-140 (140)
8 PRK11175 universal stress prot 99.9 3E-25 6.4E-30 165.9 15.5 146 4-162 1-147 (305)
9 cd01988 Na_H_Antiporter_C The 99.9 1.7E-24 3.7E-29 142.9 15.0 131 8-160 1-132 (132)
10 cd01987 USP_OKCHK USP domain i 99.9 5.8E-24 1.3E-28 139.2 12.1 123 8-160 1-124 (124)
11 PRK11175 universal stress prot 99.9 3.5E-22 7.6E-27 149.3 15.4 143 5-162 151-301 (305)
12 cd00293 USP_Like Usp: Universa 99.9 3.6E-21 7.9E-26 125.9 15.0 130 8-159 1-130 (130)
13 COG0589 UspA Universal stress 99.9 2.8E-20 6E-25 125.4 17.0 149 4-162 3-153 (154)
14 PRK12652 putative monovalent c 99.7 4.8E-16 1E-20 117.6 14.9 129 3-156 2-146 (357)
15 PRK10490 sensor protein KdpD; 99.5 1.3E-12 2.9E-17 110.1 14.4 126 4-162 248-375 (895)
16 COG2205 KdpD Osmosensitive K+ 99.4 7.6E-12 1.7E-16 101.4 13.2 128 6-164 248-377 (890)
17 cd01984 AANH_like Adenine nucl 98.6 3.3E-07 7.2E-12 55.8 6.9 84 9-158 1-85 (86)
18 PLN03159 cation/H(+) antiporte 98.0 0.00013 2.8E-09 61.9 11.7 150 5-162 457-616 (832)
19 PLN03159 cation/H(+) antiporte 97.6 0.0018 3.9E-08 55.1 12.2 40 6-50 630-669 (832)
20 TIGR02432 lysidine_TilS_N tRNA 97.5 0.0015 3.2E-08 45.6 9.5 94 8-134 1-111 (189)
21 PF01171 ATP_bind_3: PP-loop f 97.4 0.004 8.7E-08 43.3 10.3 97 8-137 1-111 (182)
22 cd01992 PP-ATPase N-terminal d 97.0 0.012 2.6E-07 40.8 9.0 94 8-134 1-108 (185)
23 COG0037 MesJ tRNA(Ile)-lysidin 96.4 0.07 1.5E-06 39.9 10.4 96 7-136 22-134 (298)
24 cd01993 Alpha_ANH_like_II This 95.9 0.18 3.8E-06 34.8 9.6 38 8-50 1-40 (185)
25 PRK10696 tRNA 2-thiocytidine b 95.7 0.39 8.5E-06 35.3 11.2 95 6-134 29-143 (258)
26 PF01012 ETF: Electron transfe 95.5 0.16 3.6E-06 34.5 8.1 87 8-132 1-100 (164)
27 PRK03359 putative electron tra 95.4 0.11 2.4E-06 38.2 7.4 82 15-134 34-124 (256)
28 PRK12342 hypothetical protein; 95.3 0.17 3.7E-06 37.2 8.1 99 15-156 33-139 (254)
29 PRK05253 sulfate adenylyltrans 95.3 0.36 7.7E-06 36.5 9.9 94 6-134 27-139 (301)
30 TIGR00591 phr2 photolyase PhrI 95.2 0.63 1.4E-05 37.2 11.7 91 14-131 32-122 (454)
31 PRK07313 phosphopantothenoylcy 95.0 0.26 5.6E-06 34.4 7.8 34 6-45 1-34 (182)
32 PRK10660 tilS tRNA(Ile)-lysidi 94.9 0.25 5.5E-06 39.2 8.7 68 6-105 15-82 (436)
33 PF02441 Flavoprotein: Flavopr 94.7 0.14 3.1E-06 33.4 5.8 110 7-162 1-119 (129)
34 PF00875 DNA_photolyase: DNA p 94.7 0.62 1.3E-05 31.7 9.2 113 18-160 12-124 (165)
35 COG2086 FixA Electron transfer 94.4 0.39 8.5E-06 35.4 8.0 80 15-133 35-122 (260)
36 PRK06029 3-octaprenyl-4-hydrox 94.4 0.57 1.2E-05 32.8 8.5 35 7-46 2-36 (185)
37 COG0041 PurE Phosphoribosylcar 94.2 0.6 1.3E-05 31.4 7.7 69 86-163 18-90 (162)
38 TIGR01162 purE phosphoribosyla 94.1 0.71 1.5E-05 31.3 8.2 70 85-163 13-86 (156)
39 TIGR02113 coaC_strep phosphopa 94.0 0.53 1.1E-05 32.7 7.6 34 7-46 1-34 (177)
40 PRK05579 bifunctional phosphop 93.8 1 2.2E-05 35.5 9.6 37 4-46 4-40 (399)
41 cd01713 PAPS_reductase This do 93.4 1.6 3.5E-05 29.2 10.0 36 8-49 1-36 (173)
42 TIGR02852 spore_dpaB dipicolin 93.4 0.91 2E-05 31.8 7.9 34 7-46 1-35 (187)
43 PF00731 AIRC: AIR carboxylase 93.2 0.9 2E-05 30.6 7.4 70 85-163 15-88 (150)
44 TIGR02039 CysD sulfate adenyly 93.1 2 4.4E-05 32.3 10.0 40 6-50 19-58 (294)
45 PRK13982 bifunctional SbtC-lik 92.9 0.82 1.8E-05 36.8 7.9 35 6-46 70-104 (475)
46 PF00448 SRP54: SRP54-type pro 92.8 2.4 5.2E-05 29.9 9.7 112 9-159 5-120 (196)
47 cd01990 Alpha_ANH_like_I This 92.6 2 4.4E-05 30.1 9.1 86 9-132 1-105 (202)
48 TIGR02765 crypto_DASH cryptoch 92.3 4.8 0.0001 31.9 12.9 95 14-131 10-105 (429)
49 PF02601 Exonuc_VII_L: Exonucl 92.3 1 2.2E-05 34.2 7.6 56 106-161 51-115 (319)
50 PRK13820 argininosuccinate syn 92.1 5 0.00011 31.6 11.2 38 5-49 1-38 (394)
51 PRK08305 spoVFB dipicolinate s 91.9 1.1 2.4E-05 31.6 6.8 36 5-46 4-40 (196)
52 TIGR03556 photolyase_8HDF deox 91.8 2.4 5.3E-05 34.1 9.6 89 15-131 11-99 (471)
53 TIGR00268 conserved hypothetic 91.2 4.6 0.0001 29.6 10.7 35 6-49 12-46 (252)
54 TIGR00853 pts-lac PTS system, 90.6 1.2 2.6E-05 27.5 5.4 65 86-162 20-84 (95)
55 PRK10867 signal recognition pa 90.6 6.6 0.00014 31.4 10.7 95 9-140 104-201 (433)
56 COG1066 Sms Predicted ATP-depe 90.6 7.4 0.00016 30.9 10.8 110 9-160 96-217 (456)
57 KOG1650 Predicted K+/H+-antipo 90.3 2.2 4.8E-05 36.6 8.3 41 7-52 615-655 (769)
58 TIGR00521 coaBC_dfp phosphopan 90.0 4.5 9.8E-05 31.8 9.2 35 6-46 3-37 (390)
59 COG0452 Dfp Phosphopantothenoy 89.7 3.5 7.6E-05 32.4 8.5 113 6-163 4-123 (392)
60 TIGR02699 archaeo_AfpA archaeo 89.7 3 6.6E-05 28.9 7.3 33 8-45 1-34 (174)
61 cd05565 PTS_IIB_lactose PTS_II 89.2 1.7 3.7E-05 27.1 5.3 64 86-161 17-80 (99)
62 PRK12563 sulfate adenylyltrans 89.2 6.8 0.00015 29.8 9.3 40 6-50 37-76 (312)
63 PF03746 LamB_YcsF: LamB/YcsF 89.2 7.1 0.00015 28.6 10.0 119 11-157 32-160 (242)
64 cd07044 CofD_YvcK Family of Co 88.7 0.82 1.8E-05 34.7 4.2 52 109-162 163-215 (309)
65 PRK09590 celB cellobiose phosp 88.4 1.8 3.8E-05 27.3 5.0 66 86-161 18-83 (104)
66 cd01985 ETF The electron trans 87.9 6.9 0.00015 27.0 12.0 24 111-134 80-103 (181)
67 cd05564 PTS_IIB_chitobiose_lic 87.8 2.6 5.7E-05 26.0 5.5 65 86-162 16-80 (96)
68 PRK00286 xseA exodeoxyribonucl 87.5 5 0.00011 31.9 8.2 54 107-161 173-232 (438)
69 TIGR01826 CofD_related conserv 86.7 1.4 2.9E-05 33.5 4.4 51 109-162 161-213 (310)
70 PRK00109 Holliday junction res 86.3 2.2 4.7E-05 28.3 4.7 52 110-161 42-97 (138)
71 TIGR00959 ffh signal recogniti 86.0 16 0.00035 29.2 11.0 94 8-138 102-198 (428)
72 PF01933 UPF0052: Uncharacteri 85.6 1.8 3.9E-05 32.7 4.6 52 109-162 172-224 (300)
73 PRK10674 deoxyribodipyrimidine 85.6 17 0.00038 29.3 10.8 93 14-131 11-105 (472)
74 cd07187 YvcK_like family of mo 85.0 1.8 4E-05 32.8 4.4 52 109-162 164-216 (308)
75 COG1927 Mtd Coenzyme F420-depe 84.9 6 0.00013 28.3 6.5 47 112-162 50-96 (277)
76 PF03652 UPF0081: Uncharacteri 84.5 2 4.3E-05 28.4 3.9 54 108-161 37-95 (135)
77 TIGR00237 xseA exodeoxyribonuc 84.3 8.8 0.00019 30.6 8.1 55 107-161 167-227 (432)
78 PLN02948 phosphoribosylaminoim 84.3 5.9 0.00013 32.9 7.3 71 84-163 424-498 (577)
79 cd01995 ExsB ExsB is a transcr 84.3 10 0.00023 25.6 9.5 33 8-49 1-33 (169)
80 COG1606 ATP-utilizing enzymes 84.1 15 0.00032 27.2 10.3 87 7-131 18-122 (269)
81 PF13167 GTP-bdg_N: GTP-bindin 83.5 8.3 0.00018 23.9 6.8 48 83-131 7-66 (95)
82 TIGR01425 SRP54_euk signal rec 83.2 22 0.00047 28.5 10.5 97 9-143 104-203 (429)
83 PF02844 GARS_N: Phosphoribosy 83.0 1.3 2.9E-05 27.7 2.4 25 107-131 47-71 (100)
84 cd01714 ETF_beta The electron 82.9 14 0.00031 26.1 9.5 81 12-133 30-119 (202)
85 COG0299 PurN Folate-dependent 82.6 15 0.00032 26.1 10.1 83 7-131 1-88 (200)
86 cd07186 CofD_like LPPG:FO 2-ph 82.5 5.8 0.00012 30.1 6.0 51 109-161 172-223 (303)
87 cd08550 GlyDH-like Glycerol_de 82.4 13 0.00028 28.7 8.1 67 86-161 38-109 (349)
88 COG0415 PhrB Deoxyribodipyrimi 82.3 25 0.00053 28.4 10.1 89 14-131 11-99 (461)
89 COG0541 Ffh Signal recognition 82.1 24 0.00053 28.2 10.5 98 8-143 103-203 (451)
90 PRK11070 ssDNA exonuclease Rec 81.6 22 0.00047 29.7 9.5 93 6-132 69-161 (575)
91 PRK14665 mnmA tRNA-specific 2- 81.4 23 0.00051 27.6 9.6 35 6-49 5-39 (360)
92 PRK08185 hypothetical protein; 81.3 6 0.00013 29.7 5.8 56 107-162 22-77 (283)
93 PRK05406 LamB/YcsF family prot 81.3 11 0.00023 27.7 6.9 113 17-157 40-162 (246)
94 PRK06027 purU formyltetrahydro 80.9 21 0.00046 26.8 9.7 84 5-132 88-175 (286)
95 PRK12857 fructose-1,6-bisphosp 80.5 8 0.00017 29.0 6.2 73 90-163 10-84 (284)
96 cd02067 B12-binding B12 bindin 80.4 12 0.00026 23.7 7.0 43 88-132 18-60 (119)
97 PRK12858 tagatose 1,6-diphosph 80.3 25 0.00054 27.2 9.2 85 78-163 137-251 (340)
98 COG1597 LCB5 Sphingosine kinas 80.1 12 0.00026 28.3 7.2 73 82-161 18-91 (301)
99 KOG0780 Signal recognition par 80.1 28 0.00061 27.7 9.7 96 9-142 105-203 (483)
100 TIGR00250 RNAse_H_YqgF RNAse H 79.9 5.5 0.00012 26.1 4.7 53 109-161 35-91 (130)
101 TIGR02069 cyanophycinase cyano 79.9 12 0.00027 27.4 7.0 104 10-150 1-110 (250)
102 PRK14664 tRNA-specific 2-thiou 79.8 27 0.00059 27.3 9.6 34 6-48 5-38 (362)
103 TIGR00930 2a30 K-Cl cotranspor 79.7 45 0.00096 29.7 11.7 123 7-161 576-709 (953)
104 PRK12737 gatY tagatose-bisphos 79.5 9.1 0.0002 28.8 6.2 72 91-163 11-84 (284)
105 PRK13010 purU formyltetrahydro 79.2 25 0.00054 26.5 9.5 83 5-131 92-178 (289)
106 PRK06806 fructose-bisphosphate 79.0 11 0.00024 28.2 6.6 72 90-162 10-83 (281)
107 PRK08576 hypothetical protein; 78.9 28 0.00061 27.9 9.1 33 8-49 236-268 (438)
108 cd01996 Alpha_ANH_like_III Thi 78.9 16 0.00035 24.2 9.5 34 8-49 3-36 (154)
109 PRK06801 hypothetical protein; 78.8 11 0.00024 28.4 6.5 71 91-162 11-83 (286)
110 TIGR00884 guaA_Cterm GMP synth 78.8 27 0.00058 26.6 11.3 36 7-50 17-52 (311)
111 PRK09195 gatY tagatose-bisphos 78.4 9.7 0.00021 28.6 6.1 71 91-162 11-83 (284)
112 TIGR02855 spore_yabG sporulati 78.4 8.8 0.00019 28.6 5.7 48 84-132 115-163 (283)
113 PF10087 DUF2325: Uncharacteri 78.4 13 0.00028 22.8 6.6 71 85-162 11-84 (97)
114 PRK15424 propionate catabolism 78.3 13 0.00029 30.6 7.3 66 84-162 24-92 (538)
115 PRK11914 diacylglycerol kinase 78.2 15 0.00032 27.7 7.2 67 88-162 30-97 (306)
116 PRK00994 F420-dependent methyl 77.8 12 0.00025 27.4 6.0 46 112-161 50-95 (277)
117 PRK08091 ribulose-phosphate 3- 77.6 24 0.00053 25.6 8.5 44 86-131 166-209 (228)
118 COG0036 Rpe Pentose-5-phosphat 77.6 19 0.00042 25.9 7.1 60 86-148 98-157 (220)
119 PF02887 PK_C: Pyruvate kinase 77.5 7.8 0.00017 24.6 4.8 43 111-162 5-48 (117)
120 TIGR00655 PurU formyltetrahydr 76.4 30 0.00065 26.0 9.3 83 5-131 83-169 (280)
121 PRK12569 hypothetical protein; 76.3 16 0.00034 26.9 6.4 97 17-131 43-149 (245)
122 COG0816 Predicted endonuclease 76.3 9.2 0.0002 25.5 4.9 52 110-161 41-96 (141)
123 PF00885 DMRL_synthase: 6,7-di 76.1 20 0.00044 23.9 6.9 78 81-158 17-104 (144)
124 COG0420 SbcD DNA repair exonuc 76.1 7.6 0.00016 30.3 5.3 19 112-130 30-48 (390)
125 PF05582 Peptidase_U57: YabG p 75.9 8.7 0.00019 28.7 5.1 47 84-131 116-163 (287)
126 cd02070 corrinoid_protein_B12- 75.5 21 0.00046 25.1 7.0 66 89-158 102-170 (201)
127 PLN00200 argininosuccinate syn 75.5 39 0.00085 26.8 12.6 39 4-50 3-41 (404)
128 TIGR01858 tag_bisphos_ald clas 75.3 14 0.00031 27.7 6.2 71 92-163 10-82 (282)
129 PRK00919 GMP synthase subunit 75.0 35 0.00075 26.0 10.4 36 7-50 22-57 (307)
130 PF03575 Peptidase_S51: Peptid 74.7 4.6 0.0001 27.1 3.3 62 86-150 2-63 (154)
131 PRK12738 kbaY tagatose-bisphos 74.4 17 0.00036 27.4 6.4 72 91-163 11-84 (286)
132 cd03557 L-arabinose_isomerase 74.2 37 0.00079 27.7 8.7 68 87-161 26-99 (484)
133 PF04459 DUF512: Protein of un 74.0 25 0.00054 25.1 6.9 81 82-163 108-203 (204)
134 cd00946 FBP_aldolase_IIA Class 73.9 16 0.00034 28.3 6.3 73 89-162 7-96 (345)
135 COG1646 Predicted phosphate-bi 73.7 30 0.00065 25.2 7.2 53 109-163 28-80 (240)
136 PF14582 Metallophos_3: Metall 73.7 13 0.00028 27.1 5.4 19 147-165 83-101 (255)
137 PRK11889 flhF flagellar biosyn 73.6 45 0.00098 26.7 9.4 98 9-144 245-342 (436)
138 cd00947 TBP_aldolase_IIB Tagat 73.5 14 0.0003 27.7 5.8 71 92-163 7-79 (276)
139 PRK00143 mnmA tRNA-specific 2- 73.2 41 0.00089 26.0 9.5 34 7-49 1-34 (346)
140 PRK09722 allulose-6-phosphate 73.1 33 0.00072 24.9 9.0 45 85-131 155-199 (229)
141 cd00408 DHDPS-like Dihydrodipi 73.1 35 0.00076 25.2 8.0 77 84-162 54-132 (281)
142 COG0191 Fba Fructose/tagatose 73.0 17 0.00038 27.3 6.1 74 89-163 9-85 (286)
143 PRK09197 fructose-bisphosphate 72.9 18 0.00038 28.1 6.3 74 88-162 11-101 (350)
144 TIGR02329 propionate_PrpR prop 72.8 31 0.00067 28.4 8.1 63 87-162 17-82 (526)
145 TIGR01769 GGGP geranylgeranylg 72.8 12 0.00025 26.8 5.0 48 114-163 16-63 (205)
146 PRK08745 ribulose-phosphate 3- 72.7 33 0.00072 24.8 8.5 44 86-131 158-201 (223)
147 cd01997 GMP_synthase_C The C-t 72.5 39 0.00086 25.5 10.9 35 8-50 1-35 (295)
148 PF07302 AroM: AroM protein; 72.0 35 0.00075 24.7 7.5 64 88-159 140-208 (221)
149 PF00072 Response_reg: Respons 71.7 20 0.00043 21.8 6.8 52 107-162 28-80 (112)
150 TIGR00583 mre11 DNA repair pro 71.6 14 0.00031 29.2 5.8 13 152-164 109-121 (405)
151 PF07355 GRDB: Glycine/sarcosi 71.5 8.2 0.00018 29.8 4.2 49 110-159 68-117 (349)
152 COG1570 XseA Exonuclease VII, 71.2 15 0.00033 29.3 5.7 53 106-159 172-231 (440)
153 cd00950 DHDPS Dihydrodipicolin 70.7 34 0.00073 25.4 7.4 52 111-162 84-135 (284)
154 cd00951 KDGDH 5-dehydro-4-deox 70.7 42 0.00091 25.1 8.1 63 97-160 69-132 (289)
155 cd08173 Gro1PDH Sn-glycerol-1- 70.3 25 0.00055 26.9 6.8 66 86-161 41-110 (339)
156 TIGR00032 argG argininosuccina 69.7 54 0.0012 26.0 10.0 34 8-50 1-34 (394)
157 PRK09261 phospho-2-dehydro-3-d 69.4 52 0.0011 25.6 9.2 130 6-159 51-186 (349)
158 PRK13059 putative lipid kinase 69.4 43 0.00093 25.1 7.8 68 87-162 22-91 (295)
159 PRK14057 epimerase; Provisiona 69.1 44 0.00096 24.7 8.9 44 86-131 180-223 (254)
160 PRK07998 gatY putative fructos 69.1 20 0.00044 26.9 5.8 54 109-162 29-83 (283)
161 cd00578 L-fuc_L-ara-isomerases 69.0 38 0.00083 27.1 7.8 47 111-163 52-98 (452)
162 PRK13337 putative lipid kinase 69.0 47 0.001 25.0 8.1 69 87-162 22-92 (304)
163 cd01994 Alpha_ANH_like_IV This 69.0 37 0.00081 23.8 9.5 33 8-49 1-33 (194)
164 COG0391 Uncharacterized conser 68.8 11 0.00023 28.9 4.4 50 109-161 178-229 (323)
165 PRK13398 3-deoxy-7-phosphohept 68.8 46 0.00099 24.8 11.2 94 8-134 27-122 (266)
166 TIGR03573 WbuX N-acetyl sugar 68.2 53 0.0012 25.3 10.0 34 8-49 61-94 (343)
167 PRK13054 lipid kinase; Reviewe 68.0 43 0.00093 25.1 7.5 67 89-162 23-93 (300)
168 PF04244 DPRP: Deoxyribodipyri 67.9 32 0.0007 24.9 6.5 73 84-162 49-126 (224)
169 TIGR00290 MJ0570_dom MJ0570-re 67.7 44 0.00096 24.2 10.5 36 8-52 2-37 (223)
170 COG1184 GCD2 Translation initi 67.7 52 0.0011 25.0 9.6 58 101-162 120-179 (301)
171 PRK13055 putative lipid kinase 67.5 51 0.0011 25.2 8.0 71 85-162 21-94 (334)
172 PF01116 F_bP_aldolase: Fructo 67.3 10 0.00022 28.5 4.0 52 108-159 27-79 (287)
173 TIGR00167 cbbA ketose-bisphosp 67.0 35 0.00075 25.8 6.7 73 89-162 9-86 (288)
174 PHA02546 47 endonuclease subun 67.0 18 0.00039 27.8 5.4 16 84-99 26-41 (340)
175 TIGR00289 conserved hypothetic 66.9 46 0.00099 24.1 10.0 90 8-131 2-94 (222)
176 PRK13399 fructose-1,6-bisphosp 66.4 31 0.00066 26.8 6.4 71 91-162 11-84 (347)
177 PRK02929 L-arabinose isomerase 66.3 64 0.0014 26.5 8.5 68 86-161 31-105 (499)
178 TIGR00342 thiazole biosynthesi 66.2 62 0.0013 25.3 11.6 36 5-49 171-206 (371)
179 PRK06850 hypothetical protein; 66.1 74 0.0016 26.2 8.8 25 7-31 35-59 (507)
180 PRK05920 aromatic acid decarbo 66.1 18 0.00038 25.8 4.8 36 5-46 2-37 (204)
181 PRK03170 dihydrodipicolinate s 65.8 54 0.0012 24.5 8.1 77 84-162 58-136 (292)
182 COG1440 CelA Phosphotransferas 65.4 26 0.00056 22.0 4.8 63 87-161 19-81 (102)
183 cd00952 CHBPH_aldolase Trans-o 65.4 58 0.0013 24.7 8.4 77 84-162 65-144 (309)
184 PRK00074 guaA GMP synthase; Re 65.4 76 0.0016 26.1 10.8 36 7-50 216-251 (511)
185 PF01884 PcrB: PcrB family; I 64.7 19 0.0004 26.2 4.8 51 109-163 19-69 (230)
186 TIGR00619 sbcd exonuclease Sbc 64.4 26 0.00056 25.7 5.6 23 85-110 27-49 (253)
187 COG3360 Uncharacterized conser 64.3 20 0.00044 20.6 3.9 47 1-52 1-47 (71)
188 TIGR01521 FruBisAldo_II_B fruc 64.0 37 0.00079 26.4 6.4 71 91-162 9-82 (347)
189 TIGR01859 fruc_bis_ald_ fructo 64.0 39 0.00085 25.3 6.5 70 92-162 10-83 (282)
190 PLN02828 formyltetrahydrofolat 63.9 59 0.0013 24.3 10.2 86 5-131 69-156 (268)
191 PRK13011 formyltetrahydrofolat 63.7 61 0.0013 24.4 9.0 83 5-131 88-174 (286)
192 COG2876 AroA 3-deoxy-D-arabino 63.7 26 0.00056 26.1 5.3 88 16-135 54-141 (286)
193 PRK10481 hypothetical protein; 63.4 55 0.0012 23.7 7.2 59 92-158 148-211 (224)
194 TIGR01520 FruBisAldo_II_A fruc 62.7 42 0.00091 26.2 6.5 72 91-163 20-109 (357)
195 TIGR01501 MthylAspMutase methy 62.5 34 0.00075 22.6 5.4 41 90-132 22-62 (134)
196 TIGR00273 iron-sulfur cluster- 62.3 32 0.0007 27.5 6.1 60 71-131 38-97 (432)
197 PLN02858 fructose-bisphosphate 62.2 29 0.00062 32.2 6.4 94 69-163 1085-1179(1378)
198 cd02072 Glm_B12_BD B12 binding 62.1 42 0.00091 22.0 6.9 39 92-132 22-60 (128)
199 PLN02331 phosphoribosylglycina 61.9 56 0.0012 23.3 9.5 41 90-131 42-87 (207)
200 PRK13606 LPPG:FO 2-phospho-L-l 61.7 17 0.00037 27.6 4.2 48 109-161 174-223 (303)
201 PRK04147 N-acetylneuraminate l 61.5 66 0.0014 24.1 8.3 51 112-162 89-139 (293)
202 PRK07315 fructose-bisphosphate 61.5 40 0.00087 25.5 6.2 70 91-161 11-85 (293)
203 cd00954 NAL N-Acetylneuraminic 60.9 68 0.0015 24.0 8.2 51 112-162 86-137 (288)
204 PRK05835 fructose-bisphosphate 60.7 43 0.00093 25.5 6.2 72 91-163 10-84 (307)
205 cd08170 GlyDH Glycerol dehydro 60.7 67 0.0015 24.7 7.5 70 84-161 36-109 (351)
206 PF01507 PAPS_reduct: Phosphoa 60.6 47 0.001 22.2 6.1 24 8-31 1-24 (174)
207 smart00851 MGS MGS-like domain 60.4 34 0.00075 20.4 5.0 63 93-157 26-89 (90)
208 TIGR03702 lip_kinase_YegS lipi 60.1 70 0.0015 23.9 7.7 66 90-162 20-89 (293)
209 PRK00125 pyrF orotidine 5'-pho 59.9 72 0.0016 24.0 7.5 29 7-36 14-52 (278)
210 PRK08673 3-deoxy-7-phosphohept 59.8 80 0.0017 24.5 8.0 105 17-161 104-208 (335)
211 COG0788 PurU Formyltetrahydrof 59.7 21 0.00046 26.6 4.3 43 88-131 129-175 (287)
212 COG0036 Rpe Pentose-5-phosphat 59.7 64 0.0014 23.3 7.0 42 87-131 158-199 (220)
213 cd01712 ThiI ThiI is required 59.5 54 0.0012 22.3 11.9 35 8-51 1-35 (177)
214 KOG1467 Translation initiation 59.3 99 0.0021 25.3 11.1 105 7-160 360-468 (556)
215 cd00453 FTBP_aldolase_II Fruct 59.0 38 0.00082 26.2 5.7 70 93-163 8-95 (340)
216 PF14639 YqgF: Holliday-juncti 58.8 24 0.00051 23.8 4.2 21 111-131 52-72 (150)
217 PRK09860 putative alcohol dehy 58.7 44 0.00096 26.2 6.3 43 86-131 48-98 (383)
218 PF01596 Methyltransf_3: O-met 58.7 31 0.00066 24.6 5.0 46 86-132 83-131 (205)
219 cd00958 DhnA Class I fructose- 58.0 67 0.0015 23.0 8.1 72 81-161 106-187 (235)
220 PF01008 IF-2B: Initiation fac 57.9 35 0.00076 25.3 5.4 38 122-160 176-217 (282)
221 cd01715 ETF_alpha The electron 57.7 57 0.0012 22.1 10.2 24 111-134 72-95 (168)
222 PRK15411 rcsA colanic acid cap 57.6 65 0.0014 22.7 8.0 51 105-161 30-85 (207)
223 TIGR01918 various_sel_PB selen 57.6 21 0.00046 28.4 4.3 48 111-159 65-113 (431)
224 PF00834 Ribul_P_3_epim: Ribul 57.6 15 0.00033 26.0 3.3 46 84-131 151-196 (201)
225 PRK08610 fructose-bisphosphate 57.6 53 0.0012 24.8 6.2 71 91-162 11-86 (286)
226 TIGR01917 gly_red_sel_B glycin 57.5 21 0.00047 28.4 4.3 48 111-159 65-113 (431)
227 TIGR00683 nanA N-acetylneurami 57.0 81 0.0018 23.7 8.2 76 85-162 59-137 (290)
228 PRK13057 putative lipid kinase 56.9 63 0.0014 24.0 6.7 68 86-162 15-83 (287)
229 PRK09196 fructose-1,6-bisphosp 56.8 53 0.0012 25.5 6.2 70 92-162 12-84 (347)
230 TIGR00674 dapA dihydrodipicoli 56.6 80 0.0017 23.5 8.1 51 112-162 83-133 (285)
231 TIGR00147 lipid kinase, YegS/R 56.4 81 0.0018 23.4 8.0 71 85-162 20-92 (293)
232 PRK00843 egsA NAD(P)-dependent 56.3 71 0.0015 24.7 7.0 64 87-161 51-119 (350)
233 PRK07709 fructose-bisphosphate 55.8 70 0.0015 24.1 6.6 71 91-162 11-86 (285)
234 PHA02031 putative DnaG-like pr 55.7 55 0.0012 24.4 5.9 37 6-47 206-242 (266)
235 cd03364 TOPRIM_DnaG_primases T 55.4 40 0.00086 19.6 4.5 30 6-36 43-72 (79)
236 PF12683 DUF3798: Protein of u 55.3 23 0.0005 26.4 3.9 91 8-132 4-96 (275)
237 TIGR00640 acid_CoA_mut_C methy 55.3 57 0.0012 21.4 6.4 56 90-150 23-79 (132)
238 PF13727 CoA_binding_3: CoA-bi 55.3 24 0.00053 23.5 4.0 47 110-160 129-175 (175)
239 PRK08745 ribulose-phosphate 3- 55.1 61 0.0013 23.4 6.0 60 86-148 99-158 (223)
240 COG3640 CooC CO dehydrogenase 55.1 83 0.0018 23.2 6.6 44 106-151 84-128 (255)
241 PRK00861 putative lipid kinase 55.0 88 0.0019 23.4 7.4 57 98-162 33-90 (300)
242 COG2201 CheB Chemotaxis respon 54.9 89 0.0019 24.4 7.2 53 105-161 30-82 (350)
243 TIGR00177 molyb_syn molybdenum 54.7 44 0.00096 22.1 5.0 41 88-129 31-73 (144)
244 cd08179 NADPH_BDH NADPH-depend 54.4 66 0.0014 25.1 6.6 42 86-128 41-87 (375)
245 COG1058 CinA Predicted nucleot 54.3 59 0.0013 24.1 5.9 41 87-129 24-67 (255)
246 cd05569 PTS_IIB_fructose PTS_I 54.2 27 0.00059 21.4 3.7 44 87-133 19-64 (96)
247 PRK05703 flhF flagellar biosyn 53.9 1.1E+02 0.0025 24.4 9.2 31 12-47 228-259 (424)
248 PF00793 DAHP_synth_1: DAHP sy 53.9 80 0.0017 23.6 6.6 116 7-161 15-139 (270)
249 TIGR02766 crypt_chrom_pln cryp 53.7 1.2E+02 0.0026 24.6 12.3 49 81-131 48-96 (475)
250 TIGR01304 IMP_DH_rel_2 IMP deh 53.5 81 0.0018 24.8 6.8 63 91-158 126-193 (369)
251 PRK12756 phospho-2-dehydro-3-d 53.3 89 0.0019 24.3 6.8 127 6-159 50-185 (348)
252 PRK07084 fructose-bisphosphate 53.3 58 0.0012 25.1 5.9 70 92-162 18-94 (321)
253 PRK06806 fructose-bisphosphate 53.0 96 0.0021 23.3 8.7 76 84-160 115-207 (281)
254 TIGR00347 bioD dethiobiotin sy 53.0 33 0.00072 23.0 4.3 15 17-31 10-24 (166)
255 cd00532 MGS-like MGS-like doma 52.7 56 0.0012 20.5 5.7 64 94-158 39-104 (112)
256 PRK00771 signal recognition pa 52.5 1.2E+02 0.0027 24.4 10.6 33 9-47 99-131 (437)
257 PF02878 PGM_PMM_I: Phosphoglu 52.5 17 0.00037 23.8 2.7 39 6-49 40-78 (137)
258 TIGR01819 F420_cofD LPPG:FO 2- 52.4 32 0.00069 26.1 4.3 48 109-161 171-220 (297)
259 PRK09423 gldA glycerol dehydro 52.4 1.1E+02 0.0024 23.8 8.1 68 85-161 44-116 (366)
260 cd08194 Fe-ADH6 Iron-containin 52.2 74 0.0016 24.8 6.6 45 86-131 40-90 (375)
261 PRK02261 methylaspartate mutas 52.1 67 0.0014 21.2 7.3 42 89-133 23-65 (137)
262 PF02610 Arabinose_Isome: L-ar 52.0 1.1E+02 0.0025 23.9 7.6 75 76-160 25-104 (359)
263 TIGR00715 precor6x_red precorr 52.0 95 0.0021 23.0 7.5 43 115-163 190-233 (256)
264 PF02310 B12-binding: B12 bind 51.8 57 0.0012 20.4 6.9 42 87-131 18-60 (121)
265 PF13662 Toprim_4: Toprim doma 51.8 27 0.0006 20.4 3.3 30 6-36 46-75 (81)
266 PLN02476 O-methyltransferase 51.6 62 0.0014 24.3 5.8 48 84-132 154-204 (278)
267 PF04007 DUF354: Protein of un 51.4 63 0.0014 25.0 5.9 50 84-137 14-63 (335)
268 cd08175 G1PDH Glycerol-1-phosp 51.3 81 0.0018 24.3 6.6 66 87-162 40-113 (348)
269 PF07476 MAAL_C: Methylasparta 51.2 95 0.0021 22.7 6.5 57 80-137 119-176 (248)
270 PRK03620 5-dehydro-4-deoxygluc 50.9 1.1E+02 0.0023 23.2 8.0 50 112-161 91-140 (303)
271 PF07279 DUF1442: Protein of u 50.8 93 0.002 22.5 6.7 42 90-134 86-127 (218)
272 PRK06731 flhF flagellar biosyn 50.7 64 0.0014 24.1 5.7 32 112-143 144-175 (270)
273 TIGR03183 DNA_S_dndC putative 50.7 1.3E+02 0.0029 24.3 9.0 25 7-31 14-38 (447)
274 TIGR02313 HpaI-NOT-DapA 2,4-di 50.6 1.1E+02 0.0023 23.1 8.2 76 85-162 58-136 (294)
275 PRK08091 ribulose-phosphate 3- 50.4 97 0.0021 22.6 7.3 58 87-147 106-165 (228)
276 cd07392 MPP_PAE1087 Pyrobaculu 50.3 56 0.0012 22.0 5.2 45 117-163 18-62 (188)
277 cd00840 MPP_Mre11_N Mre11 nucl 50.1 47 0.001 23.2 4.9 8 126-133 81-88 (223)
278 PRK10624 L-1,2-propanediol oxi 50.1 56 0.0012 25.6 5.6 45 86-131 47-97 (382)
279 PRK08005 epimerase; Validated 49.9 80 0.0017 22.6 5.9 60 86-148 95-154 (210)
280 TIGR01440 conserved hypothetic 49.9 84 0.0018 21.7 9.9 112 19-159 3-117 (172)
281 PF06925 MGDG_synth: Monogalac 49.8 79 0.0017 21.4 5.8 23 109-131 76-98 (169)
282 cd08186 Fe-ADH8 Iron-containin 49.8 89 0.0019 24.5 6.7 45 86-131 44-94 (383)
283 cd08176 LPO Lactadehyde:propan 49.2 74 0.0016 24.8 6.2 45 86-131 45-95 (377)
284 KOG1552 Predicted alpha/beta h 49.1 55 0.0012 24.3 5.0 66 96-164 126-203 (258)
285 PRK04527 argininosuccinate syn 49.1 1.4E+02 0.0029 23.9 10.8 36 6-50 2-37 (400)
286 PF01791 DeoC: DeoC/LacD famil 49.1 89 0.0019 22.5 6.2 79 79-159 107-199 (236)
287 KOG3180 Electron transfer flav 49.0 50 0.0011 23.6 4.6 23 109-131 101-123 (254)
288 PF02142 MGS: MGS-like domain 48.7 28 0.0006 21.2 3.1 65 91-157 24-94 (95)
289 COG0042 tRNA-dihydrouridine sy 48.7 1E+02 0.0022 23.6 6.7 33 98-131 137-174 (323)
290 PRK00509 argininosuccinate syn 48.6 1.4E+02 0.003 23.8 11.5 37 6-50 2-38 (399)
291 COG0552 FtsY Signal recognitio 48.4 1.3E+02 0.0028 23.4 10.3 96 7-141 141-240 (340)
292 COG0301 ThiI Thiamine biosynth 48.0 1.4E+02 0.003 23.7 8.3 35 7-50 176-210 (383)
293 TIGR00646 MG010 DNA primase-re 47.8 1E+02 0.0023 22.2 7.2 36 6-46 154-189 (218)
294 PF02729 OTCace_N: Aspartate/o 47.8 41 0.00088 22.4 4.0 40 108-157 81-120 (142)
295 PRK08335 translation initiatio 47.8 1.2E+02 0.0025 22.8 6.7 61 91-160 154-218 (275)
296 COG3598 RepA RecA-family ATPas 47.5 1.4E+02 0.0029 23.4 7.0 53 112-164 184-243 (402)
297 PRK06455 riboflavin synthase; 47.5 89 0.0019 21.3 6.9 73 86-159 17-97 (155)
298 PRK10415 tRNA-dihydrouridine s 47.4 1.3E+02 0.0027 23.1 8.2 64 97-161 133-202 (321)
299 KOG3076 5'-phosphoribosylglyci 47.2 1E+02 0.0022 21.9 9.4 90 2-131 2-96 (206)
300 TIGR00524 eIF-2B_rel eIF-2B al 46.7 72 0.0016 24.3 5.5 41 119-160 194-238 (303)
301 COG0426 FpaA Uncharacterized f 46.5 1E+02 0.0022 24.4 6.4 47 84-133 262-308 (388)
302 TIGR00064 ftsY signal recognit 46.3 1.2E+02 0.0026 22.5 10.3 88 12-137 79-169 (272)
303 COG1184 GCD2 Translation initi 46.3 1.3E+02 0.0028 22.9 11.1 64 89-160 162-228 (301)
304 smart00852 MoCF_biosynth Proba 46.2 73 0.0016 20.6 5.0 41 88-129 22-64 (135)
305 PRK06372 translation initiatio 46.1 1.2E+02 0.0026 22.5 6.4 62 90-160 127-192 (253)
306 PRK10653 D-ribose transporter 45.9 1.2E+02 0.0026 22.3 7.0 71 84-161 43-115 (295)
307 PRK08057 cobalt-precorrin-6x r 45.8 59 0.0013 23.9 4.8 43 115-163 183-225 (248)
308 PRK12361 hypothetical protein; 45.6 1.5E+02 0.0032 24.6 7.6 70 84-162 260-330 (547)
309 COG1691 NCAIR mutase (PurE)-re 45.6 1.2E+02 0.0025 22.3 6.0 60 93-161 140-203 (254)
310 TIGR03151 enACPred_II putative 45.4 1E+02 0.0022 23.4 6.3 66 89-159 101-167 (307)
311 KOG1650 Predicted K+/H+-antipo 45.4 2E+02 0.0044 25.1 8.6 147 4-161 441-599 (769)
312 PRK08535 translation initiatio 45.4 1E+02 0.0022 23.5 6.3 60 92-160 166-229 (310)
313 COG1504 Uncharacterized conser 45.4 58 0.0013 20.8 4.0 38 121-161 60-97 (121)
314 PLN02781 Probable caffeoyl-CoA 45.1 92 0.002 22.5 5.8 45 86-131 106-153 (234)
315 TIGR02370 pyl_corrinoid methyl 45.1 1.1E+02 0.0023 21.5 6.9 58 90-151 105-162 (197)
316 PRK00090 bioD dithiobiotin syn 45.1 50 0.0011 23.4 4.4 15 145-159 125-139 (222)
317 TIGR00486 YbgI_SA1388 dinuclea 44.9 1.2E+02 0.0026 22.2 6.4 51 111-161 177-245 (249)
318 cd07766 DHQ_Fe-ADH Dehydroquin 44.8 1.3E+02 0.0028 22.8 6.8 45 111-161 67-112 (332)
319 PF01993 MTD: methylene-5,6,7, 44.5 54 0.0012 24.2 4.3 46 112-161 49-94 (276)
320 PRK10416 signal recognition pa 44.4 1.4E+02 0.0031 22.8 10.9 93 9-139 118-213 (318)
321 COG0603 Predicted PP-loop supe 44.3 1.2E+02 0.0026 22.0 8.2 37 6-51 2-38 (222)
322 PF01261 AP_endonuc_2: Xylose 44.1 1E+02 0.0022 21.0 6.6 80 20-124 70-157 (213)
323 COG1197 Mfd Transcription-repa 44.0 2E+02 0.0043 26.4 8.3 91 4-132 614-706 (1139)
324 cd01971 Nitrogenase_VnfN_like 44.0 44 0.00096 26.6 4.3 27 108-134 102-128 (427)
325 TIGR00421 ubiX_pad polyprenyl 43.9 47 0.001 23.1 3.9 34 8-47 1-34 (181)
326 cd08199 EEVS 2-epi-5-epi-valio 43.9 1.5E+02 0.0033 23.0 7.7 66 87-161 43-122 (354)
327 cd04724 Tryptophan_synthase_al 43.8 1.3E+02 0.0027 22.0 8.2 73 85-158 117-192 (242)
328 cd07388 MPP_Tt1561 Thermus the 43.6 66 0.0014 23.2 4.8 19 111-129 20-38 (224)
329 PF03358 FMN_red: NADPH-depend 43.4 93 0.002 20.3 5.3 21 112-134 62-82 (152)
330 PF13500 AAA_26: AAA domain; P 43.0 24 0.00053 24.5 2.5 42 113-157 120-161 (199)
331 PRK09722 allulose-6-phosphate 42.8 1.2E+02 0.0026 22.1 5.9 56 86-144 97-152 (229)
332 PF00215 OMPdecase: Orotidine 42.8 81 0.0018 22.6 5.2 45 85-130 43-93 (226)
333 PLN02589 caffeoyl-CoA O-methyl 42.7 98 0.0021 22.8 5.6 45 86-131 117-165 (247)
334 PRK08883 ribulose-phosphate 3- 42.6 1.3E+02 0.0027 21.7 8.3 44 86-131 154-197 (220)
335 cd02933 OYE_like_FMN Old yello 42.6 1.6E+02 0.0034 22.8 9.5 49 113-161 245-293 (338)
336 cd06315 PBP1_ABC_sugar_binding 42.5 1.3E+02 0.0029 21.8 6.7 71 84-161 17-89 (280)
337 PRK12755 phospho-2-dehydro-3-d 42.3 1.7E+02 0.0036 23.0 8.8 130 6-159 52-187 (353)
338 cd02071 MM_CoA_mut_B12_BD meth 42.1 91 0.002 19.9 7.3 42 89-133 19-61 (122)
339 COG2102 Predicted ATPases of P 42.1 1.3E+02 0.0029 21.8 9.3 91 8-131 2-95 (223)
340 PRK08227 autoinducer 2 aldolas 42.1 1.4E+02 0.0031 22.2 8.5 70 81-161 124-200 (264)
341 PLN02285 methionyl-tRNA formyl 41.7 1.6E+02 0.0035 22.7 8.9 43 89-132 60-103 (334)
342 TIGR02127 pyrF_sub2 orotidine 41.4 1.5E+02 0.0032 22.1 8.8 34 7-45 14-57 (261)
343 cd02812 PcrB_like PcrB_like pr 41.4 80 0.0017 22.8 4.8 50 111-163 14-64 (219)
344 cd00886 MogA_MoaB MogA_MoaB fa 41.4 95 0.0021 20.7 5.0 40 89-129 25-68 (152)
345 cd00885 cinA Competence-damage 41.3 1.2E+02 0.0025 20.9 5.9 41 88-129 23-65 (170)
346 TIGR00420 trmU tRNA (5-methyla 41.3 1.7E+02 0.0037 22.8 10.6 33 7-48 1-33 (352)
347 PF02571 CbiJ: Precorrin-6x re 41.2 72 0.0016 23.5 4.7 44 115-164 187-230 (249)
348 PRK08349 hypothetical protein; 41.1 1.2E+02 0.0027 21.1 10.1 34 7-49 1-34 (198)
349 cd00758 MoCF_BD MoCF_BD: molyb 40.9 94 0.002 20.1 4.9 41 88-129 23-65 (133)
350 PRK09875 putative hydrolase; P 40.8 1E+02 0.0022 23.3 5.5 49 83-132 138-188 (292)
351 PRK08392 hypothetical protein; 40.6 1.2E+02 0.0026 21.5 5.8 66 85-155 138-205 (215)
352 TIGR02667 moaB_proteo molybden 40.6 1.2E+02 0.0025 20.7 6.0 40 89-129 27-70 (163)
353 PRK11921 metallo-beta-lactamas 40.5 1.8E+02 0.0039 22.9 8.6 37 95-134 276-312 (394)
354 COG0107 HisF Imidazoleglycerol 40.5 65 0.0014 23.6 4.2 60 97-158 20-79 (256)
355 PRK10966 exonuclease subunit S 40.3 86 0.0019 24.9 5.3 24 84-110 26-49 (407)
356 cd02065 B12-binding_like B12 b 40.2 93 0.002 19.4 6.0 66 88-158 18-85 (125)
357 COG1139 Uncharacterized conser 40.0 1.2E+02 0.0026 24.5 5.9 58 73-131 54-111 (459)
358 cd08177 MAR Maleylacetate redu 39.4 81 0.0018 24.2 5.0 43 111-161 66-109 (337)
359 smart00732 YqgFc Likely ribonu 39.4 84 0.0018 18.7 4.9 52 111-162 40-93 (99)
360 cd08171 GlyDH-like2 Glycerol d 39.3 1.8E+02 0.0038 22.4 7.1 67 86-161 38-110 (345)
361 cd01986 Alpha_ANH_like Adenine 39.3 90 0.002 19.0 9.5 33 9-50 1-33 (103)
362 COG0151 PurD Phosphoribosylami 39.2 33 0.00071 27.4 2.8 23 109-131 50-72 (428)
363 PF06506 PrpR_N: Propionate ca 39.2 1.3E+02 0.0027 20.6 5.5 50 101-162 10-62 (176)
364 KOG2310 DNA repair exonuclease 39.1 28 0.0006 28.8 2.4 51 110-160 40-96 (646)
365 PRK10799 metal-binding protein 38.7 1.5E+02 0.0034 21.6 6.6 56 107-163 172-245 (247)
366 PRK06371 translation initiatio 38.7 1.2E+02 0.0026 23.5 5.6 62 92-160 191-256 (329)
367 PRK14974 cell division protein 38.5 1.9E+02 0.004 22.4 10.6 51 89-140 187-240 (336)
368 PRK08334 translation initiatio 38.3 1.6E+02 0.0034 23.1 6.2 61 93-160 215-279 (356)
369 TIGR03729 acc_ester putative p 38.2 1.1E+02 0.0024 21.9 5.4 11 101-111 33-43 (239)
370 cd08182 HEPD Hydroxyethylphosp 38.1 1.5E+02 0.0033 22.9 6.4 21 111-131 66-87 (367)
371 cd06361 PBP1_GPC6A_like Ligand 38.0 2E+02 0.0043 22.6 10.8 34 101-134 235-270 (403)
372 PRK11907 bifunctional 2',3'-cy 37.9 2.6E+02 0.0056 24.7 8.0 42 113-159 192-233 (814)
373 PRK13690 hypothetical protein; 37.8 1.4E+02 0.0031 20.9 10.3 114 17-159 8-124 (184)
374 cd04731 HisF The cyclase subun 37.8 84 0.0018 22.7 4.7 50 111-160 151-200 (243)
375 PRK03673 hypothetical protein; 37.7 1.8E+02 0.0038 23.2 6.6 42 87-129 24-67 (396)
376 cd03146 GAT1_Peptidase_E Type 37.5 99 0.0021 21.9 4.9 68 87-159 49-120 (212)
377 PRK08883 ribulose-phosphate 3- 37.3 1.6E+02 0.0034 21.2 5.9 43 86-131 95-137 (220)
378 PF07015 VirC1: VirC1 protein; 37.2 1.7E+02 0.0036 21.5 9.7 35 14-54 11-45 (231)
379 TIGR00829 FRU PTS system, fruc 37.1 70 0.0015 19.2 3.5 43 87-132 18-62 (85)
380 COG0482 TrmU Predicted tRNA(5- 37.0 2.1E+02 0.0045 22.5 11.3 111 5-132 2-126 (356)
381 PRK00766 hypothetical protein; 36.9 75 0.0016 22.5 4.1 55 101-159 45-104 (194)
382 PRK00211 sulfur relay protein 36.5 1.2E+02 0.0025 19.5 4.7 37 7-49 2-42 (119)
383 cd01972 Nitrogenase_VnfE_like 36.4 68 0.0015 25.5 4.3 27 108-134 105-132 (426)
384 TIGR01859 fruc_bis_ald_ fructo 36.3 1.9E+02 0.004 21.8 7.8 74 86-160 117-207 (282)
385 COG3969 Predicted phosphoadeno 36.2 67 0.0015 25.1 3.9 41 5-49 26-66 (407)
386 PRK07226 fructose-bisphosphate 36.2 1.8E+02 0.0038 21.5 8.0 72 81-161 123-204 (267)
387 TIGR01768 GGGP-family geranylg 36.2 1.2E+02 0.0025 22.1 5.0 50 111-163 16-65 (223)
388 PF00781 DAGK_cat: Diacylglyce 36.0 1.2E+02 0.0025 19.4 7.1 69 87-162 18-91 (130)
389 cd07399 MPP_YvnB Bacillus subt 35.8 80 0.0017 22.4 4.2 8 152-159 105-112 (214)
390 TIGR00034 aroFGH phospho-2-deh 35.6 2.1E+02 0.0046 22.3 10.7 130 6-160 46-182 (344)
391 COG4126 Hydantoin racemase [Am 35.6 49 0.0011 24.0 3.0 38 111-156 163-200 (230)
392 cd01537 PBP1_Repressors_Sugar_ 35.4 1.6E+02 0.0034 20.6 8.9 68 87-162 19-88 (264)
393 PF09370 TIM-br_sig_trns: TIM- 35.2 77 0.0017 23.7 4.0 69 84-158 2-86 (268)
394 KOG3111 D-ribulose-5-phosphate 35.2 1.7E+02 0.0036 21.0 7.3 54 87-143 102-155 (224)
395 PLN02461 Probable pyruvate kin 35.1 97 0.0021 25.6 4.9 43 109-160 382-425 (511)
396 TIGR01283 nifE nitrogenase mol 35.0 69 0.0015 25.8 4.1 26 108-133 137-163 (456)
397 cd07391 MPP_PF1019 Pyrococcus 34.8 1.3E+02 0.0028 20.4 5.0 8 103-110 44-51 (172)
398 COG4122 Predicted O-methyltran 34.7 1.3E+02 0.0028 21.8 5.0 46 84-131 95-141 (219)
399 COG1036 Archaeal flavoproteins 34.6 95 0.0021 21.5 4.0 49 114-163 80-135 (187)
400 PRK03767 NAD(P)H:quinone oxido 34.5 1.6E+02 0.0035 20.5 5.8 15 120-134 67-81 (200)
401 PF03054 tRNA_Me_trans: tRNA m 34.4 2.3E+02 0.0049 22.2 7.6 37 7-52 1-37 (356)
402 PRK04169 geranylgeranylglycery 34.3 1.2E+02 0.0026 22.1 4.9 47 114-163 24-70 (232)
403 PF03162 Y_phosphatase2: Tyros 34.2 1.5E+02 0.0033 20.2 5.2 69 94-163 29-101 (164)
404 cd01967 Nitrogenase_MoFe_alpha 33.9 91 0.002 24.5 4.6 27 108-134 103-130 (406)
405 PLN02958 diacylglycerol kinase 33.9 2.6E+02 0.0057 22.8 11.7 68 88-162 134-208 (481)
406 PF10808 DUF2542: Protein of u 33.7 50 0.0011 19.4 2.3 29 135-164 23-51 (79)
407 TIGR03572 WbuZ glycosyl amidat 33.7 1.4E+02 0.003 21.4 5.2 49 112-160 156-204 (232)
408 PRK03670 competence damage-ind 33.6 1.3E+02 0.0029 22.2 5.1 42 87-129 23-67 (252)
409 cd06282 PBP1_GntR_like_2 Ligan 33.6 1.7E+02 0.0038 20.7 8.2 66 86-159 18-85 (266)
410 PF01012 ETF: Electron transfe 33.4 1.5E+02 0.0032 19.8 6.8 82 80-162 15-99 (164)
411 cd06318 PBP1_ABC_sugar_binding 33.4 1.8E+02 0.004 20.9 8.0 70 84-160 16-87 (282)
412 PF00834 Ribul_P_3_epim: Ribul 33.2 87 0.0019 22.2 4.0 59 86-147 94-152 (201)
413 PRK14561 hypothetical protein; 33.2 1.7E+02 0.0037 20.5 9.2 31 8-48 2-32 (194)
414 cd07396 MPP_Nbla03831 Homo sap 33.1 1.2E+02 0.0025 22.3 4.8 12 150-161 70-81 (267)
415 COG3340 PepE Peptidase E [Amin 33.1 1.9E+02 0.0042 21.0 9.1 46 83-131 48-93 (224)
416 PRK06247 pyruvate kinase; Prov 33.0 1.2E+02 0.0027 24.7 5.2 44 110-162 357-401 (476)
417 TIGR03264 met_CoM_red_C methyl 32.9 1.7E+02 0.0038 20.5 5.1 66 87-159 52-134 (194)
418 cd01538 PBP1_ABC_xylose_bindin 32.9 2E+02 0.0042 21.0 7.6 71 84-161 16-88 (288)
419 PRK02628 nadE NAD synthetase; 32.9 2.1E+02 0.0046 24.5 6.8 38 6-47 361-400 (679)
420 PRK05647 purN phosphoribosylgl 32.5 1.8E+02 0.0039 20.5 9.0 41 90-131 44-89 (200)
421 PRK09271 flavodoxin; Provision 32.4 81 0.0017 21.2 3.6 11 122-132 51-61 (160)
422 cd02069 methionine_synthase_B1 32.4 1.9E+02 0.0041 20.7 7.0 64 90-158 109-174 (213)
423 cd07385 MPP_YkuE_C Bacillus su 32.1 1.8E+02 0.0038 20.4 5.5 9 125-133 67-75 (223)
424 cd02801 DUS_like_FMN Dihydrour 32.0 1.9E+02 0.004 20.5 7.0 61 98-160 124-190 (231)
425 cd01968 Nitrogenase_NifE_I Nit 32.0 1E+02 0.0022 24.4 4.6 26 108-133 102-128 (410)
426 cd06533 Glyco_transf_WecG_TagA 32.0 82 0.0018 21.5 3.6 44 110-159 87-130 (171)
427 PLN02496 probable phosphopanto 31.9 1.6E+02 0.0035 21.1 5.1 37 4-47 17-53 (209)
428 TIGR00735 hisF imidazoleglycer 31.9 2E+02 0.0044 21.0 6.5 49 112-160 158-206 (254)
429 COG2129 Predicted phosphoester 31.8 1.3E+02 0.0028 21.9 4.6 51 110-164 18-75 (226)
430 TIGR00364 exsB protein. This p 31.8 1.8E+02 0.0039 20.3 12.0 21 112-132 101-121 (201)
431 KOG0830 40S ribosomal protein 31.7 58 0.0013 23.9 2.8 25 138-162 73-98 (254)
432 COG2185 Sbm Methylmalonyl-CoA 31.7 1.6E+02 0.0035 19.7 5.9 66 88-157 31-96 (143)
433 cd01998 tRNA_Me_trans tRNA met 31.6 2.5E+02 0.0053 21.8 11.4 33 8-49 1-33 (349)
434 PF10672 Methyltrans_SAM: S-ad 31.5 1.5E+02 0.0032 22.4 5.1 51 82-133 155-206 (286)
435 CHL00076 chlB photochlorophyll 31.3 1E+02 0.0022 25.4 4.5 27 108-134 101-128 (513)
436 cd07015 Clp_protease_NfeD Nodu 31.3 1.4E+02 0.003 20.6 4.6 18 111-128 47-64 (172)
437 PRK10310 PTS system galactitol 31.1 1.3E+02 0.0028 18.3 4.6 39 87-131 21-59 (94)
438 TIGR01064 pyruv_kin pyruvate k 30.9 1.2E+02 0.0025 24.8 4.8 45 109-162 360-405 (473)
439 PRK14057 epimerase; Provisiona 30.8 2.3E+02 0.0049 21.1 7.4 46 101-148 135-180 (254)
440 cd07393 MPP_DR1119 Deinococcus 30.8 2E+02 0.0044 20.6 5.7 33 101-133 42-83 (232)
441 PTZ00300 pyruvate kinase; Prov 30.7 1.3E+02 0.0028 24.4 4.9 44 109-161 335-379 (454)
442 cd01424 MGS_CPS_II Methylglyox 30.6 1.4E+02 0.0029 18.5 6.0 61 94-158 40-100 (110)
443 COG2870 RfaE ADP-heptose synth 30.6 1.3E+02 0.0028 24.2 4.7 52 109-163 128-181 (467)
444 COG1445 FrwB Phosphotransferas 30.5 85 0.0018 20.4 3.2 51 88-140 23-74 (122)
445 PF00701 DHDPS: Dihydrodipicol 30.5 2.3E+02 0.005 21.1 8.4 75 85-161 59-135 (289)
446 PF01902 ATP_bind_4: ATP-bindi 30.4 2.1E+02 0.0045 20.6 8.4 90 8-131 2-94 (218)
447 smart00493 TOPRIM topoisomeras 30.4 1E+02 0.0022 17.3 3.5 25 7-31 48-72 (76)
448 TIGR00381 cdhD CO dehydrogenas 30.4 1.6E+02 0.0034 23.4 5.1 12 119-130 185-196 (389)
449 PRK08649 inosine 5-monophospha 30.4 2.5E+02 0.0054 22.1 6.3 36 93-130 127-162 (368)
450 TIGR02151 IPP_isom_2 isopenten 30.4 2.5E+02 0.0055 21.6 6.4 47 85-132 167-213 (333)
451 cd06281 PBP1_LacI_like_5 Ligan 30.3 2.1E+02 0.0045 20.5 8.1 16 113-128 46-61 (269)
452 TIGR00736 nifR3_rel_arch TIM-b 30.3 2.2E+02 0.0047 20.8 7.1 62 95-159 132-197 (231)
453 cd07402 MPP_GpdQ Enterobacter 30.3 1.8E+02 0.004 20.6 5.4 10 101-110 41-50 (240)
454 PRK13980 NAD synthetase; Provi 30.2 2.3E+02 0.0049 20.9 7.7 37 6-49 30-66 (265)
455 COG2242 CobL Precorrin-6B meth 30.0 1.1E+02 0.0024 21.5 4.0 42 85-131 70-111 (187)
456 cd01981 Pchlide_reductase_B Pc 29.9 1.2E+02 0.0025 24.2 4.6 27 108-134 101-128 (430)
457 PF06050 HGD-D: 2-hydroxygluta 29.8 69 0.0015 24.3 3.3 53 108-161 272-325 (349)
458 PLN02765 pyruvate kinase 29.8 1.3E+02 0.0029 24.9 4.9 42 110-160 396-438 (526)
459 cd01125 repA Hexameric Replica 29.7 2.1E+02 0.0046 20.5 10.5 24 8-31 4-27 (239)
460 PRK12726 flagellar biosynthesi 29.7 3E+02 0.0064 22.1 9.0 18 121-138 284-301 (407)
461 PLN00096 isocitrate dehydrogen 29.6 2.9E+02 0.0063 22.0 9.0 34 9-47 167-201 (393)
462 PRK14181 bifunctional 5,10-met 29.6 2.4E+02 0.0053 21.3 5.9 39 84-123 42-81 (287)
463 PRK14178 bifunctional 5,10-met 29.4 2.5E+02 0.0054 21.2 6.3 40 84-124 42-82 (279)
464 cd01539 PBP1_GGBP Periplasmic 29.4 2.4E+02 0.0051 20.9 7.4 42 113-160 48-89 (303)
465 COG0473 LeuB Isocitrate/isopro 29.4 55 0.0012 25.4 2.5 29 16-49 155-184 (348)
466 cd06274 PBP1_FruR Ligand bindi 29.4 2.1E+02 0.0046 20.3 7.9 66 86-160 18-85 (264)
467 COG0329 DapA Dihydrodipicolina 29.3 2.5E+02 0.0055 21.2 8.7 52 110-161 87-138 (299)
468 TIGR00024 SbcD_rel_arch putati 29.3 1.8E+02 0.0039 21.0 5.1 43 84-129 45-96 (225)
469 PRK13396 3-deoxy-7-phosphohept 29.3 2.8E+02 0.0061 21.7 9.5 105 17-161 112-216 (352)
470 cd06317 PBP1_ABC_sugar_binding 29.3 2.1E+02 0.0046 20.3 7.4 68 86-160 19-88 (275)
471 PTZ00408 NAD-dependent deacety 29.3 2E+02 0.0044 21.0 5.4 51 104-161 153-207 (242)
472 COG0745 OmpR Response regulato 29.3 2.2E+02 0.0048 20.5 7.3 66 87-163 14-82 (229)
473 TIGR01755 flav_wrbA NAD(P)H:qu 29.2 2E+02 0.0044 20.1 5.3 14 121-134 67-80 (197)
474 PRK14176 bifunctional 5,10-met 29.0 2.6E+02 0.0056 21.2 7.9 39 84-123 54-93 (287)
475 TIGR03156 GTP_HflX GTP-binding 28.9 2.7E+02 0.0058 21.6 6.3 45 85-130 18-74 (351)
476 KOG0781 Signal recognition par 28.9 3.4E+02 0.0074 22.6 10.6 123 5-159 378-503 (587)
477 KOG1256 Long-chain acyl-CoA sy 28.8 3.9E+02 0.0084 23.2 7.8 69 87-161 119-188 (691)
478 PRK14466 ribosomal RNA large s 28.6 2.9E+02 0.0062 21.6 7.8 26 84-110 301-326 (345)
479 PRK05772 translation initiatio 28.5 2.9E+02 0.0064 21.7 6.7 61 93-160 223-287 (363)
480 cd06300 PBP1_ABC_sugar_binding 28.5 2.2E+02 0.0048 20.3 8.0 69 86-161 18-93 (272)
481 KOG3123 Diphthine synthase [Tr 28.4 66 0.0014 23.2 2.6 47 109-162 64-112 (272)
482 COG1540 Uncharacterized protei 28.4 2.1E+02 0.0046 21.1 5.2 99 17-133 40-148 (252)
483 PF00994 MoCF_biosynth: Probab 28.4 1.2E+02 0.0027 19.8 3.9 42 87-129 20-63 (144)
484 PRK08997 isocitrate dehydrogen 28.4 76 0.0016 24.6 3.2 29 16-48 146-174 (334)
485 cd01029 TOPRIM_primases TOPRIM 28.3 1.2E+02 0.0026 17.2 4.5 30 6-36 43-72 (79)
486 PLN02762 pyruvate kinase compl 28.3 1.6E+02 0.0035 24.3 5.1 44 110-162 397-441 (509)
487 PF01207 Dus: Dihydrouridine s 28.3 2.7E+02 0.0058 21.2 6.8 61 97-158 122-188 (309)
488 cd06295 PBP1_CelR Ligand bindi 28.3 2.3E+02 0.0049 20.3 8.5 65 87-160 30-94 (275)
489 PRK07565 dihydroorotate dehydr 28.2 2.8E+02 0.006 21.3 8.2 47 113-159 118-171 (334)
490 cd03086 PGM3 PGM3 (phosphogluc 28.2 3.4E+02 0.0075 22.4 8.0 120 5-134 101-225 (513)
491 PF01729 QRPTase_C: Quinolinat 28.0 2E+02 0.0044 19.7 5.0 43 87-131 115-157 (169)
492 TIGR02088 LEU3_arch isopropylm 27.9 61 0.0013 24.9 2.6 27 16-47 140-166 (322)
493 PF11965 DUF3479: Domain of un 27.8 2.1E+02 0.0045 19.7 7.2 25 8-33 2-26 (164)
494 PRK08194 tartrate dehydrogenas 27.8 62 0.0013 25.2 2.6 27 17-48 161-187 (352)
495 TIGR02634 xylF D-xylose ABC tr 27.7 2.6E+02 0.0055 20.7 7.8 69 85-160 16-86 (302)
496 PRK06354 pyruvate kinase; Prov 27.7 1.6E+02 0.0035 24.8 5.1 44 110-162 365-409 (590)
497 cd08185 Fe-ADH1 Iron-containin 27.7 1.9E+02 0.004 22.6 5.3 46 85-131 42-93 (380)
498 PRK07667 uridine kinase; Provi 27.6 1.7E+02 0.0037 20.3 4.7 50 112-161 4-53 (193)
499 PRK05826 pyruvate kinase; Prov 27.5 1.8E+02 0.0039 23.7 5.2 45 109-162 359-405 (465)
500 TIGR00169 leuB 3-isopropylmala 27.5 63 0.0014 25.2 2.6 27 17-48 163-189 (349)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.97 E-value=5.6e-29 Score=166.84 Aligned_cols=140 Identities=21% Similarity=0.227 Sum_probs=112.1
Q ss_pred CCCEEEEEEcCCh--hHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSN--HSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRA 82 (166)
Q Consensus 5 ~~~~Ilv~vd~s~--~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (166)
|+++||||+|+|+ .+..++++|..+|+ . .+ +|+++||++...... ... .......+.+...+..
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~-~-~~----~l~llhv~~~~~~~~-~~~-------~~~~~~~~~~~~~~~~ 66 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQ-D-DG----VIHLLHVLPGSASLS-LHR-------FAADVRRFEEHLQHEA 66 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHh-c-CC----eEEEEEEecCccccc-ccc-------cccchhhHHHHHHHHH
Confidence 4899999999994 89999999999999 6 46 999999987643211 111 0011233445556666
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
++.++.+.+.+...+.+ ++.++..|++.+.|+++++++++||||||+++++ +.++++||++++|+++++||||+||
T Consensus 67 ~~~l~~~~~~~~~~~~~-v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 67 EERLQTMVSHFTIDPSR-IKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred HHHHHHHHHHhCCCCcc-eEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence 67777777666556777 8899999999999999999999999999999976 7778999999999999999999996
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.96 E-value=1.3e-28 Score=165.27 Aligned_cols=142 Identities=18% Similarity=0.259 Sum_probs=109.0
Q ss_pred CCCEEEEEEcCChh--HHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNH--SYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRA 82 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~--s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (166)
|+++||+|+|+|+. +.+++++|+++|+ ..++ +|+++||++..+........ ....... .+...+.+
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~-~~~~----~l~ll~v~~~~~~~~~~~~~------~~~~~~~-~~~~~~~~ 68 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAK-IDDA----EVHFLTVIPSLPYYASLGLA------YSAELPA-MDDLKAEA 68 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHh-ccCC----eEEEEEEEccCccccccccc------ccccchH-HHHHHHHH
Confidence 47999999999997 5799999999999 8888 99999999754322111100 0000011 12234444
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
++.++++.+.+...+.+ ++.++..|++.+.|+++++++++||||||++ ++++.+.++||++++|+++++||||+||
T Consensus 69 ~~~l~~~~~~~~~~~~~-~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~-~~~~~~~llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 69 KSQLEEIIKKFKLPTDR-VHVHVEEGSPKDRILELAKKIPADMIIIASH-RPDITTYLLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred HHHHHHHHHHhCCCCCc-eEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC-CCCchheeecchHHHHHHhCCCCEEEeC
Confidence 55556666655556777 8899999999999999999999999999988 4568889999999999999999999996
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.96 E-value=1.7e-28 Score=164.47 Aligned_cols=141 Identities=16% Similarity=0.099 Sum_probs=109.4
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQ 83 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (166)
|++++||||+|+|+.|..|+++|+.+|+ .+++ +|+++||.+........ . .....+...+...+..+
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~-~~~a----~l~llhV~~~~~~~~~~-~-------~~~~~~~~~~~~~~~~~ 67 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELAR-HNDA----HLTLIHIDDGLSELYPG-I-------YFPATEDILQLLKNKSD 67 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHH-HhCC----eEEEEEEccCcchhchh-h-------hccchHHHHHHHHHHHH
Confidence 5789999999999999999999999999 8888 99999998754322110 0 00111233444555555
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
+.++++.+.+. ... ++.++..|++++.|+++|++.++||||||++ ++++.+++ | ++++++++++||||+||..+
T Consensus 68 ~~l~~~~~~~~--~~~-~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~~pVLvv~~~~ 141 (142)
T PRK09982 68 NKLYKLTKNIQ--WPK-TKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMSADLLIVPFID 141 (142)
T ss_pred HHHHHHHHhcC--CCc-ceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCCCCEEEecCCC
Confidence 66666655443 334 7788889999999999999999999999986 77777777 5 99999999999999999764
No 4
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=99.96 E-value=1.1e-27 Score=161.22 Aligned_cols=141 Identities=25% Similarity=0.351 Sum_probs=116.7
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+||||+|+|+.+..|++||+++|+ ..++ +|+++||.+.......... .......+.+...+..++.++
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~-~~~~----~l~ll~v~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~l~ 68 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLA-TKGQ----TIVLVHVHPPITSIPSSSG-------KLEVASAYKQEEDKEAKELLL 68 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhcc-CCCC----cEEEEEeccCcccCCCCcc-------chHHHHHHHHHHHHHHHHHHH
Confidence 599999999999999999999999 8887 9999999875433221111 112233444556667777888
Q ss_pred HHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcc-cHHHHHhhcCC--ccEEEEcC
Q 044140 88 KATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLG-SVSDYSAHHCS--CTVMIVKM 161 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g-s~~~~l~~~~~--~pVlvv~~ 161 (166)
++.+.+...++. ++..+..| ++++.|++++++.++|+||||+++++++.++++| |++.+++++++ ||||+|++
T Consensus 69 ~~~~~~~~~~~~-~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 69 PYRCFCSRKGVQ-CEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred HHHHHHhhcCCe-EEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeC
Confidence 888888778998 88888886 8999999999999999999999999999988887 69999999999 99999986
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.95 E-value=3.5e-27 Score=158.45 Aligned_cols=142 Identities=18% Similarity=0.232 Sum_probs=101.6
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQ 83 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (166)
|++++||||+|+|+.+..|+++|..+|+ .+++ +|+++||........ .. ..........+...+...
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~-~~~a----~l~ll~v~~~~~~~~--~~------~~~~~~~~~~~~~~~~~~ 67 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMAR-PYNA----KVSLIHVDVNYSDLY--TG------LIDVNLGDMQKRISEETH 67 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHH-hhCC----EEEEEEEccChhhhh--hh------hhhcchHHHHHHHHHHHH
Confidence 5789999999999999999999999999 8888 999999943221111 00 000011122222222222
Q ss_pred HHHHHHHHHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 84 KVADKATSICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
+ .+.+.....|+. +. ..+..|++.++|+++|++.++||||||+++ +.+. . +||++++|+++++||||+||.+
T Consensus 68 ~---~l~~~~~~~~~~-~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~~pVLvv~~~ 140 (144)
T PRK15118 68 H---ALTELSTNAGYP-ITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVHVDMLIVPLR 140 (144)
T ss_pred H---HHHHHHHhCCCC-ceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCCCCEEEecCC
Confidence 2 333334556777 54 455679999999999999999999999995 3333 3 5899999999999999999976
Q ss_pred CCC
Q 044140 163 KSK 165 (166)
Q Consensus 163 ~~~ 165 (166)
...
T Consensus 141 ~~~ 143 (144)
T PRK15118 141 DEE 143 (144)
T ss_pred cCC
Confidence 543
No 6
>PRK10116 universal stress protein UspC; Provisional
Probab=99.94 E-value=1.1e-25 Score=150.81 Aligned_cols=140 Identities=16% Similarity=0.204 Sum_probs=107.2
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQ 83 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (166)
|++++|||++|+++.+..++++|+.+|+ .+++ +|+++|+++....... ......+...+...++.+
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~-~~~a----~l~ll~v~~~~~~~~~---------~~~~~~~~~~~~~~~~~~ 66 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIAR-PVNG----KISLITLASDPEMYNQ---------FAAPMLEDLRSVMQEETQ 66 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHH-HhCC----EEEEEEEccCcccchh---------hhHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999999999 8888 9999999865432111 111122333333444444
Q ss_pred HHHHHHHHHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 84 KVADKATSICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
+.++. ...+.|++ .. ..+..|++.+.|++++++.++||||||+++++++.+++ |++++++++++||||+||.+
T Consensus 67 ~~l~~---~~~~~~~~-~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~~pVLvv~~~ 140 (142)
T PRK10116 67 SFLDK---LIQDADYP-IEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSEVDVLLVPLT 140 (142)
T ss_pred HHHHH---HHHhcCCC-eEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCCCCEEEEeCC
Confidence 44333 33455776 43 56678999999999999999999999999988887764 78999999999999999976
Q ss_pred C
Q 044140 163 K 163 (166)
Q Consensus 163 ~ 163 (166)
.
T Consensus 141 ~ 141 (142)
T PRK10116 141 G 141 (142)
T ss_pred C
Confidence 4
No 7
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.94 E-value=1.5e-25 Score=148.38 Aligned_cols=140 Identities=26% Similarity=0.381 Sum_probs=103.7
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
|+++||||+|+++.+..++++|+.+|+ .+++ +|+++||.+......... ................
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~-~~~~----~i~~l~v~~~~~~~~~~~----------~~~~~~~~~~~~~~~~ 65 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAK-RSGA----EITLLHVIPPPPQYSFSA----------AEDEESEEEAEEEEQA 65 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHH-HHTC----EEEEEEEEESCHCHHHHH----------HHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHH-hhCC----eEEEEEeecccccccccc----------ccccccccccchhhhh
Confidence 589999999999999999999999999 8888 999999998655431110 0000000111111111
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
............+.. ....+..|++.++|++++++.++|+||||+++++.+.++++||++++|+++++|||+|||
T Consensus 66 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 66 RQAEAEEAEAEGGIV-IEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp HHHHHHHHHHHTTSE-EEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEEE
T ss_pred hhHHHHHHhhhccce-eEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEeC
Confidence 111111222333444 677888899999999999999999999999999999999999999999999999999997
No 8
>PRK11175 universal stress protein UspE; Provisional
Probab=99.94 E-value=3e-25 Score=165.92 Aligned_cols=146 Identities=12% Similarity=0.086 Sum_probs=116.2
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQ 83 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (166)
|++++||||+|+|+.+..|+++|+.+|+ .+++ +|+++|+.+......... ..........+...+..+
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~-~~~a----~l~ll~v~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~ 68 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQ-RNGG----KITAFLPIYDFSYEMTTL-------LSPDEREAMRQGVISQRT 68 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHH-hcCC----CEEEEEeccCchhhhhcc-------cchhHHHHHHHHHHHHHH
Confidence 5799999999999999999999999999 8888 999999876433211100 111122223333344455
Q ss_pred HHHHHHHHHHHhCCCCcccEEee-cCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 84 KVADKATSICAKREVNDMPVHVM-QGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~-~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
+.++.+...+...|++ ++..+. .|++.+.|+++++++++||||+|+++.+.+.+.++||++++|+++++||||+||..
T Consensus 69 ~~l~~~~~~~~~~~~~-~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~ 147 (305)
T PRK11175 69 AWIREQAKPYLDAGIP-IEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQ 147 (305)
T ss_pred HHHHHHHHHHhhcCCc-eEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEeccc
Confidence 6667776666777888 888776 48999999999999999999999999999999999999999999999999999974
No 9
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.93 E-value=1.7e-24 Score=142.89 Aligned_cols=131 Identities=18% Similarity=0.234 Sum_probs=110.3
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+||||+|+++++..++++|..+|+ ..++ +|+++|+++.+..... .. .....+..++.++
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~-~~~~----~v~ll~v~~~~~~~~~------------~~----~~~~~~~~~~~~~ 59 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALAR-AQNG----EIIPLNVIEVPNHSSP------------SQ----LEVNVQRARKLLR 59 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhh-cCCC----eEEEEEEEecCCCCCc------------ch----hHHHHHHHHHHHH
Confidence 599999999999999999999999 8777 9999999876432210 00 1123345667778
Q ss_pred HHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
.+.+.+.+.|++ ++..+.. |++.+.|++++++.++|+||||+++++.+.++++||++.+++++++|||++++
T Consensus 60 ~~~~~~~~~g~~-~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 60 QAERIAASLGVP-VHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred HHHHHhhhcCCc-eEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence 888888888998 8877764 79999999999999999999999999988889999999999999999999986
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.92 E-value=5.8e-24 Score=139.24 Aligned_cols=123 Identities=12% Similarity=0.108 Sum_probs=100.3
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+||||+|+++.+..++++|+.+|+ .+++ +|+++||.+..... ..+..++.++
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~-~~~~----~l~ll~v~~~~~~~-----------------------~~~~~~~~l~ 52 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLAD-RLKA----PWYVVYVETPRLNR-----------------------LSEAERRRLA 52 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHH-HhCC----CEEEEEEecCcccc-----------------------CCHHHHHHHH
Confidence 599999999999999999999999 8888 99999998743210 0112234455
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVK 160 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~ 160 (166)
.+.+.+.+.+++ +. .+..|++.+.|.++++++++|+||||+++++.+.++++||++++|++++ +|||+|++
T Consensus 53 ~~~~~~~~~~~~-~~-~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 53 EALRLAEELGAE-VV-TLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred HHHHHHHHcCCE-EE-EEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence 555555555655 32 3345689999999999999999999999999999999999999999999 99999985
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.89 E-value=3.5e-22 Score=149.35 Aligned_cols=143 Identities=17% Similarity=0.294 Sum_probs=105.5
Q ss_pred CCCEEEEEEcCChh-------HHHHHHHHHHhcCCCC-CCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHH
Q 044140 5 TKPIMMVAIDDSNH-------SYYALEWALDYFFPPF-APNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVEL 76 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~-------s~~al~~a~~la~~~~-~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (166)
.+++||+|+|+++. +..++++|..+|+ .+ ++ +|+++||++.......... .........+
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~-~~~~a----~l~ll~v~~~~~~~~~~~~-------~~~~~~~~~~ 218 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAE-QLNHA----EVHLVNAYPVTPINIAIEL-------PEFDPSVYND 218 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHh-hCcCC----ceEEEEEecCcchhccccc-------cccchhhHHH
Confidence 46899999999865 3689999999999 87 87 9999999865432211100 0001112222
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccE
Q 044140 77 DTKKRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTV 156 (166)
Q Consensus 77 ~~~~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pV 156 (166)
..++...+ .+.+.....+++....++..|++.+.|.+++++.++||||||+++++++.++|+||++++|+++++|||
T Consensus 219 ~~~~~~~~---~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pV 295 (305)
T PRK11175 219 AIRGQHLL---AMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDL 295 (305)
T ss_pred HHHHHHHH---HHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCE
Confidence 22222222 233333445776234677789999999999999999999999999999999999999999999999999
Q ss_pred EEEcCC
Q 044140 157 MIVKMP 162 (166)
Q Consensus 157 lvv~~~ 162 (166)
|+||+.
T Consensus 296 Lvv~~~ 301 (305)
T PRK11175 296 LAIKPD 301 (305)
T ss_pred EEEcCC
Confidence 999864
No 12
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.88 E-value=3.6e-21 Score=125.87 Aligned_cols=130 Identities=30% Similarity=0.503 Sum_probs=110.3
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+||||+|+++.+..++++|..+|+ ..++ +|+++|+.+...... . ...+......++.++
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~-~~~~----~i~~l~v~~~~~~~~-----------~-----~~~~~~~~~~~~~l~ 59 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLAR-RLGA----ELVLLHVVDPPPSSA-----------A-----ELAELLEEEARALLE 59 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHH-hcCC----EEEEEEEecCCCCcc-----------h-----hHHHHHHHHHHHHHH
Confidence 599999999999999999999999 8887 999999986543221 0 223344455567777
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
++...+...+++ +...+..|++.++|.+++++.++|+||+|.++++.+.+.++|+++++++++++|||+++
T Consensus 60 ~~~~~~~~~~~~-~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 60 ALREALAEAGVK-VETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred HHHHHHhcCCCc-eEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence 777777677898 88888899999999999999999999999999988888999999999999999999985
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.87 E-value=2.8e-20 Score=125.41 Aligned_cols=149 Identities=24% Similarity=0.322 Sum_probs=119.2
Q ss_pred CCCCEEEEEEc-CChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAID-DSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRA 82 (166)
Q Consensus 4 ~~~~~Ilv~vd-~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (166)
.++++|++++| +++.+..+++.+..++. ..+. .+.+++|.+............ ................
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~-~~~~----~~~~~~v~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~ 72 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAK-RLGA----PLILLVVIDPLEPTALVSVAL-----ADAPIPLSEEELEEEA 72 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHH-hcCC----eEEEEEEeccccccccccccc-----ccchhhhhHHHHHHHH
Confidence 56799999999 99999999999999999 8887 999999887655433222110 0011222233445556
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeecCCc-hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQGDP-RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~g~~-~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+.++.+.+...+.++..++..+..|++ .+.|..++.++++|+||||+++++++.++++||++++++++++|||+++|.
T Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pVlvv~~ 152 (154)
T COG0589 73 EELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRS 152 (154)
T ss_pred HHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCEEEEcc
Confidence 6777888888888888823788889988 799999999999999999999999999999999999999999999999997
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
.
T Consensus 153 ~ 153 (154)
T COG0589 153 E 153 (154)
T ss_pred C
Confidence 5
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.71 E-value=4.8e-16 Score=117.60 Aligned_cols=129 Identities=14% Similarity=0.141 Sum_probs=88.0
Q ss_pred CCCCCEEEEEEcCChhHHHHHHHHHHhcCCCC--CCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHH
Q 044140 3 DQTKPIMMVAIDDSNHSYYALEWALDYFFPPF--APNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKK 80 (166)
Q Consensus 3 ~~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~--~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (166)
.++++|||||+|+|+.|.+|+++|+++|+ .. ++ +|+++||.+...... .. ....+
T Consensus 2 ~~~ykkILVavDGSe~S~~Al~~AielA~-~~g~~A----eL~lL~Vv~~~~~~~-----------~~-------~~~~~ 58 (357)
T PRK12652 2 MMAANRLLVPVADSVTVRQTVAYAVESAE-EAAETP----TVHLVAAASGRAVDP-----------EG-------QDELA 58 (357)
T ss_pred CcccCeEEEEeCCCHHHHHHHHHHHHHHH-hcCCCC----EEEEEEEecCccccc-----------ch-------hHHHH
Confidence 36789999999999999999999999999 74 46 999999987533210 10 11122
Q ss_pred HHHHHHHHHHHHHHh------CCCCcccEEeec--------CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHH
Q 044140 81 RAQKVADKATSICAK------REVNDMPVHVMQ--------GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSD 146 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~------~~i~~~~~~v~~--------g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~ 146 (166)
..++.++++.+.+.+ .|++ ++..+.. |++++.|+++|+++++||||||..-..+...-++.+. +
T Consensus 59 ~~eelle~~~~~~~~~l~~~~~gV~-ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~-~ 136 (357)
T PRK12652 59 AAEELLERVEVWATEDLGDDASSVT-IETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPL-E 136 (357)
T ss_pred HHHHHHHHHHHHHHHhhhcccCCCc-eEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchH-H
Confidence 233334444444333 5888 8888865 8999999999999999999999763322222233333 3
Q ss_pred HHhhcCCccE
Q 044140 147 YSAHHCSCTV 156 (166)
Q Consensus 147 ~l~~~~~~pV 156 (166)
.-+.++.|.+
T Consensus 137 ~~~~~~~~~~ 146 (357)
T PRK12652 137 RELARAGITY 146 (357)
T ss_pred HHHHhcCCce
Confidence 3344555544
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.47 E-value=1.3e-12 Score=110.06 Aligned_cols=126 Identities=10% Similarity=0.073 Sum_probs=96.9
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQ 83 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (166)
....+||||+++++.+.+++++|.++|. .+++ +++++||..+..... ..+...
T Consensus 248 ~~~eriLV~v~~~~~~~~lIr~~~rlA~-~~~a----~~~~l~V~~~~~~~~----------------------~~~~~~ 300 (895)
T PRK10490 248 HTRDAILLCIGHNTGSEKLVRTAARLAA-RLGS----VWHAVYVETPRLHRL----------------------PEKKRR 300 (895)
T ss_pred CcCCeEEEEECCCcchHHHHHHHHHHHH-hcCC----CEEEEEEecCCcCcC----------------------CHHHHH
Confidence 3558899999999999999999999999 8888 999999975422110 011111
Q ss_pred HHHHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC-ccEEEEcC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS-CTVMIVKM 161 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv~~ 161 (166)
+..+.+ +++++.|.+ +..+. +++++.|+++|++.+++.||||.++++.+ ++.||+++++++.++ ..|.||+.
T Consensus 301 ~l~~~~-~lA~~lGa~---~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~ 374 (895)
T PRK10490 301 AILSAL-RLAQELGAE---TATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVAL 374 (895)
T ss_pred HHHHHH-HHHHHcCCE---EEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeC
Confidence 222222 466666766 33445 49999999999999999999999887766 556899999999996 89999975
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
.
T Consensus 375 ~ 375 (895)
T PRK10490 375 D 375 (895)
T ss_pred C
Confidence 4
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.40 E-value=7.6e-12 Score=101.37 Aligned_cols=128 Identities=14% Similarity=0.168 Sum_probs=105.7
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
..+||||+++++.+.+.+++|.++|. .+++ +++++||..+.... ..+...+.
T Consensus 248 ~e~ilvcI~~~~~~e~liR~a~RlA~-~~~a----~~~av~v~~~~~~~-----------------------~~~~~~~~ 299 (890)
T COG2205 248 RERILVCISGSPGSEKLIRRAARLAS-RLHA----KWTAVYVETPELHR-----------------------LSEKEARR 299 (890)
T ss_pred cceEEEEECCCCchHHHHHHHHHHHH-HhCC----CeEEEEEecccccc-----------------------ccHHHHHH
Confidence 47899999999999999999999999 8888 99999997654322 11223345
Q ss_pred HHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC-ccEEEEcCCC
Q 044140 86 ADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS-CTVMIVKMPK 163 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv~~~~ 163 (166)
+....+++++.|-+ +..+. ++.+++|++||+.+++.-||+|.+.++.|.++|.|+.++++++..+ ..|.+|+...
T Consensus 300 l~~~~~Lae~lGae---~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~~ 376 (890)
T COG2205 300 LHENLRLAEELGAE---IVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALDA 376 (890)
T ss_pred HHHHHHHHHHhCCe---EEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCCC
Confidence 56666777766766 34444 6999999999999999999999999999999999999999999985 8999998755
Q ss_pred C
Q 044140 164 S 164 (166)
Q Consensus 164 ~ 164 (166)
+
T Consensus 377 ~ 377 (890)
T COG2205 377 P 377 (890)
T ss_pred C
Confidence 4
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=98.58 E-value=3.3e-07 Score=55.83 Aligned_cols=84 Identities=13% Similarity=0.118 Sum_probs=69.3
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
|+++++++.+|..++.++.+++. . +. .++++|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~~-~-~~----~~~~~~~~---------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLKS-G-GP----EVVALVVV---------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHHh-c-CC----CEEEEEeH----------------------------------------
Confidence 68999999999999999999875 4 44 78888772
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcc-cHHHHHhhcCCccEEE
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLG-SVSDYSAHHCSCTVMI 158 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g-s~~~~l~~~~~~pVlv 158 (166)
...+.+.+.+++.++|+|++|++........+.| +++.++++.++|||+.
T Consensus 35 --------------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 --------------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred --------------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence 3345566777888999999999988877777777 8999999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.99 E-value=0.00013 Score=61.85 Aligned_cols=150 Identities=8% Similarity=0.027 Sum_probs=88.8
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
...|||+|+...++-...++.+..... ..+.+ ..++++|.++-.....+...... ......+...+ .....++
T Consensus 457 ~elriL~cv~~~~~v~~li~Lle~s~~-t~~sp--~~vy~lhLveL~~r~~~~l~~h~---~~~~~~~~~~~-~~~~~~~ 529 (832)
T PLN03159 457 AELRMLVCVHTPRNVPTIINLLEASHP-TKRSP--ICIYVLHLVELTGRASAMLIVHN---TRKSGRPALNR-TQAQSDH 529 (832)
T ss_pred CceeEEEEeccCCcHHHHHHHHHhcCC-CCCCC--ceEEEEEEEeecCCCccceeeee---ccccccccccc-ccccccH
Confidence 346899999998888888887655433 33332 28999999875433221110000 00000000000 0111234
Q ss_pred HHHHHHHHHHhC-CCCcccEEe---ecCCchhHHHHHHhhhCCcEEEEcccCCccchh------hhcccHHHHHhhcCCc
Q 044140 85 VADKATSICAKR-EVNDMPVHV---MQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR------AVLGSVSDYSAHHCSC 154 (166)
Q Consensus 85 ~l~~~~~~~~~~-~i~~~~~~v---~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~------~~~gs~~~~l~~~~~~ 154 (166)
.+..+....+.. ++. ++... -..+..+.|+..|++..+++|+++-|.+....+ -.++.+..++++++||
T Consensus 530 i~~af~~~~~~~~~v~-v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApC 608 (832)
T PLN03159 530 IINAFENYEQHAGCVS-VQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPC 608 (832)
T ss_pred HHHHHHHHHhhcCceE-EEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCC
Confidence 444444443322 455 54322 224889999999999999999999875433222 2567789999999999
Q ss_pred cEEEEcCC
Q 044140 155 TVMIVKMP 162 (166)
Q Consensus 155 pVlvv~~~ 162 (166)
+|-|.=++
T Consensus 609 sVgIlVDR 616 (832)
T PLN03159 609 SVGILVDR 616 (832)
T ss_pred CEEEEEeC
Confidence 99887553
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.58 E-value=0.0018 Score=55.12 Aligned_cols=40 Identities=15% Similarity=0.024 Sum_probs=35.8
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
..+|.++.-+.++.+.|+.||.++++ ..+. +++++|..+.
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~-~p~v----~lTVirf~~~ 669 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSE-HPGI----TLTVMRFIPG 669 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhc-CCCe----EEEEEEEEcc
Confidence 46999999999999999999999999 7666 9999999865
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=97.53 E-value=0.0015 Score=45.59 Aligned_cols=94 Identities=13% Similarity=0.204 Sum_probs=66.1
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+|+|+++|..+|..++..+.+.++ ..+. ++.++|+...... ......+
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~-~~~~----~v~~v~vd~g~~~---------------------------~~~~~~~ 48 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQP-KLKI----RLIAAHVDHGLRP---------------------------ESDEEAE 48 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHH-HcCC----CEEEEEeCCCCCh---------------------------hHHHHHH
Confidence 589999999999999999999887 6666 8999998653211 0112244
Q ss_pred HHHHHHHhCCCCcccEEeec-CC--------ch--------hHHHHHHhhhCCcEEEEcccCCc
Q 044140 88 KATSICAKREVNDMPVHVMQ-GD--------PR--------NVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~-g~--------~~--------~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.+...++..|++ +...-.. .. .. ..+.+.+++++++.|+.|.+...
T Consensus 49 ~~~~~~~~~gi~-~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D 111 (189)
T TIGR02432 49 FVQQFCKKLNIP-LEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADD 111 (189)
T ss_pred HHHHHHHHcCCC-EEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHH
Confidence 556666777887 5543322 11 11 46778999999999999987544
No 21
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=97.40 E-value=0.004 Score=43.26 Aligned_cols=97 Identities=14% Similarity=0.176 Sum_probs=62.0
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+|+|++.|..+|...+..+..+.. ..+. ++.++||....... .....+
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~-~~~~----~~~~~~vdh~~~~~---------------------------s~~~~~ 48 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRR-RNGI----KLIAVHVDHGLREE---------------------------SDEEAE 48 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHT-TTTT----EEEEEEEE-STSCC---------------------------HHHHHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHH-hcCC----CeEEEEEecCCCcc---------------------------cchhHH
Confidence 699999999999999999999999 7777 99999998654321 112234
Q ss_pred HHHHHHHhCCCCcccEEeec-----C-Cc--------hhHHHHHHhhhCCcEEEEcccCCccch
Q 044140 88 KATSICAKREVNDMPVHVMQ-----G-DP--------RNVMTEAVERFHPTILVLGSHGYGAVK 137 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~-----g-~~--------~~~I~~~a~~~~~dliV~g~~~~~~~~ 137 (166)
.+.+.++..|++ +.+.... + +. .+.+.+.|++++++.|++|.+......
T Consensus 49 ~v~~~~~~~~i~-~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD~~E 111 (182)
T PF01171_consen 49 FVEEICEQLGIP-LYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLDDQAE 111 (182)
T ss_dssp HHHHHHHHTT-E-EEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHHHHH
T ss_pred HHHHHHHhcCCc-eEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCCccHH
Confidence 566677777888 6554433 1 11 245678899999999999987543333
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=96.96 E-value=0.012 Score=40.79 Aligned_cols=94 Identities=16% Similarity=0.192 Sum_probs=65.2
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+|+|+++|..+|..++..+.+... ..+. ++.++|+....... ..+..+
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~-~~~~----~v~~v~id~~~~~~---------------------------~~~~~~ 48 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKP-RLGL----RLVAVHVDHGLRPE---------------------------SDEEAA 48 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHH-HcCC----cEEEEEecCCCCch---------------------------HHHHHH
Confidence 589999999999999999999887 6666 89999996432110 023345
Q ss_pred HHHHHHHhCCCCcccEEe-ec--CCc-----------hhHHHHHHhhhCCcEEEEcccCCc
Q 044140 88 KATSICAKREVNDMPVHV-MQ--GDP-----------RNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v-~~--g~~-----------~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.+.+.+...|++ ..+.. .. +.. ...+.++|++++++.|+.|.+...
T Consensus 49 ~~~~~~~~~~i~-~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD 108 (185)
T cd01992 49 FVADLCAKLGIP-LYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADD 108 (185)
T ss_pred HHHHHHHHcCCc-EEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHH
Confidence 555666667887 65431 11 111 145778899999999999987543
No 23
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=96.40 E-value=0.07 Score=39.86 Aligned_cols=96 Identities=14% Similarity=0.163 Sum_probs=63.6
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
.+|+|++.|..+|..++..+.++.. . . ++.++||........ ....
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~-~--~----~~~a~~Vd~~~~~~~---------------------------~~~~ 67 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGR-R--I----EVEAVHVDHGLRGYS---------------------------DQEA 67 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhcc-C--c----eEEEEEecCCCCCcc---------------------------chHH
Confidence 6899999999999999999999988 5 5 999999977544320 0122
Q ss_pred HHHHHHHHhCCCCcccEEeec--C-C------c--------hhHHHHHHhhhCCcEEEEcccCCccc
Q 044140 87 DKATSICAKREVNDMPVHVMQ--G-D------P--------RNVMTEAVERFHPTILVLGSHGYGAV 136 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~--g-~------~--------~~~I~~~a~~~~~dliV~g~~~~~~~ 136 (166)
......+...+++.+...+.. + . + ...+.+.|++.++|.|+.|.+.....
T Consensus 68 ~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~~ 134 (298)
T COG0037 68 ELVEKLCEKLGIPLIVERVTDDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQA 134 (298)
T ss_pred HHHHHHHHHhCCceEEEEEEeeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHHHH
Confidence 333444454555411111111 1 1 1 23467888999999999998865444
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=95.87 E-value=0.18 Score=34.79 Aligned_cols=38 Identities=13% Similarity=0.112 Sum_probs=31.5
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCC--CCCCceEEEEEEeecC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPF--APNHTFQLVLIHARPN 50 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~--~~~~~~~l~lv~v~~~ 50 (166)
+|+|++.+..+|..++..+.++.. .. +. +++++|+...
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~-~~~~~~----~~~~~~~d~~ 40 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQR-RYPYGF----ELEALTVDEG 40 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHh-hcCCCe----EEEEEEEECC
Confidence 589999999999999999888776 55 44 8889998754
No 25
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=95.67 E-value=0.39 Score=35.31 Aligned_cols=95 Identities=19% Similarity=0.266 Sum_probs=61.3
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
..+|+|+++|..+|...+..+..+.+ ..+-+ .+|.++|+....... . + +
T Consensus 29 ~~kilVa~SGG~DS~~LL~ll~~l~~-~~~~~--~~l~av~vd~g~~~~------------~--------~-------~- 77 (258)
T PRK10696 29 GDRVMVCLSGGKDSYTLLDILLNLQK-RAPIN--FELVAVNLDQKQPGF------------P--------E-------H- 77 (258)
T ss_pred CCEEEEEecCCHHHHHHHHHHHHHHH-hCCCC--eEEEEEEecCCCCCC------------C--------H-------H-
Confidence 46899999999999999998888765 43221 178888875432110 0 0 0
Q ss_pred HHHHHHHHHhCCCCcccEEeec-----------CC---------chhHHHHHHhhhCCcEEEEcccCCc
Q 044140 86 ADKATSICAKREVNDMPVHVMQ-----------GD---------PRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~-----------g~---------~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.+.+.+++.|++ +.+.-.. +. -...+.++|++.++|.|++|.+...
T Consensus 78 --~~~~~~~~lgI~-~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD 143 (258)
T PRK10696 78 --VLPEYLESLGVP-YHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDD 143 (258)
T ss_pred --HHHHHHHHhCCC-EEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHH
Confidence 124556667877 5543221 11 1145667899999999999988544
No 26
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=95.45 E-value=0.16 Score=34.48 Aligned_cols=87 Identities=17% Similarity=0.203 Sum_probs=56.7
Q ss_pred EEEEEEcCC-----hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHH
Q 044140 8 IMMVAIDDS-----NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRA 82 (166)
Q Consensus 8 ~Ilv~vd~s-----~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (166)
+|||-++-. +.+..++..|.+++. ..+. +++++.+-+...
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~-~~g~----~v~av~~G~~~~------------------------------ 45 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAE-ALGG----EVTAVVLGPAEE------------------------------ 45 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHH-CTTS----EEEEEEEETCCC------------------------------
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHh-hcCC----eEEEEEEecchh------------------------------
Confidence 466666543 789999999999999 8787 999998763111
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeecC--------CchhHHHHHHhhhCCcEEEEcccC
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQG--------DPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~g--------~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
..+.+++.+..+|..++ +++-.. .....|.+.+++.++|+|++|...
T Consensus 46 --~~~~l~~~l~~~G~d~v-~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 46 --AAEALRKALAKYGADKV-YHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp --HHHHHHHHHHSTTESEE-EEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred --hHHHHhhhhhhcCCcEE-EEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 12333444555677622 222111 135678899999999999999653
No 27
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=95.43 E-value=0.11 Score=38.23 Aligned_cols=82 Identities=13% Similarity=0.080 Sum_probs=52.1
Q ss_pred CChhHHHHHHHHHHhcCCCCC-CCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 15 DSNHSYYALEWALDYFFPPFA-PNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSIC 93 (166)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~-~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 93 (166)
.++....|++.|+++.. .++ . +++++++-+..... ...+.++
T Consensus 34 iN~~D~~AlE~Alrlke-~~~g~----~Vtvvs~Gp~~a~~----------------------------~~~lr~a---- 76 (256)
T PRK03359 34 ISQYDLNAIEAACQLKQ-QAAEA----QVTALSVGGKALTN----------------------------AKGRKDV---- 76 (256)
T ss_pred cChhhHHHHHHHHHHhh-hcCCC----EEEEEEECCcchhh----------------------------HHHHHHH----
Confidence 45789999999999999 764 6 99999986532100 0111111
Q ss_pred HhCCCCcccEEee----cC----CchhHHHHHHhhhCCcEEEEcccCCc
Q 044140 94 AKREVNDMPVHVM----QG----DPRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 94 ~~~~i~~~~~~v~----~g----~~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
-..|.. --+++. .| ..+..|..++++.++|||+.|..+-.
T Consensus 77 LAmGaD-~avli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D 124 (256)
T PRK03359 77 LSRGPD-ELIVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSD 124 (256)
T ss_pred HHcCCC-EEEEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCcccc
Confidence 122444 112221 22 23677888999999999999977543
No 28
>PRK12342 hypothetical protein; Provisional
Probab=95.30 E-value=0.17 Score=37.16 Aligned_cols=99 Identities=14% Similarity=0.063 Sum_probs=59.2
Q ss_pred CChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 15 DSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICA 94 (166)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 94 (166)
.++....|++.|+++.+ ++. +|+++++-+.... ...+.+.+-
T Consensus 33 iNp~D~~AlE~AlrLk~--~g~----~Vtvls~Gp~~a~--------------------------------~~~l~r~al 74 (254)
T PRK12342 33 ISQFDLNAIEAASQLAT--DGD----EIAALTVGGSLLQ--------------------------------NSKVRKDVL 74 (254)
T ss_pred CChhhHHHHHHHHHHhh--cCC----EEEEEEeCCChHh--------------------------------HHHHHHHHH
Confidence 46789999999999974 576 9999998653110 001111122
Q ss_pred hCCCCcccEEe----ecC-Cc---hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccE
Q 044140 95 KREVNDMPVHV----MQG-DP---RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTV 156 (166)
Q Consensus 95 ~~~i~~~~~~v----~~g-~~---~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pV 156 (166)
..|.. --+++ ..| |+ +..|..++++.++|||+.|...-.+-. |.+.-.+......|.
T Consensus 75 amGaD-~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~t----gqvg~~lA~~Lg~P~ 139 (254)
T PRK12342 75 SRGPH-SLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLYA----QQVGLLLGELLQLPV 139 (254)
T ss_pred HcCCC-EEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCCC----CCHHHHHHHHhCCCc
Confidence 23555 12222 223 55 688889999989999999976533322 334444444444443
No 29
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=95.28 E-value=0.36 Score=36.46 Aligned_cols=94 Identities=14% Similarity=0.101 Sum_probs=60.4
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
+.++++++.+..+|.-.+..+.+... ..+. ++.++|+....... +.
T Consensus 27 f~~~vv~~SGGKDS~VLL~La~ka~~-~~~~----~~~vl~iDTG~~Fp-----------------------------Et 72 (301)
T PRK05253 27 FENPVMLYSIGKDSSVMLHLARKAFY-PGKL----PFPLLHVDTGWKFP-----------------------------EM 72 (301)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhhc-ccCC----CeeEEEEeCCCCCH-----------------------------HH
Confidence 56899999999999999999987766 4344 78899986543211 11
Q ss_pred HHHHHHHHHhCCCCcccEEeec-----C------Cc--------hhHHHHHHhhhCCcEEEEcccCCc
Q 044140 86 ADKATSICAKREVNDMPVHVMQ-----G------DP--------RNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~-----g------~~--------~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
++...+.+++.|++ +.+.... | +. ...+.++++++++|.++.|.+...
T Consensus 73 ~ef~d~~a~~~gl~-l~v~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrDE 139 (301)
T PRK05253 73 IEFRDRRAKELGLE-LIVHSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRDE 139 (301)
T ss_pred HHHHHHHHHHhCCC-EEEEeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccch
Confidence 11222234555666 5443211 1 00 245778888899999999987543
No 30
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.22 E-value=0.63 Score=37.16 Aligned_cols=91 Identities=13% Similarity=0.075 Sum_probs=66.2
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 14 DDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSIC 93 (166)
Q Consensus 14 d~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 93 (166)
|..-....||..|++.|. ..+. .|.+|++.++..... .........+-+..+.+.+
T Consensus 32 DLRl~DN~aL~~A~~~a~-~~~~----~vl~vyi~dp~~~~~-------------------~~~r~~Fl~esL~~L~~~L 87 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLAL-KKKL----PLHVCFCLVDFFLAA-------------------TRRHYFFMLGGLDEVANEC 87 (454)
T ss_pred chhccCCHHHHHHHHHHH-HcCC----CEEEEEEeCCCcccc-------------------cHHHHHHHHHHHHHHHHHH
Confidence 444556788888888766 4455 799999986543221 1234455566677777777
Q ss_pred HhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 94 AKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 94 ~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
++.|+. ..+..|++.+.|.+.+++.+++.|+....
T Consensus 88 ~~~g~~---L~v~~g~~~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 88 ERLIIP---FHLLDGPPKELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred HHcCCc---eEEeecChHHHHHHHHHHcCCCEEEEecc
Confidence 777877 56678999999999999999999999764
No 31
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=94.95 E-value=0.26 Score=34.38 Aligned_cols=34 Identities=15% Similarity=0.164 Sum_probs=28.4
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEE
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLI 45 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv 45 (166)
++||++++.++..+.++.++.-.+.+ . +. +++++
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~-~-g~----~V~vv 34 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTK-R-GY----QVTVL 34 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHH-C-CC----EEEEE
Confidence 38999999999999999999988866 4 56 77766
No 32
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=94.93 E-value=0.25 Score=39.24 Aligned_cols=68 Identities=16% Similarity=0.166 Sum_probs=47.2
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
..+|+|++.|..+|...+.....+.....+. +++++||....... ....
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~----~l~a~hvnhglr~~---------------------------s~~~ 63 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPGV----TLRAIHVHHGLSPN---------------------------ADSW 63 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCCC----eEEEEEEeCCCCcc---------------------------hHHH
Confidence 4789999999999999999888775313355 99999997543211 1122
Q ss_pred HHHHHHHHHhCCCCcccEEe
Q 044140 86 ADKATSICAKREVNDMPVHV 105 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v 105 (166)
.+.+...|.+.|++ +.+.-
T Consensus 64 ~~~~~~~~~~l~i~-~~~~~ 82 (436)
T PRK10660 64 VKHCEQVCQQWQVP-LVVER 82 (436)
T ss_pred HHHHHHHHHHcCCc-EEEEE
Confidence 34566677888888 66543
No 33
>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=94.71 E-value=0.14 Score=33.42 Aligned_cols=110 Identities=11% Similarity=0.082 Sum_probs=63.0
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
|||++++.|+....++.++..++.+ . +. ++.++-- +.+.+.+
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~-~-g~----~v~vv~S--------------------------------~~A~~~~ 42 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKR-A-GW----EVRVVLS--------------------------------PSAERFV 42 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHT-T-TS----EEEEEES--------------------------------HHHHHHS
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhh-C-CC----EEEEEEC--------------------------------CcHHHHh
Confidence 6899999999999999999999888 5 66 8776632 1112222
Q ss_pred HHHHHHHHhCCCCcccEE---eecCCchhHHHHHHhhhCCcEEEEcccCCccchhhh---cccHHHHHhhcC---CccEE
Q 044140 87 DKATSICAKREVNDMPVH---VMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAV---LGSVSDYSAHHC---SCTVM 157 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~---v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~---~gs~~~~l~~~~---~~pVl 157 (166)
.... ..+-+ +... ...++...- ++.++ .+|++|+..-..+.+.++- -.+....++..+ +.||+
T Consensus 43 ~~~~----~~~~~-v~~~~~~~~~~~~~~~-~~~~~--~~D~~vVaPaT~NtlaKiA~GiaD~l~~~~~~~~l~~~~pvv 114 (129)
T PF02441_consen 43 TPEG----LTGEP-VYTDWDTWDRGDPAEH-IELSR--WADAMVVAPATANTLAKIANGIADNLLTRVALAALKEGKPVV 114 (129)
T ss_dssp HHHG----HCCSC-EECTHCTCSTTTTTCH-HHHHH--TESEEEEEEEEHHHHHHHHTT--SSHHHHHHHHHHHTTCGEE
T ss_pred hhhc----cccch-hhhccccCCCCCCcCc-ccccc--cCCEEEEcccCHHHHHHHHhCCcchHHHHHHHHHccCCCCeE
Confidence 2211 11111 1111 112333333 33345 6999999865544444433 234455566666 89999
Q ss_pred EEcCC
Q 044140 158 IVKMP 162 (166)
Q Consensus 158 vv~~~ 162 (166)
++|..
T Consensus 115 i~P~m 119 (129)
T PF02441_consen 115 IAPAM 119 (129)
T ss_dssp EEEEE
T ss_pred EEEeC
Confidence 99863
No 34
>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=94.69 E-value=0.62 Score=31.66 Aligned_cols=113 Identities=14% Similarity=0.106 Sum_probs=66.1
Q ss_pred hHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 044140 18 HSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKRE 97 (166)
Q Consensus 18 ~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 97 (166)
....|+..|++ .+. +|..+++.++........+ ........+.+..+.+.+.+.|
T Consensus 12 ~DN~aL~~A~~-----~~~----~v~~vfv~d~~~~~~~~~~----------------~~r~~Fl~~sL~~L~~~L~~~g 66 (165)
T PF00875_consen 12 HDNPALHAAAQ-----NGD----PVLPVFVFDPEEFHPYRIG----------------PRRRRFLLESLADLQESLRKLG 66 (165)
T ss_dssp TT-HHHHHHHH-----TTS----EEEEEEEE-HHGGTTCSSC----------------HHHHHHHHHHHHHHHHHHHHTT
T ss_pred hhhHHHHHHHH-----cCC----CeEEEEEecccccccccCc----------------chHHHHHHHHHHHHHHHHHhcC
Confidence 34556666622 234 8999999876511100001 2334455566677777777777
Q ss_pred CCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 98 VNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 98 i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
+. ..++.|++.+.|.+.+++.+++.|+.... .+...+..-- -..+.+....+.+..+.
T Consensus 67 ~~---L~v~~g~~~~~l~~l~~~~~~~~V~~~~~-~~~~~~~rd~-~v~~~l~~~~i~~~~~~ 124 (165)
T PF00875_consen 67 IP---LLVLRGDPEEVLPELAKEYGATAVYFNEE-YTPYERRRDE-RVRKALKKHGIKVHTFD 124 (165)
T ss_dssp S----EEEEESSHHHHHHHHHHHHTESEEEEE----SHHHHHHHH-HHHHHHHHTTSEEEEE-
T ss_pred cc---eEEEecchHHHHHHHHHhcCcCeeEeccc-cCHHHHHHHH-HHHHHHHhcceEEEEEC
Confidence 77 77888999999999999999999998755 3322222222 23334455567776554
No 35
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=94.40 E-value=0.39 Score=35.41 Aligned_cols=80 Identities=13% Similarity=0.235 Sum_probs=52.5
Q ss_pred CChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 15 DSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICA 94 (166)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 94 (166)
-++....|++.|+++..+.++. +++++++-++. . +..+.. +-
T Consensus 35 in~~D~~AvEeAlrLke~~~~~----eV~vlt~Gp~~--------------------------a----~~~lr~----aL 76 (260)
T COG2086 35 INPFDLNAVEEALRLKEKGYGG----EVTVLTMGPPQ--------------------------A----EEALRE----AL 76 (260)
T ss_pred cChhhHHHHHHHHHhhccCCCc----eEEEEEecchh--------------------------h----HHHHHH----HH
Confidence 3577899999999999832666 99999986531 1 111111 22
Q ss_pred hCCCCcccEEee----cC----CchhHHHHHHhhhCCcEEEEcccCC
Q 044140 95 KREVNDMPVHVM----QG----DPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 95 ~~~i~~~~~~v~----~g----~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
..|.. -=+++. .+ ..+..|...+++.+.|||++|...-
T Consensus 77 AmGaD-raili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~ 122 (260)
T COG2086 77 AMGAD-RAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAI 122 (260)
T ss_pred hcCCC-eEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccc
Confidence 33555 222222 12 3478888999999999999997653
No 36
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=94.39 E-value=0.57 Score=32.75 Aligned_cols=35 Identities=11% Similarity=0.020 Sum_probs=29.5
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
++|++++.||-.+.++.+.+-.+.+ ..+. +++++-
T Consensus 2 k~IllgVTGsiaa~ka~~l~~~L~k-~~g~----~V~vv~ 36 (185)
T PRK06029 2 KRLIVGISGASGAIYGVRLLQVLRD-VGEI----ETHLVI 36 (185)
T ss_pred CEEEEEEECHHHHHHHHHHHHHHHh-hcCC----eEEEEE
Confidence 7999999999999999999988876 5566 776663
No 37
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=94.15 E-value=0.6 Score=31.41 Aligned_cols=69 Identities=22% Similarity=0.228 Sum_probs=47.3
Q ss_pred HHHHHHHHHhCCCCcccEEeecC-CchhHHHHH---HhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 86 ADKATSICAKREVNDMPVHVMQG-DPRNVMTEA---VERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
++.+.+.+.+.|++ ++.++... ...+.+.+| +++.++..||-|..+...+. |- +...++.||+-||-
T Consensus 18 mk~Aa~~L~~fgi~-ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLP----Gm----vAa~T~lPViGVPv 88 (162)
T COG0041 18 MKKAAEILEEFGVP-YEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLP----GM----VAAKTPLPVIGVPV 88 (162)
T ss_pred HHHHHHHHHHcCCC-eEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcc----hh----hhhcCCCCeEeccC
Confidence 44555566677999 99888875 445555555 56678888999877644333 43 34477999999996
Q ss_pred CC
Q 044140 162 PK 163 (166)
Q Consensus 162 ~~ 163 (166)
..
T Consensus 89 ~s 90 (162)
T COG0041 89 QS 90 (162)
T ss_pred cc
Confidence 54
No 38
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=94.14 E-value=0.71 Score=31.28 Aligned_cols=70 Identities=19% Similarity=0.229 Sum_probs=47.8
Q ss_pred HHHHHHHHHHhCCCCcccEEeecC-CchhHHHHH---HhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 85 VADKATSICAKREVNDMPVHVMQG-DPRNVMTEA---VERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+...+++.|++ +++.+..- ...+.+.++ +++.+++.+|.+......+.. -+..++..||+-||
T Consensus 13 ~~~~a~~~L~~~gi~-~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpg--------vva~~t~~PVIgvP 83 (156)
T TIGR01162 13 TMKKAADILEEFGIP-YELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPG--------MVAALTPLPVIGVP 83 (156)
T ss_pred HHHHHHHHHHHcCCC-eEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHH--------HHHhccCCCEEEec
Confidence 345666667778999 99888774 444555555 455678888888765544432 35567899999999
Q ss_pred CCC
Q 044140 161 MPK 163 (166)
Q Consensus 161 ~~~ 163 (166)
...
T Consensus 84 ~~~ 86 (156)
T TIGR01162 84 VPS 86 (156)
T ss_pred CCc
Confidence 753
No 39
>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal. In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.
Probab=93.99 E-value=0.53 Score=32.66 Aligned_cols=34 Identities=12% Similarity=0.177 Sum_probs=27.1
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
|||++++.++..+.++.++.-.+.+ .+. +++++-
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~~--~g~----~V~vi~ 34 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLTK--LGY----DVTVLM 34 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHHH--CCC----EEEEEE
Confidence 6899999999999999988777755 356 777663
No 40
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=93.78 E-value=1 Score=35.49 Aligned_cols=37 Identities=11% Similarity=0.108 Sum_probs=29.8
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
+..++|++++.++-.+.++.++.-.+.+ .+. ++.++-
T Consensus 4 l~~k~IllgvTGsiaa~k~~~lv~~L~~--~g~----~V~vv~ 40 (399)
T PRK05579 4 LAGKRIVLGVSGGIAAYKALELVRRLRK--AGA----DVRVVM 40 (399)
T ss_pred CCCCeEEEEEeCHHHHHHHHHHHHHHHh--CCC----EEEEEE
Confidence 3468999999999999999999988855 466 777663
No 41
>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=93.36 E-value=1.6 Score=29.24 Aligned_cols=36 Identities=17% Similarity=0.166 Sum_probs=29.2
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
+|+|++.+..+|..++..+.+... .. . ++.++|+..
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~-~~-~----~~~~v~~dt 36 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALP-EL-K----PVPVIFLDT 36 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcc-cc-c----CceEEEeCC
Confidence 589999999999999999888766 43 3 778888854
No 42
>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=93.36 E-value=0.91 Score=31.82 Aligned_cols=34 Identities=9% Similarity=-0.060 Sum_probs=27.0
Q ss_pred CEEEEEEcCChhHHHHH-HHHHHhcCCCCCCCCceEEEEEE
Q 044140 7 PIMMVAIDDSNHSYYAL-EWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al-~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
++|++++.|+..+.++. +..-.+.+ .+. +++++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L~~--~g~----~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKLVD--EGA----EVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHHHh--CcC----EEEEEE
Confidence 58999999999999997 77777755 466 777664
No 43
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=93.15 E-value=0.9 Score=30.63 Aligned_cols=70 Identities=14% Similarity=0.121 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhCCCCcccEEeecC-CchhHHHHHHhh---hCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 85 VADKATSICAKREVNDMPVHVMQG-DPRNVMTEAVER---FHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~---~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+++...+++.|++ ++.++..- ...+.+.+++++ .+++.+|.+......+. --+..++..||+-||
T Consensus 15 ~~~~a~~~L~~~gi~-~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lp--------gvva~~t~~PVIgvP 85 (150)
T PF00731_consen 15 IAEEAAKTLEEFGIP-YEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALP--------GVVASLTTLPVIGVP 85 (150)
T ss_dssp HHHHHHHHHHHTT-E-EEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HH--------HHHHHHSSS-EEEEE
T ss_pred HHHHHHHHHHHcCCC-EEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccch--------hhheeccCCCEEEee
Confidence 345666677778899 88888775 555666666655 45788888766544333 234557799999998
Q ss_pred CCC
Q 044140 161 MPK 163 (166)
Q Consensus 161 ~~~ 163 (166)
...
T Consensus 86 ~~~ 88 (150)
T PF00731_consen 86 VSS 88 (150)
T ss_dssp E-S
T ss_pred cCc
Confidence 643
No 44
>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=93.15 E-value=2 Score=32.34 Aligned_cols=40 Identities=18% Similarity=0.142 Sum_probs=32.0
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
+.++++++.+..+|..++..+.+... ..+. .+.++|+...
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~-~~~~----p~~vl~IDTG 58 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFY-PGPL----PFPLLHVDTG 58 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhc-ccCC----CeEEEEEecC
Confidence 45678899999999999999988776 4344 7899999654
No 45
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=92.86 E-value=0.82 Score=36.75 Aligned_cols=35 Identities=11% Similarity=0.032 Sum_probs=29.8
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
.++|++++.++-.+.++.+++-.+.+ .+. +|+++-
T Consensus 70 ~k~IllgVtGsIAayka~~lvr~L~k--~G~----~V~Vvm 104 (475)
T PRK13982 70 SKRVTLIIGGGIAAYKALDLIRRLKE--RGA----HVRCVL 104 (475)
T ss_pred CCEEEEEEccHHHHHHHHHHHHHHHh--CcC----EEEEEE
Confidence 58999999999999999999988866 466 777764
No 46
>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=92.85 E-value=2.4 Score=29.87 Aligned_cols=112 Identities=13% Similarity=0.127 Sum_probs=63.0
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
++|+-.|.-....+...|..+.. . +. .+.++.... ... ...++
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~-~-~~----~v~lis~D~-~R~------------------------------ga~eQ 47 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKL-K-GK----KVALISADT-YRI------------------------------GAVEQ 47 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHH-T-T------EEEEEEST-SST------------------------------HHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhh-c-cc----cceeecCCC-CCc------------------------------cHHHH
Confidence 56667777888889999999988 6 55 888887632 110 11234
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHH---HHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEE
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVM---TEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIV 159 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv 159 (166)
++..++..|++ +...-...++.+.+ ++..+..++|+|++-+.|++......+....+ ++.. .+.-+++|
T Consensus 48 L~~~a~~l~vp-~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~~-~~~~~~~~~~~LV 120 (196)
T PF00448_consen 48 LKTYAEILGVP-FYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELKK-LLEALNPDEVHLV 120 (196)
T ss_dssp HHHHHHHHTEE-EEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHHH-HHHHHSSSEEEEE
T ss_pred HHHHHHHhccc-cchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHHH-HhhhcCCccceEE
Confidence 44444444555 33222222455544 44555678999999999887655444444333 2332 35555554
No 47
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=92.64 E-value=2 Score=30.14 Aligned_cols=86 Identities=14% Similarity=0.152 Sum_probs=52.7
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
|+|++.|..+|..++..+.+... . ++.++|+...... ....+.
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~~----~----~v~~v~vd~g~~~-----------------------------~~~~~~ 43 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDALG----D----RVLAVTATSPLFP-----------------------------RRELEE 43 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHhC----C----cEEEEEeCCCCCC-----------------------------HHHHHH
Confidence 58999999999988877765533 3 6788888543210 012234
Q ss_pred HHHHHHhCCCCcccEEeec--------C-----------CchhHHHHHHhhhCCcEEEEcccC
Q 044140 89 ATSICAKREVNDMPVHVMQ--------G-----------DPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~--------g-----------~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
+.+.++..|++ ..+.-.. + -....+.++|++.+++.|+.|.+.
T Consensus 44 ~~~~a~~lgi~-~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~ 105 (202)
T cd01990 44 AKRLAKEIGIR-HEVIETDELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNA 105 (202)
T ss_pred HHHHHHHcCCc-EEEEeCCccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence 44455555666 4332211 0 112356678899999999999764
No 48
>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=92.27 E-value=4.8 Score=31.93 Aligned_cols=95 Identities=17% Similarity=0.085 Sum_probs=60.5
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCc-CCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHH
Q 044140 14 DDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLL-GLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSI 92 (166)
Q Consensus 14 d~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 92 (166)
|..-....||..|+..+ . +|..|++.++..... ..... .. ..........+-+..+.+.
T Consensus 10 DLRl~DN~aL~~A~~~~-----~----~vl~vfi~dp~~~~~~~~~~~-------~~----~~~~r~~Fl~esL~~L~~~ 69 (429)
T TIGR02765 10 DLRVHDNPALYKASSSS-----D----TLIPLYCFDPRQFKLTHFFGF-------PK----TGPARGKFLLESLKDLRTS 69 (429)
T ss_pred CCccccHHHHHHHHhcC-----C----eEEEEEEECchHhcccccccc-------CC----CCHHHHHHHHHHHHHHHHH
Confidence 33444566776665332 3 788888887543221 00000 00 0022334555666777777
Q ss_pred HHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 93 CAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 93 ~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+++.|++ ..+..|++.+.|.+.+++.+++.|+....
T Consensus 70 L~~~g~~---L~v~~G~~~~vl~~L~~~~~~~~V~~~~~ 105 (429)
T TIGR02765 70 LRKLGSD---LLVRSGKPEDVLPELIKELGVRTVFLHQE 105 (429)
T ss_pred HHHcCCC---eEEEeCCHHHHHHHHHHHhCCCEEEEecc
Confidence 7877877 56678999999999999999999999755
No 49
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=92.27 E-value=1 Score=34.21 Aligned_cols=56 Identities=9% Similarity=0.057 Sum_probs=33.8
Q ss_pred ecC-CchhHHHHHHhhh-------CCcEEEEcccCCccchhhhccc-HHHHHhhcCCccEEEEcC
Q 044140 106 MQG-DPRNVMTEAVERF-------HPTILVLGSHGYGAVKRAVLGS-VSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 106 ~~g-~~~~~I~~~a~~~-------~~dliV~g~~~~~~~~~~~~gs-~~~~l~~~~~~pVlvv~~ 161 (166)
+.| +....|++..+.. .+|+||+++.|.+...=+.|.+ ..-+-+..+++||+.-=.
T Consensus 51 vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~eDL~~FN~e~varai~~~~~PvisaIG 115 (319)
T PF02601_consen 51 VQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGSIEDLWAFNDEEVARAIAASPIPVISAIG 115 (319)
T ss_pred ccccchHHHHHHHHHHHHhccccccccEEEEecCCCChHHhcccChHHHHHHHHhCCCCEEEecC
Confidence 346 6677777665544 4899999977644222222332 244456788999876433
No 50
>PRK13820 argininosuccinate synthase; Provisional
Probab=92.05 E-value=5 Score=31.63 Aligned_cols=38 Identities=3% Similarity=0.070 Sum_probs=29.2
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
++++|+|++.+.-+|.-++.++.+... + . +++++|+..
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e~~g--~-~----~Viav~vd~ 38 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKEKYG--Y-D----EVITVTVDV 38 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHHhcC--C-C----EEEEEEEEC
Confidence 358999999999999999888754322 1 3 899999864
No 51
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=91.90 E-value=1.1 Score=31.64 Aligned_cols=36 Identities=8% Similarity=-0.018 Sum_probs=28.7
Q ss_pred CCCEEEEEEcCChhHHH-HHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 5 TKPIMMVAIDDSNHSYY-ALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~-al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
..++|++++.|+-.+.+ +++.+-.+.+ .+. +++++-
T Consensus 4 ~~k~IllgVTGsiaa~k~a~~lir~L~k--~G~----~V~vv~ 40 (196)
T PRK08305 4 KGKRIGFGLTGSHCTYDEVMPEIEKLVD--EGA----EVTPIV 40 (196)
T ss_pred CCCEEEEEEcCHHHHHHHHHHHHHHHHh--CcC----EEEEEE
Confidence 35899999999999999 6888877766 466 777664
No 52
>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=91.84 E-value=2.4 Score=34.10 Aligned_cols=89 Identities=8% Similarity=0.001 Sum_probs=58.1
Q ss_pred CChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 15 DSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICA 94 (166)
Q Consensus 15 ~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 94 (166)
..-....||..|++. +. .|.++++.++........ -........+-+..+.+.+.
T Consensus 11 LRl~DN~AL~~A~~~-----~~----~vl~vfi~dp~~~~~~~~----------------~~~r~~Fl~esL~~L~~~L~ 65 (471)
T TIGR03556 11 LRLSDNIGLAAARQQ-----SA----KVVGLFCLDPNILQADDM----------------APARVAYLIGCLQELQQRYQ 65 (471)
T ss_pred CCcchHHHHHHHHhc-----CC----CEEEEEEEchhhhccccC----------------CHHHHHHHHHHHHHHHHHHH
Confidence 334456677766532 23 788888876532211000 01123445555667777777
Q ss_pred hCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 95 KREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 95 ~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.|++ ..+..|++.+.|.+.+++.+++.|+....
T Consensus 66 ~~G~~---L~v~~G~p~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 66 QAGSQ---LLILQGDPVQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred HCCCC---eEEEECCHHHHHHHHHHHcCCCEEEEecc
Confidence 77877 56778999999999999999999998754
No 53
>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=91.19 E-value=4.6 Score=29.58 Aligned_cols=35 Identities=11% Similarity=0.055 Sum_probs=27.6
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.++++|+++|.-+|.-++..+.+. +. ++..+|+..
T Consensus 12 ~~~vlVa~SGGvDSs~ll~la~~~-----g~----~v~av~~~~ 46 (252)
T TIGR00268 12 FKKVLIAYSGGVDSSLLAAVCSDA-----GT----EVLAITVVS 46 (252)
T ss_pred cCCEEEEecCcHHHHHHHHHHHHh-----CC----CEEEEEecC
Confidence 478999999999998888777543 44 788888854
No 54
>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=90.65 E-value=1.2 Score=27.50 Aligned_cols=65 Identities=8% Similarity=0.080 Sum_probs=40.5
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
..++.+.+.+.|++ +++.. .....+-+... ++|+|+++..-.... . ..+......++||.++++.
T Consensus 20 ~~k~~~~~~~~gi~-~~v~a---~~~~~~~~~~~--~~Dvill~pqi~~~~-----~-~i~~~~~~~~ipv~~I~~~ 84 (95)
T TIGR00853 20 VNKMNKAAEEYGVP-VKIAA---GSYGAAGEKLD--DADVVLLAPQVAYML-----P-DLKKETDKKGIPVEVINGA 84 (95)
T ss_pred HHHHHHHHHHCCCc-EEEEE---ecHHHHHhhcC--CCCEEEECchHHHHH-----H-HHHHHhhhcCCCEEEeChh
Confidence 35666677778888 65433 22233444444 789999986633222 2 2345667778999999863
No 55
>PRK10867 signal recognition particle protein; Provisional
Probab=90.64 E-value=6.6 Score=31.36 Aligned_cols=95 Identities=13% Similarity=0.089 Sum_probs=54.8
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
+++...++-.+..+...|..+++ ..+. .+.++..... . . ...++
T Consensus 104 ~~vG~~GsGKTTtaakLA~~l~~-~~G~----kV~lV~~D~~-R-----------------------~-------aa~eQ 147 (433)
T PRK10867 104 MMVGLQGAGKTTTAGKLAKYLKK-KKKK----KVLLVAADVY-R-----------------------P-------AAIEQ 147 (433)
T ss_pred EEECCCCCcHHHHHHHHHHHHHH-hcCC----cEEEEEcccc-c-----------------------h-------HHHHH
Confidence 44555667778888999988877 5354 6777655321 0 0 11123
Q ss_pred HHHHHHhCCCCcccEEeecCCchh---HHHHHHhhhCCcEEEEcccCCccchhhh
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRN---VMTEAVERFHPTILVLGSHGYGAVKRAV 140 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~ 140 (166)
+..++...|++ +...-...++.. ..++.++..++|+|++-+.++......+
T Consensus 148 L~~~a~~~gv~-v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~l 201 (433)
T PRK10867 148 LKTLGEQIGVP-VFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEEL 201 (433)
T ss_pred HHHHHhhcCCe-EEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHH
Confidence 33344455776 443222234432 3445667778999999988876544333
No 56
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=90.59 E-value=7.4 Score=30.90 Aligned_cols=110 Identities=14% Similarity=0.108 Sum_probs=69.8
Q ss_pred EEEEEcCC-hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDS-NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 9 Ilv~vd~s-~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
||+.=|+. -.|.-.++.+.++|+ . . .++||.-. +-.+
T Consensus 96 iLIgGdPGIGKSTLLLQva~~lA~-~-------~-~vLYVsGE---------------------------------ES~~ 133 (456)
T COG1066 96 ILIGGDPGIGKSTLLLQVAARLAK-R-------G-KVLYVSGE---------------------------------ESLQ 133 (456)
T ss_pred EEEccCCCCCHHHHHHHHHHHHHh-c-------C-cEEEEeCC---------------------------------cCHH
Confidence 34444443 358889999999998 5 3 56777532 2234
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC--ccchhhhcccHH------H---HHhhcCCccE
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY--GAVKRAVLGSVS------D---YSAHHCSCTV 156 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~--~~~~~~~~gs~~------~---~l~~~~~~pV 156 (166)
+++-++.+.|++.-...+......+.|...+++.+.|++|+.+=.. +.-..---||++ . ++.+...+++
T Consensus 134 QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVIDSIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~ 213 (456)
T COG1066 134 QIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLVVIDSIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAI 213 (456)
T ss_pred HHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCCCEEEEeccceeecccccCCCCcHHHHHHHHHHHHHHHHHcCCeE
Confidence 5566667777762345566678899999999999999999986431 111111224432 3 3444567888
Q ss_pred EEEc
Q 044140 157 MIVK 160 (166)
Q Consensus 157 lvv~ 160 (166)
++|-
T Consensus 214 fiVG 217 (456)
T COG1066 214 FIVG 217 (456)
T ss_pred EEEE
Confidence 8874
No 57
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=90.28 E-value=2.2 Score=36.56 Aligned_cols=41 Identities=17% Similarity=0.016 Sum_probs=34.6
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPP 52 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~ 52 (166)
.+|.+..=+.++...|+.++.+++. .... .+++++..+...
T Consensus 615 ~~v~~lF~GG~DDrEALa~~~rm~~-~~~v----~lTVirf~~~~~ 655 (769)
T KOG1650|consen 615 YKVVVLFLGGKDDREALALAKRMAE-NPRV----TLTVIRFFPDES 655 (769)
T ss_pred eEEEEEecCChhhHHHHHHHHHHhh-CCce----EEEEEEeeccch
Confidence 4677788888888889999999999 7776 999999987554
No 58
>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=89.98 E-value=4.5 Score=31.81 Aligned_cols=35 Identities=9% Similarity=0.190 Sum_probs=28.9
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
.++|++++.+|..+.++++++-.+.+ .+. ++.++-
T Consensus 3 ~k~IllgiTGSiaa~~~~~ll~~L~~--~g~----~V~vv~ 37 (390)
T TIGR00521 3 NKKILLGVTGGIAAYKTVELVRELVR--QGA----EVKVIM 37 (390)
T ss_pred CCEEEEEEeCHHHHHHHHHHHHHHHh--CCC----EEEEEE
Confidence 58999999999999999999988865 466 777663
No 59
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=89.73 E-value=3.5 Score=32.42 Aligned_cols=113 Identities=8% Similarity=0.110 Sum_probs=64.4
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
.|+||++|.++-.+.++++.+-.+-+ .|+ ++.++-.-.. .++
T Consensus 4 ~k~ill~v~gsiaayk~~~l~r~L~~--~ga----~v~vvmt~~a--------------------------------~~f 45 (392)
T COG0452 4 GKRILLGVTGSIAAYKSVELVRLLRR--SGA----EVRVVMTESA--------------------------------RKF 45 (392)
T ss_pred CceEEEEecCchhhhhHHHHHHHHhh--CCC----eeEEEcchhh--------------------------------hhh
Confidence 46999999999999999999877766 466 7777743221 111
Q ss_pred HHHHHH-HHHhCCCCcccEEeecCCc-hhHH--HHHHhhhCCcEEEEcccCCccchhh---hcccHHHHHhhcCCccEEE
Q 044140 86 ADKATS-ICAKREVNDMPVHVMQGDP-RNVM--TEAVERFHPTILVLGSHGYGAVKRA---VLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 86 l~~~~~-~~~~~~i~~~~~~v~~g~~-~~~I--~~~a~~~~~dliV~g~~~~~~~~~~---~~gs~~~~l~~~~~~pVlv 158 (166)
.....- .+.+..+. . .+.+. ...+ ++.++ .+|++++.......+.+. +--......+..+.+|+++
T Consensus 46 v~p~~~~~~s~~~v~---t--~~~~~~~~~~~HI~l~~--~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~~p~~~ 118 (392)
T COG0452 46 ITPLTFQALSGNPVY---T--LLDEELTGSVEHIELAR--WADLLLVAPATANTIAKLAVGIADNLSTTTLLAAKAPLVL 118 (392)
T ss_pred cCcccHHHhhCCCcc---c--cccccccccccHhhhhh--ccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhcCcEEE
Confidence 111111 11111222 2 23222 2222 33444 899999986655554442 2223344555666779999
Q ss_pred EcCCC
Q 044140 159 VKMPK 163 (166)
Q Consensus 159 v~~~~ 163 (166)
+|...
T Consensus 119 aPamn 123 (392)
T COG0452 119 APAMN 123 (392)
T ss_pred ecCcC
Confidence 98643
No 60
>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=89.70 E-value=3 Score=28.86 Aligned_cols=33 Identities=9% Similarity=0.006 Sum_probs=25.0
Q ss_pred EEEEEEcCC-hhHHHHHHHHHHhcCCCCCCCCceEEEEE
Q 044140 8 IMMVAIDDS-NHSYYALEWALDYFFPPFAPNHTFQLVLI 45 (166)
Q Consensus 8 ~Ilv~vd~s-~~s~~al~~a~~la~~~~~~~~~~~l~lv 45 (166)
||++++-+| ......++++..+++ ..+. +++++
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~-~~g~----eV~vv 34 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKN-RYGD----EIDVF 34 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHH-hcCC----EEEEE
Confidence 589999998 444557888888887 6676 77766
No 61
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=89.20 E-value=1.7 Score=27.12 Aligned_cols=64 Identities=6% Similarity=0.025 Sum_probs=41.4
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+++++.+++.|++ +++.. -...++-+..+ ++|+|++|..-+... . -.+........||.++++
T Consensus 17 a~km~~~a~~~gi~-~~i~a---~~~~e~~~~~~--~~Dvill~PQv~~~~-----~-~i~~~~~~~~ipv~~I~~ 80 (99)
T cd05565 17 ANALNKGAKERGVP-LEAAA---GAYGSHYDMIP--DYDLVILAPQMASYY-----D-ELKKDTDRLGIKLVTTTG 80 (99)
T ss_pred HHHHHHHHHHCCCc-EEEEE---eeHHHHHHhcc--CCCEEEEcChHHHHH-----H-HHHHHhhhcCCCEEEeCH
Confidence 45666777788998 66543 33444556666 889999986633222 2 234556666899998874
No 62
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=89.16 E-value=6.8 Score=29.84 Aligned_cols=40 Identities=20% Similarity=0.240 Sum_probs=32.3
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
+.++++.+.+..+|.-.+..+.+.+. ..+. .+.++|+...
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~-~~~~----~~pvl~VDTG 76 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFR-PTRP----PFPLLHVDTT 76 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhc-ccCC----CeeEEEeCCC
Confidence 56788999999999999999988876 4344 7889998553
No 63
>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=89.16 E-value=7.1 Score=28.58 Aligned_cols=119 Identities=13% Similarity=0.133 Sum_probs=64.9
Q ss_pred EEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHH
Q 044140 11 VAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKAT 90 (166)
Q Consensus 11 v~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 90 (166)
|+..+.......++..+++|+ .++ --...|.-.+....+.- ..++-..+++.+.....+..+.
T Consensus 32 IACG~HAGDp~~M~~tv~lA~-~~g-----V~iGAHPsyPD~~gFGR-----------r~m~~s~~el~~~v~yQigaL~ 94 (242)
T PF03746_consen 32 IACGFHAGDPETMRRTVRLAK-EHG-----VAIGAHPSYPDREGFGR-----------RSMDISPEELRDSVLYQIGALQ 94 (242)
T ss_dssp EE-SSSS--HHHHHHHHHHHH-HTT------EEEEE---S-TTTTT------------S-----HHHHHHHHHHHHHHHH
T ss_pred HhhcccccCHHHHHHHHHHHH-HcC-----CEeccCCCCCCCCCCCC-----------CCCCCCHHHHHHHHHHHHHHHH
Confidence 455555667788899999999 766 34455654444443322 1223333555666666677777
Q ss_pred HHHHhCCCCcccEEeecC----------CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 91 SICAKREVNDMPVHVMQG----------DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 91 ~~~~~~~i~~~~~~v~~g----------~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
..++..|.+ +...-.+| ..++.|++.+++.+.+|.+++.. ||...+..+....+++
T Consensus 95 ~~a~~~g~~-l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a----------gs~~~~~A~~~Gl~~~ 160 (242)
T PF03746_consen 95 AIAAAEGVP-LHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA----------GSELEKAAKELGLPVV 160 (242)
T ss_dssp HHHHHTT---EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET----------TSHHHHHHHHCT--EE
T ss_pred HHHHHcCCe-eEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC----------CcHHHHHHHHCCCcEE
Confidence 888888888 66554443 34788999999999999999865 4444555555555553
No 64
>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=88.66 E-value=0.82 Score=34.67 Aligned_cols=52 Identities=15% Similarity=0.192 Sum_probs=37.1
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-CccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.+..+.+++.+ .+|+||+|-.+ ++.+...++=.-..+.+++++||++.|.+-
T Consensus 163 ~~~~~~l~AI~--~ADlIvlgPGSlyTSI~P~Llv~gi~eAi~~s~a~kV~V~ni 215 (309)
T cd07044 163 SPSREVLEAIE--KADNIVIGPGSLYTSILPNISVPGIREALKKTXAKKVYVSNI 215 (309)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhhhhcCcHhHHHHHHhcCCCeEEECCC
Confidence 45678888888 89999999654 444444443334445677799999999874
No 65
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=88.40 E-value=1.8 Score=27.30 Aligned_cols=66 Identities=9% Similarity=0.035 Sum_probs=40.6
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+...+.+++.|++ +++.. .....+.++....++|+|++|..=+.. . .-...+...-++||.++++
T Consensus 18 a~k~k~~~~e~gi~-~~i~a---~~~~e~~~~~~~~~~DvIll~PQi~~~-----~-~~i~~~~~~~~ipv~~I~~ 83 (104)
T PRK09590 18 AKKTTEYLKEQGKD-IEVDA---ITATEGEKAIAAAEYDLYLVSPQTKMY-----F-KQFEEAGAKVGKPVVQIPP 83 (104)
T ss_pred HHHHHHHHHHCCCc-eEEEE---ecHHHHHHhhccCCCCEEEEChHHHHH-----H-HHHHHHhhhcCCCEEEeCH
Confidence 34556666778888 55433 233345555555689999999653221 1 2234556666899999875
No 66
>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=87.95 E-value=6.9 Score=26.96 Aligned_cols=24 Identities=13% Similarity=0.469 Sum_probs=19.7
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCc
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.+.|.+.+++.++|+|++|....+
T Consensus 80 a~~l~~~i~~~~p~~Vl~g~t~~g 103 (181)
T cd01985 80 AKALAALIKKEKPDLILAGATSIG 103 (181)
T ss_pred HHHHHHHHHHhCCCEEEECCcccc
Confidence 477888888889999999977553
No 67
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=87.85 E-value=2.6 Score=25.98 Aligned_cols=65 Identities=14% Similarity=0.247 Sum_probs=39.4
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.+.+.+.+.+.|++ +++... + ...+-.... ++|+|+++..-..... ..+.......+||.++++.
T Consensus 16 ~~ki~~~~~~~~~~-~~v~~~--~-~~~~~~~~~--~~Diil~~Pqv~~~~~------~i~~~~~~~~~pv~~I~~~ 80 (96)
T cd05564 16 VKKMKKAAEKRGID-AEIEAV--P-ESELEEYID--DADVVLLGPQVRYMLD------EVKKKAAEYGIPVAVIDMM 80 (96)
T ss_pred HHHHHHHHHHCCCc-eEEEEe--c-HHHHHHhcC--CCCEEEEChhHHHHHH------HHHHHhccCCCcEEEcChH
Confidence 45667777888888 655432 2 222334444 8999999865333222 1233345668999999864
No 68
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=87.49 E-value=5 Score=31.94 Aligned_cols=54 Identities=15% Similarity=0.200 Sum_probs=33.4
Q ss_pred cC-CchhHHHHHHhhhC---CcEEEEcccCCccchh-hhccc-HHHHHhhcCCccEEEEcC
Q 044140 107 QG-DPRNVMTEAVERFH---PTILVLGSHGYGAVKR-AVLGS-VSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 107 ~g-~~~~~I~~~a~~~~---~dliV~g~~~~~~~~~-~~~gs-~~~~l~~~~~~pVlvv~~ 161 (166)
.| +....|++..+..+ +|+||+++.|-+ ... +.|.. ..-..+.++++||+.-=.
T Consensus 173 QG~~A~~~i~~al~~~~~~~~Dviii~RGGGS-~eDL~~Fn~e~v~~ai~~~~~Pvis~IG 232 (438)
T PRK00286 173 QGEGAAASIVAAIERANARGEDVLIVARGGGS-LEDLWAFNDEAVARAIAASRIPVISAVG 232 (438)
T ss_pred cCccHHHHHHHHHHHhcCCCCCEEEEecCCCC-HHHhhccCcHHHHHHHHcCCCCEEEecc
Confidence 46 56777777665444 599999977644 333 22332 234456788999876433
No 69
>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=86.71 E-value=1.4 Score=33.49 Aligned_cols=51 Identities=12% Similarity=0.248 Sum_probs=36.7
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-Cccchhh-hcccHHHHHhhcCCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKRA-VLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~-~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.+....++..+ ++|+||+|-.+ ++.+... ++..+.+ .+++++||++.|.+-
T Consensus 161 ~a~~~al~AI~--~ADlIvlgPGSlyTSIiPnLlv~gI~e-AI~~s~a~kV~v~N~ 213 (310)
T TIGR01826 161 PALREAVEAIR--EADLIILGPGSLYTSIIPNLLVPEIAE-ALRESKAPKVYVCNL 213 (310)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhchhcCchhHHH-HHHhCCCCEEEEeCC
Confidence 55678888888 99999999654 4444444 4444444 567889999999874
No 70
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=86.28 E-value=2.2 Score=28.35 Aligned_cols=52 Identities=12% Similarity=0.149 Sum_probs=35.9
Q ss_pred chhHHHHHHhhhCCcEEEEcccCC----ccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGY----GAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~----~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
....|.+.+++++++.||+|-+-. ........-..++.|-...++||..+-.
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DE 97 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDE 97 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 478899999999999999995422 1112223445667777777889888753
No 71
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=86.02 E-value=16 Score=29.20 Aligned_cols=94 Identities=11% Similarity=0.055 Sum_probs=53.2
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
.++++..++-.+..+...|..+.. ..+. .+.++.....- . ...+
T Consensus 102 i~~vG~~GsGKTTtaakLA~~l~~-~~g~----kV~lV~~D~~R------------------------~-------~a~~ 145 (428)
T TIGR00959 102 ILMVGLQGSGKTTTCGKLAYYLKK-KQGK----KVLLVACDLYR------------------------P-------AAIE 145 (428)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHH-hCCC----eEEEEeccccc------------------------h-------HHHH
Confidence 345555667778888888888764 3454 67777553210 0 0112
Q ss_pred HHHHHHHhCCCCcccEEeecCCch---hHHHHHHhhhCCcEEEEcccCCccchh
Q 044140 88 KATSICAKREVNDMPVHVMQGDPR---NVMTEAVERFHPTILVLGSHGYGAVKR 138 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~ 138 (166)
++..+....|++ +.......+|. ...++.++..++|+|++-+.++.....
T Consensus 146 QL~~~a~~~gvp-~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~ 198 (428)
T TIGR00959 146 QLKVLGQQVGVP-VFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQIDE 198 (428)
T ss_pred HHHHHHHhcCCc-eEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccCH
Confidence 333344445666 44322222443 334455667789999999988765433
No 72
>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=85.64 E-value=1.8 Score=32.72 Aligned_cols=52 Identities=13% Similarity=0.192 Sum_probs=34.0
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-CccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.+....++..+ ++|+||+|-.+ .+.+...+.=.-..+.+++++||++.|.+-
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 KANPEALEAIE--EADLIIIGPGSLYTSIIPNLLVPGIREAIRESKAPKVYVSNI 224 (300)
T ss_dssp -B-HHHHHHHH--H-SEEEE-SS-CCCCCHHHHTSHHHHHHHHHSSSEEEEE-SS
T ss_pred CCCHHHHHHHH--hCCEEEEcCCCchhhhcccccchhHHHHHHhCCCCEEEEcCC
Confidence 45678888888 89999999654 555555554444566778888999999763
No 73
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=85.61 E-value=17 Score=29.30 Aligned_cols=93 Identities=10% Similarity=-0.023 Sum_probs=59.6
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 14 DDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSIC 93 (166)
Q Consensus 14 d~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 93 (166)
|..-....+|..|++.+. . .|..|+|.++........ .........+.+..+.+.+
T Consensus 11 DLRl~DN~aL~~A~~~~~----~----~vlpvyv~dp~~~~~~~~----------------~~~r~~Fl~esL~~L~~~L 66 (472)
T PRK10674 11 DLRLHDNLALAAACRDPS----A----RVLALFIATPAQWAAHDM----------------APRQAAFINAQLNALQIAL 66 (472)
T ss_pred CCCcchHHHHHHHHhCCC----C----CEEEEEEECchhhccCCC----------------CHHHHHHHHHHHHHHHHHH
Confidence 444456677777764432 2 688999987643221100 1223345556677777778
Q ss_pred HhCCCCcccEEee--cCCchhHHHHHHhhhCCcEEEEccc
Q 044140 94 AKREVNDMPVHVM--QGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 94 ~~~~i~~~~~~v~--~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
++.|+. ..+... .|++.+.|.+.+++.+++-|+....
T Consensus 67 ~~~g~~-L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 67 AEKGIP-LLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred HHcCCc-eEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 878888 433332 3679999999999999999998644
No 74
>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=85.03 E-value=1.8 Score=32.81 Aligned_cols=52 Identities=13% Similarity=0.148 Sum_probs=36.9
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-CccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.+....+++.+ ++|+||+|-.+ ++.+...++=.-..+.+++++||++.|.+-
T Consensus 164 ~~~~~a~~AI~--~AD~Iv~gPGSlyTSI~P~Llv~gI~eAi~~s~a~kV~v~N~ 216 (308)
T cd07187 164 KANPEALEAIE--EADLIVYGPGSLYTSILPNLLVKGIAEAIRASKAPKVYICNL 216 (308)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHHHHHhCCCCEEEEecC
Confidence 45678888888 99999999654 444444443334445668899999999763
No 75
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=84.93 E-value=6 Score=28.30 Aligned_cols=47 Identities=17% Similarity=0.193 Sum_probs=36.3
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
....+..++++.|.||+++....... .+-+..++..+..|.+|+.+.
T Consensus 50 aav~~~~e~~~pDfvi~isPNpaaPG----P~kARE~l~~s~~PaiiigDa 96 (277)
T COG1927 50 AAVTEMLEEFNPDFVIYISPNPAAPG----PKKAREILSDSDVPAIIIGDA 96 (277)
T ss_pred HHHHHHHHhcCCCEEEEeCCCCCCCC----chHHHHHHhhcCCCEEEecCC
Confidence 45668889999999999987544322 345788999999999999653
No 76
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=84.48 E-value=2 Score=28.41 Aligned_cols=54 Identities=9% Similarity=0.091 Sum_probs=39.0
Q ss_pred CCchhHHHHHHhhhCCcEEEEcccCCc----cchhhhcccHHHHHhhcC-CccEEEEcC
Q 044140 108 GDPRNVMTEAVERFHPTILVLGSHGYG----AVKRAVLGSVSDYSAHHC-SCTVMIVKM 161 (166)
Q Consensus 108 g~~~~~I~~~a~~~~~dliV~g~~~~~----~~~~~~~gs~~~~l~~~~-~~pVlvv~~ 161 (166)
+...+.|.+.+++++++.||+|-.-.. .-.....-..++.|-... ++||..+-.
T Consensus 37 ~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DE 95 (135)
T PF03652_consen 37 EKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDE 95 (135)
T ss_dssp CCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEEC
T ss_pred chHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECC
Confidence 478899999999999999999976321 112223345667777776 899998854
No 77
>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=84.35 E-value=8.8 Score=30.63 Aligned_cols=55 Identities=13% Similarity=0.142 Sum_probs=32.2
Q ss_pred cC-CchhHHHHHHh----hhCCcEEEEcccCCccchhhhccc-HHHHHhhcCCccEEEEcC
Q 044140 107 QG-DPRNVMTEAVE----RFHPTILVLGSHGYGAVKRAVLGS-VSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 107 ~g-~~~~~I~~~a~----~~~~dliV~g~~~~~~~~~~~~gs-~~~~l~~~~~~pVlvv~~ 161 (166)
.| +....|+...+ ...+|+||+++.|-+.-.=+.|.. ..-+-+..+++||+.-=.
T Consensus 167 QG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~eDL~~Fn~e~~~rai~~~~~Pvis~iG 227 (432)
T TIGR00237 167 QGEGAVQSIVESIELANTKNECDVLIVGRGGGSLEDLWSFNDEKVARAIFLSKIPIISAVG 227 (432)
T ss_pred cCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCHHHhhhcCcHHHHHHHHcCCCCEEEecC
Confidence 46 55566665544 234799999977644322223332 234456788999986533
No 78
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=84.33 E-value=5.9 Score=32.88 Aligned_cols=71 Identities=13% Similarity=0.112 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecC-Cch---hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 84 KVADKATSICAKREVNDMPVHVMQG-DPR---NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g-~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
...+.+...+++.|++ +++.+..- ... ..+++.+++.+++.||.+......+.. -+..++.+||+-|
T Consensus 424 ~~~~~~~~~l~~~g~~-~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~--------~~a~~t~~pvi~v 494 (577)
T PLN02948 424 PTMKDAAEILDSFGVP-YEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPG--------MVASMTPLPVIGV 494 (577)
T ss_pred HHHHHHHHHHHHcCCC-eEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchH--------HHhhccCCCEEEc
Confidence 3456777777888999 88888764 333 344455666789988888765544432 3555789999999
Q ss_pred cCCC
Q 044140 160 KMPK 163 (166)
Q Consensus 160 ~~~~ 163 (166)
|...
T Consensus 495 p~~~ 498 (577)
T PLN02948 495 PVKT 498 (577)
T ss_pred CCCC
Confidence 9753
No 79
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=84.27 E-value=10 Score=25.62 Aligned_cols=33 Identities=15% Similarity=0.111 Sum_probs=25.0
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
++++.+.+..+|..++..+.+ .+. ++.++|+..
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~-----~~~----~v~~~~~~~ 33 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKK-----EGY----EVHALSFDY 33 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHH-----cCC----cEEEEEEEC
Confidence 589999999999988877644 234 778888854
No 80
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=84.09 E-value=15 Score=27.19 Aligned_cols=87 Identities=13% Similarity=0.100 Sum_probs=55.6
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
.+++|++.|.-+|...+..|...+. . ++.++.+..+..+. +.+
T Consensus 18 ~kv~vAfSGGvDSslLa~la~~~lG-~-------~v~AvTv~sP~~p~-----------------------------~e~ 60 (269)
T COG1606 18 KKVVVAFSGGVDSSLLAKLAKEALG-D-------NVVAVTVDSPYIPR-----------------------------REI 60 (269)
T ss_pred CeEEEEecCCccHHHHHHHHHHHhc-c-------ceEEEEEecCCCCh-----------------------------hhh
Confidence 5899999999999888777766655 3 77788776533221 122
Q ss_pred HHHHHHHHhCCCCcccEEee------------------cCCchhHHHHHHhhhCCcEEEEccc
Q 044140 87 DKATSICAKREVNDMPVHVM------------------QGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~------------------~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.+...+++.|+. .++.-. .-...+.|++.+.+.++|.|+=|+.
T Consensus 61 e~A~~~A~~iGi~-H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 61 EEAKNIAKEIGIR-HEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred hHHHHHHHHhCCc-ceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 3333344444554 222110 0123578899999999999999876
No 81
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=83.50 E-value=8.3 Score=23.86 Aligned_cols=48 Identities=13% Similarity=0.269 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeec-----------C-CchhHHHHHHhhhCCcEEEEccc
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQ-----------G-DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~-----------g-~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+..++.+..++...|+. +-..+.. | .-.++|.+.++..++|+||+...
T Consensus 7 ~~~l~El~~L~~t~g~~-vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 7 EESLEELEELAETAGYE-VVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred HHHHHHHHHHHHHCCCe-EEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC
Confidence 45567777788877877 4322222 2 44788999999999999999754
No 82
>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=83.24 E-value=22 Score=28.48 Aligned_cols=97 Identities=14% Similarity=0.141 Sum_probs=54.8
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
.+++..++-.+..+...|..+.+ . +. .+.++..... . - ...++
T Consensus 104 ~lvG~~GvGKTTtaaKLA~~l~~-~-G~----kV~lV~~D~~---R-------------------------~---aA~eQ 146 (429)
T TIGR01425 104 MFVGLQGSGKTTTCTKLAYYYQR-K-GF----KPCLVCADTF---R-------------------------A---GAFDQ 146 (429)
T ss_pred EEECCCCCCHHHHHHHHHHHHHH-C-CC----CEEEEcCccc---c-------------------------h---hHHHH
Confidence 35555667778888888887766 4 44 6666643210 0 0 11233
Q ss_pred HHHHHHhCCCCcccEEeecCCchh---HHHHHHhhhCCcEEEEcccCCccchhhhccc
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRN---VMTEAVERFHPTILVLGSHGYGAVKRAVLGS 143 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs 143 (166)
++......+++ +.......++.. .-++.++..++|+|++-+.|+......++..
T Consensus 147 Lk~~a~~~~vp-~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~E 203 (429)
T TIGR01425 147 LKQNATKARIP-FYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFEE 203 (429)
T ss_pred HHHHhhccCCe-EEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHHH
Confidence 33344445666 543222335433 3345566678999999998877655444433
No 83
>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=83.04 E-value=1.3 Score=27.67 Aligned_cols=25 Identities=8% Similarity=0.154 Sum_probs=20.7
Q ss_pred cCCchhHHHHHHhhhCCcEEEEccc
Q 044140 107 QGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 107 ~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.-+..+.|+++|+++++||+|+|..
T Consensus 47 ~~~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 47 DITDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp -TT-HHHHHHHHHHTTESEEEESSH
T ss_pred CCCCHHHHHHHHHHcCCCEEEECCh
Confidence 3467889999999999999999965
No 84
>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=82.94 E-value=14 Score=26.10 Aligned_cols=81 Identities=12% Similarity=0.196 Sum_probs=48.3
Q ss_pred EEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHH
Q 044140 12 AIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATS 91 (166)
Q Consensus 12 ~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 91 (166)
+.-.++.+..++..+..+++ ..+. .+.++.+-.. . .+...+
T Consensus 30 ~~vi~e~~~~~l~ea~~la~-~~g~----~v~av~~G~~--------------------------~--------~~~~~~ 70 (202)
T cd01714 30 PLIINPYDEYAVEEALRLKE-KYGG----EVTVVSMGPP--------------------------Q--------AEEALR 70 (202)
T ss_pred CccCChHhHHHHHHHHHhhh-hcCC----EEEEEEECCH--------------------------H--------HHHHHH
Confidence 33445778888999999988 6666 7777765321 0 011111
Q ss_pred HHHhCCCCcccEEeecC---------CchhHHHHHHhhhCCcEEEEcccCC
Q 044140 92 ICAKREVNDMPVHVMQG---------DPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 92 ~~~~~~i~~~~~~v~~g---------~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
.+..+|.. ++.+... .....|.+.+++.++|+|++|+...
T Consensus 71 ~l~~~G~d--~V~~~~~~~~~~~~~e~~a~al~~~i~~~~p~lVL~~~t~~ 119 (202)
T cd01714 71 EALAMGAD--RAILVSDRAFAGADTLATAKALAAAIKKIGVDLILTGKQSI 119 (202)
T ss_pred HHHHcCCC--EEEEEecccccCCChHHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 12345665 2222221 1245688888888899999997754
No 85
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=82.62 E-value=15 Score=26.05 Aligned_cols=83 Identities=16% Similarity=0.116 Sum_probs=55.8
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
++|.|-+.++-+...++--|+. .. ..++ ++.++-.....
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~-~~~a----~i~~Visd~~~----------------------------------- 39 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GG-KLDA----EIVAVISDKAD----------------------------------- 39 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cC-CCCc----EEEEEEeCCCC-----------------------------------
Confidence 4788999998888888888887 44 4455 77776553321
Q ss_pred HHHHHHHHhCCCCcccEEeecCC-----chhHHHHHHhhhCCcEEEEccc
Q 044140 87 DKATSICAKREVNDMPVHVMQGD-----PRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~-----~~~~I~~~a~~~~~dliV~g~~ 131 (166)
....+++++.|++ ..+.-...- -...|.+..++.++|+||+...
T Consensus 40 A~~lerA~~~gIp-t~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGy 88 (200)
T COG0299 40 AYALERAAKAGIP-TVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAGY 88 (200)
T ss_pred CHHHHHHHHcCCC-EEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcch
Confidence 1233455667888 433222222 3578999999999999999743
No 86
>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=82.49 E-value=5.8 Score=30.06 Aligned_cols=51 Identities=14% Similarity=0.179 Sum_probs=36.9
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-CccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+..+.++..+ ++|+||+|-.+ ...+...+.=.-..+.+++++.|++.|.+
T Consensus 172 ~~~p~vl~AI~--~AD~IVlGPgsp~TSI~P~LlVpgI~eAL~~s~A~vV~Vsp 223 (303)
T cd07186 172 RPAPEVLEAIE--DADLVIIGPSNPVTSIGPILALPGIREALRDKKAPVVAVSP 223 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhccchhHHHHHHhCCCCEEEEcC
Confidence 45778888998 89999999654 44555544444455567888989988865
No 87
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=82.35 E-value=13 Score=28.67 Aligned_cols=67 Identities=15% Similarity=0.122 Sum_probs=40.7
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCc----hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDP----RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
.+++.+.+++.++. +.+.+..|++ .+.+.+.+++.++|.|| +|...-- .++..+......|++.||
T Consensus 38 ~~~v~~~l~~~~i~-~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGGs~~--------D~aK~ia~~~~~p~i~VP 108 (349)
T cd08550 38 RPRFEAALAKSIIV-VDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGGKTL--------DTAKAVADRLDKPIVIVP 108 (349)
T ss_pred HHHHHHHHHhcCCe-eEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCcHHH--------HHHHHHHHHcCCCEEEeC
Confidence 45666666667776 6555555543 45567778888999987 5533211 122333333467999988
Q ss_pred C
Q 044140 161 M 161 (166)
Q Consensus 161 ~ 161 (166)
=
T Consensus 109 T 109 (349)
T cd08550 109 T 109 (349)
T ss_pred C
Confidence 4
No 88
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=82.33 E-value=25 Score=28.45 Aligned_cols=89 Identities=15% Similarity=0.072 Sum_probs=58.9
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 044140 14 DDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSIC 93 (166)
Q Consensus 14 d~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 93 (166)
|..-....+|.+|++... . -+.++++.++.... . +-.........-+..+.+.+
T Consensus 11 DLR~~DN~aL~~A~~~~~-~-------~~~~vfi~~~~~~~-~-----------------~~~~~~~Fl~~sL~~L~~~L 64 (461)
T COG0415 11 DLRLTDNAALAAACQSGQ-P-------VIIAVFILDPEQLG-H-----------------ASPRHAAFLLQSLQALQQSL 64 (461)
T ss_pred ccccCChHHHHHHHhcCC-C-------ceEEEEEechhhcc-c-----------------cCHHHHHHHHHHHHHHHHHH
Confidence 444456678888877666 3 34566666543322 0 00223344455566777777
Q ss_pred HhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 94 AKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 94 ~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+.|++ ..+..|++.+.|.+++++.+++-|+-...
T Consensus 65 ~~~gi~---L~v~~~~~~~~l~~~~~~~~~~~v~~n~~ 99 (461)
T COG0415 65 AELGIP---LLVREGDPEQVLPELAKQLAATTVFWNRD 99 (461)
T ss_pred HHcCCc---eEEEeCCHHHHHHHHHHHhCcceEEeeee
Confidence 777877 67788999999999999999888777654
No 89
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=82.09 E-value=24 Score=28.23 Aligned_cols=98 Identities=13% Similarity=0.146 Sum_probs=64.2
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
-.+|.+-+|-....+-..|..+.+ . +- .+.++.... ..+ ...+
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk-~-~~----kvllVaaD~-~Rp------------------------------AA~e 145 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK-K-GK----KVLLVAADT-YRP------------------------------AAIE 145 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH-c-CC----ceEEEeccc-CCh------------------------------HHHH
Confidence 356777888888888888877766 3 33 555554421 100 2345
Q ss_pred HHHHHHHhCCCCcccEEeecCCc---hhHHHHHHhhhCCcEEEEcccCCccchhhhccc
Q 044140 88 KATSICAKREVNDMPVHVMQGDP---RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGS 143 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~---~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs 143 (166)
++..+..+.+++ +.......+| +..=++++++..+|+|++-+-|+.....-++..
T Consensus 146 QL~~La~q~~v~-~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~E 203 (451)
T COG0541 146 QLKQLAEQVGVP-FFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDE 203 (451)
T ss_pred HHHHHHHHcCCc-eecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHH
Confidence 666666777888 6554222244 466678889999999999998887776666544
No 90
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=81.56 E-value=22 Score=29.67 Aligned_cols=93 Identities=17% Similarity=0.065 Sum_probs=57.3
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
.++|+|.-|..-+...+........+ ..+. .-+..++-......+.... ..
T Consensus 69 ~e~I~I~gDyD~DGitstail~~~L~-~~g~----~~~~~~IP~R~~eGYGl~~------------------------~~ 119 (575)
T PRK11070 69 GTRIIVVGDFDADGATSTALSVLALR-SLGC----SNVDYLVPNRFEDGYGLSP------------------------EV 119 (575)
T ss_pred CCEEEEEEecCccHHHHHHHHHHHHH-HcCC----CceEEEeCCCCcCCCCCCH------------------------HH
Confidence 47899999888776666666666666 6654 3233344332222222110 11
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccC
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
++++ .+.|.. .-+.+-.|.....-+++|++.+.|+||+.+|.
T Consensus 120 i~~~----~~~~~~-LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 120 VDQA----HARGAQ-LIVTVDNGISSHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred HHHH----HhcCCC-EEEEEcCCcCCHHHHHHHHHCCCCEEEECCCC
Confidence 2222 223555 55556668888888999999999999999774
No 91
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=81.36 E-value=23 Score=27.56 Aligned_cols=35 Identities=11% Similarity=0.076 Sum_probs=26.9
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.++|+|++++.-+|.-++..+.+ .+. +++.+|+..
T Consensus 5 ~~kVlValSGGVDSsvaa~LL~~-----~G~----~V~~v~~~~ 39 (360)
T PRK14665 5 NKRVLLGMSGGTDSSVAAMLLLE-----AGY----EVTGVTFRF 39 (360)
T ss_pred CCEEEEEEcCCHHHHHHHHHHHH-----cCC----eEEEEEEec
Confidence 36899999999999887766643 345 888888864
No 92
>PRK08185 hypothetical protein; Provisional
Probab=81.31 E-value=6 Score=29.70 Aligned_cols=56 Identities=7% Similarity=-0.121 Sum_probs=42.2
Q ss_pred cCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 107 QGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 107 ~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.-+..+++++.|++.+..+|+..+.+.-......+......+..++++||.+-=++
T Consensus 22 n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vPV~lHLDH 77 (283)
T PRK08185 22 DSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSPVPFVIHLDH 77 (283)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCCCCEEEECCC
Confidence 34788999999999999999998776433222336677888899999998765443
No 93
>PRK05406 LamB/YcsF family protein; Provisional
Probab=81.26 E-value=11 Score=27.73 Aligned_cols=113 Identities=12% Similarity=0.045 Sum_probs=67.0
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKR 96 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 96 (166)
......++..+++|+ .++. -..-|.-.+....+.-.. ++-..+++.+.....+..+...++..
T Consensus 40 AGDp~~M~~tv~lA~-~~gV-----~IGAHPgypD~~gFGRR~-----------m~~s~~el~~~v~yQigAL~~~a~~~ 102 (246)
T PRK05406 40 AGDPAVMRRTVRLAK-ENGV-----AIGAHPGYPDLEGFGRRN-----------MDLSPEELYALVLYQIGALQAIARAA 102 (246)
T ss_pred CCCHHHHHHHHHHHH-HcCC-----eEccCCCCCccCCCCCCC-----------CCCCHHHHHHHHHHHHHHHHHHHHHc
Confidence 345567888888998 7664 233344333333332221 11122444555555566777778888
Q ss_pred CCCcccEEeecC----------CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 97 EVNDMPVHVMQG----------DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 97 ~i~~~~~~v~~g----------~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
|.+ +.+.-.+| ..++.|++.++..+.+|++++.. |+..+++.+....|++
T Consensus 103 g~~-l~hVKPHGALYN~~~~d~~~a~av~~ai~~~~~~l~l~~~~----------~s~~~~~A~~~Gl~~~ 162 (246)
T PRK05406 103 GGR-VSHVKPHGALYNMAAKDPALADAVAEAVAAVDPSLILVGLA----------GSELIRAAEEAGLRTA 162 (246)
T ss_pred CCe-eEEeCccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecC----------ChHHHHHHHHcCCcEE
Confidence 887 66544443 44788899999999999999855 3334445555555544
No 94
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=80.88 E-value=21 Score=26.79 Aligned_cols=84 Identities=10% Similarity=0.240 Sum_probs=50.8
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
..+||.|-+.++-.+..++-.+.+-- ..++ ++.++-....
T Consensus 88 ~~~ri~vl~Sg~gsnl~al~~~~~~~--~~~~----~i~~visn~~---------------------------------- 127 (286)
T PRK06027 88 ERKRVVILVSKEDHCLGDLLWRWRSG--ELPV----EIAAVISNHD---------------------------------- 127 (286)
T ss_pred cCcEEEEEEcCCCCCHHHHHHHHHcC--CCCc----EEEEEEEcCh----------------------------------
Confidence 44678888888777777766654442 2344 6555544220
Q ss_pred HHHHHHHHHHhCCCCcccEEeec----CCchhHHHHHHhhhCCcEEEEcccC
Q 044140 85 VADKATSICAKREVNDMPVHVMQ----GDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~----g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
.+...+++.|++ +...-.. .+....+.+..++.++|+||+....
T Consensus 128 ---~~~~lA~~~gIp-~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 128 ---DLRSLVERFGIP-FHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred ---hHHHHHHHhCCC-EEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence 122235677888 5442111 1234568888999999999998653
No 95
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=80.50 E-value=8 Score=29.05 Aligned_cols=73 Identities=11% Similarity=0.043 Sum_probs=48.0
Q ss_pred HHHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 90 TSICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 90 ~~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
...+++.+.. +-. -+..-+...++++.|++.+..+|+..+.+.-.. .--.+......+..++++||.+-=++.
T Consensus 10 L~~A~~~~ya-V~AfNv~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~~~~~~~A~~~~VPValHLDH~ 84 (284)
T PRK12857 10 LKKAEKGGYA-VGAFNCNNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKASVPVALHLDHG 84 (284)
T ss_pred HHHHHHcCCe-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 3334444544 332 233347889999999999999999887653322 112456667788889999998754443
No 96
>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=80.41 E-value=12 Score=23.67 Aligned_cols=43 Identities=9% Similarity=-0.006 Sum_probs=31.1
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccC
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
-+...++..|.+ +. ..-..-+.+.+++.+.+.++|+|++....
T Consensus 18 ~~~~~l~~~G~~-V~-~lg~~~~~~~l~~~~~~~~pdvV~iS~~~ 60 (119)
T cd02067 18 IVARALRDAGFE-VI-DLGVDVPPEEIVEAAKEEDADAIGLSGLL 60 (119)
T ss_pred HHHHHHHHCCCE-EE-ECCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 445566667877 41 12234778899999999999999998663
No 97
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=80.27 E-value=25 Score=27.20 Aligned_cols=85 Identities=6% Similarity=0.090 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCcccEEe--ec-C-C----------chhHHHHHHh-----hhCCcEEEEcccCCccc-h
Q 044140 78 TKKRAQKVADKATSICAKREVNDMPVHV--MQ-G-D----------PRNVMTEAVE-----RFHPTILVLGSHGYGAV-K 137 (166)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~~~i~~~~~~v--~~-g-~----------~~~~I~~~a~-----~~~~dliV~g~~~~~~~-~ 137 (166)
.+....+.+.++.+.|.++|++ +-..+ .. | . ..+.|.+.++ +.++|++=+.-...... .
T Consensus 137 ~~~~~~~~l~rv~~ec~~~giP-lllE~l~y~~~~~~~~~~~~a~~~p~~V~~a~r~~~~~elGaDvlKve~p~~~~~ve 215 (340)
T PRK12858 137 INDRKHAFVERVGAECRANDIP-FFLEPLTYDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFVE 215 (340)
T ss_pred HHHHHHHHHHHHHHHHHHcCCc-eEEEEeccCCCccccccccccccCHHHHHHHHHHHhhhccCCeEEEeeCCCCccccc
Confidence 3455566788999999999999 76542 11 1 1 1223333332 57889888865432211 1
Q ss_pred hh-----h-c-c---cHHHHHhhcCCccEEEEcCCC
Q 044140 138 RA-----V-L-G---SVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 138 ~~-----~-~-g---s~~~~l~~~~~~pVlvv~~~~ 163 (166)
.+ . - . ..-.++...+++|+++.....
T Consensus 216 g~~~~~~~~~~~~~~~~f~~~~~a~~~P~vvlsgG~ 251 (340)
T PRK12858 216 GFDGFEEAYTQEEAFKLFREQSDATDLPFIFLSAGV 251 (340)
T ss_pred ccccccccccHHHHHHHHHHHHhhCCCCEEEECCCC
Confidence 10 0 0 0 223456677899999986543
No 98
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=80.10 E-value=12 Score=28.27 Aligned_cols=73 Identities=11% Similarity=0.053 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHhCCCCcccEEeecCC-chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 82 AQKVADKATSICAKREVNDMPVHVMQGD-PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 82 ~~~~l~~~~~~~~~~~i~~~~~~v~~g~-~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+.++.+.+++.|.. ...+..+.. .+..+++.+...++|.||.+.. .+ .++.++.-+...-.-|+-++|
T Consensus 18 ~~~~~~~~~~~l~~~g~~-~~~~~t~~~g~a~~~a~~a~~~~~D~via~GG-DG-----Tv~evingl~~~~~~~LgilP 90 (301)
T COG1597 18 AKKLLREVEELLEEAGHE-LSVRVTEEAGDAIEIAREAAVEGYDTVIAAGG-DG-----TVNEVANGLAGTDDPPLGILP 90 (301)
T ss_pred hhhHHHHHHHHHHhcCCe-EEEEEeecCccHHHHHHHHHhcCCCEEEEecC-cc-----hHHHHHHHHhcCCCCceEEec
Confidence 346667788888888999 888777764 7778888877779999999744 22 224445544444333377777
Q ss_pred C
Q 044140 161 M 161 (166)
Q Consensus 161 ~ 161 (166)
.
T Consensus 91 ~ 91 (301)
T COG1597 91 G 91 (301)
T ss_pred C
Confidence 5
No 99
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.10 E-value=28 Score=27.65 Aligned_cols=96 Identities=14% Similarity=0.143 Sum_probs=59.8
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
.+|.+.++-.....-.+|..+-+ .+- ...++.... .. ....++
T Consensus 105 mfVGLqG~GKTTtc~KlA~y~kk--kG~----K~~LvcaDT-FR------------------------------agAfDQ 147 (483)
T KOG0780|consen 105 MFVGLQGSGKTTTCTKLAYYYKK--KGY----KVALVCADT-FR------------------------------AGAFDQ 147 (483)
T ss_pred EEEeccCCCcceeHHHHHHHHHh--cCC----ceeEEeecc-cc------------------------------cchHHH
Confidence 45666777666666777777755 344 555554421 10 022455
Q ss_pred HHHHHHhCCCCcccEEeecCCch---hHHHHHHhhhCCcEEEEcccCCccchhhhcc
Q 044140 89 ATSICAKREVNDMPVHVMQGDPR---NVMTEAVERFHPTILVLGSHGYGAVKRAVLG 142 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~---~~I~~~a~~~~~dliV~g~~~~~~~~~~~~g 142 (166)
+...+.+.+++ +.....+-+|+ .+=++..+++++|+||+.+.++..-..-+|.
T Consensus 148 LkqnA~k~~iP-~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfe 203 (483)
T KOG0780|consen 148 LKQNATKARVP-FYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFE 203 (483)
T ss_pred HHHHhHhhCCe-eEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHH
Confidence 55666667888 76655555554 4445667889999999999887665544443
No 100
>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=79.93 E-value=5.5 Score=26.12 Aligned_cols=53 Identities=9% Similarity=0.078 Sum_probs=36.1
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCC----ccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGY----GAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~----~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.....|.+..++++++.||+|-+-. ........-..++.|-...+.||..+-.
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DE 91 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDE 91 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 4478899999999999999994321 1111223345667776677889888754
No 101
>TIGR02069 cyanophycinase cyanophycinase. This model describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.
Probab=79.90 E-value=12 Score=27.44 Aligned_cols=104 Identities=9% Similarity=0.025 Sum_probs=56.5
Q ss_pred EEEEcCCh---hHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 10 MVAIDDSN---HSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 10 lv~vd~s~---~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
|+++.+.+ .+...+++.++++. ..++ ++.++- ..+.. . +...
T Consensus 1 l~~iGG~~~~~~~~~i~~~~~~lag-~~~~----rI~~ip---tAS~~------------~---------------~~~~ 45 (250)
T TIGR02069 1 LVIIGGAEDKVGDREILREFVSRAG-GEDA----IIVIIT---SASEE------------P---------------REVG 45 (250)
T ss_pred CeEEeCccccCChHHHHHHHHHHhC-CCCc----eEEEEe---CCCCC------------h---------------HHHH
Confidence 45665553 24558899999998 5444 666552 11100 0 0223
Q ss_pred HHHHHHHHhCCCCcccEEeecC---CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhh
Q 044140 87 DKATSICAKREVNDMPVHVMQG---DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAH 150 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g---~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~ 150 (166)
+.+.+.+++.|...+....+.. .....+.+... ++|.|+++......+.+.+-++-..++++
T Consensus 46 ~~~~~~~~~lG~~~v~~l~i~~r~~a~~~~~~~~l~--~ad~I~~~GGnq~~l~~~l~~t~l~~~l~ 110 (250)
T TIGR02069 46 ERYITIFSRLGVKEVKILDVREREDASDENAIALLS--NATGIFFTGGDQLRITSLLGDTPLLDRLR 110 (250)
T ss_pred HHHHHHHHHcCCceeEEEecCChHHccCHHHHHHHh--hCCEEEEeCCCHHHHHHHHcCCcHHHHHH
Confidence 3455555667775244443321 12345566666 99999998665444555555554545444
No 102
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=79.76 E-value=27 Score=27.27 Aligned_cols=34 Identities=15% Similarity=0.040 Sum_probs=25.2
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEee
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHAR 48 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~ 48 (166)
.++|+|++++.-+|.-++..+ + ..+. +++.+|+.
T Consensus 5 ~~kVlVa~SGGvDSsv~a~lL----~-~~G~----eV~av~~~ 38 (362)
T PRK14664 5 KKRVLVGMSGGIDSTATCLML----Q-EQGY----EIVGVTMR 38 (362)
T ss_pred CCEEEEEEeCCHHHHHHHHHH----H-HcCC----cEEEEEec
Confidence 479999999998888776543 2 2355 88888884
No 103
>TIGR00930 2a30 K-Cl cotransporter.
Probab=79.70 E-value=45 Score=29.73 Aligned_cols=123 Identities=19% Similarity=0.187 Sum_probs=72.3
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
-++||.+.........++++-.+.+ ..+ -+.+.||...+... ..++.+...
T Consensus 576 PqiLvl~~~p~~~~~Ll~f~~~l~~-~~g-----l~i~~~v~~~~~~~-----------------------~~~~~~~~~ 626 (953)
T TIGR00930 576 PQCLVLTGPPVCRPALLDFASQFTK-GKG-----LMICGSVIQGPRLE-----------------------CVKEAQAAE 626 (953)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHhcc-CCc-----EEEEEEEecCchhh-----------------------hHHHHHHHH
Confidence 3699999888888999999999987 544 77888887642110 111112223
Q ss_pred HHHHHHHHhCCCCcccEEeecC-CchhHHHHHHhh-----hCCcEEEEcccCCcc-----chhhhcccHHHHHhhcCCcc
Q 044140 87 DKATSICAKREVNDMPVHVMQG-DPRNVMTEAVER-----FHPTILVLGSHGYGA-----VKRAVLGSVSDYSAHHCSCT 155 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~-----~~~dliV~g~~~~~~-----~~~~~~gs~~~~l~~~~~~p 155 (166)
++....++..+++ .-..+... +..+++....+. .+.+.|+||-+..-. -...+++-+.+ ....+.-
T Consensus 627 ~~~~~~~~~~~~~-~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~~w~~~~~~~~~~y~~~i~~--a~~~~~~ 703 (953)
T TIGR00930 627 AKIQTWLEKNKVK-AFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKKDWRQAEPRAWETYIGIIHD--AFDAHLA 703 (953)
T ss_pred HHHHHHHHHhCCC-eEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCccchhhccchhHHHHHHHHHH--HHHcCCc
Confidence 3444445556776 55555544 667777666663 356888998653211 01122222222 2356777
Q ss_pred EEEEcC
Q 044140 156 VMIVKM 161 (166)
Q Consensus 156 Vlvv~~ 161 (166)
|++.+.
T Consensus 704 v~i~r~ 709 (953)
T TIGR00930 704 VVVVRN 709 (953)
T ss_pred EEEEcc
Confidence 777775
No 104
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=79.55 E-value=9.1 Score=28.75 Aligned_cols=72 Identities=8% Similarity=0.168 Sum_probs=47.9
Q ss_pred HHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 91 SICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 91 ~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
..+.+.+.. +-. -+..-+..+++++.|++.++.+|+.-+.+.-.. ..-++......+.+++++||.+-=++.
T Consensus 11 ~~A~~~~ya-V~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~a~~~~VPValHLDH~ 84 (284)
T PRK12737 11 KKAQAEGYA-VPAFNIHNLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIVAIAEVAARKYNIPLALHLDHH 84 (284)
T ss_pred HHHHHcCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 334444544 332 333348899999999999999999877643221 112456678888999999987754443
No 105
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=79.17 E-value=25 Score=26.52 Aligned_cols=83 Identities=10% Similarity=0.165 Sum_probs=53.7
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
..+||.|-+.++..+..++-.+.+--. .++ ++.+|-...+
T Consensus 92 ~~~kiavl~Sg~g~nl~al~~~~~~~~--l~~----~i~~visn~~---------------------------------- 131 (289)
T PRK13010 92 QRPKVVIMVSKFDHCLNDLLYRWRMGE--LDM----DIVGIISNHP---------------------------------- 131 (289)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHCCC--CCc----EEEEEEECCh----------------------------------
Confidence 346899999999888888888765533 344 6555533210
Q ss_pred HHHHHHHHHHhCCCCcccEEeec-C---CchhHHHHHHhhhCCcEEEEccc
Q 044140 85 VADKATSICAKREVNDMPVHVMQ-G---DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~-g---~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+.+.+++.|++ +.+.-.. . +....+.+..+++++|++|+...
T Consensus 132 ---~~~~~A~~~gIp-~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 178 (289)
T PRK13010 132 ---DLQPLAVQHDIP-FHHLPVTPDTKAQQEAQILDLIETSGAELVVLARY 178 (289)
T ss_pred ---hHHHHHHHcCCC-EEEeCCCcccccchHHHHHHHHHHhCCCEEEEehh
Confidence 112456677888 5432111 1 23457889999999999999855
No 106
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=79.00 E-value=11 Score=28.20 Aligned_cols=72 Identities=10% Similarity=0.010 Sum_probs=48.4
Q ss_pred HHHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccchh-hhcccHHHHHhhcCCccEEEEcCC
Q 044140 90 TSICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR-AVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 90 ~~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
...+.+.+.. +-. -+..-+..+++++.|++.+..+|+..+.+.-.... .+++.......+++++||.+-=++
T Consensus 10 l~~A~~~~ya-V~Afn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~vpv~lHlDH 83 (281)
T PRK06806 10 LKKANQENYG-VGAFSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIGPLMVAAAKQAKVPVAVHFDH 83 (281)
T ss_pred HHHHHHCCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHHHHHHHHHHHCCCCEEEECCC
Confidence 3344445555 332 23334788999999999999999998765432222 245677778899999998765443
No 107
>PRK08576 hypothetical protein; Provisional
Probab=78.94 E-value=28 Score=27.95 Aligned_cols=33 Identities=18% Similarity=0.116 Sum_probs=24.8
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
+++|++++..+|..++..+.+... .+.++++..
T Consensus 236 rVvVafSGGKDStvLL~La~k~~~---------~V~aV~iDT 268 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKAFG---------DVTAVYVDT 268 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHhCC---------CCEEEEeCC
Confidence 899999999999998877655432 456677643
No 108
>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=78.92 E-value=16 Score=24.20 Aligned_cols=34 Identities=12% Similarity=0.133 Sum_probs=24.6
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.++|++.|..+|..++.++.+... . ++.++|+..
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~~----~----~v~~v~~~~ 36 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKYG----L----NPLAVTVDN 36 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHhC----C----ceEEEEeCC
Confidence 589999999999988877755322 3 566677743
No 109
>PRK06801 hypothetical protein; Provisional
Probab=78.84 E-value=11 Score=28.37 Aligned_cols=71 Identities=8% Similarity=-0.001 Sum_probs=49.1
Q ss_pred HHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccchh-hhcccHHHHHhhcCCccEEEEcCC
Q 044140 91 SICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR-AVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 91 ~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
..+.+.+.. +- .-+..-+...++++.|++.+..+|+..+.+...... ..+......+..++++||.+-=++
T Consensus 11 ~~A~~~~ya-V~Afn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lHlDH 83 (286)
T PRK06801 11 AHARKHGYA-LGAFNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLVEAVKFEAARHDIPVVLNLDH 83 (286)
T ss_pred HHHHHCCce-EEEEeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 334444555 32 223334778999999999999999998776543322 346778888999999998775444
No 110
>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=78.80 E-value=27 Score=26.65 Aligned_cols=36 Identities=14% Similarity=0.118 Sum_probs=28.0
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
++++|++.|.-+|.-++..+.+. .+. +++++|+...
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~----~G~----~v~av~vd~G 52 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA----IGD----RLTCVFVDHG 52 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH----hCC----CEEEEEEeCC
Confidence 68999999999998877666543 234 8999999754
No 111
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=78.43 E-value=9.7 Score=28.62 Aligned_cols=71 Identities=11% Similarity=0.183 Sum_probs=47.6
Q ss_pred HHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccchh-hhcccHHHHHhhcCCccEEEEcCC
Q 044140 91 SICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR-AVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 91 ~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
..+.+.+.. +- .-+..-+..+++++.|++.+..+|+.-+.+.-.... -.+......+..++++||.+-=++
T Consensus 11 ~~A~~~~ya-V~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~VPV~lHLDH 83 (284)
T PRK09195 11 NNAQRGGYA-VPAFNIHNLETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYHHPLALHLDH 83 (284)
T ss_pred HHHHHcCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 334444544 32 233334889999999999999999988765322222 245667888999999998765443
No 112
>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=78.39 E-value=8.8 Score=28.58 Aligned_cols=48 Identities=21% Similarity=0.342 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccC
Q 044140 84 KVADKATSICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
.+|+...+..++.|++ +. ..+.+.+-.+.|..+.+++..|++|+..|.
T Consensus 115 ~YL~~Cl~~Ykql~i~-a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 115 EYLRKCLKLYKKIGVP-VVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHHHHHHHhCCc-eEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 4566677777777888 66 556667889999999999999999997663
No 113
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=78.36 E-value=13 Score=22.79 Aligned_cols=71 Identities=8% Similarity=0.070 Sum_probs=44.4
Q ss_pred HHHHHHHHHHhCCCCcccEEeec-CCchh--HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 85 VADKATSICAKREVNDMPVHVMQ-GDPRN--VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~-g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
....+++.+.+.|.. ...+-.. |.... .|-...+ ++|+||+-+.--+.- . -..+.+.......|++.++.
T Consensus 11 ~~~~~~~~~~~~G~~-~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~---~-~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 11 RERRYKRILEKYGGK-LIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHN---A-MWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred cHHHHHHHHHHcCCE-EEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChH---H-HHHHHHHHHHcCCcEEEECC
Confidence 345677777888888 6665112 22223 3666667 999999976532211 1 12456677788899999875
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
.
T Consensus 84 ~ 84 (97)
T PF10087_consen 84 R 84 (97)
T ss_pred C
Confidence 4
No 114
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=78.26 E-value=13 Score=30.56 Aligned_cols=66 Identities=14% Similarity=0.121 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHHHH---HhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMTEA---VERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
++.+.+...+.+++.. +++.++.+...+++... ....++|+||-. |++++.|=.+.++||+-|+
T Consensus 24 ~l~~~~~~i~~~~~~~-~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~ 90 (538)
T PRK15424 24 RLFELFRDISLEFDHL-ANITPIQLGFEKAVTYIRKRLATERCDAIIAA------------GSNGAYLKSRLSVPVILIK 90 (538)
T ss_pred HHHHHHHHHHHhcCCC-ceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC------------chHHHHHHhhCCCCEEEec
Confidence 3455666677777766 77776666444444433 445588988864 6677777788899999987
Q ss_pred CC
Q 044140 161 MP 162 (166)
Q Consensus 161 ~~ 162 (166)
-.
T Consensus 91 ~s 92 (538)
T PRK15424 91 PS 92 (538)
T ss_pred CC
Confidence 54
No 115
>PRK11914 diacylglycerol kinase; Reviewed
Probab=78.23 E-value=15 Score=27.68 Aligned_cols=67 Identities=15% Similarity=0.061 Sum_probs=39.4
Q ss_pred HHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 88 KATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
++.+.+.+.|+. +....... .-+..+.+.+.+.++|+||+... .+.+. .++..+. ..+.|+-++|..
T Consensus 30 ~~~~~l~~~g~~-~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~GG-DGTi~-----evv~~l~-~~~~~lgiiP~G 97 (306)
T PRK11914 30 RAIARLHHRGVD-VVEIVGTDAHDARHLVAAALAKGTDALVVVGG-DGVIS-----NALQVLA-GTDIPLGIIPAG 97 (306)
T ss_pred HHHHHHHHcCCe-EEEEEeCCHHHHHHHHHHHHhcCCCEEEEECC-chHHH-----HHhHHhc-cCCCcEEEEeCC
Confidence 444455666777 66544443 44666666666678898776533 33232 2333343 467899999853
No 116
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=77.82 E-value=12 Score=27.43 Aligned_cols=46 Identities=11% Similarity=0.161 Sum_probs=33.9
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+......++++.|++|+.+....... ..-+..++.....|.+|+.+
T Consensus 50 ~~~~~~~~~~~pDf~i~isPN~a~PG----P~~ARE~l~~~~iP~IvI~D 95 (277)
T PRK00994 50 EVVKKMLEEWKPDFVIVISPNPAAPG----PKKAREILKAAGIPCIVIGD 95 (277)
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCCC----chHHHHHHHhcCCCEEEEcC
Confidence 34555668999999999877543221 33478899999999999975
No 117
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=77.63 E-value=24 Score=25.59 Aligned_cols=44 Identities=14% Similarity=0.169 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.++++...+.+.+ +...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 166 I~~lr~~~~~~~~~-~~IeV-DGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 166 VIQVENRLGNRRVE-KLISI-DGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHHhcCCC-ceEEE-ECCCCHHHHHHHHHCCCCEEEEChh
Confidence 44555555566666 55544 4555555666777779999999965
No 118
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=77.63 E-value=19 Score=25.92 Aligned_cols=60 Identities=10% Similarity=0.127 Sum_probs=42.7
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHH
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYS 148 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l 148 (166)
..+.....++.|+. .-..+-.+.+.+.|..+.. ..|+|.+-+-.-+...+.|+.++.++|
T Consensus 98 ~~r~i~~Ik~~G~k-aGv~lnP~Tp~~~i~~~l~--~vD~VllMsVnPGfgGQ~Fi~~~l~Ki 157 (220)
T COG0036 98 IHRTIQLIKELGVK-AGLVLNPATPLEALEPVLD--DVDLVLLMSVNPGFGGQKFIPEVLEKI 157 (220)
T ss_pred HHHHHHHHHHcCCe-EEEEECCCCCHHHHHHHHh--hCCEEEEEeECCCCcccccCHHHHHHH
Confidence 34555566667888 7676777899999999999 899988876555555555665555544
No 119
>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=77.50 E-value=7.8 Score=24.64 Aligned_cols=43 Identities=12% Similarity=0.162 Sum_probs=31.0
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcCC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKMP 162 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~~ 162 (166)
.....+.|++.++..||+-+.+ |.++..+.+.- +|||+++-+.
T Consensus 5 a~aa~~~A~~~~ak~Ivv~T~s---------G~ta~~isk~RP~~pIiavt~~ 48 (117)
T PF02887_consen 5 ARAAVELAEDLNAKAIVVFTES---------GRTARLISKYRPKVPIIAVTPN 48 (117)
T ss_dssp HHHHHHHHHHHTESEEEEE-SS---------SHHHHHHHHT-TSSEEEEEESS
T ss_pred HHHHHHHHHhcCCCEEEEECCC---------chHHHHHHhhCCCCeEEEEcCc
Confidence 4567888999999999987663 55666777764 5999988653
No 120
>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=76.38 E-value=30 Score=25.95 Aligned_cols=83 Identities=10% Similarity=0.159 Sum_probs=52.7
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
..+||.|-+.++..+..++-.+.+--. .++ ++.++-...+
T Consensus 83 ~~~ki~vl~Sg~g~nl~~l~~~~~~g~--l~~----~i~~visn~~---------------------------------- 122 (280)
T TIGR00655 83 KLKRVAILVSKEDHCLGDLLWRWYSGE--LDA----EIALVISNHE---------------------------------- 122 (280)
T ss_pred CCcEEEEEEcCCChhHHHHHHHHHcCC--CCc----EEEEEEEcCh----------------------------------
Confidence 457899999999888888877755433 344 6665533221
Q ss_pred HHHHHHHHHHhCCCCcccEEeec-C---CchhHHHHHHhhhCCcEEEEccc
Q 044140 85 VADKATSICAKREVNDMPVHVMQ-G---DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~-g---~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+...+++.|++ +...-.. . .....+.+..+++++|+||+...
T Consensus 123 ---~~~~~A~~~gIp-~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 123 ---DLRSLVERFGIP-FHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred ---hHHHHHHHhCCC-EEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 111135667888 5432221 1 12456888899999999999855
No 121
>PRK12569 hypothetical protein; Provisional
Probab=76.31 E-value=16 Score=26.88 Aligned_cols=97 Identities=9% Similarity=0.036 Sum_probs=58.7
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKR 96 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 96 (166)
......++..+++|+ ..+. -+.-|.-.+....+.-... +-..+++.+.....+..+...+...
T Consensus 43 AGDp~~M~~tv~lA~-~~~V-----~IGAHPsyPD~~gFGRr~m-----------~~s~~el~~~v~yQigaL~~~~~~~ 105 (245)
T PRK12569 43 AGDPNIMRRTVELAK-AHGV-----GIGAHPGFRDLVGFGRRHI-----------NASPQELVNDVLYQLGALREFARAH 105 (245)
T ss_pred CCCHHHHHHHHHHHH-HcCC-----EeccCCCCCcCCCCCCCCC-----------CCCHHHHHHHHHHHHHHHHHHHHHc
Confidence 345567888889999 7664 2333443333333322221 1112344445555566677777878
Q ss_pred CCCcccEEeecC----------CchhHHHHHHhhhCCcEEEEccc
Q 044140 97 EVNDMPVHVMQG----------DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 97 ~i~~~~~~v~~g----------~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
|.+ +...-.+| ..++.|++.+++.+.+|++++..
T Consensus 106 g~~-l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~ 149 (245)
T PRK12569 106 GVR-LQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMD 149 (245)
T ss_pred CCe-eEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecC
Confidence 877 65544433 44788999999999999998854
No 122
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=76.27 E-value=9.2 Score=25.54 Aligned_cols=52 Identities=10% Similarity=0.114 Sum_probs=37.6
Q ss_pred chhHHHHHHhhhCCcEEEEcccC----CccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHG----YGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~----~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.++.|.+.+++++++.||+|-+- .........-..++.|-...+.||.++-.
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~~L~~r~~lpv~l~DE 96 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAERLKKRFNLPVVLWDE 96 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHHHHHHhcCCCEEEEcC
Confidence 68899999999999999999763 11222223445677777788899988743
No 123
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=76.13 E-value=20 Score=23.94 Aligned_cols=78 Identities=14% Similarity=0.103 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHHhCCCCc--ccEEeecC--CchhHHHHHHhhhCCcEEEE-cc--cCCccchhhhcccHHHHHhh---
Q 044140 81 RAQKVADKATSICAKREVND--MPVHVMQG--DPRNVMTEAVERFHPTILVL-GS--HGYGAVKRAVLGSVSDYSAH--- 150 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~~~i~~--~~~~v~~g--~~~~~I~~~a~~~~~dliV~-g~--~~~~~~~~~~~gs~~~~l~~--- 150 (166)
-...+++.+.+.+.+.|++. +++..+.| +..-.+...++..++|.+|. |. +|.+.-..+....++..+++
T Consensus 17 i~~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI~G~T~H~~~v~~~v~~gl~~lsl 96 (144)
T PF00885_consen 17 ITDRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVIRGETDHFEYVANAVSRGLMDLSL 96 (144)
T ss_dssp HHHHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE--SSTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEeccccCCCchHHHHHHHHHHHHHHHHhc
Confidence 34566677777788888831 55666667 77778888888878887665 52 55555555555666665554
Q ss_pred cCCccEEE
Q 044140 151 HCSCTVMI 158 (166)
Q Consensus 151 ~~~~pVlv 158 (166)
+...||..
T Consensus 97 ~~~~PV~~ 104 (144)
T PF00885_consen 97 EYGIPVIF 104 (144)
T ss_dssp HHTSEEEE
T ss_pred cCCccEEE
Confidence 34566653
No 124
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=76.07 E-value=7.6 Score=30.34 Aligned_cols=19 Identities=5% Similarity=0.169 Sum_probs=10.6
Q ss_pred hHHHHHHhhhCCcEEEEcc
Q 044140 112 NVMTEAVERFHPTILVLGS 130 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~ 130 (166)
..+++.|++.++|+||++.
T Consensus 30 ~~~l~~a~~~~vD~vliAG 48 (390)
T COG0420 30 DELLEIAKEEKVDFVLIAG 48 (390)
T ss_pred HHHHHHHHHccCCEEEEcc
Confidence 4455555555666666654
No 125
>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=75.87 E-value=8.7 Score=28.73 Aligned_cols=47 Identities=19% Similarity=0.383 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 84 KVADKATSICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+|+...+..++.|++ +. ..+-+.+-.+.|.++.++++.|.+|+-.|
T Consensus 116 ~YL~~Cl~~Ykql~i~-a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 163 (287)
T PF05582_consen 116 EYLNKCLKVYKQLGIP-AVGIHVPEKEQPEKIYRLLEEYRPDILVITGH 163 (287)
T ss_pred HHHHHHHHHHHHcCCc-eEEEEechHHhhHHHHHHHHHcCCCEEEEeCc
Confidence 4567777777788888 76 45556688999999999999999999765
No 126
>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=75.50 E-value=21 Score=25.12 Aligned_cols=66 Identities=17% Similarity=0.212 Sum_probs=40.4
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC---ccEEE
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS---CTVMI 158 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~---~pVlv 158 (166)
+...++..|.+ + +..-.+-+.+.+++.++++++|+|.+.......... +..+.+.+-...+ ++|++
T Consensus 102 v~~~l~~~G~~-v-i~lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~--~~~~i~~lr~~~~~~~~~i~v 170 (201)
T cd02070 102 VATMLEANGFE-V-IDLGRDVPPEEFVEAVKEHKPDILGLSALMTTTMGG--MKEVIEALKEAGLRDKVKVMV 170 (201)
T ss_pred HHHHHHHCCCE-E-EECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHH--HHHHHHHHHHCCCCcCCeEEE
Confidence 34455666777 3 112234688999999999999999998754333322 2444454444432 45554
No 127
>PLN00200 argininosuccinate synthase; Provisional
Probab=75.46 E-value=39 Score=26.85 Aligned_cols=39 Identities=13% Similarity=0.206 Sum_probs=30.6
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
.|.++|+|++.+.-+|.-++.++.+ .++. +++.+++...
T Consensus 3 ~~~~kVvva~SGGlDSsvla~~L~e----~~G~----eViav~id~G 41 (404)
T PLN00200 3 GKLNKVVLAYSGGLDTSVILKWLRE----NYGC----EVVCFTADVG 41 (404)
T ss_pred CCCCeEEEEEeCCHHHHHHHHHHHH----hhCC----eEEEEEEECC
Confidence 4468999999999999988888754 2356 8999998653
No 128
>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=75.30 E-value=14 Score=27.71 Aligned_cols=71 Identities=6% Similarity=0.088 Sum_probs=47.8
Q ss_pred HHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 92 ICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 92 ~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
.+.+.+.. +-. -+..-+..+++++.|++.+..+|+..+.+.-.. ....+......+.+++++||.+-=++.
T Consensus 10 ~A~~~~yA-V~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValHLDHg 82 (282)
T TIGR01858 10 DAQAGGYA-VPAFNIHNLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIVALCSAASTTYNMPLALHLDHH 82 (282)
T ss_pred HHHHcCCe-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 34444544 332 233347899999999999999999887654322 222356678889999999998754443
No 129
>PRK00919 GMP synthase subunit B; Validated
Probab=75.01 E-value=35 Score=26.02 Aligned_cols=36 Identities=14% Similarity=0.083 Sum_probs=28.8
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
++++|++.|.-+|.-++.++.+. .+. +++++|+...
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~~----lG~----~v~aV~vD~G 57 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHRA----IGD----RLTPVFVDTG 57 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHHH----hCC----eEEEEEEECC
Confidence 78999999999999888776552 345 8999999754
No 130
>PF03575 Peptidase_S51: Peptidase family S51; InterPro: IPR005320 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S51 (clan PC(S)). The type example being dipeptidase E (alpha-aspartyl dipeptidase) from Escherichia coli. The family contains alpha-aspartyl dipeptidases (dipeptidase E) and cyanophycinases. The three-dimensional structure of Salmonella typhimurium aspartyl dipeptidase, peptidase E has been determine at 1.2-A resolution. The structure of this 25kDa enzyme consists of two mixed beta-sheets forming a V, flanked by six alpha-helices. The active site contains a Ser-His-Glu catalytic triad and is the first example of a serine peptidase/protease with a glutamate in the catalytic triad. The active site Ser is located on a strand-helix motif reminiscent of that found in alpha/beta-hydrolases, but the polypeptide fold and the organisation of the catalytic triad differ from those of the known serine proteases. This enzyme appears to represent a new example of convergent evolution of peptidase activity []. Alpha-aspartyl dipeptidase hydrolyses dipeptides containing N-terminal aspartate residues, asp-|-xaa. It does not act on peptides with N-terminal Glu, Asn or Gln, nor does it cleave isoaspartyl peptides. In the cyanobacteria, cyanophycinase is an exopeptidase that catalyses the hydrolytic cleavage of multi-l-arginyl-poly-l-aspartic acid (cyanophycin; a water- insoluble reserve polymer) into aspartate-arginine dipeptides.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3EN0_B 1FYE_A 1FY2_A 3L4E_A.
Probab=74.74 E-value=4.6 Score=27.09 Aligned_cols=62 Identities=13% Similarity=0.073 Sum_probs=37.4
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhh
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAH 150 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~ 150 (166)
++++++.+++.|+. +...-........+.+..+ .+|.|.++......+.+.+-++-....++
T Consensus 2 ~~~~~~~f~~~g~~-v~~l~~~~~~~~~~~~~i~--~ad~I~~~GG~~~~l~~~l~~t~l~~~i~ 63 (154)
T PF03575_consen 2 VEKFRKAFRKLGFE-VDQLDLSDRNDADILEAIR--EADAIFLGGGDTFRLLRQLKETGLDEAIR 63 (154)
T ss_dssp HHHHHHHHHHCT-E-EEECCCTSCGHHHHHHHHH--HSSEEEE--S-HHHHHHHHHHTTHHHHHH
T ss_pred HHHHHHHHHHCCCE-EEEEeccCCChHHHHHHHH--hCCEEEECCCCHHHHHHHHHhCCHHHHHH
Confidence 46777788888888 6655555545557777777 99999998654444444444444444444
No 131
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=74.39 E-value=17 Score=27.43 Aligned_cols=72 Identities=6% Similarity=0.109 Sum_probs=47.8
Q ss_pred HHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCcc-chhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 91 SICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGA-VKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 91 ~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~-~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
..+.+.+.. +- .-+...+..+++++.|++.+..+|+..+.+.-. .....+......+..++++||.+-=++.
T Consensus 11 ~~A~~~~yA-V~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValHLDHg 84 (286)
T PRK12738 11 QDAQANGYA-VPAFNIHNAETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIYALCSAYSTTYNMPLALHLDHH 84 (286)
T ss_pred HHHHHCCce-EEEEEeCCHHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 334444555 32 223334789999999999999999987664322 1222346678888999999998754443
No 132
>cd03557 L-arabinose_isomerase L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=74.24 E-value=37 Score=27.70 Aligned_cols=68 Identities=3% Similarity=-0.055 Sum_probs=41.7
Q ss_pred HHHHHHHHhC-CCCcccEEeec-CCchhHHHHHHhhh----CCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 87 DKATSICAKR-EVNDMPVHVMQ-GDPRNVMTEAVERF----HPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 87 ~~~~~~~~~~-~i~~~~~~v~~-g~~~~~I~~~a~~~----~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
+.+.+.+... .++ +++.... -+-.+.+.+..++. ++|.||+-.+.++... ..-.+++..++|||+..
T Consensus 26 ~~i~~~l~~~~~~~-~~v~~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------~~i~~~~~l~~PvL~~~ 98 (484)
T cd03557 26 REIVDGLNASGKLP-VKIVFKPVLTTPDEILAVCREANADDNCAGVITWMHTFSPAK------MWIAGLTALQKPLLHLH 98 (484)
T ss_pred HHHHHHhcccCCCC-eEEEEccccCCHHHHHHHHHHccccCCccEEEEccCCCchHH------HHHHHHHHcCCCEEEEc
Confidence 3344444432 244 4443322 25566666777664 5999999888766543 33345778899999985
Q ss_pred C
Q 044140 161 M 161 (166)
Q Consensus 161 ~ 161 (166)
.
T Consensus 99 ~ 99 (484)
T cd03557 99 T 99 (484)
T ss_pred c
Confidence 4
No 133
>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=74.00 E-value=25 Score=25.09 Aligned_cols=81 Identities=10% Similarity=0.026 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHh-CCCCcccEEeecCC------------chhHHHHHHhh-hCCcEEEEcccCCcc-chhhhcccHHH
Q 044140 82 AQKVADKATSICAK-REVNDMPVHVMQGD------------PRNVMTEAVER-FHPTILVLGSHGYGA-VKRAVLGSVSD 146 (166)
Q Consensus 82 ~~~~l~~~~~~~~~-~~i~~~~~~v~~g~------------~~~~I~~~a~~-~~~dliV~g~~~~~~-~~~~~~gs~~~ 146 (166)
+...++.+.+.+.+ .|.. +++..+..+ .++.|++..+. ...|.|++...-... -..++-+-+.+
T Consensus 108 a~~~l~~~~~~l~~~~~~~-v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~ 186 (204)
T PF04459_consen 108 AYPFLKPLVEKLNRIPGLE-VEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLE 186 (204)
T ss_pred HHHHHHHHHHHHhccCCCe-EEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHH
Confidence 44556666666622 2666 665544422 25667666654 344999998654333 33445588899
Q ss_pred HHhhcCCccEEEEcCCC
Q 044140 147 YSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 147 ~l~~~~~~pVlvv~~~~ 163 (166)
.+.....+||.+|+.+.
T Consensus 187 el~~~lg~~v~vv~~~~ 203 (204)
T PF04459_consen 187 ELEERLGVPVIVVRGPG 203 (204)
T ss_pred HHHHHhCCcEEEeCCCC
Confidence 99999999999998765
No 134
>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=73.92 E-value=16 Score=28.32 Aligned_cols=73 Identities=15% Similarity=0.136 Sum_probs=47.7
Q ss_pred HHHHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhh---------------hcccHHHHHhhc
Q 044140 89 ATSICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRA---------------VLGSVSDYSAHH 151 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~---------------~~gs~~~~l~~~ 151 (166)
+...+++.+.. +-. -+..-+..+++++.|++.+..+|+.-+.+.... ... .+......+..+
T Consensus 7 iL~~A~~~~yA-V~AfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~ 85 (345)
T cd00946 7 LFDYAKENGFA-IPAVNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEH 85 (345)
T ss_pred HHHHHHHCCce-EEEEeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHH
Confidence 33344445555 332 233347899999999999999999987753211 111 456677788889
Q ss_pred CCccEEEEcCC
Q 044140 152 CSCTVMIVKMP 162 (166)
Q Consensus 152 ~~~pVlvv~~~ 162 (166)
+++||.+-=++
T Consensus 86 ~~VPValHLDH 96 (345)
T cd00946 86 YGVPVVLHTDH 96 (345)
T ss_pred CCCCEEEECCC
Confidence 99998765333
No 135
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=73.75 E-value=30 Score=25.24 Aligned_cols=53 Identities=11% Similarity=0.169 Sum_probs=37.5
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
+....|.+.+.+.+.|.|++|.... ...--.-.+.+.+-.+++.||++.|...
T Consensus 28 ~~~~ei~~~~~~~GTDaImIGGS~g--vt~~~~~~~v~~ik~~~~lPvilfP~~~ 80 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIGGSDG--VTEENVDNVVEAIKERTDLPVILFPGSP 80 (240)
T ss_pred cccHHHHHHHHHcCCCEEEECCccc--ccHHHHHHHHHHHHhhcCCCEEEecCCh
Confidence 4567899999999999999996532 1111123455666668899999999754
No 136
>PF14582 Metallophos_3: Metallophosphoesterase, calcineurin superfamily; PDB: 1UF3_B 2YVT_A.
Probab=73.66 E-value=13 Score=27.12 Aligned_cols=19 Identities=11% Similarity=-0.026 Sum_probs=12.4
Q ss_pred HHhhcCCccEEEEcCCCCC
Q 044140 147 YSAHHCSCTVMIVKMPKSK 165 (166)
Q Consensus 147 ~l~~~~~~pVlvv~~~~~~ 165 (166)
+.+...+||+++||.+.+.
T Consensus 83 ~~L~~~~~p~~~vPG~~Da 101 (255)
T PF14582_consen 83 RILGELGVPVFVVPGNMDA 101 (255)
T ss_dssp HHHHCC-SEEEEE--TTS-
T ss_pred HHHHhcCCcEEEecCCCCc
Confidence 5678899999999987653
No 137
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=73.64 E-value=45 Score=26.71 Aligned_cols=98 Identities=5% Similarity=0.000 Sum_probs=50.0
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
.+++-.|+-.+..+...|..+.. . +. .+.++.... .. ....++
T Consensus 245 ~LVGptGvGKTTTiaKLA~~L~~-~-Gk----kVglI~aDt-~R------------------------------iaAvEQ 287 (436)
T PRK11889 245 ALIGPTGVGKTTTLAKMAWQFHG-K-KK----TVGFITTDH-SR------------------------------IGTVQQ 287 (436)
T ss_pred EEECCCCCcHHHHHHHHHHHHHH-c-CC----cEEEEecCC-cc------------------------------hHHHHH
Confidence 45555666777777777777766 4 33 555543321 00 011223
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccH
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSV 144 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~ 144 (166)
+.......|++ +.......+..+.|-.+.+..++|+|++-+.|++.-....+...
T Consensus 288 Lk~yae~lgip-v~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL 342 (436)
T PRK11889 288 LQDYVKTIGFE-VIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEM 342 (436)
T ss_pred HHHHhhhcCCc-EEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHH
Confidence 33344445666 44322112333333333333478999999888765443334444
No 138
>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=73.49 E-value=14 Score=27.65 Aligned_cols=71 Identities=13% Similarity=0.064 Sum_probs=47.7
Q ss_pred HHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccchh-hhcccHHHHHhhcCCccEEEEcCCC
Q 044140 92 ICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR-AVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 92 ~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
.+.+.+.. +- .-+..-+..+++++.|++.+..+|+--+.+.-.... ..+......+..++++||.+-=++.
T Consensus 7 ~A~~~~ya-V~AfN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~~~~~~~a~~~~VPV~lHLDH~ 79 (276)
T cd00947 7 KAREGGYA-VGAFNINNLETLKAILEAAEETRSPVILQISEGAIKYAGLELLVAMVKAAAERASVPVALHLDHG 79 (276)
T ss_pred HHHHCCce-EEEEeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 34444544 32 223334789999999999999999987765432222 3456777888889999998764443
No 139
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=73.16 E-value=41 Score=26.02 Aligned_cols=34 Identities=9% Similarity=0.047 Sum_probs=25.7
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
++|+|++.+.-+|..++..+.+ .+. +++.+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~~-----~G~----~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE-----QGY----EVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH-----cCC----cEEEEEEeC
Confidence 4899999999999887655532 345 788888864
No 140
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=73.12 E-value=33 Score=24.93 Aligned_cols=45 Identities=9% Similarity=0.208 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+.++++...+.+.+ +...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 155 KI~~lr~~~~~~~~~-~~IeV-DGGI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 155 KIAELKALRERNGLE-YLIEV-DGSCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHHHHhcCCC-eEEEE-ECCCCHHHHHHHHHcCCCEEEEChH
Confidence 344555565666666 55555 4555555555666679999999964
No 141
>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=73.07 E-value=35 Score=25.23 Aligned_cols=77 Identities=12% Similarity=0.075 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+.++.+.+... ..++ +-..+...+. .-.+.+.+++.++|-+++...........-+-..-..++..++.|+++...
T Consensus 54 ~l~~~~~~~~~-~~~~-vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~~~pi~iYn~ 131 (281)
T cd00408 54 EVIEAVVEAVA-GRVP-VIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADASDLPVILYNI 131 (281)
T ss_pred HHHHHHHHHhC-CCCe-EEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 33444444432 2344 3333333233 445567889999999999876544332222223445677778999999855
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
+
T Consensus 132 P 132 (281)
T cd00408 132 P 132 (281)
T ss_pred c
Confidence 4
No 142
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=73.02 E-value=17 Score=27.27 Aligned_cols=74 Identities=12% Similarity=0.080 Sum_probs=48.6
Q ss_pred HHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchh--hhcccHHHHHhhcCCccEEEEcCCC
Q 044140 89 ATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKR--AVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~--~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
+.+.+++.+.. +-.-=.. -+..++|++.|++.++..||=.+.+.-.... ..+-.....++.+.++||.+-=++.
T Consensus 9 ll~~Ake~~yA-vpAfN~~nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~~~~~~v~~~a~~~~vPV~lHlDHg 85 (286)
T COG0191 9 LLDKAKENGYA-VPAFNINNLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGADSLAHMVKALAEKYGVPVALHLDHG 85 (286)
T ss_pred HHHHHHHcCCc-eeeeeecCHHHHHHHHHHHHHhCCCEEEEecccHHHHhchHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 33444555555 3332233 3788999999999999999998776432221 2333466778888899998765443
No 143
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=72.93 E-value=18 Score=28.11 Aligned_cols=74 Identities=15% Similarity=0.132 Sum_probs=47.4
Q ss_pred HHHHHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-h---hhh------------cccHHHHHhh
Q 044140 88 KATSICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-K---RAV------------LGSVSDYSAH 150 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~---~~~------------~gs~~~~l~~ 150 (166)
++...+.+.+.. +-. -+..-+..++|++.|++.+..+|+..+.+.... . -.. +......+.+
T Consensus 11 ~~L~~A~~~~yA-V~AfNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~v~~~A~ 89 (350)
T PRK09197 11 EMFDRAKENGFA-LPAVNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGAKHVHEVAE 89 (350)
T ss_pred HHHHHHHHCCce-EEEEEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHHHHHHHHHH
Confidence 333344555555 332 233348899999999999999999887653221 1 011 4456778888
Q ss_pred cCCccEEEEcCC
Q 044140 151 HCSCTVMIVKMP 162 (166)
Q Consensus 151 ~~~~pVlvv~~~ 162 (166)
++++||.+-=++
T Consensus 90 ~~~VPValHLDH 101 (350)
T PRK09197 90 HYGVPVILHTDH 101 (350)
T ss_pred HCCCCEEEECCC
Confidence 999998765443
No 144
>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=72.81 E-value=31 Score=28.44 Aligned_cols=63 Identities=19% Similarity=0.214 Sum_probs=40.8
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHH---HhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEA---VERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~---a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
+.+.+.+.+++-. +++.+..|+..+++... ....++|+||-. |.+++.|=.+.+.||+-|+-.
T Consensus 17 ~~~~~i~~~~~~~-~~~~v~~~~~~~~~~~a~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~s 82 (526)
T TIGR02329 17 DLFRDIAPEFDHR-ANITPIQLGFEDAVREIRQRLGAERCDVVVAG------------GSNGAYLKSRLSLPVIVIKPT 82 (526)
T ss_pred HHHHHHHHhCCCC-ceEEEEeccHHHHHHHHHHHHHhCCCcEEEEC------------chHHHHHHHhCCCCEEEecCC
Confidence 3444444554443 55667777666555543 445688988853 567777777789999988754
No 145
>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=72.76 E-value=12 Score=26.76 Aligned_cols=48 Identities=6% Similarity=0.068 Sum_probs=29.8
Q ss_pred HHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 114 MTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 114 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
+...+.+.++|.|.+|.+. +....-+..+...+=++++.||++.|...
T Consensus 16 ia~~v~~~gtDaI~VGGS~--gvt~~~~~~~v~~ik~~~~lPvilfp~~~ 63 (205)
T TIGR01769 16 IAKNAKDAGTDAIMVGGSL--GIVESNLDQTVKKIKKITNLPVILFPGNV 63 (205)
T ss_pred HHHHHHhcCCCEEEEcCcC--CCCHHHHHHHHHHHHhhcCCCEEEECCCc
Confidence 4556677789999998652 22222223344544444789999988643
No 146
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=72.72 E-value=33 Score=24.78 Aligned_cols=44 Identities=11% Similarity=0.074 Sum_probs=28.4
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.++++...+.+.+ +...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 158 I~~l~~~~~~~~~~-~~IeV-DGGI~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 158 LRAIRKKIDALGKP-IRLEI-DGGVKADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred HHHHHHHHHhcCCC-eeEEE-ECCCCHHHHHHHHHcCCCEEEEChh
Confidence 34445555555555 54544 4656666666777779999999965
No 147
>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=72.46 E-value=39 Score=25.53 Aligned_cols=35 Identities=11% Similarity=0.081 Sum_probs=27.1
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
+++|++.|.-+|.-++..+.+. .+. +++++|+...
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~----lG~----~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA----IGD----RLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH----hCC----cEEEEEecCC
Confidence 5899999999998888777653 234 8899999653
No 148
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=72.04 E-value=35 Score=24.71 Aligned_cols=64 Identities=14% Similarity=0.149 Sum_probs=38.9
Q ss_pred HHHHHHHhCCCCcccEEeec--CCchhHHHHHHh---hhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 88 KATSICAKREVNDMPVHVMQ--GDPRNVMTEAVE---RFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~--g~~~~~I~~~a~---~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
...+.++..+.+ +.+.... ......+.+.++ +.++|+|||-.-|++.-.+ +.+-+.+.+||++-
T Consensus 140 ~~~~kW~~l~~~-~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r-------~~~~~~~g~PVlLs 208 (221)
T PF07302_consen 140 QQAEKWQPLGNP-VVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMR-------DIVQRALGKPVLLS 208 (221)
T ss_pred HHHHHHHhcCCC-eEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHH-------HHHHHHhCCCEEeH
Confidence 334444545555 4444433 134556666654 4589999999998875443 33455678999874
No 149
>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=71.72 E-value=20 Score=21.77 Aligned_cols=52 Identities=8% Similarity=0.080 Sum_probs=32.6
Q ss_pred cCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcCC
Q 044140 107 QGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKMP 162 (166)
Q Consensus 107 ~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~~ 162 (166)
.-+...+..+..++..+|++++...-...-. -.+.+++-... .+|++++-..
T Consensus 28 ~~~~~~~~~~~~~~~~~d~iiid~~~~~~~~----~~~~~~i~~~~~~~~ii~~t~~ 80 (112)
T PF00072_consen 28 TASSGEEALELLKKHPPDLIIIDLELPDGDG----LELLEQIRQINPSIPIIVVTDE 80 (112)
T ss_dssp EESSHHHHHHHHHHSTESEEEEESSSSSSBH----HHHHHHHHHHTTTSEEEEEESS
T ss_pred EECCHHHHHHHhcccCceEEEEEeeeccccc----cccccccccccccccEEEecCC
Confidence 3355667777788889999999965433211 12344443333 6888888643
No 150
>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=71.65 E-value=14 Score=29.22 Aligned_cols=13 Identities=8% Similarity=0.097 Sum_probs=10.2
Q ss_pred CCccEEEEcCCCC
Q 044140 152 CSCTVMIVKMPKS 164 (166)
Q Consensus 152 ~~~pVlvv~~~~~ 164 (166)
..+||++|+....
T Consensus 109 ~~iPVf~I~GNHD 121 (405)
T TIGR00583 109 VAIPVFSIHGNHD 121 (405)
T ss_pred CCCCEEEEcCCCC
Confidence 5799999987543
No 151
>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=71.46 E-value=8.2 Score=29.77 Aligned_cols=49 Identities=16% Similarity=0.266 Sum_probs=37.8
Q ss_pred chhHHHHHHhhhCCcEEEEcccC-CccchhhhcccHHHHHhhcCCccEEEE
Q 044140 110 PRNVMTEAVERFHPTILVLGSHG-YGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
....|+.++++.++|++|.|--- .+.. ...-|.++..+-.+..+|++.-
T Consensus 68 a~~~i~~mv~~~~pD~viaGPaFnagrY-G~acg~v~~aV~e~~~IP~vta 117 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPAFNAGRY-GVACGEVAKAVQEKLGIPVVTA 117 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCCcCCchH-HHHHHHHHHHHHHhhCCCEEEE
Confidence 46778999999999999999542 2222 2356888999999999999864
No 152
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=71.23 E-value=15 Score=29.35 Aligned_cols=53 Identities=15% Similarity=0.278 Sum_probs=32.6
Q ss_pred ecC-CchhHHHHHHh---hh-CCcEEEEcccCCccchhh-hccc-HHHHHhhcCCccEEEE
Q 044140 106 MQG-DPRNVMTEAVE---RF-HPTILVLGSHGYGAVKRA-VLGS-VSDYSAHHCSCTVMIV 159 (166)
Q Consensus 106 ~~g-~~~~~I~~~a~---~~-~~dliV~g~~~~~~~~~~-~~gs-~~~~l~~~~~~pVlvv 159 (166)
+.| +...+|++.++ +. .+|+||+|+.|- .+..+ -|.. ..-+-+..|++||+--
T Consensus 172 VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGG-SiEDLW~FNdE~vaRAi~~s~iPvISA 231 (440)
T COG1570 172 VQGEGAAEEIVEAIERANQRGDVDVLIVARGGG-SIEDLWAFNDEIVARAIAASRIPVISA 231 (440)
T ss_pred ccCCCcHHHHHHHHHHhhccCCCCEEEEecCcc-hHHHHhccChHHHHHHHHhCCCCeEee
Confidence 346 66777776654 33 499999997653 34442 2222 3345566888998744
No 153
>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=70.69 E-value=34 Score=25.43 Aligned_cols=52 Identities=13% Similarity=0.089 Sum_probs=34.9
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.-++.+.+++.++|-|++...........-+-..-.+|...+++||++...+
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~~~pi~lYn~P 135 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEATDLPVILYNVP 135 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcCCCCEEEEECh
Confidence 4455688899999999998765433322212234566777889999988543
No 154
>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=70.66 E-value=42 Score=25.12 Aligned_cols=63 Identities=11% Similarity=0.016 Sum_probs=38.1
Q ss_pred CCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 97 EVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 97 ~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
.++ +-..+..+ ...-.+.+.+++.++|-+++..........--+-..-..|...++.||++.-
T Consensus 69 ~~p-vi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~~~pi~lYn 132 (289)
T cd00951 69 RVP-VLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLGVIVYN 132 (289)
T ss_pred CCC-EEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcCCCCEEEEe
Confidence 455 44444322 2334456888999999999986654332221112234557778899999985
No 155
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=70.30 E-value=25 Score=26.93 Aligned_cols=66 Identities=9% Similarity=0.167 Sum_probs=38.1
Q ss_pred HHHHHHHHHhCCCCcccEEeecC---CchhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 86 ADKATSICAKREVNDMPVHVMQG---DPRNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g---~~~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+++.+.+.+.+ . +...+... +..+.+.+.+++.++|.|| +|...- ..++..+.....+|++.||=
T Consensus 41 ~~~v~~~l~~~~-~-~~~~~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs~--------~D~aK~~a~~~~~p~i~iPT 110 (339)
T cd08173 41 GKKVEALLEDEG-E-VDVVIVEDATYEEVEKVESSARDIGADFVIGVGGGRV--------IDVAKVAAYKLGIPFISVPT 110 (339)
T ss_pred HHHHHHHHHhcC-C-eEEEEeCCCCHHHHHHHHHHhhhcCCCEEEEeCCchH--------HHHHHHHHHhcCCCEEEecC
Confidence 445555566666 5 54433222 2345667777888999888 663321 22333333445789999984
No 156
>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=69.67 E-value=54 Score=25.97 Aligned_cols=34 Identities=12% Similarity=0.209 Sum_probs=27.0
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
+|++++.+.-+|.-++.++.+. +. +++++|+...
T Consensus 1 kVvla~SGGlDSsvll~~l~e~-----g~----~V~av~id~G 34 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK-----GY----EVIAYTADVG 34 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc-----CC----EEEEEEEecC
Confidence 5899999999999888777532 45 8999999653
No 157
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=69.39 E-value=52 Score=25.62 Aligned_cols=130 Identities=12% Similarity=0.073 Sum_probs=71.1
Q ss_pred CCEEEEEEcCC--hhHHHHHHHHHHhcCCCCC---CCCceEEEEEEeec-CCCCCcCCCCCCCCCCCchhhHHHHHHHHH
Q 044140 6 KPIMMVAIDDS--NHSYYALEWALDYFFPPFA---PNHTFQLVLIHARP-NPPSLLGLSGAGQGSAGSAHVINLVELDTK 79 (166)
Q Consensus 6 ~~~Ilv~vd~s--~~s~~al~~a~~la~~~~~---~~~~~~l~lv~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (166)
..+++|.+.+. ++.+.++++|.+++. ... .+ -+.++.++- .+.....+.+..+ .+.++... -.
T Consensus 51 d~rllvI~GPCSIed~e~a~eyA~~Lk~-l~~~~~d~---l~ivmR~y~~KPRTs~g~kGl~~-----DP~ldgs~--~i 119 (349)
T PRK09261 51 DDRLLVVVGPCSIHDPKAALEYARRLAK-LREELKDK---LEIVMRVYFEKPRTTVGWKGLIN-----DPDLDGSF--DI 119 (349)
T ss_pred CCCeEEEEcCCcCCCHHHHHHHHHHHHH-HHhhhhcc---eEEEEEeccccCCCCCCCcCCCc-----CcCccccc--cH
Confidence 46788888774 567788999988876 421 10 234666542 2222233333221 11111000 01
Q ss_pred HHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 80 KRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 80 ~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
+..-+++.++.-...+.|++ +-.++..-...+.+.++ +|.+-+|++.-.. ..-.+++...++||.+=
T Consensus 120 ~~GL~~~R~ll~~~~e~Glp-vatE~ld~~~~~y~~dl-----vs~~~IGARt~es-------q~hr~~asg~~~PVg~K 186 (349)
T PRK09261 120 NDGLRIARKLLLDINELGLP-AATEFLDPITPQYIADL-----ISWGAIGARTTES-------QVHRELASGLSCPVGFK 186 (349)
T ss_pred HHHHHHHHHHHHHHHHhCCC-eEEEecccccHHHHHhh-----cceeeeccchhcC-------HHHHHHhcCCCCeeEec
Confidence 22223333333335667999 88888776555444443 6788999885432 12345666788999873
No 158
>PRK13059 putative lipid kinase; Reviewed
Probab=69.38 E-value=43 Score=25.10 Aligned_cols=68 Identities=12% Similarity=0.018 Sum_probs=36.7
Q ss_pred HHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEEcCC
Q 044140 87 DKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIVKMP 162 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv~~~ 162 (166)
+.+.+.+.+.|.+ +...... +... .....+.+.++|.||+.. |.+.+ ..++..++.. .++|+-++|..
T Consensus 22 ~~i~~~l~~~g~~-~~~~~~~~~~~~-~~~~~~~~~~~d~vi~~G-GDGTv-----~evv~gl~~~~~~~~lgviP~G 91 (295)
T PRK13059 22 DKVIRIHQEKGYL-VVPYRISLEYDL-KNAFKDIDESYKYILIAG-GDGTV-----DNVVNAMKKLNIDLPIGILPVG 91 (295)
T ss_pred HHHHHHHHHCCcE-EEEEEccCcchH-HHHHHHhhcCCCEEEEEC-CccHH-----HHHHHHHHhcCCCCcEEEECCC
Confidence 4455666667776 5543333 3223 333334345788776652 23322 3345555543 46899999853
No 159
>PRK14057 epimerase; Provisional
Probab=69.15 E-value=44 Score=24.74 Aligned_cols=44 Identities=9% Similarity=0.042 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.++++...+.+.. +...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 180 I~~lr~~~~~~~~~-~~IeV-DGGI~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 180 VAQLLCLLGDKREG-KIIVI-DGSLTQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred HHHHHHHHHhcCCC-ceEEE-ECCCCHHHHHHHHHCCCCEEEEChH
Confidence 44555555566666 55554 4656555666667779999999965
No 160
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=69.08 E-value=20 Score=26.93 Aligned_cols=54 Identities=9% Similarity=-0.003 Sum_probs=40.3
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
...+++++.|++.+..+|+..+.+.-.. .-..+......+..++++||.+-=++
T Consensus 29 e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~~~~~~~A~~~~vPV~lHLDH 83 (283)
T PRK07998 29 ETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIYEIVKRHADKMDVPVSLHLDH 83 (283)
T ss_pred HHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHHHHHHHHHHHCCCCEEEECcC
Confidence 6789999999999999999987653222 22345667778889999998765443
No 161
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=68.98 E-value=38 Score=27.11 Aligned_cols=47 Identities=11% Similarity=0.062 Sum_probs=31.9
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
...+.+.++..++|.||+.....+.. +..-.+++..++||++.-...
T Consensus 52 ~~~~~~~~~~~~~d~ii~~~~tf~~~------~~~~~~~~~~~~Pvll~a~~~ 98 (452)
T cd00578 52 ARKAAEEFNEANCDGLIVWMHTFGPA------KMWIAGLSELRKPVLLLATQF 98 (452)
T ss_pred HHHHHHHHhhcCCcEEEEcccccccH------HHHHHHHHhcCCCEEEEeCCC
Confidence 55666777777999999976654432 223344567799999986543
No 162
>PRK13337 putative lipid kinase; Reviewed
Probab=68.96 E-value=47 Score=24.98 Aligned_cols=69 Identities=9% Similarity=0.050 Sum_probs=39.5
Q ss_pred HHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEEcCC
Q 044140 87 DKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIVKMP 162 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv~~~ 162 (166)
.++...+.+.+++ ++..... ...+..+++.+.+.++|+||+... .+.+ ..+...++.. ...|+-++|..
T Consensus 22 ~~~~~~l~~~~~~-~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~GG-DGTl-----~~vv~gl~~~~~~~~lgiiP~G 92 (304)
T PRK13337 22 PDVLQKLEQAGYE-TSAHATTGPGDATLAAERAVERKFDLVIAAGG-DGTL-----NEVVNGIAEKENRPKLGIIPVG 92 (304)
T ss_pred HHHHHHHHHcCCE-EEEEEecCCCCHHHHHHHHHhcCCCEEEEEcC-CCHH-----HHHHHHHhhCCCCCcEEEECCc
Confidence 3445556777877 7665554 355566666555667888776533 3322 2233444322 35688888864
No 163
>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=68.95 E-value=37 Score=23.84 Aligned_cols=33 Identities=24% Similarity=0.282 Sum_probs=24.7
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
++++.+.+..+|..++-++.+. +. ++..+++..
T Consensus 1 kv~v~~SGGkDS~~al~~a~~~-----G~----~v~~l~~~~ 33 (194)
T cd01994 1 KVVALISGGKDSCYALYRALEE-----GH----EVVALLNLT 33 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHHc-----CC----EEEEEEEEe
Confidence 4789999999999988888762 23 666666654
No 164
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=68.84 E-value=11 Score=28.90 Aligned_cols=50 Identities=12% Similarity=0.253 Sum_probs=35.2
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-Cccch-hhhcccHHHHHhhcCCccEEEEcC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVK-RAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~-~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+..+.++..+ ++|+||+|-.+ .+.+. .+++..+.+.| +++..|++.+.+
T Consensus 178 ~a~~eaveAI~--~AD~IviGPgSl~TSIlP~Lllp~I~eaL-r~~~ap~i~v~n 229 (323)
T COG0391 178 SAAPEAVEAIK--EADLIVIGPGSLFTSILPILLLPGIAEAL-RETVAPIVYVCN 229 (323)
T ss_pred CCCHHHHHHHH--hCCEEEEcCCccHhhhchhhchhHHHHHH-HhCCCCEEEecc
Confidence 55678888888 99999999654 33443 34566666654 558888888764
No 165
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=68.80 E-value=46 Score=24.78 Aligned_cols=94 Identities=11% Similarity=0.052 Sum_probs=58.0
Q ss_pred EEEEEEcC--ChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDD--SNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKV 85 (166)
Q Consensus 8 ~Ilv~vd~--s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (166)
++++...+ -++...++++|..+.. . +. ++...+.+.+-+..+++.+. .++.
T Consensus 27 ~~~~iaGPCsie~~~~~~~~A~~lk~-~-g~----~~~r~~~~kpRTs~~s~~G~---------------------g~~g 79 (266)
T PRK13398 27 EKIIIAGPCAVESEEQMVKVAEKLKE-L-GV----HMLRGGAFKPRTSPYSFQGL---------------------GEEG 79 (266)
T ss_pred CEEEEEeCCcCCCHHHHHHHHHHHHH-c-CC----CEEEEeeecCCCCCCccCCc---------------------HHHH
Confidence 45555544 2567788999988877 4 55 77777777644443333321 1344
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
+..+.+.+++.|++ +-+.+..-...+.+. +. +|++-+|++.-.
T Consensus 80 l~~l~~~~~~~Gl~-~~te~~d~~~~~~l~----~~-vd~~kIga~~~~ 122 (266)
T PRK13398 80 LKILKEVGDKYNLP-VVTEVMDTRDVEEVA----DY-ADMLQIGSRNMQ 122 (266)
T ss_pred HHHHHHHHHHcCCC-EEEeeCChhhHHHHH----Hh-CCEEEECccccc
Confidence 55566667888999 777665544444443 33 688888877533
No 166
>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=68.21 E-value=53 Score=25.33 Aligned_cols=34 Identities=12% Similarity=0.207 Sum_probs=23.9
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.++|++.|..+|..++..+... ++- .+.++|+..
T Consensus 61 D~iV~lSGGkDSs~la~ll~~~----~gl----~~l~vt~~~ 94 (343)
T TIGR03573 61 DCIIGVSGGKDSTYQAHVLKKK----LGL----NPLLVTVDP 94 (343)
T ss_pred CEEEECCCCHHHHHHHHHHHHH----hCC----ceEEEEECC
Confidence 4999999999998887666432 334 566677743
No 167
>PRK13054 lipid kinase; Reviewed
Probab=68.03 E-value=43 Score=25.13 Aligned_cols=67 Identities=13% Similarity=0.125 Sum_probs=39.5
Q ss_pred HHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc---CCccEEEEcCC
Q 044140 89 ATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH---CSCTVMIVKMP 162 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~---~~~pVlvv~~~ 162 (166)
+...+.+.++. +++.... ..-+..+.+.+...++|.||+... .+.+ ..+...++.. .++|+-++|..
T Consensus 23 ~~~~l~~~g~~-~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~GG-DGTl-----~evv~~l~~~~~~~~~~lgiiP~G 93 (300)
T PRK13054 23 AVGLLREEGHT-LHVRVTWEKGDAARYVEEALALGVATVIAGGG-DGTI-----NEVATALAQLEGDARPALGILPLG 93 (300)
T ss_pred HHHHHHHcCCE-EEEEEecCCCcHHHHHHHHHHcCCCEEEEECC-ccHH-----HHHHHHHHhhccCCCCcEEEEeCC
Confidence 34456667877 7665543 244566776665667888877533 3333 2344445432 35899999864
No 168
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=67.91 E-value=32 Score=24.86 Aligned_cols=73 Identities=7% Similarity=0.045 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecC-----CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 84 KVADKATSICAKREVNDMPVHVMQG-----DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g-----~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
..+..+.+.+++.|.. +.+.-... +..+.|..+.++++++-|++-..+.-.+.. ..+.+.....||+-+
T Consensus 49 saMRhfa~~L~~~G~~-V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~-----~l~~~~~~~~i~~~~ 122 (224)
T PF04244_consen 49 SAMRHFADELRAKGFR-VHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQ-----RLESLAQQLGIPLEV 122 (224)
T ss_dssp HHHHHHHHHHHHTT---EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHH-----HHHH----SSS-EEE
T ss_pred HHHHHHHHHHHhCCCE-EEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHH-----HHHhhhcccCCceEE
Confidence 4456777788888999 77766552 457899999999999999998776554433 334566677899999
Q ss_pred EcCC
Q 044140 159 VKMP 162 (166)
Q Consensus 159 v~~~ 162 (166)
++.+
T Consensus 123 ~~~~ 126 (224)
T PF04244_consen 123 LEDP 126 (224)
T ss_dssp E--T
T ss_pred eCCC
Confidence 8865
No 169
>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=67.70 E-value=44 Score=24.19 Aligned_cols=36 Identities=22% Similarity=0.236 Sum_probs=27.7
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPP 52 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~ 52 (166)
++++.+.+..+|..|+-+|.+. . . -+.++++.+...
T Consensus 2 k~~~l~SGGKDS~~al~~a~~~-~-~-------v~~L~t~~~~~~ 37 (223)
T TIGR00290 2 KVAALISGGKDSCLALYHALKE-H-E-------VISLVNIMPENE 37 (223)
T ss_pred cEEEEecCcHHHHHHHHHHHHh-C-e-------eEEEEEEecCCC
Confidence 4778999999999999998877 5 3 566777766543
No 170
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=67.67 E-value=52 Score=25.02 Aligned_cols=58 Identities=7% Similarity=-0.005 Sum_probs=38.7
Q ss_pred ccEEeecC--CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 101 MPVHVMQG--DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 101 ~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
-++.+..+ .....++..|.+..-++-|+-..++..+. |...-+-+++..+|+.+|++.
T Consensus 120 g~~IlTh~~S~~v~~~l~~A~~~~k~~~V~VtESRP~~e----G~~~ak~L~~~gI~~~~I~Ds 179 (301)
T COG1184 120 GDVILTHSFSKTVLEVLKTAADRGKRFKVIVTESRPRGE----GRIMAKELRQSGIPVTVIVDS 179 (301)
T ss_pred CCEEEEecCcHHHHHHHHHhhhcCCceEEEEEcCCCcch----HHHHHHHHHHcCCceEEEech
Confidence 44555554 66777778887776544444444444444 777788889999999998763
No 171
>PRK13055 putative lipid kinase; Reviewed
Probab=67.52 E-value=51 Score=25.23 Aligned_cols=71 Identities=7% Similarity=0.005 Sum_probs=42.4
Q ss_pred HHHHHHHHHHhCCCCcccEEeecC--CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEEcC
Q 044140 85 VADKATSICAKREVNDMPVHVMQG--DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIVKM 161 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv~~ 161 (166)
...++...+.+.++. +++..... ..+..+++.+.+.++|+||+... -+.+. .++..++.. ...|+-++|.
T Consensus 21 ~~~~i~~~l~~~g~~-~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~GG-DGTl~-----evvngl~~~~~~~~LgiiP~ 93 (334)
T PRK13055 21 NVADILDILEQAGYE-TSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAGG-DGTIN-----EVVNGIAPLEKRPKMAIIPA 93 (334)
T ss_pred HHHHHHHHHHHcCCe-EEEEEeecCCccHHHHHHHHhhcCCCEEEEECC-CCHHH-----HHHHHHhhcCCCCcEEEECC
Confidence 345566667778887 77655542 45666776666667888877533 33232 233444432 3467888885
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
.
T Consensus 94 G 94 (334)
T PRK13055 94 G 94 (334)
T ss_pred C
Confidence 3
No 172
>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=67.31 E-value=10 Score=28.54 Aligned_cols=52 Identities=15% Similarity=0.124 Sum_probs=39.7
Q ss_pred CCchhHHHHHHhhhCCcEEEEcccCCccch-hhhcccHHHHHhhcCCccEEEE
Q 044140 108 GDPRNVMTEAVERFHPTILVLGSHGYGAVK-RAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 108 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~-~~~~gs~~~~l~~~~~~pVlvv 159 (166)
-+...++++.|++.+..+|+.-+.+..... -..+......+.+++++||.+-
T Consensus 27 ~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~~~~~~~~~~~~a~~~~vPValH 79 (287)
T PF01116_consen 27 LETARAVIEAAEELNSPVILQISPSEVKYMGLEYLAAMVKAAAEEASVPVALH 79 (287)
T ss_dssp HHHHHHHHHHHHHTTS-EEEEEEHHHHHHHHHHHHHHHHHHHHHHSTSEEEEE
T ss_pred HHHHHHHHHHHHHhCCCEEEEcchhhhhhhhHHHHHHHHHHHHHHcCCCEEee
Confidence 378899999999999999998876543332 2355678888999999999764
No 173
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=67.02 E-value=35 Score=25.75 Aligned_cols=73 Identities=10% Similarity=0.080 Sum_probs=47.8
Q ss_pred HHHHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-h-hhhcccHHHHHhhcC--CccEEEEcCC
Q 044140 89 ATSICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-K-RAVLGSVSDYSAHHC--SCTVMIVKMP 162 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~l~~~~--~~pVlvv~~~ 162 (166)
+...+++.+.. +-. -+..-+..+++++.|++.++.+|+..+.+.-.. . -..+.........++ ++||.+-=++
T Consensus 9 iL~~A~~~~yA-V~AfN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~~~~~~~~~~~a~~~~~~VPV~lHLDH 86 (288)
T TIGR00167 9 LLQDAKEEGYA-IPAFNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGLGAISAMVKAMSEAYPYGVPVALHLDH 86 (288)
T ss_pred HHHHHHHCCce-EEEEEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCHHHHHHHHHHHHHhccCCCcEEEECCC
Confidence 33344445555 332 233347889999999999999999877654322 1 224566777788888 8898765443
No 174
>PHA02546 47 endonuclease subunit; Provisional
Probab=66.96 E-value=18 Score=27.82 Aligned_cols=16 Identities=13% Similarity=0.179 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHhCCCC
Q 044140 84 KVADKATSICAKREVN 99 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~ 99 (166)
..++++.+.+.+.++.
T Consensus 26 ~~l~~ii~~a~~~~vD 41 (340)
T PHA02546 26 KFIKQAIEYSKAHGIT 41 (340)
T ss_pred HHHHHHHHHHHHcCCC
Confidence 3455555555544433
No 175
>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=66.89 E-value=46 Score=24.08 Aligned_cols=90 Identities=11% Similarity=0.086 Sum_probs=49.1
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
++++.+.+..+|.-|+-++.+- . . -+.++.+.+.....+.+... . ++
T Consensus 2 kv~vl~SGGKDS~lAl~~~~~~-~-~-------V~~L~~~~~~~~~s~~~h~~------~------------------~~ 48 (222)
T TIGR00289 2 KVAVLYSGGKDSILALYKALEE-H-E-------VISLVGVFSENEESYMFHSP------N------------------LH 48 (222)
T ss_pred eEEEEecCcHHHHHHHHHHHHc-C-e-------eEEEEEEcCCCCCccccccC------C------------------HH
Confidence 5889999999999988888664 3 1 44555555443221111110 0 11
Q ss_pred HHHHHHHhCCCCcccEEeecC---CchhHHHHHHhhhCCcEEEEccc
Q 044140 88 KATSICAKREVNDMPVHVMQG---DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g---~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+...++.-|++ .......| +..+.+.+..++.+++-||.|.=
T Consensus 49 ~~~~qA~algiP-l~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI 94 (222)
T TIGR00289 49 LTDLVAEAVGIP-LIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAI 94 (222)
T ss_pred HHHHHHHHcCCC-eEEEEcCCchhHHHHHHHHHHHHcCCCEEEECcc
Confidence 222233344777 54333333 34455556666667888888754
No 176
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=66.43 E-value=31 Score=26.82 Aligned_cols=71 Identities=15% Similarity=0.146 Sum_probs=47.4
Q ss_pred HHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccch-hhhcccHHHHHhhcCC-ccEEEEcCC
Q 044140 91 SICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVK-RAVLGSVSDYSAHHCS-CTVMIVKMP 162 (166)
Q Consensus 91 ~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~-~~~~gs~~~~l~~~~~-~pVlvv~~~ 162 (166)
..+.+.+.. +-. -+..-+...++++.|++.++.+|+..+.+..... ..++......+..+++ +||.+-=++
T Consensus 11 ~~A~~~~ya-V~AfN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~v~~~ae~~~~VPVaLHLDH 84 (347)
T PRK13399 11 DHAAENGYG-VPAFNVNNMEQILAIMEAAEATDSPVILQASRGARKYAGDAMLRHMVLAAAEMYPDIPICLHQDH 84 (347)
T ss_pred HHHHHCCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhcCCCcEEEECCC
Confidence 334444544 332 3333488999999999999999999877543322 2346667788888885 898765443
No 177
>PRK02929 L-arabinose isomerase; Provisional
Probab=66.28 E-value=64 Score=26.47 Aligned_cols=68 Identities=6% Similarity=0.035 Sum_probs=43.1
Q ss_pred HHHHHHHHHhC-CCCcccEEeecC--CchhHHHHHHhhhC----CcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 86 ADKATSICAKR-EVNDMPVHVMQG--DPRNVMTEAVERFH----PTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 86 l~~~~~~~~~~-~i~~~~~~v~~g--~~~~~I~~~a~~~~----~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
.+.+.+.+... .++ +++. ..+ +..+.|....++.+ +|.||+-.+.++... ..-.+++..++||++
T Consensus 31 ~~~i~~~l~~~~~~~-~~vv-~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------~~i~~~~~l~~PvL~ 102 (499)
T PRK02929 31 AEEIVDGLNASGKLP-VKIV-LKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPAK------MWIRGLSALQKPLLH 102 (499)
T ss_pred HHHHHHHhcccCCCC-eEEE-EcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchHH------HHHHHHHHcCCCEEE
Confidence 34444444432 344 4444 333 55666667776666 999999888776543 333457788999999
Q ss_pred EcC
Q 044140 159 VKM 161 (166)
Q Consensus 159 v~~ 161 (166)
...
T Consensus 103 ~~~ 105 (499)
T PRK02929 103 LHT 105 (499)
T ss_pred Eec
Confidence 865
No 178
>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=66.17 E-value=62 Score=25.31 Aligned_cols=36 Identities=14% Similarity=0.042 Sum_probs=28.2
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.-.++|+.+.|.-+|.-++-++.+ .+. +++++|+..
T Consensus 171 ~~~kvlvllSGGiDS~vaa~ll~k-----rG~----~V~av~~~~ 206 (371)
T TIGR00342 171 TQGKVLALLSGGIDSPVAAFMMMK-----RGC----RVVAVHFFN 206 (371)
T ss_pred cCCeEEEEecCCchHHHHHHHHHH-----cCC----eEEEEEEeC
Confidence 457899999999999888766533 356 899999974
No 179
>PRK06850 hypothetical protein; Provisional
Probab=66.12 E-value=74 Score=26.19 Aligned_cols=25 Identities=8% Similarity=0.062 Sum_probs=20.1
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFF 31 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~ 31 (166)
+.+.|++.|..+|..++..+..-..
T Consensus 35 ~P~vV~fSGGKDStavL~Lv~~Al~ 59 (507)
T PRK06850 35 RPWVIGYSGGKDSTAVLQLVWNALA 59 (507)
T ss_pred CCeEEeCCCCchHHHHHHHHHHHHH
Confidence 3478999999999999988876543
No 180
>PRK05920 aromatic acid decarboxylase; Validated
Probab=66.09 E-value=18 Score=25.81 Aligned_cols=36 Identities=11% Similarity=0.138 Sum_probs=29.7
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
+.+||++++.++-.+.++++..-.+.+ . +. +++++-
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~-~-g~----~V~vi~ 37 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLA-A-DY----EVHLVI 37 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHH-C-CC----EEEEEE
Confidence 358999999999999999999988877 4 66 776664
No 181
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=65.76 E-value=54 Score=24.49 Aligned_cols=77 Identities=9% Similarity=0.024 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+.++.+.+.+. ..++ +-..+...+. .-...+.+++.++|-+++...........-+-..-.+|+..++.||++...
T Consensus 58 ~~~~~~~~~~~-~~~~-vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~~pv~lYn~ 135 (292)
T PRK03170 58 ELIRAVVEAVN-GRVP-VIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEATDLPIILYNV 135 (292)
T ss_pred HHHHHHHHHhC-CCCc-EEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEEC
Confidence 33444444432 2345 4444433333 444557888999999999766543322221223445677788999999854
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
+
T Consensus 136 P 136 (292)
T PRK03170 136 P 136 (292)
T ss_pred c
Confidence 4
No 182
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=65.44 E-value=26 Score=22.00 Aligned_cols=63 Identities=14% Similarity=0.279 Sum_probs=40.0
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
++.++.++..|.+ +++... +..++.++.. ++|++.+|..- ++.++ ..+++...-.+||-+++.
T Consensus 19 ~Km~~aA~~kg~~-~~I~A~---s~~e~~~~~~--~~DvvLlGPQv-----~y~~~-~~~~~~~~~giPV~vI~~ 81 (102)
T COG1440 19 TKMKKAAESKGKD-VTIEAY---SETELSEYID--NADVVLLGPQV-----RYMLK-QLKEAAEEKGIPVEVIDM 81 (102)
T ss_pred HHHHHHHHhCCCc-eEEEEe---chhHHHHhhh--cCCEEEEChHH-----HHHHH-HHHHHhcccCCCeEEeCH
Confidence 4444555557888 666553 3344455555 99999999552 22333 346677777789999874
No 183
>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=65.43 E-value=58 Score=24.71 Aligned_cols=77 Identities=12% Similarity=0.007 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCC--chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGD--PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVK 160 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~--~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~ 160 (166)
+.++.+.+.. ...++ +-..+...+ ..-...+.|++.++|-+++-.........--+=..-..|...+ +.||++..
T Consensus 65 ~v~~~~~~~~-~grvp-vi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lPv~iYn 142 (309)
T cd00952 65 AFVATVVETV-AGRVP-VFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAIAIYA 142 (309)
T ss_pred HHHHHHHHHh-CCCCC-EEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCcEEEEc
Confidence 3344444433 23455 444444333 3455668899999998888766443322211112335677778 59999986
Q ss_pred CC
Q 044140 161 MP 162 (166)
Q Consensus 161 ~~ 162 (166)
.+
T Consensus 143 ~P 144 (309)
T cd00952 143 NP 144 (309)
T ss_pred Cc
Confidence 54
No 184
>PRK00074 guaA GMP synthase; Reviewed
Probab=65.39 E-value=76 Score=26.07 Aligned_cols=36 Identities=11% Similarity=0.065 Sum_probs=28.2
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
++++|++.|.-+|.-++..+.+.. +. +++++|+...
T Consensus 216 ~~vlva~SGGvDS~vll~ll~~~l----g~----~v~av~vd~g 251 (511)
T PRK00074 216 KKVILGLSGGVDSSVAAVLLHKAI----GD----QLTCVFVDHG 251 (511)
T ss_pred CcEEEEeCCCccHHHHHHHHHHHh----CC----ceEEEEEeCC
Confidence 789999999999988887776532 34 8999999643
No 185
>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=64.68 E-value=19 Score=26.23 Aligned_cols=51 Identities=12% Similarity=0.083 Sum_probs=31.8
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
...+.+++.+.+.+.|.|++|... . ...+..+...+-+..+.||++.|...
T Consensus 19 ~~~~~~~~~~~~~gtDai~VGGS~-~---~~~~d~vv~~ik~~~~lPvilfPg~~ 69 (230)
T PF01884_consen 19 PNPEEALEAACESGTDAIIVGGSD-T---GVTLDNVVALIKRVTDLPVILFPGSP 69 (230)
T ss_dssp S-HHHHHHHHHCTT-SEEEEE-ST-H---CHHHHHHHHHHHHHSSS-EEEETSTC
T ss_pred CCcHHHHHHHHhcCCCEEEECCCC-C---ccchHHHHHHHHhcCCCCEEEeCCCh
Confidence 345666677778899999999775 1 22234455555556899999998653
No 186
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.36 E-value=26 Score=25.71 Aligned_cols=23 Identities=13% Similarity=0.252 Sum_probs=11.1
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDP 110 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~ 110 (166)
.++++.+.+.+.+ +...+..||.
T Consensus 27 ~l~~l~~~~~~~~---~D~lli~GDi 49 (253)
T TIGR00619 27 FLDDLLEFAKAEQ---IDALLVAGDV 49 (253)
T ss_pred HHHHHHHHHHHcC---CCEEEECCcc
Confidence 4455555555443 3355555543
No 187
>COG3360 Uncharacterized conserved protein [Function unknown]
Probab=64.25 E-value=20 Score=20.58 Aligned_cols=47 Identities=9% Similarity=-0.088 Sum_probs=33.6
Q ss_pred CCCCCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCC
Q 044140 1 MGDQTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPP 52 (166)
Q Consensus 1 m~~~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~ 52 (166)
|+.+.||+|.+.=........|++-|+.-|. ..-. .|..+.|.+...
T Consensus 1 m~~hvYK~IelvGtSp~S~d~Ai~~Ai~RA~-~t~~----~l~wfeV~~~rg 47 (71)
T COG3360 1 MSHHVYKKIELVGTSPTSIDAAIANAIARAA-DTLD----NLDWFEVVETRG 47 (71)
T ss_pred CCcceEEEEEEEecCCccHHHHHHHHHHHHH-hhhh----cceEEEEEeecc
Confidence 7777888887765555667788888888887 4333 788888876543
No 188
>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=64.00 E-value=37 Score=26.41 Aligned_cols=71 Identities=13% Similarity=0.150 Sum_probs=47.2
Q ss_pred HHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccch-hhhcccHHHHHhhcCC-ccEEEEcCC
Q 044140 91 SICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVK-RAVLGSVSDYSAHHCS-CTVMIVKMP 162 (166)
Q Consensus 91 ~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~-~~~~gs~~~~l~~~~~-~pVlvv~~~ 162 (166)
..+.+.+.. +-. -+..-...++|++.|++.+..+|+..+.+.-... .-++......+..+++ +||.+-=++
T Consensus 9 ~~A~~~~yA-V~AfN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~~~~~ae~~~~VPValHLDH 82 (347)
T TIGR01521 9 DHAAEFGYG-VPAFNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAGAPFLRHLILAAIEEYPHIPVVMHQDH 82 (347)
T ss_pred HHHHHcCce-EEEEeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhCCCCcEEEECCC
Confidence 334444544 332 2333478899999999999999999877643222 2345667778888886 898775443
No 189
>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=63.97 E-value=39 Score=25.35 Aligned_cols=70 Identities=11% Similarity=-0.006 Sum_probs=45.5
Q ss_pred HHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-h-hhhcccHHHHHhhcCC-ccEEEEcCC
Q 044140 92 ICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-K-RAVLGSVSDYSAHHCS-CTVMIVKMP 162 (166)
Q Consensus 92 ~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~l~~~~~-~pVlvv~~~ 162 (166)
.+.+.+.. +-. -+..-+..+++++.|++.++.+|+.-+.+.-.. . ...+......+..+++ +||.+--++
T Consensus 10 ~A~~~~ya-v~Afn~~n~e~~~avi~aAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~~a~~~~~vpv~lhlDH 83 (282)
T TIGR01859 10 KAKKEGYA-VGAFNFNNLEWTQAILEAAEEENSPVIIQVSEGAIKYMGGYKMAVAMVKTLIERMSIVPVALHLDH 83 (282)
T ss_pred HHHHCCce-EEEEEECCHHHHHHHHHHHHHhCCCEEEEcCcchhhccCcHHHHHHHHHHHHHHCCCCeEEEECCC
Confidence 34444444 332 233347789999999999999999877654322 1 1234566777888888 898765443
No 190
>PLN02828 formyltetrahydrofolate deformylase
Probab=63.90 E-value=59 Score=24.29 Aligned_cols=86 Identities=10% Similarity=0.056 Sum_probs=53.0
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
..+||+|-+.++..+..++-++.+--. .++ ++.+|-........
T Consensus 69 ~~~riavlvSg~g~nl~~ll~~~~~g~--l~~----eI~~ViSn~~~~~~------------------------------ 112 (268)
T PLN02828 69 PKYKIAVLASKQDHCLIDLLHRWQDGR--LPV----DITCVISNHERGPN------------------------------ 112 (268)
T ss_pred CCcEEEEEEcCCChhHHHHHHhhhcCC--CCc----eEEEEEeCCCCCCC------------------------------
Confidence 457999999999999998888766543 445 66665443321100
Q ss_pred HHHHHHHHHHhCCCCcccEEeec--CCchhHHHHHHhhhCCcEEEEccc
Q 044140 85 VADKATSICAKREVNDMPVHVMQ--GDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~--g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
..+.+.+++.|++ +...-.. ......+.+..+ ++|+||+...
T Consensus 113 --a~~~~~A~~~gIP-~~~~~~~~~~~~e~~~~~~l~--~~DliVLAgy 156 (268)
T PLN02828 113 --THVMRFLERHGIP-YHYLPTTKENKREDEILELVK--GTDFLVLARY 156 (268)
T ss_pred --chHHHHHHHcCCC-EEEeCCCCCCCHHHHHHHHHh--cCCEEEEeee
Confidence 1333445667888 5532222 122345666666 6999999855
No 191
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=63.71 E-value=61 Score=24.40 Aligned_cols=83 Identities=11% Similarity=0.160 Sum_probs=51.3
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
..+||.|-+.++..+..++-.+.+--. .++ ++.+|-...+
T Consensus 88 ~~~ri~vl~Sg~g~nl~al~~~~~~~~--~~~----~i~~visn~~---------------------------------- 127 (286)
T PRK13011 88 ARPKVLIMVSKFDHCLNDLLYRWRIGE--LPM----DIVGVVSNHP---------------------------------- 127 (286)
T ss_pred cCceEEEEEcCCcccHHHHHHHHHcCC--CCc----EEEEEEECCc----------------------------------
Confidence 346899999988777777777655433 344 6666544221
Q ss_pred HHHHHHHHHHhCCCCcccEEeec-C---CchhHHHHHHhhhCCcEEEEccc
Q 044140 85 VADKATSICAKREVNDMPVHVMQ-G---DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~-g---~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+...+++.|++ +...-.. . +....+.+..++.++|++|+...
T Consensus 128 ---~~~~lA~~~gIp-~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 128 ---DLEPLAAWHGIP-FHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred ---cHHHHHHHhCCC-EEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 122225667888 5432111 1 12346788889999999999854
No 192
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=63.70 E-value=26 Score=26.12 Aligned_cols=88 Identities=14% Similarity=0.051 Sum_probs=50.9
Q ss_pred ChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 044140 16 SNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAK 95 (166)
Q Consensus 16 s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 95 (166)
|-.+..-+..+++..+ ..++ ++.---++.+-...+++.+.+ ++-+....+...+
T Consensus 54 svEs~E~i~~~A~~vk-~~Ga----~~lRGgafKPRTSPYsFQGlg---------------------e~gL~~l~~a~~~ 107 (286)
T COG2876 54 SVESEEQVRETAESVK-AAGA----KALRGGAFKPRTSPYSFQGLG---------------------EEGLKLLKRAADE 107 (286)
T ss_pred ccCCHHHHHHHHHHHH-Hcch----hhccCCcCCCCCCcccccccC---------------------HHHHHHHHHHHHH
Confidence 3345555555555556 5566 655555666655555555432 1344555556667
Q ss_pred CCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCcc
Q 044140 96 REVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGA 135 (166)
Q Consensus 96 ~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~ 135 (166)
.|.. +.+++..-.-.+.+.+| +|+|=+|++.-.+
T Consensus 108 ~Gl~-vvtEvm~~~~~e~~~~y-----~DilqvGARNMQN 141 (286)
T COG2876 108 TGLP-VVTEVMDVRDVEAAAEY-----ADILQVGARNMQN 141 (286)
T ss_pred cCCe-eEEEecCHHHHHHHHhh-----hhHHHhcccchhh
Confidence 7999 77777654444444443 6788888775443
No 193
>PRK10481 hypothetical protein; Provisional
Probab=63.41 E-value=55 Score=23.75 Aligned_cols=59 Identities=12% Similarity=0.117 Sum_probs=36.3
Q ss_pred HHHhCCCCcccEEeec--CCchhHHHHHHh---hhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 92 ICAKREVNDMPVHVMQ--GDPRNVMTEAVE---RFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 92 ~~~~~~i~~~~~~v~~--g~~~~~I~~~a~---~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
.+...|.+ +...... ......+.+.++ ..++|+||++.-+.+. .....+-+....||+.
T Consensus 148 kw~~~G~~-v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~-------~~~~~le~~lg~PVI~ 211 (224)
T PRK10481 148 KWQVLQKP-PVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ-------RHRDLLQKALDVPVLL 211 (224)
T ss_pred HHHhcCCc-eeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH-------HHHHHHHHHHCcCEEc
Confidence 33344666 4433322 133446666766 5689999999887663 2345566677888874
No 194
>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=62.67 E-value=42 Score=26.19 Aligned_cols=72 Identities=15% Similarity=0.147 Sum_probs=46.8
Q ss_pred HHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccc-h-----h-----------hhcccHHHHHhhcC
Q 044140 91 SICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-K-----R-----------AVLGSVSDYSAHHC 152 (166)
Q Consensus 91 ~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-----~-----------~~~gs~~~~l~~~~ 152 (166)
..+.+.+.. +- .-+..-+..+++++.|++.+..+|+..+.+.-.. . . ..+......+..++
T Consensus 20 ~~A~~~~yA-VgAfNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~v~~~Ae~a 98 (357)
T TIGR01520 20 QYAKENNFA-IPAINCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGAHHVHSIAEHY 98 (357)
T ss_pred HHHHHCCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHHHHHHHHHHHC
Confidence 334444555 33 2333347889999999999999999987653211 1 0 11455677888899
Q ss_pred CccEEEEcCCC
Q 044140 153 SCTVMIVKMPK 163 (166)
Q Consensus 153 ~~pVlvv~~~~ 163 (166)
++||.+-=++.
T Consensus 99 ~VPValHLDHg 109 (357)
T TIGR01520 99 GVPVVLHTDHC 109 (357)
T ss_pred CCCEEEECCCC
Confidence 99988754443
No 195
>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=62.48 E-value=34 Score=22.59 Aligned_cols=41 Identities=10% Similarity=0.063 Sum_probs=28.8
Q ss_pred HHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccC
Q 044140 90 TSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
...++..|.+ +. ..-...+.+.+++.|+++++|+|.+++.-
T Consensus 22 ~~~l~~~Gfe-Vi-~LG~~v~~e~~v~aa~~~~adiVglS~l~ 62 (134)
T TIGR01501 22 DHAFTNAGFN-VV-NLGVLSPQEEFIKAAIETKADAILVSSLY 62 (134)
T ss_pred HHHHHHCCCE-EE-ECCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 3345666777 21 11123778999999999999999998654
No 196
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=62.35 E-value=32 Score=27.54 Aligned_cols=60 Identities=8% Similarity=0.098 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 71 INLVELDTKKRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 71 ~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
....++...+..+++++++.+.+.+.|.. +.+--...+..+.|.+.+++.+...|+.|..
T Consensus 38 ~~~ik~~~~~~ld~~l~~~~~~~~~~g~~-v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS 97 (432)
T TIGR00273 38 VKEIKLKVLENLDFYLDQLKENVTQRGGH-VYYAKTAEEARKIIGKVAQEKNGKKVVKSKS 97 (432)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHCCCE-EEEECCHHHHHHHHHHHHHHhCCCEEEEcCc
Confidence 34445555566777888888888877777 4332222366677889999999999999843
No 197
>PLN02858 fructose-bisphosphate aldolase
Probab=62.22 E-value=29 Score=32.20 Aligned_cols=94 Identities=11% Similarity=-0.054 Sum_probs=59.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHH
Q 044140 69 HVINLVELDTKKRAQKVADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDY 147 (166)
Q Consensus 69 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ 147 (166)
+.+.+..+.+.+-.+-.++++...+++.+.. +-.--.. -+-.+++++.|++.+..+|+..+.+.-.....-+......
T Consensus 1085 ~tL~~~~~~l~~~~~v~~~~~l~~A~~~~ya-v~afn~~n~e~~~avi~aAe~~~sPvIl~~~~~~~~~~~~~~~~~~~~ 1163 (1378)
T PLN02858 1085 TALAEVVKSWARPARSSTKELLLNAEKGGYA-VGAFNVYNLEGIEAVVAAAEAEKSPAILQVHPGALKQGGIPLVSCCIA 1163 (1378)
T ss_pred HHHHHHHHHhcCcCCccHHHHHHHHHHCCcE-EEEEEeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCHHHHHHHHH
Confidence 3333344444444444456666666666666 4433333 3889999999999999999998765322222224556677
Q ss_pred HhhcCCccEEEEcCCC
Q 044140 148 SAHHCSCTVMIVKMPK 163 (166)
Q Consensus 148 l~~~~~~pVlvv~~~~ 163 (166)
..+++++||.+-=++.
T Consensus 1164 ~a~~~~vpV~lHLDHg 1179 (1378)
T PLN02858 1164 AAEQASVPITVHFDHG 1179 (1378)
T ss_pred HHHHCCCCEEEECCCC
Confidence 8889999998754443
No 198
>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=62.07 E-value=42 Score=22.00 Aligned_cols=39 Identities=10% Similarity=0.083 Sum_probs=27.5
Q ss_pred HHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccC
Q 044140 92 ICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 92 ~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
.++.+|.+ +- ..-...+.+.+++.|.++++|+|.+++--
T Consensus 22 ~L~~~Gfe-Vi-dLG~~v~~e~~v~aa~~~~adiVglS~L~ 60 (128)
T cd02072 22 AFTEAGFN-VV-NLGVLSPQEEFIDAAIETDADAILVSSLY 60 (128)
T ss_pred HHHHCCCE-EE-ECCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 44556766 11 11123778999999999999999998653
No 199
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=61.91 E-value=56 Score=23.33 Aligned_cols=41 Identities=7% Similarity=0.049 Sum_probs=26.1
Q ss_pred HHHHHhCCCCcccEEeecC-----CchhHHHHHHhhhCCcEEEEccc
Q 044140 90 TSICAKREVNDMPVHVMQG-----DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~g-----~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+.+++.|++ +...-... ....++.+..++.++|++|+...
T Consensus 42 ~~~A~~~gIp-~~~~~~~~~~~~~~~~~~~~~~l~~~~~Dliv~agy 87 (207)
T PLN02331 42 AEYARENGIP-VLVYPKTKGEPDGLSPDELVDALRGAGVDFVLLAGY 87 (207)
T ss_pred HHHHHHhCCC-EEEeccccCCCcccchHHHHHHHHhcCCCEEEEeCc
Confidence 3355667888 54311111 11457888899999999999654
No 200
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=61.74 E-value=17 Score=27.61 Aligned_cols=48 Identities=15% Similarity=0.262 Sum_probs=34.0
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-Cccchh-hhcccHHHHHhhcCCccEEEEcC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKR-AVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~-~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+..+.++..+ ++|+||+|-.+ ...+.. +.+..+.+.| ++.||+.|.+
T Consensus 174 ~a~p~vl~AI~--~AD~IiiGPgnp~TSI~P~L~v~gi~eAL---~~a~vV~Vsp 223 (303)
T PRK13606 174 KPAPGVLEAIE--EADAVIIGPSNPVTSIGPILAVPGIREAL---TEAPVVAVSP 223 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHhhchhccchhHHHHH---hCCCEEEEcC
Confidence 45678888888 89999999654 334433 4566677777 7888886654
No 201
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=61.50 E-value=66 Score=24.08 Aligned_cols=51 Identities=4% Similarity=-0.003 Sum_probs=33.7
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
-...+.+++.++|-+++..........--+-..-..|+..++.||++...+
T Consensus 89 i~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~~lPv~iYn~P 139 (293)
T PRK04147 89 QELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSADNPMIVYNIP 139 (293)
T ss_pred HHHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhCCCCEEEEeCc
Confidence 345578899999999998765433222112223455777889999998543
No 202
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=61.50 E-value=40 Score=25.48 Aligned_cols=70 Identities=11% Similarity=0.017 Sum_probs=44.5
Q ss_pred HHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-h-hhhcccHHHHHhhcC--CccEEEEcC
Q 044140 91 SICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-K-RAVLGSVSDYSAHHC--SCTVMIVKM 161 (166)
Q Consensus 91 ~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~l~~~~--~~pVlvv~~ 161 (166)
..+.+.+.. +-. -+..-+..+++++.|++.+..+|+.-+.+.-.. . -..+......+..++ ++||.+-=+
T Consensus 11 ~~A~~~~ya-v~AfN~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~~~~~~~~~~~a~~~~~~vPV~lHLD 85 (293)
T PRK07315 11 QAARDNGYA-VGGFNTNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGYKVCKNLIENLVESMGITVPVAIHLD 85 (293)
T ss_pred HHHHHCCce-EEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCcEEEECC
Confidence 334444544 332 233347789999999999999999987654322 1 123456677788877 668876433
No 203
>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=60.88 E-value=68 Score=23.97 Aligned_cols=51 Identities=10% Similarity=0.030 Sum_probs=33.0
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcCC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKMP 162 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~~ 162 (166)
-.+.+.+++.++|-+++..........--+-..-..+...+ +.||++...+
T Consensus 86 i~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~iYn~P 137 (288)
T cd00954 86 QELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAASLPMIIYHIP 137 (288)
T ss_pred HHHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEeCc
Confidence 44557889999999998766443322211222345577778 7999998544
No 204
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=60.69 E-value=43 Score=25.54 Aligned_cols=72 Identities=10% Similarity=-0.010 Sum_probs=46.4
Q ss_pred HHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCC-ccEEEEcCCC
Q 044140 91 SICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCS-CTVMIVKMPK 163 (166)
Q Consensus 91 ~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~-~pVlvv~~~~ 163 (166)
..+.+.+.. +-. -+..-+..+++++.|++.+..+|+..+.+.-.. ...++......+..+++ +||.+-=++.
T Consensus 10 ~~A~~~~ya-V~AfN~~n~e~~~avi~AAe~~~sPvIlq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValHLDHg 84 (307)
T PRK05835 10 LKAHKEGYG-VGAFNFVNFEMLNAIFEAGNEENSPLFIQASEGAIKYMGIDMAVGMVKIMCERYPHIPVALHLDHG 84 (307)
T ss_pred HHHHHCCce-EEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhCChHHHHHHHHHHHHhcCCCeEEEECCCC
Confidence 334444544 332 233347889999999999999999987654221 11234556777788886 8998754443
No 205
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=60.69 E-value=67 Score=24.71 Aligned_cols=70 Identities=16% Similarity=0.148 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCc----hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDP----RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~----~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
...+++.+.+.+.|+. +......+++ .+.+.+.+++.++|+||-=..| +.+ .++..+......|++.|
T Consensus 36 ~~~~~v~~~L~~~~i~-~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavGGG-S~i------D~aK~ia~~~~~P~iaI 107 (351)
T cd08170 36 LVGAKIEESLAAAGID-ARFEVFGGECTRAEIERLAEIARDNGADVVIGIGGG-KTL------DTAKAVADYLGAPVVIV 107 (351)
T ss_pred HHHHHHHHHHHhCCCe-EEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEecCc-hhh------HHHHHHHHHcCCCEEEe
Confidence 3456666777777887 6544455544 4556677788899987643221 111 12222222246788888
Q ss_pred cC
Q 044140 160 KM 161 (166)
Q Consensus 160 ~~ 161 (166)
|-
T Consensus 108 PT 109 (351)
T cd08170 108 PT 109 (351)
T ss_pred CC
Confidence 84
No 206
>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=60.62 E-value=47 Score=22.20 Aligned_cols=24 Identities=17% Similarity=0.051 Sum_probs=20.1
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFF 31 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~ 31 (166)
+|+|.+.+..+|...+..+.+...
T Consensus 1 ~i~vs~SGGKDS~v~l~l~~~~~~ 24 (174)
T PF01507_consen 1 NIVVSFSGGKDSTVMLHLAREAGR 24 (174)
T ss_dssp SEEEE--SSHHHHHHHHHHHHHHT
T ss_pred CeEEEecCCHHHHHHHHHHHHhcC
Confidence 588999999999999999998888
No 207
>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=60.38 E-value=34 Score=20.44 Aligned_cols=63 Identities=6% Similarity=-0.061 Sum_probs=35.1
Q ss_pred HHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 93 CAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 93 ~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
+++.|++ ++..+.. ++-...+.+..++.++|+||--....+.... --|....+..-...+|++
T Consensus 26 L~~~Gi~-~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~-~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 26 LREAGLP-VKTLHPKVHGGILAILDLIKNGEIDLVINTLYPLGAQPH-EDGKALRRAAENIDIPGA 89 (90)
T ss_pred HHHCCCc-ceeccCCCCCCCHHHHHHhcCCCeEEEEECCCcCcceec-cCcHHHHHHHHHcCCCee
Confidence 3456888 7543322 2223469999999999999986543121110 123344555555566553
No 208
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=60.06 E-value=70 Score=23.89 Aligned_cols=66 Identities=11% Similarity=0.113 Sum_probs=38.2
Q ss_pred HHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc---CCccEEEEcCC
Q 044140 90 TSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH---CSCTVMIVKMP 162 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~---~~~pVlvv~~~ 162 (166)
.+.+.+.|+. +++.... ..-+..+.+.+.+.++|.||+. .|.+.+ ..+...++.. .++|+-++|..
T Consensus 20 ~~~l~~~g~~-~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~-GGDGTi-----~ev~ngl~~~~~~~~~~lgiiP~G 89 (293)
T TIGR03702 20 VGDLRDEGIQ-LHVRVTWEKGDAQRYVAEALALGVSTVIAG-GGDGTL-----REVATALAQIRDDAAPALGLLPLG 89 (293)
T ss_pred HHHHHHCCCe-EEEEEecCCCCHHHHHHHHHHcCCCEEEEE-cCChHH-----HHHHHHHHhhCCCCCCcEEEEcCC
Confidence 3445667877 7665443 3556677766656678877764 223333 2344445432 34689998853
No 209
>PRK00125 pyrF orotidine 5'-phosphate decarboxylase; Reviewed
Probab=59.91 E-value=72 Score=23.96 Aligned_cols=29 Identities=14% Similarity=-0.041 Sum_probs=20.3
Q ss_pred CEEEEEEcCChhH----------HHHHHHHHHhcCCCCCC
Q 044140 7 PIMMVAIDDSNHS----------YYALEWALDYFFPPFAP 36 (166)
Q Consensus 7 ~~Ilv~vd~s~~s----------~~al~~a~~la~~~~~~ 36 (166)
..+.|.+|+.+.- ..+.+|...+.+ ....
T Consensus 14 ~~lcvGlDP~~~~l~~~~~~~~~~~~~~f~~~ivd-~~~~ 52 (278)
T PRK00125 14 GSLCVGLDPHPSLLPAWGLSGDADGLFEFCRIIVD-ATAD 52 (278)
T ss_pred CCEEEEECCChHhcccccccccHHHHHHHHHHHHH-hcCC
Confidence 3477788886543 566788888888 7654
No 210
>PRK08673 3-deoxy-7-phosphoheptulonate synthase; Reviewed
Probab=59.79 E-value=80 Score=24.45 Aligned_cols=105 Identities=14% Similarity=0.121 Sum_probs=58.7
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKR 96 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 96 (166)
++.+.++++|..+.+ . ++ .+.-.+++.+.+..+++.+.+ ++-++.+.+.+.+.
T Consensus 104 Es~e~~~~~A~~lk~-~-ga----~~~r~~~fKpRTsp~sf~G~g---------------------~~gL~~L~~~~~~~ 156 (335)
T PRK08673 104 ESEEQILEIARAVKE-A-GA----QILRGGAFKPRTSPYSFQGLG---------------------EEGLKLLAEAREET 156 (335)
T ss_pred CCHHHHHHHHHHHHH-h-ch----hhccCcEecCCCCCccccccc---------------------HHHHHHHHHHHHHc
Confidence 456778888888866 4 45 655556665444444433321 23344555567778
Q ss_pred CCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 97 EVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 97 ~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
|++ +-+.+..-...+.+. +. +|++=+|++.-.... ++ +-+-.+..||++=+.
T Consensus 157 Gl~-v~tev~d~~~~~~l~----~~-vd~lqIgAr~~~N~~--LL-----~~va~~~kPViLk~G 208 (335)
T PRK08673 157 GLP-IVTEVMDPRDVELVA----EY-VDILQIGARNMQNFD--LL-----KEVGKTNKPVLLKRG 208 (335)
T ss_pred CCc-EEEeeCCHHHHHHHH----Hh-CCeEEECcccccCHH--HH-----HHHHcCCCcEEEeCC
Confidence 999 766665444444443 33 688888877543321 11 112245667766544
No 211
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=59.73 E-value=21 Score=26.58 Aligned_cols=43 Identities=9% Similarity=0.208 Sum_probs=29.3
Q ss_pred HHHHHHHhCCCCcccEEeecC----CchhHHHHHHhhhCCcEEEEccc
Q 044140 88 KATSICAKREVNDMPVHVMQG----DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g----~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.++....+.|++ +...-... .....+.+..+++++|+||+++.
T Consensus 129 dl~~~v~~~~IP-fhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY 175 (287)
T COG0788 129 DLRPLVERFDIP-FHHIPVTKENKAEAEARLLELLEEYGADLVVLARY 175 (287)
T ss_pred HHHHHHHHcCCC-eeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh
Confidence 445555666777 55433332 23466889999999999999865
No 212
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=59.71 E-value=64 Score=23.34 Aligned_cols=42 Identities=14% Similarity=0.219 Sum_probs=27.9
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.++++...+.+ + +...+ .|.....-+..+.+-++|.+|.|+.
T Consensus 158 ~~lr~~~~~~~-~-~~IeV-DGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 158 RELRAMIDERL-D-ILIEV-DGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHhcccC-C-eEEEE-eCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 34444444344 4 55544 5667777777777789999999984
No 213
>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=59.46 E-value=54 Score=22.35 Aligned_cols=35 Identities=11% Similarity=0.059 Sum_probs=27.5
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNP 51 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~ 51 (166)
+++|++.|.-+|..++-++.+ .+. +++++|+....
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~-----~g~----~v~av~~d~g~ 35 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMK-----RGI----EVDALHFNSGP 35 (177)
T ss_pred CEEEEecCChhHHHHHHHHHH-----cCC----eEEEEEEeCCC
Confidence 489999999999988877755 245 89999997643
No 214
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=59.25 E-value=99 Score=25.34 Aligned_cols=105 Identities=16% Similarity=0.170 Sum_probs=58.6
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
..+++-++.|.--...+.+|.++-+ .+.++-|...+... .
T Consensus 360 gdviltyg~s~vV~~ill~A~~~~k---------~frVvVVDSRP~~E---------------------------G---- 399 (556)
T KOG1467|consen 360 GDVLLTYGSSSVVNMILLEAKELGK---------KFRVVVVDSRPNLE---------------------------G---- 399 (556)
T ss_pred CCEEEEecchHHHHHHHHHHHHhCc---------ceEEEEEeCCCCcc---------------------------h----
Confidence 3577778888766666666555544 44455443332211 0
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccC---CccchhhhcccH-HHHHhhcCCccEEEEc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHG---YGAVKRAVLGSV-SDYSAHHCSCTVMIVK 160 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~---~~~~~~~~~gs~-~~~l~~~~~~pVlvv~ 160 (166)
....+.+...|++ +.+....+ ...|. ..++-|++|.+. .|.+.- -.|.. ..-+.+..++||+|+=
T Consensus 400 ~~~lr~Lv~~Gin-ctYv~I~a--~syim-----~evtkvfLGahailsNG~vys-R~GTa~valvAna~nVPVlVCC 468 (556)
T KOG1467|consen 400 RKLLRRLVDRGIN-CTYVLINA--ASYIM-----LEVTKVFLGAHAILSNGAVYS-RVGTACVALVANAFNVPVLVCC 468 (556)
T ss_pred HHHHHHHHHcCCC-eEEEEehh--HHHHH-----HhcceeeechhhhhcCcchhh-hcchHHHHHHhcccCCCEEEEe
Confidence 1233445667999 87765543 23333 267789999885 122211 12333 3345566789999984
No 215
>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=59.05 E-value=38 Score=26.20 Aligned_cols=70 Identities=14% Similarity=0.156 Sum_probs=45.6
Q ss_pred HHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEccc-CCcc-ch---------------hhhcccHHHHHhhcCCc
Q 044140 93 CAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSH-GYGA-VK---------------RAVLGSVSDYSAHHCSC 154 (166)
Q Consensus 93 ~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~-~~~~-~~---------------~~~~gs~~~~l~~~~~~ 154 (166)
+++.+.. +-. -+..-+..+++++.|++.+..+|+..+. +.-. .. -..+.........++++
T Consensus 8 A~~~~yA-V~AfN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~V 86 (340)
T cd00453 8 AKENNFA-LPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGV 86 (340)
T ss_pred HHHCCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHHHHHHHHHHHCCC
Confidence 3444544 332 2333477889999999999999998876 2211 11 12355677788889999
Q ss_pred cEEEEcCCC
Q 044140 155 TVMIVKMPK 163 (166)
Q Consensus 155 pVlvv~~~~ 163 (166)
||.+-=++.
T Consensus 87 PV~lHLDH~ 95 (340)
T cd00453 87 PVILHTDHC 95 (340)
T ss_pred CEEEEcCCC
Confidence 998754443
No 216
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=58.82 E-value=24 Score=23.81 Aligned_cols=21 Identities=14% Similarity=0.517 Sum_probs=11.8
Q ss_pred hhHHHHHHhhhCCcEEEEccc
Q 044140 111 RNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+.|.++.++++.|+|++|..
T Consensus 52 ~~~l~~~i~~~kP~vI~v~g~ 72 (150)
T PF14639_consen 52 MERLKKFIEKHKPDVIAVGGN 72 (150)
T ss_dssp HHHHHHHHHHH--SEEEE--S
T ss_pred HHHHHHHHHHcCCeEEEEcCC
Confidence 355666777778888888543
No 217
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=58.69 E-value=44 Score=26.17 Aligned_cols=43 Identities=14% Similarity=0.224 Sum_probs=27.3
Q ss_pred HHHHHHHHHhCCCCcccEEeecC---Cc----hhHHHHHHhhhCCcEEE-Eccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQG---DP----RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g---~~----~~~I~~~a~~~~~dliV-~g~~ 131 (166)
++++.+.+++.|+. + .+..| +| .+.+++.+++.++|.|| +|..
T Consensus 48 ~~~v~~~L~~~~i~-~--~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiGGG 98 (383)
T PRK09860 48 AGDVQKALEERNIF-S--VIYDGTQPNPTTENVAAGLKLLKENNCDSVISLGGG 98 (383)
T ss_pred HHHHHHHHHHcCCe-E--EEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 34555666666766 3 22222 23 56677888899999998 6643
No 218
>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=58.69 E-value=31 Score=24.56 Aligned_cols=46 Identities=17% Similarity=0.236 Sum_probs=34.0
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhh---CCcEEEEcccC
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERF---HPTILVLGSHG 132 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~---~~dliV~g~~~ 132 (166)
.+.+++.+++.|.. -.+.+..|+..+.|-+...+. .+|+|.+-...
T Consensus 83 ~~~A~~~~~~ag~~-~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K 131 (205)
T PF01596_consen 83 AEIARENFRKAGLD-DRIEVIEGDALEVLPELANDGEEGQFDFVFIDADK 131 (205)
T ss_dssp HHHHHHHHHHTTGG-GGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTG
T ss_pred HHHHHHHHHhcCCC-CcEEEEEeccHhhHHHHHhccCCCceeEEEEcccc
Confidence 34555566677877 678888999998888887755 69999998653
No 219
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=57.99 E-value=67 Score=23.02 Aligned_cols=72 Identities=10% Similarity=0.110 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhCCCCcccEEeec-CC------chhHH---HHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhh
Q 044140 81 RAQKVADKATSICAKREVNDMPVHVMQ-GD------PRNVM---TEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAH 150 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~~~i~~~~~~v~~-g~------~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~ 150 (166)
...+.+.++.+.+.++|++ +-..... |- ..+.| .+.+.+.++|.|-++..+ .+ ...+++..
T Consensus 106 ~~~~~i~~v~~~~~~~g~~-~iie~~~~g~~~~~~~~~~~i~~~~~~a~~~GaD~Ik~~~~~--~~------~~~~~i~~ 176 (235)
T cd00958 106 EMLEELARVAAEAHKYGLP-LIAWMYPRGPAVKNEKDPDLIAYAARIGAELGADIVKTKYTG--DA------ESFKEVVE 176 (235)
T ss_pred HHHHHHHHHHHHHHHcCCC-EEEEEeccCCcccCccCHHHHHHHHHHHHHHCCCEEEecCCC--CH------HHHHHHHh
Confidence 3444566777777788888 6544322 10 01222 344778899999885221 11 24567788
Q ss_pred cCCccEEEEcC
Q 044140 151 HCSCTVMIVKM 161 (166)
Q Consensus 151 ~~~~pVlvv~~ 161 (166)
.+++||++.-.
T Consensus 177 ~~~~pvv~~GG 187 (235)
T cd00958 177 GCPVPVVIAGG 187 (235)
T ss_pred cCCCCEEEeCC
Confidence 88999877643
No 220
>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=57.87 E-value=35 Score=25.29 Aligned_cols=38 Identities=16% Similarity=0.345 Sum_probs=19.0
Q ss_pred CCcEEEEcccC---CccchhhhcccH-HHHHhhcCCccEEEEc
Q 044140 122 HPTILVLGSHG---YGAVKRAVLGSV-SDYSAHHCSCTVMIVK 160 (166)
Q Consensus 122 ~~dliV~g~~~---~~~~~~~~~gs~-~~~l~~~~~~pVlvv~ 160 (166)
.+|.+++|+.. .|++-. -.|+. ..-+.++.++||+++-
T Consensus 176 ~vd~VliGad~v~~nG~v~n-k~Gt~~~a~~Ak~~~vPv~v~~ 217 (282)
T PF01008_consen 176 DVDKVLIGADAVLANGGVVN-KVGTLQLALAAKEFNVPVYVLA 217 (282)
T ss_dssp TESEEEEE-SEEETTS-EEE-ETTHHHHHHHHHHTT-EEEEE-
T ss_pred hCCeeEEeeeEEecCCCEee-hhhHHHHHHHHHhhCCCEEEEc
Confidence 48888888764 222221 22443 2334455678888873
No 221
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=57.72 E-value=57 Score=22.10 Aligned_cols=24 Identities=13% Similarity=0.427 Sum_probs=19.3
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCc
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.+.|.+.+++.++|+|++|....+
T Consensus 72 a~al~~~i~~~~p~~Vl~~~t~~g 95 (168)
T cd01715 72 APALVALAKKEKPSHILAGATSFG 95 (168)
T ss_pred HHHHHHHHHhcCCCEEEECCCccc
Confidence 567888888889999999977543
No 222
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=57.65 E-value=65 Score=22.73 Aligned_cols=51 Identities=6% Similarity=0.133 Sum_probs=32.4
Q ss_pred eecCCchhHHHHHHhhhCCcEEEEc----ccCCccchhhhcccHHHHHhhcCC-ccEEEEcC
Q 044140 105 VMQGDPRNVMTEAVERFHPTILVLG----SHGYGAVKRAVLGSVSDYSAHHCS-CTVMIVKM 161 (166)
Q Consensus 105 v~~g~~~~~I~~~a~~~~~dliV~g----~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv~~ 161 (166)
+...+........+++..+|++++. -...++. ...+++.+..| ++|+++-.
T Consensus 30 v~~~~~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~------~~i~~i~~~~p~~~iivlt~ 85 (207)
T PRK15411 30 INDIETVDDLAIACDSLRPSVVFINEDCFIHDASNS------QRIKQIINQHPNTLFIVFMA 85 (207)
T ss_pred EEecCCHHHHHHHHhccCCCEEEEeCcccCCCCChH------HHHHHHHHHCCCCeEEEEEC
Confidence 3344555556667777789999999 3332221 25667766655 88888854
No 223
>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=57.63 E-value=21 Score=28.38 Aligned_cols=48 Identities=13% Similarity=0.210 Sum_probs=36.7
Q ss_pred hhHHHHHHhhhCCcEEEEccc-CCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 111 RNVMTEAVERFHPTILVLGSH-GYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~-~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
...|++++++.++|++|.|-- ..+.. ...-|.++..+-.+..+|++.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrY-G~acg~va~aV~e~~~IP~vt~ 113 (431)
T TIGR01918 65 VARVLEMLKDKEPDIFIAGPAFNAGRY-GVACGEICKVVQDKLNVPAVTS 113 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccH-HHHHHHHHHHHHHhhCCCeEEE
Confidence 477899999999999999954 22222 2356888888888999999864
No 224
>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=57.60 E-value=15 Score=26.02 Aligned_cols=46 Identities=13% Similarity=0.209 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.++++++...+.|.. +...+ .|.....-+..+.+.++|.+|.|+.
T Consensus 151 ~KI~~l~~~~~~~~~~-~~I~v-DGGI~~~~~~~~~~aGad~~V~Gs~ 196 (201)
T PF00834_consen 151 EKIRELRKLIPENGLD-FEIEV-DGGINEENIKQLVEAGADIFVAGSA 196 (201)
T ss_dssp HHHHHHHHHHHHHTCG-SEEEE-ESSESTTTHHHHHHHT--EEEESHH
T ss_pred HHHHHHHHHHHhcCCc-eEEEE-ECCCCHHHHHHHHHcCCCEEEECHH
Confidence 3345566666666766 55555 5666666666666779999999953
No 225
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=57.58 E-value=53 Score=24.77 Aligned_cols=71 Identities=10% Similarity=-0.025 Sum_probs=46.0
Q ss_pred HHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccc-h-hhhcccHHHHHhhcCC--ccEEEEcCC
Q 044140 91 SICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-K-RAVLGSVSDYSAHHCS--CTVMIVKMP 162 (166)
Q Consensus 91 ~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~-~~~~gs~~~~l~~~~~--~pVlvv~~~ 162 (166)
..+.+.+.. +- .-+..-+..+++++.|++.+..+|+.-+.+.-.. . -..+......+..+++ +||.+-=++
T Consensus 11 ~~A~~~~yA-V~AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~vPV~lHLDH 86 (286)
T PRK08610 11 IDAKENGYA-VGQYNLNNLEFTQAILEASQEENAPVILGVSEGAARYMSGFYTVVKMVEGLMHDLNITIPVAIHLDH 86 (286)
T ss_pred HHHHHCCce-EEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCCEEEECCC
Confidence 334444544 33 2333347789999999999999999987754332 2 1235667777787877 688765443
No 226
>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=57.53 E-value=21 Score=28.37 Aligned_cols=48 Identities=13% Similarity=0.261 Sum_probs=36.7
Q ss_pred hhHHHHHHhhhCCcEEEEccc-CCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 111 RNVMTEAVERFHPTILVLGSH-GYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~-~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
...|++++++.++|++|.|-- ..+.. ...-|.++..+-.+..+|++.-
T Consensus 65 ~~~i~~mv~k~~pDv~iaGPaFNagrY-G~acg~va~aV~e~~~IP~vta 113 (431)
T TIGR01917 65 KAKVLEMIKGANPDIFIAGPAFNAGRY-GMAAGAITKAVQDELGIKAFTA 113 (431)
T ss_pred HHHHHHHHHhcCCCEEEEcCccCCccH-HHHHHHHHHHHHHhhCCCeEEE
Confidence 477899999999999999954 22222 2356888888888999999864
No 227
>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=56.97 E-value=81 Score=23.65 Aligned_cols=76 Identities=8% Similarity=0.002 Sum_probs=42.2
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcC
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKM 161 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~ 161 (166)
.++.+.+... ..++ +-..+...+. .-.+.+.+++.++|.|++..........-=+-..-..|...+ +.||++...
T Consensus 59 ~~~~~~~~~~-~~~p-vi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~lpv~lYn~ 136 (290)
T TIGR00683 59 IFRIAKDEAK-DQIA-LIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGLNMIVYSI 136 (290)
T ss_pred HHHHHHHHhC-CCCc-EEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCCCEEEEeC
Confidence 3344444332 2345 4444433333 445568889999999999776443322211112234566666 699999865
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
+
T Consensus 137 P 137 (290)
T TIGR00683 137 P 137 (290)
T ss_pred c
Confidence 4
No 228
>PRK13057 putative lipid kinase; Reviewed
Probab=56.92 E-value=63 Score=24.02 Aligned_cols=68 Identities=12% Similarity=0.095 Sum_probs=39.1
Q ss_pred HHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 86 ADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
..++.+.+.+.|+. +...... ...+..+++.+ ..++|+||+... .+. +..++..+. ..+.|+-++|..
T Consensus 15 ~~~i~~~l~~~g~~-~~~~~t~~~~~a~~~~~~~-~~~~d~iiv~GG-DGT-----v~~v~~~l~-~~~~~lgiiP~G 83 (287)
T PRK13057 15 LAAARAALEAAGLE-LVEPPAEDPDDLSEVIEAY-ADGVDLVIVGGG-DGT-----LNAAAPALV-ETGLPLGILPLG 83 (287)
T ss_pred HHHHHHHHHHcCCe-EEEEecCCHHHHHHHHHHH-HcCCCEEEEECc-hHH-----HHHHHHHHh-cCCCcEEEECCC
Confidence 34556666777877 6655544 23444555443 346788877532 232 234445444 457899999853
No 229
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=56.75 E-value=53 Score=25.53 Aligned_cols=70 Identities=13% Similarity=0.145 Sum_probs=46.5
Q ss_pred HHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCC-ccEEEEcCC
Q 044140 92 ICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCS-CTVMIVKMP 162 (166)
Q Consensus 92 ~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~-~pVlvv~~~ 162 (166)
.+.+.+.. +- .-+...+..+++++.|++.++-+|+.-+.+.... ...++......+..+++ +||.+-=++
T Consensus 12 ~A~~~~yA-VgAfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValHLDH 84 (347)
T PRK09196 12 HAAEHGYG-VPAFNVNNLEQVQAIMEAADETDSPVILQASAGARKYAGEPFLRHLILAAVEEYPHIPVVMHQDH 84 (347)
T ss_pred HHHHcCce-EEEeeeCCHHHHHHHHHHHHHhCCCEEEECCccHhhhCCHHHHHHHHHHHHHhCCCCcEEEECCC
Confidence 34444544 32 2333447899999999999999999987754322 22355677778888886 898765443
No 230
>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=56.63 E-value=80 Score=23.50 Aligned_cols=51 Identities=12% Similarity=0.086 Sum_probs=33.2
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
-.+.+.+++.++|-+++..........--+-..-.+|...++.||++...+
T Consensus 83 i~~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~~pi~lYn~P 133 (285)
T TIGR00674 83 ISLTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEVDLPIILYNVP 133 (285)
T ss_pred HHHHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCCCCEEEEECc
Confidence 345678889999999998765433222212223455677788999988544
No 231
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=56.37 E-value=81 Score=23.44 Aligned_cols=71 Identities=11% Similarity=0.127 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC-ccEEEEcCC
Q 044140 85 VADKATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS-CTVMIVKMP 162 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv~~~ 162 (166)
...++.+.+.+.++. +....... .....+++.+.+.++|+||+... .+.+ ..+...+..... .|+-++|..
T Consensus 20 ~~~~i~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~d~ivv~GG-DGTl-----~~v~~~l~~~~~~~~lgiiP~G 92 (293)
T TIGR00147 20 PLREVIMLLREEGME-IHVRVTWEKGDAARYVEEARKFGVDTVIAGGG-DGTI-----NEVVNALIQLDDIPALGILPLG 92 (293)
T ss_pred HHHHHHHHHHHCCCE-EEEEEecCcccHHHHHHHHHhcCCCEEEEECC-CChH-----HHHHHHHhcCCCCCcEEEEcCc
Confidence 344556666777887 66555443 23344454444557888777432 3322 233444444233 366678853
No 232
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=56.33 E-value=71 Score=24.67 Aligned_cols=64 Identities=13% Similarity=0.170 Sum_probs=35.4
Q ss_pred HHHHHHHHhCCCCcccEEeecCCc----hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 87 DKATSICAKREVNDMPVHVMQGDP----RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+.+.+.+.+.+ . +...+ .+++ .+.+.+.+++.++|+|| +|...- +.++..+.....+|++.||=
T Consensus 51 ~~l~~~l~~~~-~-~~~~~-~~~~t~~~v~~~~~~~~~~~~d~IIaiGGGsv--------~D~ak~vA~~rgip~I~IPT 119 (350)
T PRK00843 51 DRVEENLEDAG-D-VEVVI-VDEATMEEVEKVEEKAKDVNAGFLIGVGGGKV--------IDVAKLAAYRLGIPFISVPT 119 (350)
T ss_pred HHHHHHHHhcC-C-eeEEe-CCCCCHHHHHHHHHHhhccCCCEEEEeCCchH--------HHHHHHHHHhcCCCEEEeCC
Confidence 34444455555 5 54433 3333 45667777777899887 553211 23333333445688888884
No 233
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=55.84 E-value=70 Score=24.12 Aligned_cols=71 Identities=8% Similarity=-0.035 Sum_probs=45.7
Q ss_pred HHHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccc--hhhhcccHHHHHhhcCC--ccEEEEcCC
Q 044140 91 SICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV--KRAVLGSVSDYSAHHCS--CTVMIVKMP 162 (166)
Q Consensus 91 ~~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~--~~~~~gs~~~~l~~~~~--~pVlvv~~~ 162 (166)
..+.+.+.. +-. -+..-+-.+++++.|++.+..+|+..+.+.... .-..+......+..+++ +||.+-=++
T Consensus 11 ~~A~~~~yA-V~AfN~~n~e~~~avi~AAe~~~sPvIiq~~~~~~~~~~~~~~~~~~~~~~a~~~~~~VPV~lHLDH 86 (285)
T PRK07709 11 NKALEGKYA-VGQFNMNNLEWTQAILAAAEEEKSPVILGVSEGAARHMTGFKTVVAMVKALIEEMNITVPVAIHLDH 86 (285)
T ss_pred HHHHHCCce-EEEEEECCHHHHHHHHHHHHHHCCCEEEEcCcchhhhcCCHHHHHHHHHHHHHHcCCCCcEEEECCC
Confidence 334444544 332 233347789999999999999999987753322 11234567788888776 687764343
No 234
>PHA02031 putative DnaG-like primase
Probab=55.69 E-value=55 Score=24.42 Aligned_cols=37 Identities=14% Similarity=0.116 Sum_probs=30.8
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEe
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v 47 (166)
.++|++++|+.....+|...|++++. ..+. ++.++..
T Consensus 206 ~~~Vil~fDgD~AG~~Aa~ra~~~l~-~~~~----~v~vv~l 242 (266)
T PHA02031 206 CPRVLIFLDGDPAGVDGSAGAMRRLR-PLLI----EGQVIIT 242 (266)
T ss_pred CCCEEEEeCCCHHHHHHHHHHHHHHH-HcCC----ceEEEEC
Confidence 37899999999999999999999988 7666 6666655
No 235
>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=55.35 E-value=40 Score=19.58 Aligned_cols=30 Identities=17% Similarity=0.192 Sum_probs=23.6
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAP 36 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~ 36 (166)
.++|.++.|+.+...++.....+... ..+-
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~-~~g~ 72 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLL-KLGL 72 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHH-HCCC
Confidence 37899999999988888877777666 5554
No 236
>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=55.29 E-value=23 Score=26.41 Aligned_cols=91 Identities=12% Similarity=0.153 Sum_probs=51.8
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
+|-+.+.....++.-++-|-++.+ .++. ..++|++.+.... ...+..+.
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~-~Yg~-----~~I~h~tyPdnf~-------------------------~e~EttIs 52 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIK-KYGD-----VMIKHVTYPDNFM-------------------------SEQETTIS 52 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHH-HHHH-----HEEEEEE--TTGG-------------------------GCHHHHHH
T ss_pred EEEEEeCCcccChHHHHHHHHHHH-HhCc-----ceEEEEeCCCccc-------------------------chHHHHHH
Confidence 567777777778888888888888 7774 3888887654432 12234455
Q ss_pred HHHHHHHhCCCCcccEEeecC-Cc-hhHHHHHHhhhCCcEEEEcccC
Q 044140 88 KATSICAKREVNDMPVHVMQG-DP-RNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g-~~-~~~I~~~a~~~~~dliV~g~~~ 132 (166)
++..++.+.. ++..++.. .+ .-.-.+..++...|+|.++...
T Consensus 53 kI~~lAdDp~---mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~ 96 (275)
T PF12683_consen 53 KIVSLADDPD---MKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEP 96 (275)
T ss_dssp HHHGGGG-TT---EEEEEEE-SS---HHHHHHHHHH-TTSEEEESS-
T ss_pred HHHHhccCCC---ccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCC
Confidence 6666555443 44444443 22 2344566788889988887653
No 237
>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=55.27 E-value=57 Score=21.37 Aligned_cols=56 Identities=9% Similarity=0.051 Sum_probs=35.0
Q ss_pred HHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhh
Q 044140 90 TSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAH 150 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~ 150 (166)
...++..|.. +.-... .+.+.+++.+.++++|.|++.+...+... .+..+.+.+-.
T Consensus 23 ~~~l~~~Gfe---Vi~lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~--~~~~~~~~L~~ 79 (132)
T TIGR00640 23 ATAYADLGFD---VDVGPLFQTPEEIARQAVEADVHVVGVSSLAGGHLT--LVPALRKELDK 79 (132)
T ss_pred HHHHHhCCcE---EEECCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHH--HHHHHHHHHHh
Confidence 3345556766 222222 66789999999999999999866433222 23455555544
No 238
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=55.26 E-value=24 Score=23.49 Aligned_cols=47 Identities=9% Similarity=0.032 Sum_probs=26.1
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+.+.++++++|.|++.-..... . -+... -..+++.+|.|.++|
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~-~--~i~~i-i~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEE-E--QIKRI-IEELENHGVRVRVVP 175 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-H-H--HHHHH-HHHHHTTT-EEEE--
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCH-H--HHHHH-HHHHHhCCCEEEEeC
Confidence 35789999999999999998654331 1 11122 234677889999987
No 239
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=55.14 E-value=61 Score=23.44 Aligned_cols=60 Identities=10% Similarity=0.111 Sum_probs=39.8
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHH
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYS 148 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l 148 (166)
..++.+.+++.|.. +=.-+-.+.+.+.+..+.. .+|+|.+-+-.-+...+.|..+..+++
T Consensus 99 ~~~~l~~Ir~~g~k-~GlalnP~T~~~~i~~~l~--~vD~VlvMtV~PGf~GQ~fi~~~l~KI 158 (223)
T PRK08745 99 VHRTIQLIKSHGCQ-AGLVLNPATPVDILDWVLP--ELDLVLVMSVNPGFGGQAFIPSALDKL 158 (223)
T ss_pred HHHHHHHHHHCCCc-eeEEeCCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHH
Confidence 44556666777777 6665666789999999988 888877766544444444555444443
No 240
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=55.10 E-value=83 Score=23.22 Aligned_cols=44 Identities=14% Similarity=0.114 Sum_probs=23.6
Q ss_pred ecCCchhHHHHHHhhhCCcEEEEcccCCccchh-hhcccHHHHHhhc
Q 044140 106 MQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR-AVLGSVSDYSAHH 151 (166)
Q Consensus 106 ~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~-~~~gs~~~~l~~~ 151 (166)
..++..++.+.... ++||+|||+-.+.+-.= -..|.....++++
T Consensus 84 ~~~di~~e~~~e~~--~~~LLvmGkie~~GeGC~Cp~~allR~~l~~ 128 (255)
T COG3640 84 LVSDLPDEYLVENG--DIDLLVMGKIEEGGEGCACPMNALLRRLLRH 128 (255)
T ss_pred chhhhhHHHhhhcC--CccEEEeccccCCCCcccchHHHHHHHHHHH
Confidence 33455555555555 68999999765332111 1234444555554
No 241
>PRK00861 putative lipid kinase; Reviewed
Probab=54.98 E-value=88 Score=23.42 Aligned_cols=57 Identities=7% Similarity=0.124 Sum_probs=33.9
Q ss_pred CCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 98 VNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 98 i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
++ ++...... ..+..+.+.+...++|+||+.. |.+.+ ..+...++ ...+|+-++|..
T Consensus 33 ~~-~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~G-GDGTl-----~evv~~l~-~~~~~lgviP~G 90 (300)
T PRK00861 33 MD-LDIYLTTPEIGADQLAQEAIERGAELIIASG-GDGTL-----SAVAGALI-GTDIPLGIIPRG 90 (300)
T ss_pred Cc-eEEEEccCCCCHHHHHHHHHhcCCCEEEEEC-ChHHH-----HHHHHHHh-cCCCcEEEEcCC
Confidence 45 65555443 5567777777667889877642 23323 23344444 346889999864
No 242
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=54.92 E-value=89 Score=24.37 Aligned_cols=53 Identities=11% Similarity=0.100 Sum_probs=38.1
Q ss_pred eecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 105 VMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 105 v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+........-++.+++.+.|.|.|.-.- ..... -...+.+++..++||+++..
T Consensus 30 v~~a~ng~~a~~~~~~~~PDVi~ld~em-p~mdg---l~~l~~im~~~p~pVimvss 82 (350)
T COG2201 30 VGTARNGREAIDKVKKLKPDVITLDVEM-PVMDG---LEALRKIMRLRPLPVIMVSS 82 (350)
T ss_pred EEecCCHHHHHHHHHhcCCCEEEEeccc-ccccH---HHHHHHHhcCCCCcEEEEec
Confidence 3445677778889999999999998542 11111 23467889999999999965
No 243
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=54.74 E-value=44 Score=22.08 Aligned_cols=41 Identities=7% Similarity=0.085 Sum_probs=25.7
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhh--hCCcEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVER--FHPTILVLG 129 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 129 (166)
.+...+.+.|.. +.......|..+.|.+..++ .++|+||..
T Consensus 31 ~l~~~l~~~G~~-v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 31 LLAALLEEAGFN-VSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred HHHHHHHHCCCe-EEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 334455667887 66555555555666655443 279999996
No 244
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=54.41 E-value=66 Score=25.07 Aligned_cols=42 Identities=21% Similarity=0.336 Sum_probs=25.8
Q ss_pred HHHHHHHHHhCCCCcccEEe-ecCCc----hhHHHHHHhhhCCcEEEE
Q 044140 86 ADKATSICAKREVNDMPVHV-MQGDP----RNVMTEAVERFHPTILVL 128 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v-~~g~~----~~~I~~~a~~~~~dliV~ 128 (166)
.+++.+.+++.|+. +.+.- ...++ .+.+++.+++.++|.||-
T Consensus 41 ~~~v~~~L~~~g~~-~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 87 (375)
T cd08179 41 LDKVEAYLKEAGIE-VEVFEGVEPDPSVETVLKGAEAMREFEPDWIIA 87 (375)
T ss_pred HHHHHHHHHHcCCe-EEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 45566666666776 43211 12233 556778888999998884
No 245
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=54.35 E-value=59 Score=24.10 Aligned_cols=41 Identities=12% Similarity=0.123 Sum_probs=30.7
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHH---HhhhCCcEEEEc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEA---VERFHPTILVLG 129 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~---a~~~~~dliV~g 129 (166)
..+.+.+.+.|++ +......||..+.|.+. +.+. +|+||+.
T Consensus 24 ~~la~~L~~~G~~-v~~~~~VgD~~~~I~~~l~~a~~r-~D~vI~t 67 (255)
T COG1058 24 AFLADELTELGVD-LARITTVGDNPDRIVEALREASER-ADVVITT 67 (255)
T ss_pred HHHHHHHHhcCce-EEEEEecCCCHHHHHHHHHHHHhC-CCEEEEC
Confidence 4455667778999 99888889887777654 3444 9999985
No 246
>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=54.24 E-value=27 Score=21.43 Aligned_cols=44 Identities=14% Similarity=0.145 Sum_probs=28.5
Q ss_pred HHHHHHHHhCCCCcccEEeecC-CchhHHH-HHHhhhCCcEEEEcccCC
Q 044140 87 DKATSICAKREVNDMPVHVMQG-DPRNVMT-EAVERFHPTILVLGSHGY 133 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~-~~a~~~~~dliV~g~~~~ 133 (166)
+.+++.+++.|+. +.+..... .+.+.+. +... .+|+||+.....
T Consensus 19 ~~L~~aa~~~g~~-~~ve~~~~~g~~~~l~~~~i~--~Ad~vi~~~~~~ 64 (96)
T cd05569 19 EALEKAAKKLGWE-IKVETQGSLGIENELTAEDIA--EADAVILAADVP 64 (96)
T ss_pred HHHHHHHHHCCCe-EEEEEecCcCccCcCCHHHHh--hCCEEEEecCCC
Confidence 5666777888988 77665544 3333333 3344 999999986643
No 247
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=53.90 E-value=1.1e+02 Score=24.41 Aligned_cols=31 Identities=13% Similarity=0.032 Sum_probs=20.0
Q ss_pred EEcCChhHHHHHHHHHHhc-CCCCCCCCceEEEEEEe
Q 044140 12 AIDDSNHSYYALEWALDYF-FPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 12 ~vd~s~~s~~al~~a~~la-~~~~~~~~~~~l~lv~v 47 (166)
.-.|.-.+..+...|..++ . ..+. .+.++..
T Consensus 228 GptGvGKTTt~~kLA~~~~~~-~~g~----~V~li~~ 259 (424)
T PRK05703 228 GPTGVGKTTTLAKLAARYALL-YGKK----KVALITL 259 (424)
T ss_pred CCCCCCHHHHHHHHHHHHHHh-cCCC----eEEEEEC
Confidence 3345566777888888887 4 3344 6777754
No 248
>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=53.87 E-value=80 Score=23.58 Aligned_cols=116 Identities=14% Similarity=0.066 Sum_probs=57.3
Q ss_pred CEEEEEEcCC--hhHHHHHHHHHHhcCCCCCCCCceE-----EEEEEee-cCC-CCCcCCCCCCCCCCCchhhHHHHHHH
Q 044140 7 PIMMVAIDDS--NHSYYALEWALDYFFPPFAPNHTFQ-----LVLIHAR-PNP-PSLLGLSGAGQGSAGSAHVINLVELD 77 (166)
Q Consensus 7 ~~Ilv~vd~s--~~s~~al~~a~~la~~~~~~~~~~~-----l~lv~v~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (166)
+++++.+.+. ++-+.++++|.+++. . +. + +.+.-++ +.+ +...++.+.+.
T Consensus 15 ~~l~viaGPCsies~e~~~~~A~~l~~-~-~~----~~~~~i~~~~~~~~~KpRts~~~f~G~g~--------------- 73 (270)
T PF00793_consen 15 KRLLVIAGPCSIESEEQALEYAERLKE-L-GE----KLGDRIPLRMRAYFEKPRTSPYSFQGLGL--------------- 73 (270)
T ss_dssp SSEEEEEEESB-S-HHHHHHHHHHHHH-H-HH----HHTTTEEEEEEECSC-TTSSTTST-CSTH---------------
T ss_pred CceEEEEECCccCCHHHHHHHHHHHHH-h-hh----hcCcceEEEEEEEecCCccCCCCCCCCCC---------------
Confidence 4566666553 456677888887766 4 22 4 4445555 233 33334444321
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 78 TKKRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 78 ~~~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
+ .-++...+.....|++ +-+++..-...+.+ ++ -+|++-+|++.-... .-...+..+++||.
T Consensus 74 --d---~~L~~l~~v~~~~glp-v~tEv~~~~~~~~~---~d--~vd~lqIgAr~~~n~-------~ll~~as~~~~pV~ 135 (270)
T PF00793_consen 74 --D---PGLDILSEVKEGLGLP-VATEVLDPEQAEYV---AD--LVDWLQIGARLMENQ-------DLLEAASGTGKPVG 135 (270)
T ss_dssp --H---HHHHHHHHHHHHHT-E-EEEEESSGGGHHHH---HT--TESEEEE-GGGTTCH-------HHHHHHHCTSSEEE
T ss_pred --C---ccchhHHHHHhhhCCe-eeEEecCcccHHHH---Hh--cCcEEEECcchhcCH-------HHHHHhccCCCeEE
Confidence 0 1112222222223888 66666554433332 33 489999998753321 12245557889998
Q ss_pred EEcC
Q 044140 158 IVKM 161 (166)
Q Consensus 158 vv~~ 161 (166)
+=++
T Consensus 136 ~K~g 139 (270)
T PF00793_consen 136 FKNG 139 (270)
T ss_dssp EEE-
T ss_pred eccC
Confidence 7554
No 249
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=53.72 E-value=1.2e+02 Score=24.56 Aligned_cols=49 Identities=8% Similarity=-0.020 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 81 RAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
...+.+..+.+.+++.|+. ..+.. .|++.+.|.+.+++.+++-|.....
T Consensus 48 fl~~sL~~L~~~L~~~G~~-L~v~~-~g~~~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 48 WLKQSLAHLDQSLRSLGTC-LVTIR-STDTVAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred HHHHHHHHHHHHHHHcCCc-eEEEe-CCCHHHHHHHHHHHcCCCEEEEecc
Confidence 5556677777788878888 43321 4899999999999999999988765
No 250
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=53.48 E-value=81 Score=24.78 Aligned_cols=63 Identities=11% Similarity=-0.012 Sum_probs=37.1
Q ss_pred HHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCc-----cchhhhcccHHHHHhhcCCccEEE
Q 044140 91 SICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYG-----AVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 91 ~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~-----~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
..+++.++. +++++. .....++.+.+.+.++|+|++-.+..+ +.... - ...+++++.++||++
T Consensus 126 ~~vr~a~Vt-vkiRl~-~~~~~e~a~~l~eAGad~I~ihgrt~~q~~~sg~~~p--~-~l~~~i~~~~IPVI~ 193 (369)
T TIGR01304 126 AEVRDSGVI-TAVRVS-PQNAREIAPIVVKAGADLLVIQGTLVSAEHVSTSGEP--L-NLKEFIGELDVPVIA 193 (369)
T ss_pred HHHHhcceE-EEEecC-CcCHHHHHHHHHHCCCCEEEEeccchhhhccCCCCCH--H-HHHHHHHHCCCCEEE
Confidence 334444555 555551 245778999999999999998533111 10011 1 233566777899885
No 251
>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=53.30 E-value=89 Score=24.32 Aligned_cols=127 Identities=13% Similarity=0.135 Sum_probs=62.4
Q ss_pred CCEEEEEEcCC--hhHHHHHHHHHHhcCCCC---CCCCceEEEEEEeec-CCCCCcCCCCCCCCCCCchhhHHHHHHHHH
Q 044140 6 KPIMMVAIDDS--NHSYYALEWALDYFFPPF---APNHTFQLVLIHARP-NPPSLLGLSGAGQGSAGSAHVINLVELDTK 79 (166)
Q Consensus 6 ~~~Ilv~vd~s--~~s~~al~~a~~la~~~~---~~~~~~~l~lv~v~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (166)
.+++||.+.+. ++...+++||.+++. .. ..+ -+.++.++- .+.....+.+..+ .+.++...+.
T Consensus 50 d~rllvIvGPCSIhd~~~a~eyA~rL~~-l~~~~~d~---l~ivmR~y~eKPRTt~gWKGli~-----DP~ldgsf~i-- 118 (348)
T PRK12756 50 DPRLLVIIGPCSIHDTDAALDYATRLAA-LREQYQDR---LEIVMRTYFEKPRTVVGWKGLIS-----DPDLDGSYRV-- 118 (348)
T ss_pred CCceEEEecCCcCCCHHHHHHHHHHHHH-HHHHhhcc---EEEEEEeccccCCCCcccccccC-----CCCCCCCccH--
Confidence 46788888885 567888999977766 42 220 234555643 2222221111111 0001000011
Q ss_pred HHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEE---EEcccCCccchhhhcccHHHHHhhcCCccE
Q 044140 80 KRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTIL---VLGSHGYGAVKRAVLGSVSDYSAHHCSCTV 156 (166)
Q Consensus 80 ~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dli---V~g~~~~~~~~~~~~gs~~~~l~~~~~~pV 156 (166)
...-+...++...+.+.|++ +-++++.-- .-++-+|+| .+|++.-. ..+-..+....+|||
T Consensus 119 ~~GL~~~R~ll~~i~~~GlP-~atE~ld~~--------~~qY~~DliSwgaIGARt~e-------sq~hre~ASgls~PV 182 (348)
T PRK12756 119 NHGLELARKLLLQINELGLP-TATEFLDMV--------TGQYIADLISWGAIGARTTE-------SQIHREMASALSCPV 182 (348)
T ss_pred HHHHHHHHHHHHHHHHcCCc-eeehhcccc--------cHHHHHHHHhhhhhcccccc-------CHHHHHHHhcCCCce
Confidence 11112222232233567888 655554442 224456777 67766432 123456677778998
Q ss_pred EEE
Q 044140 157 MIV 159 (166)
Q Consensus 157 lvv 159 (166)
.+=
T Consensus 183 gfK 185 (348)
T PRK12756 183 GFK 185 (348)
T ss_pred Eec
Confidence 764
No 252
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=53.28 E-value=58 Score=25.05 Aligned_cols=70 Identities=9% Similarity=0.048 Sum_probs=42.6
Q ss_pred HHHhCCCCcccE-EeecCCchhHHHHHHhhhCCcEEEEcccCCccchh----hhcccHHHHHhhcC--CccEEEEcCC
Q 044140 92 ICAKREVNDMPV-HVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKR----AVLGSVSDYSAHHC--SCTVMIVKMP 162 (166)
Q Consensus 92 ~~~~~~i~~~~~-~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~----~~~gs~~~~l~~~~--~~pVlvv~~~ 162 (166)
.+.+.+.. +-. -+..-+..+++++.|++.++.+|+..+.+...... ..+........+++ ++||.+-=++
T Consensus 18 ~A~~~~yA-V~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~g~~~~~~~~~~~~~~a~~a~~~VPV~lHLDH 94 (321)
T PRK07084 18 KAVKGGYA-IPAYNFNNMEQLQAIIQACVETKSPVILQVSKGARKYANATLLRYMAQGAVEYAKELGCPIPIVLHLDH 94 (321)
T ss_pred HHHHCCce-EEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHHhhCCchHHHHHHHHHHHHHHHcCCCCcEEEECCC
Confidence 34444544 332 33334889999999999999999998765322111 12333345566666 6888765443
No 253
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=53.04 E-value=96 Score=23.31 Aligned_cols=76 Identities=5% Similarity=-0.026 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhCCCCcccEEeec-C-------------CchhHHHHHHhhhCCcEEEE--cccCCccch-hhhcccHHH
Q 044140 84 KVADKATSICAKREVNDMPVHVMQ-G-------------DPRNVMTEAVERFHPTILVL--GSHGYGAVK-RAVLGSVSD 146 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~-g-------------~~~~~I~~~a~~~~~dliV~--g~~~~~~~~-~~~~gs~~~ 146 (166)
+.-.++.+.+..+|+. ++..+.+ | ...++..+++++.++|.|-+ |+-....-. ..+-=....
T Consensus 115 ~~t~~v~~~a~~~gv~-veaE~ghlG~~d~~~~~~g~s~t~~eea~~f~~~tg~DyLAvaiG~~hg~~~~~~~l~~~~L~ 193 (281)
T PRK06806 115 QKTKEIVELAKQYGAT-VEAEIGRVGGSEDGSEDIEMLLTSTTEAKRFAEETDVDALAVAIGNAHGMYNGDPNLRFDRLQ 193 (281)
T ss_pred HHHHHHHHHHHHcCCe-EEEEeeeECCccCCcccccceeCCHHHHHHHHHhhCCCEEEEccCCCCCCCCCCCccCHHHHH
Confidence 3345677788888888 7754432 2 22345566677779999999 753211111 111112345
Q ss_pred HHhhcCCccEEEEc
Q 044140 147 YSAHHCSCTVMIVK 160 (166)
Q Consensus 147 ~l~~~~~~pVlvv~ 160 (166)
++-..+++|++++-
T Consensus 194 ~i~~~~~iPlV~hG 207 (281)
T PRK06806 194 EINDVVHIPLVLHG 207 (281)
T ss_pred HHHHhcCCCEEEEC
Confidence 56667789987764
No 254
>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=53.01 E-value=33 Score=22.95 Aligned_cols=15 Identities=7% Similarity=-0.161 Sum_probs=10.0
Q ss_pred hhHHHHHHHHHHhcC
Q 044140 17 NHSYYALEWALDYFF 31 (166)
Q Consensus 17 ~~s~~al~~a~~la~ 31 (166)
-.+.-++..+..+++
T Consensus 10 GKT~va~~L~~~l~~ 24 (166)
T TIGR00347 10 GKTVASSALAAKLKK 24 (166)
T ss_pred cHHHHHHHHHHHHHH
Confidence 346666777777766
No 255
>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=52.73 E-value=56 Score=20.52 Aligned_cols=64 Identities=9% Similarity=-0.062 Sum_probs=36.7
Q ss_pred HhCCCCcccEEeec-CCchhHHHHHHhh-hCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 94 AKREVNDMPVHVMQ-GDPRNVMTEAVER-FHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 94 ~~~~i~~~~~~v~~-g~~~~~I~~~a~~-~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
++.|++ ++..... +.-...|.+..++ .++|+||--..+...-...--|....+..-..++|++.
T Consensus 39 ~~~Gi~-~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T 104 (112)
T cd00532 39 ADAGIP-VRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTT 104 (112)
T ss_pred HHcCCc-eEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEE
Confidence 346888 6654332 1123668899999 99999998644332100111244445555556788764
No 256
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=52.50 E-value=1.2e+02 Score=24.39 Aligned_cols=33 Identities=21% Similarity=0.200 Sum_probs=21.0
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEe
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v 47 (166)
++++.-++-.+..+...|..+.+ . +- .+.++..
T Consensus 99 ~lvG~~GsGKTTtaakLA~~L~~-~-g~----kV~lV~~ 131 (437)
T PRK00771 99 MLVGLQGSGKTTTAAKLARYFKK-K-GL----KVGLVAA 131 (437)
T ss_pred EEECCCCCcHHHHHHHHHHHHHH-c-CC----eEEEecC
Confidence 34555666667777778877765 3 44 6666654
No 257
>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=52.50 E-value=17 Score=23.78 Aligned_cols=39 Identities=13% Similarity=-0.032 Sum_probs=32.0
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
..+|+|+.|....|....+.++.-.. ..+. ++..+...+
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~-~~G~----~V~~~g~~~ 78 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLR-ANGV----DVIDIGLVP 78 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHH-HTTE----EEEEEEEB-
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHh-hccc----ccccccccC
Confidence 57899999999999999999999999 8777 888777544
No 258
>TIGR01819 F420_cofD LPPG:FO 2-phospho-L-lactate transferase. This model represents LPPG:Fo 2-phospho-L-lactate transferase, which catalyses the fourth step in the biosynthesis of coenzyme F420, a flavin derivative found in methanogens, the Mycobacteria, and several other lineages. This enzyme is characterized so far in Methanococcus jannaschii but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. The clade represented by this model is one of two major divisions of proteins in pfam model pfam01933.
Probab=52.38 E-value=32 Score=26.10 Aligned_cols=48 Identities=13% Similarity=0.157 Sum_probs=32.5
Q ss_pred CchhHHHHHHhhhCCcEEEEcccC-Cccchh-hhcccHHHHHhhcCCccEEEEcC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHG-YGAVKR-AVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~-~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+..+.++..+ ++|+||+|-.+ ...+.. +++..+.+.| ++ .||+.|.+
T Consensus 171 ~a~peal~AI~--~AD~IIlGPgsp~TSI~P~LlVpgIreAL-~~--a~vV~Vsp 220 (297)
T TIGR01819 171 SIAPKVLEAIR--KEDNILIGPSNPITSIGPILSLPGIREAL-RD--KKVVAVSP 220 (297)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHHHH-Hc--CCEEEEcc
Confidence 56778889998 89999999654 344443 3455566655 44 77776654
No 259
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=52.36 E-value=1.1e+02 Score=23.77 Aligned_cols=68 Identities=15% Similarity=0.188 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCc----hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDP----RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
..+++.+.+.+.|+. +......+++ .+.+.+.+++.++|.|| +|..+- ..++..+......|++.|
T Consensus 44 ~~~~v~~~l~~~~~~-~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGGsv--------~D~aK~iA~~~~~p~i~I 114 (366)
T PRK09423 44 VGDRVEASLKEAGLT-VVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGGGKT--------LDTAKAVADYLGVPVVIV 114 (366)
T ss_pred HHHHHHHHHHhCCCe-EEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecChHH--------HHHHHHHHHHcCCCEEEe
Confidence 446666667777777 5443445544 44566777888999888 442221 122223323346788888
Q ss_pred cC
Q 044140 160 KM 161 (166)
Q Consensus 160 ~~ 161 (166)
|=
T Consensus 115 PT 116 (366)
T PRK09423 115 PT 116 (366)
T ss_pred CC
Confidence 84
No 260
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=52.18 E-value=74 Score=24.81 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=27.8
Q ss_pred HHHHHHHHHhCCCCcccEE-eecCCc----hhHHHHHHhhhCCcEEE-Eccc
Q 044140 86 ADKATSICAKREVNDMPVH-VMQGDP----RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~-v~~g~~----~~~I~~~a~~~~~dliV-~g~~ 131 (166)
.+++.+.+++.|+. +... -..+++ .+.+++.+++.++|.|| +|..
T Consensus 40 ~~~v~~~L~~~gi~-~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 90 (375)
T cd08194 40 VDKLTDSLKKEGIE-SAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALGGG 90 (375)
T ss_pred HHHHHHHHHHCCCe-EEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44566666666776 5432 123333 45677778889999988 6643
No 261
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=52.07 E-value=67 Score=21.19 Aligned_cols=42 Identities=7% Similarity=-0.028 Sum_probs=30.3
Q ss_pred HHHHHHhCCCCcccEEee-cCCchhHHHHHHhhhCCcEEEEcccCC
Q 044140 89 ATSICAKREVNDMPVHVM-QGDPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~-~g~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
+...++..|.+ +..+ ..-+.+.+++.+.++++|+|.++....
T Consensus 23 v~~~lr~~G~e---Vi~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~ 65 (137)
T PRK02261 23 LDRALTEAGFE---VINLGVMTSQEEFIDAAIETDADAILVSSLYG 65 (137)
T ss_pred HHHHHHHCCCE---EEECCCCCCHHHHHHHHHHcCCCEEEEcCccc
Confidence 34455666777 2222 237789999999999999999986543
No 262
>PF02610 Arabinose_Isome: L-arabinose isomerase; InterPro: IPR003762 The Escherichia coli araBAD operon consists of three genes encoding three enzymes that convert L-arabinose to D-xylulose-5 phosphate. L-arabinose isomerase (AraA) 5.3.1.4 from EC catalyses the conversion of L-arabinose to L-ribulose as the first step in the pathway of L-arabinose utilization as a carbon source [].; GO: 0008733 L-arabinose isomerase activity, 0008152 metabolic process; PDB: 4F2D_A 2AJT_C 2HXG_C.
Probab=52.04 E-value=1.1e+02 Score=23.87 Aligned_cols=75 Identities=8% Similarity=0.057 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCcccEEeec-CCchhHHHHH---Hh-hhCCcEEEEcccCCccchhhhcccHHHHHhh
Q 044140 76 LDTKKRAQKVADKATSICAKREVNDMPVHVMQ-GDPRNVMTEA---VE-RFHPTILVLGSHGYGAVKRAVLGSVSDYSAH 150 (166)
Q Consensus 76 ~~~~~~~~~~l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~---a~-~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~ 150 (166)
++..+.++++.+.+. ....++ +++.... -+..++|.+. ++ ..+++.||+=-+.++..+.++ ..++
T Consensus 25 ~~v~~~s~~i~~~l~---~~~~~p-~~vv~k~~~~t~~~i~~~~~~an~~~~c~gvi~wMhTfSpakmwI------~gl~ 94 (359)
T PF02610_consen 25 KQVAEHSREIVDGLN---ASGSLP-VKVVFKPVVTTPEEITRVCKEANADEDCDGVITWMHTFSPAKMWI------PGLQ 94 (359)
T ss_dssp HHHHHHHHHHHHHHH---HHS--S-SEEEE---B-SHHHHHHHHHHHHH-TTEEEEEEEESS---THHHH------HHHH
T ss_pred HHHHHHHHHHHHHHh---hcCCCc-eEEEecCccCCHHHHHHHHHHhhccCCccEEeehhhhhccHHHHH------HHHH
Confidence 333444444433332 233455 5443322 1444455444 43 358888888878777665543 4577
Q ss_pred cCCccEEEEc
Q 044140 151 HCSCTVMIVK 160 (166)
Q Consensus 151 ~~~~pVlvv~ 160 (166)
..++|++.+.
T Consensus 95 ~l~kPllhl~ 104 (359)
T PF02610_consen 95 RLQKPLLHLH 104 (359)
T ss_dssp H--S-EEEEE
T ss_pred HhCCCeEEee
Confidence 8899999885
No 263
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=51.97 E-value=95 Score=22.95 Aligned_cols=43 Identities=14% Similarity=0.182 Sum_probs=28.7
Q ss_pred HHHHhhhCCcEEEEcccCCc-cchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 115 TEAVERFHPTILVLGSHGYG-AVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 115 ~~~a~~~~~dliV~g~~~~~-~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
....+++++|.||.=..|.. +....+ ...+...+||++|.++.
T Consensus 190 ~al~~~~~i~~lVtK~SG~~Gg~~eKi------~AA~~lgi~vivI~RP~ 233 (256)
T TIGR00715 190 KALLREYRIDAVVTKASGEQGGELEKV------KAAEALGINVIRIARPQ 233 (256)
T ss_pred HHHHHHcCCCEEEEcCCCCccchHHHH------HHHHHcCCcEEEEeCCC
Confidence 35678889999998555443 222221 45667899999997664
No 264
>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=51.80 E-value=57 Score=20.36 Aligned_cols=42 Identities=12% Similarity=0.173 Sum_probs=28.5
Q ss_pred HHHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEccc
Q 044140 87 DKATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
..+...+++.|.+ +. .... ...+.+.+.+++.++|+|.++..
T Consensus 18 ~~la~~l~~~G~~-v~--~~d~~~~~~~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 18 LYLAAYLRKAGHE-VD--ILDANVPPEELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHHHTTBE-EE--EEESSB-HHHHHHHHHHTTCSEEEEEES
T ss_pred HHHHHHHHHCCCe-EE--EECCCCCHHHHHHHHhcCCCcEEEEEcc
Confidence 3445555666666 43 3333 33589999999999999999874
No 265
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=51.79 E-value=27 Score=20.39 Aligned_cols=30 Identities=13% Similarity=0.179 Sum_probs=21.8
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAP 36 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~ 36 (166)
.++|++++|++.....+..+..+... ..+.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~-~~gi 75 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLL-PLGI 75 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-----
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHH-hhcc
Confidence 48899999999999988888888655 4443
No 266
>PLN02476 O-methyltransferase
Probab=51.60 E-value=62 Score=24.29 Aligned_cols=48 Identities=10% Similarity=0.085 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHh---hhCCcEEEEcccC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVE---RFHPTILVLGSHG 132 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~---~~~~dliV~g~~~ 132 (166)
+..+.+++.+++.|+. -.+.+..|+..+.+-+... ...+|+|++....
T Consensus 154 e~~~~Ar~n~~~aGl~-~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K 204 (278)
T PLN02476 154 NSLEVAKRYYELAGVS-HKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADK 204 (278)
T ss_pred HHHHHHHHHHHHcCCC-CcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCH
Confidence 3345556666778888 6788889999888776643 2479999998763
No 267
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=51.42 E-value=63 Score=24.96 Aligned_cols=50 Identities=14% Similarity=0.185 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccch
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVK 137 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 137 (166)
.++..+...+++.|.+ +.+..+.- ..+.+..+.++++.+++|.++.+...
T Consensus 14 hfFk~~I~eL~~~Ghe-V~it~R~~---~~~~~LL~~yg~~y~~iG~~g~~~~~ 63 (335)
T PF04007_consen 14 HFFKNIIRELEKRGHE-VLITARDK---DETEELLDLYGIDYIVIGKHGDSLYG 63 (335)
T ss_pred HHHHHHHHHHHhCCCE-EEEEEecc---chHHHHHHHcCCCeEEEcCCCCCHHH
Confidence 4567777778888888 66666554 45666677889999999988855433
No 268
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=51.30 E-value=81 Score=24.26 Aligned_cols=66 Identities=17% Similarity=0.318 Sum_probs=36.0
Q ss_pred HHHHHHHHhCCCCcccEEee-cCC--c----hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 87 DKATSICAKREVNDMPVHVM-QGD--P----RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~-~g~--~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
+++.+.+.+.|+. +.+... .++ + .+.+.+.+++ ++|.|| +|...- ..++..+......|++.
T Consensus 40 ~~v~~~l~~~~i~-~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIGGGs~--------~D~aK~vA~~~~~p~i~ 109 (348)
T cd08175 40 KKVEALLKRAGVV-VLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVGSGTI--------NDITKYVSYKTGIPYIS 109 (348)
T ss_pred HHHHHHHHHCCCe-eEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEECCcHH--------HHHHHHHHHhcCCCEEE
Confidence 4556666667776 544332 232 3 3345555555 899888 553211 12333333345689999
Q ss_pred EcCC
Q 044140 159 VKMP 162 (166)
Q Consensus 159 v~~~ 162 (166)
||=.
T Consensus 110 IPTT 113 (348)
T cd08175 110 VPTA 113 (348)
T ss_pred ecCc
Confidence 9853
No 269
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=51.16 E-value=95 Score=22.69 Aligned_cols=57 Identities=7% Similarity=0.133 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCCccch
Q 044140 80 KRAQKVADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGYGAVK 137 (166)
Q Consensus 80 ~~~~~~l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~~~~~ 137 (166)
+..-+.+..+++.+.+.|+. ++...-+ -+..+.|..++....+|+|-+=+...+++.
T Consensus 119 ~~QI~~l~~Lr~~L~~~g~~-v~iVADEWCNT~eDI~~F~da~A~dmVQIKtPDLGgi~ 176 (248)
T PF07476_consen 119 EAQIEALAELREELDRRGIN-VEIVADEWCNTLEDIREFADAKAADMVQIKTPDLGGIN 176 (248)
T ss_dssp HHHHHHHHHHHHHHHHCT---EEEEE-TT--SHHHHHHHHHTT-SSEEEE-GGGGSSTH
T ss_pred HHHHHHHHHHHHHHHhcCCC-CeEEeehhcCCHHHHHHHHhcCCcCEEEecCCCccchh
Confidence 34456678888999999999 8776654 588999999999999999999877766654
No 270
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=50.87 E-value=1.1e+02 Score=23.18 Aligned_cols=50 Identities=12% Similarity=0.028 Sum_probs=32.8
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
-.+.+.+++.++|-+++..........--+-..-..+...++.||++...
T Consensus 91 i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~~lpi~lYn~ 140 (303)
T PRK03620 91 IEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKSTDLGVIVYNR 140 (303)
T ss_pred HHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhCCCCEEEEcC
Confidence 34557788999999999876543322221223345577788999999854
No 271
>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=50.83 E-value=93 Score=22.49 Aligned_cols=42 Identities=7% Similarity=0.105 Sum_probs=23.7
Q ss_pred HHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCc
Q 044140 90 TSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.+.+.+.+.. -.++...|+..+.++..-+ ++|++|+-.+.+.
T Consensus 86 ~~~l~~~~~~-~~vEfvvg~~~e~~~~~~~--~iDF~vVDc~~~d 127 (218)
T PF07279_consen 86 KKALGEAGLS-DVVEFVVGEAPEEVMPGLK--GIDFVVVDCKRED 127 (218)
T ss_pred HHHHhhcccc-ccceEEecCCHHHHHhhcc--CCCEEEEeCCchh
Confidence 3344444544 2234445766666665555 7888888776443
No 272
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=50.74 E-value=64 Score=24.08 Aligned_cols=32 Identities=9% Similarity=0.089 Sum_probs=18.8
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhccc
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGS 143 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs 143 (166)
+.+....+..++|+|++-+.|+.......+..
T Consensus 144 ~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~e 175 (270)
T PRK06731 144 RALTYFKEEARVDYILIDTAGKNYRASETVEE 175 (270)
T ss_pred HHHHHHHhcCCCCEEEEECCCCCcCCHHHHHH
Confidence 33333333357999999988776544333333
No 273
>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=50.72 E-value=1.3e+02 Score=24.30 Aligned_cols=25 Identities=12% Similarity=0.032 Sum_probs=20.4
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFF 31 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~ 31 (166)
..++|++.+..+|..++..+..-..
T Consensus 14 ~p~vV~fSGGKDSta~L~Lv~~Al~ 38 (447)
T TIGR03183 14 IPWVVGYSGGKDSTAVLQLIWNALA 38 (447)
T ss_pred CceEEEeCCCHHHHHHHHHHHHHHH
Confidence 4478999999999999988876543
No 274
>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=50.57 E-value=1.1e+02 Score=23.09 Aligned_cols=76 Identities=12% Similarity=0.044 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcC
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKM 161 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~ 161 (166)
.++.+.+... ..++ +-..+...+.. -.+.+.|++.++|.+++...........=+-..-..|...+ +.||++.-.
T Consensus 58 l~~~~~~~~~-g~~p-vi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lpv~iYn~ 135 (294)
T TIGR02313 58 AIENAIDQIA-GRIP-FAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFPIIIYNI 135 (294)
T ss_pred HHHHHHHHhC-CCCc-EEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCCEEEEeC
Confidence 3344444332 2355 43333333333 34668889999999999877544332221223345577788 799999854
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
+
T Consensus 136 P 136 (294)
T TIGR02313 136 P 136 (294)
T ss_pred c
Confidence 3
No 275
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=50.37 E-value=97 Score=22.56 Aligned_cols=58 Identities=9% Similarity=0.064 Sum_probs=36.0
Q ss_pred HHHHHHHHhCCC--CcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHH
Q 044140 87 DKATSICAKREV--NDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDY 147 (166)
Q Consensus 87 ~~~~~~~~~~~i--~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ 147 (166)
.++.+.+++.|. . +=.-+-.+.+.+.|..+.. ..|+|.+-+-..+...+.|.....++
T Consensus 106 ~~~l~~Ik~~g~~~k-aGlalnP~Tp~~~i~~~l~--~vD~VLiMtV~PGfgGQ~f~~~~l~K 165 (228)
T PRK08091 106 ALTIEWLAKQKTTVL-IGLCLCPETPISLLEPYLD--QIDLIQILTLDPRTGTKAPSDLILDR 165 (228)
T ss_pred HHHHHHHHHCCCCce-EEEEECCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHH
Confidence 345555666777 4 4344445799999999999 78888776554444344454443333
No 276
>cd07392 MPP_PAE1087 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain. PAE1087 is an uncharacterized Pyrobaculum aerophilum protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordina
Probab=50.26 E-value=56 Score=22.02 Aligned_cols=45 Identities=4% Similarity=-0.141 Sum_probs=21.7
Q ss_pred HHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 117 AVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 117 ~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
.+++.++|+||++.-=.......-.. .. ..+...++|+++|+...
T Consensus 18 ~~~~~~~D~vv~~GDl~~~~~~~~~~-~~-~~l~~~~~p~~~v~GNH 62 (188)
T cd07392 18 ILKAEEADAVIVAGDITNFGGKEAAV-EI-NLLLAIGVPVLAVPGNC 62 (188)
T ss_pred HhhccCCCEEEECCCccCcCCHHHHH-HH-HHHHhcCCCEEEEcCCC
Confidence 34555777777764311100000000 01 45566677888887654
No 277
>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=50.13 E-value=47 Score=23.20 Aligned_cols=8 Identities=25% Similarity=0.683 Sum_probs=4.0
Q ss_pred EEEcccCC
Q 044140 126 LVLGSHGY 133 (166)
Q Consensus 126 iV~g~~~~ 133 (166)
++.|.+..
T Consensus 81 ~~~GNHD~ 88 (223)
T cd00840 81 IIAGNHDS 88 (223)
T ss_pred EecCCCCC
Confidence 44555543
No 278
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=50.07 E-value=56 Score=25.57 Aligned_cols=45 Identities=13% Similarity=0.183 Sum_probs=27.0
Q ss_pred HHHHHHHHHhCCCCcccEEe-ecCCc----hhHHHHHHhhhCCcEEE-Eccc
Q 044140 86 ADKATSICAKREVNDMPVHV-MQGDP----RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v-~~g~~----~~~I~~~a~~~~~dliV-~g~~ 131 (166)
.+++.+.+++.|+. +.+-- ...++ .+.+++.+++.++|+|| +|..
T Consensus 47 ~~~v~~~L~~~g~~-~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 97 (382)
T PRK10624 47 VAKVTDVLDAAGLA-YEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGGG 97 (382)
T ss_pred hHHHHHHHHHCCCe-EEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCh
Confidence 44555666666776 54321 12233 34566778889999988 6643
No 279
>PRK08005 epimerase; Validated
Probab=49.93 E-value=80 Score=22.62 Aligned_cols=60 Identities=3% Similarity=-0.053 Sum_probs=39.4
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHH
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYS 148 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l 148 (166)
..++.+.+++.|.. +=.-+-.+.+.+.+..+.. ..|+|.+-+-.-+...+.|....-+++
T Consensus 95 ~~~~l~~Ik~~G~k-~GlAlnP~Tp~~~i~~~l~--~vD~VlvMsV~PGf~GQ~f~~~~~~KI 154 (210)
T PRK08005 95 PSEILADIRAIGAK-AGLALNPATPLLPYRYLAL--QLDALMIMTSEPDGRGQQFIAAMCEKV 154 (210)
T ss_pred HHHHHHHHHHcCCc-EEEEECCCCCHHHHHHHHH--hcCEEEEEEecCCCccceecHHHHHHH
Confidence 44555666777777 6555666789999999988 888877766544444444555444444
No 280
>TIGR01440 conserved hypothetical protein TIGR01440. Members of this family are uncharacterized proteins of about 180 amino acids from the Bacillus/Clostridium group of Gram-positive bacteria, found in no more than one copy per genome.
Probab=49.87 E-value=84 Score=21.69 Aligned_cols=112 Identities=15% Similarity=0.075 Sum_probs=67.7
Q ss_pred HHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 044140 19 SYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKREV 98 (166)
Q Consensus 19 s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~i 98 (166)
...+++-.++.+. .... ++.++-.....-.....+. ....+-++...+.+.+...+.|+
T Consensus 3 ~~~~~~El~~~a~-l~~g----~i~VvGcSTSEV~G~~IG~----------------~ss~eva~~i~~~l~~~~~~~gi 61 (172)
T TIGR01440 3 LTTVLEELKDASN-LKKG----DLFVIGCSTSEVIGGKIGT----------------NSSMEVAETIVNALDVVLKKTGV 61 (172)
T ss_pred HHHHHHHHHHhhC-CCCC----CEEEEecchHHhCCcccCC----------------cChHHHHHHHHHHHHHHhhhcCe
Confidence 3455666666666 4444 7877776543332222222 11345556677777777777888
Q ss_pred CcccEEeecC-CchhHHHH-HHhhhCCcEEEE-cccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 99 NDMPVHVMQG-DPRNVMTE-AVERFHPTILVL-GSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 99 ~~~~~~v~~g-~~~~~I~~-~a~~~~~dliV~-g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
. .-..-.+. +.+-.+-+ .+++++.+.+-+ ...+.+ ||.+.+..++.+.||+|=
T Consensus 62 ~-lA~Q~CEHlNRALvvEr~~a~~~~le~V~VvP~~~AG-------Gs~a~~Ay~~~~dPV~VE 117 (172)
T TIGR01440 62 T-LAFQGCEHINRALVMERSVAEPLGMEEVSVVPDLHAG-------GSLATYAFQHMKDPVEVE 117 (172)
T ss_pred E-EEEechhhhhHHHHHhHHHHHHcCCceEEEecCCCCC-------cHHHHHHHHhCCCCEEEE
Confidence 8 54544443 44444444 677778877766 444333 777788888888998874
No 281
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=49.82 E-value=79 Score=21.37 Aligned_cols=23 Identities=9% Similarity=0.203 Sum_probs=17.9
Q ss_pred CchhHHHHHHhhhCCcEEEEccc
Q 044140 109 DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
-..+.+.++.++.+.|+||.-..
T Consensus 76 ~~~~~l~~~l~~~~PD~IIsThp 98 (169)
T PF06925_consen 76 LFARRLIRLLREFQPDLIISTHP 98 (169)
T ss_pred HHHHHHHHHHhhcCCCEEEECCc
Confidence 34567889999999998887533
No 282
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=49.79 E-value=89 Score=24.47 Aligned_cols=45 Identities=11% Similarity=0.197 Sum_probs=27.2
Q ss_pred HHHHHHHHHhCCCCcccEEe-ecCCc----hhHHHHHHhhhCCcEEE-Eccc
Q 044140 86 ADKATSICAKREVNDMPVHV-MQGDP----RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v-~~g~~----~~~I~~~a~~~~~dliV-~g~~ 131 (166)
++++.+.+++.|+. +.+-. ...++ .+.+.+.+++.++|+|| +|..
T Consensus 44 ~~~v~~~L~~~gi~-~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGG 94 (383)
T cd08186 44 WDKVEPALDEHGIE-YVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIGGG 94 (383)
T ss_pred HHHHHHHHHHcCCe-EEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 34555556666766 43321 12222 56777888899999988 6643
No 283
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=49.23 E-value=74 Score=24.83 Aligned_cols=45 Identities=9% Similarity=0.186 Sum_probs=27.3
Q ss_pred HHHHHHHHHhCCCCcccEEe-ecCCc----hhHHHHHHhhhCCcEEE-Eccc
Q 044140 86 ADKATSICAKREVNDMPVHV-MQGDP----RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v-~~g~~----~~~I~~~a~~~~~dliV-~g~~ 131 (166)
.+++.+.+++.|+. +...- ...++ .+.+.+.+++.++|+|| +|..
T Consensus 45 ~~~v~~~L~~~~~~-~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavGGG 95 (377)
T cd08176 45 VEKVTDVLDEAGID-YVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIGGG 95 (377)
T ss_pred HHHHHHHHHHcCCe-EEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc
Confidence 44555566666766 43221 12233 45677778889999999 6643
No 284
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=49.12 E-value=55 Score=24.27 Aligned_cols=66 Identities=15% Similarity=0.159 Sum_probs=37.6
Q ss_pred CCCCcccEEeecC-CchhH-HHHHHhhhCCcEEEEcccCCccchhhhcccH----------HHHHhhcCCccEEEEcCCC
Q 044140 96 REVNDMPVHVMQG-DPRNV-MTEAVERFHPTILVLGSHGYGAVKRAVLGSV----------SDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 96 ~~i~~~~~~v~~g-~~~~~-I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~----------~~~l~~~~~~pVlvv~~~~ 163 (166)
.| + .+..+++| +.+.+ .+++|-+...+.+|+-+.=.+ ..+.+...+ ...=+++.+|||++++..+
T Consensus 126 ~g-~-~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S-~~rv~~~~~~~~~~~d~f~~i~kI~~i~~PVLiiHgtd 202 (258)
T KOG1552|consen 126 YG-S-PERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTS-GMRVAFPDTKTTYCFDAFPNIEKISKITCPVLIIHGTD 202 (258)
T ss_pred cC-C-CceEEEEEecCCchhhhhHhhcCCcceEEEeccchh-hhhhhccCcceEEeeccccccCcceeccCCEEEEeccc
Confidence 46 5 66777777 33333 357777667888888654222 222222100 0222556789999999654
Q ss_pred C
Q 044140 164 S 164 (166)
Q Consensus 164 ~ 164 (166)
.
T Consensus 203 D 203 (258)
T KOG1552|consen 203 D 203 (258)
T ss_pred C
Confidence 3
No 285
>PRK04527 argininosuccinate synthase; Provisional
Probab=49.10 E-value=1.4e+02 Score=23.88 Aligned_cols=36 Identities=6% Similarity=0.122 Sum_probs=28.0
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
.++++|++.+.-+|.-++.++.+ .+. +++.+++...
T Consensus 2 ~~kVvVA~SGGvDSSvla~~l~e-----~G~----~Viavt~d~g 37 (400)
T PRK04527 2 SKDIVLAFSGGLDTSFCIPYLQE-----RGY----AVHTVFADTG 37 (400)
T ss_pred CCcEEEEEcCChHHHHHHHHHHH-----cCC----cEEEEEEEeC
Confidence 47899999999999888877654 245 8888888653
No 286
>PF01791 DeoC: DeoC/LacD family aldolase; InterPro: IPR002915 This family includes the enzyme deoxyribose-phosphate aldolase, which is involved in nucleotide metabolism. 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde The family also includes a group of related bacterial proteins of unknown function, see examples Q57843 from SWISSPROT and P76143 from SWISSPROT.; GO: 0016829 lyase activity; PDB: 2A4A_A 1VCV_B 1P1X_A 1KTN_B 1JCL_A 1JCJ_A 1MZH_A 3GKF_D 3GLC_L 3GND_N ....
Probab=49.05 E-value=89 Score=22.51 Aligned_cols=79 Identities=5% Similarity=-0.011 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHhCCCCcccEEeec-CCc---------hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHH
Q 044140 79 KKRAQKVADKATSICAKREVNDMPVHVMQ-GDP---------RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYS 148 (166)
Q Consensus 79 ~~~~~~~l~~~~~~~~~~~i~~~~~~v~~-g~~---------~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l 148 (166)
.+...+.+.++.+.+.+++++ +-.+..- +.. ....++.+.+.++|+|=....+.... ..---....++
T Consensus 107 ~~~~~~~i~~v~~~~~~~gl~-vIlE~~l~~~~~~~~~~~~~I~~a~ria~e~GaD~vKt~tg~~~~~-t~~~~~~~~~~ 184 (236)
T PF01791_consen 107 EDEVIEEIAAVVEECHKYGLK-VILEPYLRGEEVADEKKPDLIARAARIAAELGADFVKTSTGKPVGA-TPEDVELMRKA 184 (236)
T ss_dssp HHHHHHHHHHHHHHHHTSEEE-EEEEECECHHHBSSTTHHHHHHHHHHHHHHTT-SEEEEE-SSSSCS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcCCcE-EEEEEecCchhhcccccHHHHHHHHHHHHHhCCCEEEecCCccccc-cHHHHHHHHHH
Confidence 344456677888888888888 5544222 211 24556777789999999876633111 11111234567
Q ss_pred hhcCCcc----EEEE
Q 044140 149 AHHCSCT----VMIV 159 (166)
Q Consensus 149 ~~~~~~p----Vlvv 159 (166)
+..+++| |.+-
T Consensus 185 ~~~~~~p~~~~Vk~s 199 (236)
T PF01791_consen 185 VEAAPVPGKVGVKAS 199 (236)
T ss_dssp HHTHSSTTTSEEEEE
T ss_pred HHhcCCCcceEEEEe
Confidence 7778889 7764
No 287
>KOG3180 consensus Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=48.96 E-value=50 Score=23.56 Aligned_cols=23 Identities=17% Similarity=0.434 Sum_probs=20.3
Q ss_pred CchhHHHHHHhhhCCcEEEEccc
Q 044140 109 DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
..+..+...+++++.||+++|..
T Consensus 101 ~vAKiLk~~vekek~~lVllGKQ 123 (254)
T KOG3180|consen 101 HVAKILKKLVEKEKSDLVLLGKQ 123 (254)
T ss_pred HHHHHHHHHHHhhcCCEEEEccc
Confidence 56788889999999999999965
No 288
>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=48.70 E-value=28 Score=21.16 Aligned_cols=65 Identities=6% Similarity=0.087 Sum_probs=35.7
Q ss_pred HHHHhCCCCcccEEe-ecCCc-h-h---HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 91 SICAKREVNDMPVHV-MQGDP-R-N---VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 91 ~~~~~~~i~~~~~~v-~~g~~-~-~---~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
+.++++|++ +...+ ..+.+ . . .+.+..++.++||||.-......... --|....++.-..++|.+
T Consensus 24 ~~L~~~Gi~-~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~~~~-~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 24 KFLKEHGIE-VTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSDQEH-TDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHTT---EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHHHHT-HHHHHHHHHHHHTTSHEE
T ss_pred HHHHHcCCC-ceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCccccc-CCcHHHHHHHHHcCCCCc
Confidence 344567887 44332 22333 3 3 39999999999999887554332221 135555666666677754
No 289
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=48.65 E-value=1e+02 Score=23.63 Aligned_cols=33 Identities=15% Similarity=0.206 Sum_probs=23.8
Q ss_pred CCcccEEeecC--C---chhHHHHHHhhhCCcEEEEccc
Q 044140 98 VNDMPVHVMQG--D---PRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 98 i~~~~~~v~~g--~---~~~~I~~~a~~~~~dliV~g~~ 131 (166)
++ +++.++-| + ....+.+.+++.+++.|.+=.+
T Consensus 137 iP-VTVKiRlG~d~~~~~~~~ia~~~~~~g~~~ltVHgR 174 (323)
T COG0042 137 IP-VTVKIRLGWDDDDILALEIARILEDAGADALTVHGR 174 (323)
T ss_pred CC-eEEEEecccCcccccHHHHHHHHHhcCCCEEEEecc
Confidence 56 66666555 2 2457999999999999999544
No 290
>PRK00509 argininosuccinate synthase; Provisional
Probab=48.55 E-value=1.4e+02 Score=23.82 Aligned_cols=37 Identities=11% Similarity=0.257 Sum_probs=29.1
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
.++++|++.+.-+|.-++.++.+. ++. +++.+++...
T Consensus 2 ~~kVvva~SGGlDSsvla~~l~e~----lG~----eViavt~d~G 38 (399)
T PRK00509 2 KKKVVLAYSGGLDTSVIIKWLKET----YGC----EVIAFTADVG 38 (399)
T ss_pred CCeEEEEEcCCHHHHHHHHHHHHh----hCC----eEEEEEEecC
Confidence 478999999999998888887542 345 8999998653
No 291
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=48.36 E-value=1.3e+02 Score=23.40 Aligned_cols=96 Identities=13% Similarity=0.146 Sum_probs=58.9
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHH
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVA 86 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 86 (166)
--++|+|+++-.+...-..|..+-. . +- .+.+.-. ++ .+. ...
T Consensus 141 Vil~vGVNG~GKTTTIaKLA~~l~~-~-g~----~VllaA~-DT---------------------------FRA---aAi 183 (340)
T COG0552 141 VILFVGVNGVGKTTTIAKLAKYLKQ-Q-GK----SVLLAAG-DT---------------------------FRA---AAI 183 (340)
T ss_pred EEEEEecCCCchHhHHHHHHHHHHH-C-CC----eEEEEec-ch---------------------------HHH---HHH
Confidence 3467788888877777777777765 3 32 4444322 11 222 223
Q ss_pred HHHHHHHHhCCCCcccEEeecC-CchhHH---HHHHhhhCCcEEEEcccCCccchhhhc
Q 044140 87 DKATSICAKREVNDMPVHVMQG-DPRNVM---TEAVERFHPTILVLGSHGYGAVKRAVL 141 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g-~~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~~~ 141 (166)
+++..+.++.|++ +-.+- .| ||+..+ +++|+..++|+|++-+-|+-.-+..++
T Consensus 184 EQL~~w~er~gv~-vI~~~-~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM 240 (340)
T COG0552 184 EQLEVWGERLGVP-VISGK-EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLM 240 (340)
T ss_pred HHHHHHHHHhCCe-EEccC-CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHH
Confidence 4555556667888 54433 45 777654 467888999999998877654444444
No 292
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=47.97 E-value=1.4e+02 Score=23.68 Aligned_cols=35 Identities=9% Similarity=0.032 Sum_probs=24.0
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
.+.|+-+.+.=+|-- |.+++- .+|+ +++.+|....
T Consensus 176 Gk~l~LlSGGIDSPV----A~~l~m-kRG~----~v~~v~f~~~ 210 (383)
T COG0301 176 GKVLLLLSGGIDSPV----AAWLMM-KRGV----EVIPVHFGNP 210 (383)
T ss_pred CcEEEEEeCCCChHH----HHHHHH-hcCC----EEEEEEEcCC
Confidence 456666766655543 455666 6788 9999999653
No 293
>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=47.85 E-value=1e+02 Score=22.24 Aligned_cols=36 Identities=8% Similarity=-0.055 Sum_probs=29.5
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEE
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIH 46 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~ 46 (166)
.++|.+++|+......|...+.++.. ..+. .+.++.
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~-~~G~----~v~vv~ 189 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILK-KAGF----ITKVIE 189 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHH-HCCC----eEEEEe
Confidence 47899999999999999999999988 6565 665553
No 294
>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=47.84 E-value=41 Score=22.39 Aligned_cols=40 Identities=18% Similarity=0.281 Sum_probs=26.6
Q ss_pred CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 108 GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 108 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
|+......++...+ +|+||+-.... ...+.+..++.+||+
T Consensus 81 ~Esl~Dtar~ls~~-~D~iv~R~~~~---------~~~~~~a~~~~vPVI 120 (142)
T PF02729_consen 81 GESLEDTARVLSRY-VDAIVIRHPSH---------GALEELAEHSSVPVI 120 (142)
T ss_dssp SSEHHHHHHHHHHH-CSEEEEEESSH---------HHHHHHHHHCSSEEE
T ss_pred CCCHHHHHHHHHHh-hheEEEEeccc---------hHHHHHHHhccCCeE
Confidence 44455555555666 99999964432 245667888899996
No 295
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=47.80 E-value=1.2e+02 Score=22.84 Aligned_cols=61 Identities=11% Similarity=0.185 Sum_probs=34.2
Q ss_pred HHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHH-HHhhcCCccEEEEc
Q 044140 91 SICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSD-YSAHHCSCTVMIVK 160 (166)
Q Consensus 91 ~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~-~l~~~~~~pVlvv~ 160 (166)
..+.+.|++ +. +...+..-.+ .+ ++|.+++|...- +.+-. =.|+..- -+.++-++|++++-
T Consensus 154 ~eL~~~GI~-vt--lI~Dsa~~~~---m~--~vd~VivGAD~I~~nG~v~N-KiGT~~lA~~Ak~~~vPfyV~a 218 (275)
T PRK08335 154 NELEFLGIE-FE--VITDAQLGLF---AK--EATLALVGADNVTRDGYVVN-KAGTYLLALACHDNGVPFYVAA 218 (275)
T ss_pred HHHHHCCCC-EE--EEeccHHHHH---HH--hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEEC
Confidence 334556887 44 3333333333 23 499999998752 22222 2355543 34466789999984
No 296
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=47.52 E-value=1.4e+02 Score=23.44 Aligned_cols=53 Identities=11% Similarity=0.213 Sum_probs=35.2
Q ss_pred hHHHHHHhhhCCcEEEEcccC-------CccchhhhcccHHHHHhhcCCccEEEEcCCCC
Q 044140 112 NVMTEAVERFHPTILVLGSHG-------YGAVKRAVLGSVSDYSAHHCSCTVMIVKMPKS 164 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~-------~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~~ 164 (166)
+.....+++...|++|+...- .+...-..|-.-+.+|.++..|.|+.++.+..
T Consensus 184 rRfek~~~Q~rp~~vViDp~v~f~~G~s~s~vqv~~fi~~~rkla~~l~caIiy~hHtsk 243 (402)
T COG3598 184 RRFEKILEQKRPDFVVIDPFVAFYEGKSISDVQVKEFIKKTRKLARNLECAIIYIHHTSK 243 (402)
T ss_pred HHHHHHHHHhCCCeEEEcchhhhcCCccchhHHHHHHHHHHHHHHHhcCCeEEEEecccc
Confidence 344556778899999996541 11222222334578899999999999987653
No 297
>PRK06455 riboflavin synthase; Provisional
Probab=47.49 E-value=89 Score=21.30 Aligned_cols=73 Identities=15% Similarity=0.040 Sum_probs=43.8
Q ss_pred HHHHHHHHHhC--CCCcccEEeecC--CchhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHh---hcCCccEE
Q 044140 86 ADKATSICAKR--EVNDMPVHVMQG--DPRNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSA---HHCSCTVM 157 (166)
Q Consensus 86 l~~~~~~~~~~--~i~~~~~~v~~g--~~~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~---~~~~~pVl 157 (166)
++-+.+.+.+. +.+ +.+..+.| +..-.+.+.++..++|.|| +|.-+.+.-..+....++.-|+ -....||+
T Consensus 17 ~~gAi~~L~~~g~~~~-I~v~~VPGa~ELP~aakkL~~~~~yDaVIaLG~VG~t~h~d~Va~~vS~GL~~lsL~t~~PVi 95 (155)
T PRK06455 17 GSAAIDELRKLDPSAK-IIRYTVPGIKDLPVAAKKLIEEEGCDIVMALGMPGPTEKDKYCAHEASIGLIMAQLMTNKHII 95 (155)
T ss_pred HHHHHHHHHhcCCCCc-eEEEECCCHHHHHHHHHHHHhcCCCCEEEEecceeccCcchhHHHHHHHHHHHHHhhhCCCEE
Confidence 34445555553 455 55555667 7777778888777888765 5665554443444444444443 35677877
Q ss_pred EE
Q 044140 158 IV 159 (166)
Q Consensus 158 vv 159 (166)
-|
T Consensus 96 ~v 97 (155)
T PRK06455 96 EV 97 (155)
T ss_pred EE
Confidence 65
No 298
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=47.41 E-value=1.3e+02 Score=23.06 Aligned_cols=64 Identities=9% Similarity=0.026 Sum_probs=37.5
Q ss_pred CCCcccEEeecC-C----chhHHHHHHhhhCCcEEEEcccCCcc-chhhhcccHHHHHhhcCCccEEEEcC
Q 044140 97 EVNDMPVHVMQG-D----PRNVMTEAVERFHPTILVLGSHGYGA-VKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 97 ~i~~~~~~v~~g-~----~~~~I~~~a~~~~~dliV~g~~~~~~-~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+++ +.+.++.| + ....+++.+++.++|.|.+-.+.... ......-....++-+++++||+..-.
T Consensus 133 d~p-v~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~~~~~G~a~~~~i~~ik~~~~iPVI~nGg 202 (321)
T PRK10415 133 DVP-VTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRACLFNGEAEYDSIRAVKQKVSIPVIANGD 202 (321)
T ss_pred CCc-eEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccccccCCCcChHHHHHHHHhcCCcEEEeCC
Confidence 455 65655555 2 24467777888899999886543221 11111113456667778899887643
No 299
>KOG3076 consensus 5'-phosphoribosylglycinamide formyltransferase [Carbohydrate transport and metabolism]
Probab=47.20 E-value=1e+02 Score=21.88 Aligned_cols=90 Identities=13% Similarity=0.053 Sum_probs=55.5
Q ss_pred CCCCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHH
Q 044140 2 GDQTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKR 81 (166)
Q Consensus 2 ~~~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (166)
-+.+.+++.|-+.++-....++--+.+--. .+. +-.+++|+......
T Consensus 2 ~~~~r~rvavliSGtGsNlqaLid~~r~~~--l~~----~a~VvlviSnk~~~--------------------------- 48 (206)
T KOG3076|consen 2 VEWRRARVAVLISGTGSNLQALIDATRDGS--LGP----NADVVLVISNKKGV--------------------------- 48 (206)
T ss_pred ccccceeEEEEEecCchhHHHHHHhhcCCC--cCC----CceEEEEEeccccc---------------------------
Confidence 345678999999999999998888876655 333 33445554432111
Q ss_pred HHHHHHHHHHHHHhCCCCcccEEee---c--CCchhHHHHHHhhhCCcEEEEccc
Q 044140 82 AQKVADKATSICAKREVNDMPVHVM---Q--GDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 82 ~~~~l~~~~~~~~~~~i~~~~~~v~---~--g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.-.+.+.+.|++ ..+.-- . -.-..+|.+...+.+.|+|+++..
T Consensus 49 ------~GL~rA~~~gIP-t~vip~k~~a~R~~~d~eL~~~l~e~~~d~v~lAG~ 96 (206)
T KOG3076|consen 49 ------YGLERAADAGIP-TLVIPHKRFASREKYDNELAEVLLELGTDLVCLAGY 96 (206)
T ss_pred ------hhhhHHHHCCCC-EEEeccccccccccCcHHHHHHHHHhCCCEEEehhh
Confidence 111233556777 522111 0 122378888899999999999743
No 300
>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=46.75 E-value=72 Score=24.27 Aligned_cols=41 Identities=12% Similarity=0.212 Sum_probs=25.8
Q ss_pred hhhCCcEEEEcccCC---ccchhhhcccHHHHH-hhcCCccEEEEc
Q 044140 119 ERFHPTILVLGSHGY---GAVKRAVLGSVSDYS-AHHCSCTVMIVK 160 (166)
Q Consensus 119 ~~~~~dliV~g~~~~---~~~~~~~~gs~~~~l-~~~~~~pVlvv~ 160 (166)
+...+|.+++|...- +++-. -.|+..-.+ .++.+.||+++=
T Consensus 194 ~~~~vd~VlvGAd~v~~nG~v~n-k~GT~~lA~~Ak~~~vPv~V~a 238 (303)
T TIGR00524 194 QKGEIDAVIVGADRIARNGDVAN-KIGTYQLAVLAKEFRIPFFVAA 238 (303)
T ss_pred cccCCCEEEEcccEEecCCCEeE-hhhHHHHHHHHHHhCCCEEEec
Confidence 345799999998752 22222 235544444 466789999983
No 301
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=46.49 E-value=1e+02 Score=24.43 Aligned_cols=47 Identities=21% Similarity=0.208 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
...+.+.+-+.+.|+. +.+.-......++|.+.+. +++-+|+|+...
T Consensus 262 ~ma~aiaegl~~~gv~-v~~~~~~~~~~~eI~~~i~--~a~~~vvGsPT~ 308 (388)
T COG0426 262 KMAQAIAEGLMKEGVD-VEVINLEDADPSEIVEEIL--DAKGLVVGSPTI 308 (388)
T ss_pred HHHHHHHHHhhhcCCc-eEEEEcccCCHHHHHHHHh--hcceEEEecCcc
Confidence 4455666677778999 8887777788899999998 999999998864
No 302
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=46.32 E-value=1.2e+02 Score=22.54 Aligned_cols=88 Identities=9% Similarity=0.076 Sum_probs=47.6
Q ss_pred EEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHH
Q 044140 12 AIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATS 91 (166)
Q Consensus 12 ~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 91 (166)
+..|+-.+..+...|..+++ . +. .+.++.... .. . ...+++..
T Consensus 79 G~~G~GKTTt~akLA~~l~~-~-g~----~V~li~~D~---~r----~------------------------~a~~ql~~ 121 (272)
T TIGR00064 79 GVNGVGKTTTIAKLANKLKK-Q-GK----SVLLAAGDT---FR----A------------------------AAIEQLEE 121 (272)
T ss_pred CCCCCcHHHHHHHHHHHHHh-c-CC----EEEEEeCCC---CC----H------------------------HHHHHHHH
Confidence 33445567778888887766 4 44 677764421 00 0 01233444
Q ss_pred HHHhCCCCcccEEeecCCchhHH---HHHHhhhCCcEEEEcccCCccch
Q 044140 92 ICAKREVNDMPVHVMQGDPRNVM---TEAVERFHPTILVLGSHGYGAVK 137 (166)
Q Consensus 92 ~~~~~~i~~~~~~v~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~ 137 (166)
++...+++ +.......++...+ ++.+...++|+|++-+.++....
T Consensus 122 ~~~~~~i~-~~~~~~~~dp~~~~~~~l~~~~~~~~D~ViIDT~G~~~~d 169 (272)
T TIGR00064 122 WAKRLGVD-VIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNK 169 (272)
T ss_pred HHHhCCeE-EEeCCCCCCHHHHHHHHHHHHHHCCCCEEEEeCCCCCcch
Confidence 44444555 32211123554433 34455678999999988876543
No 303
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=46.31 E-value=1.3e+02 Score=22.93 Aligned_cols=64 Identities=13% Similarity=0.152 Sum_probs=37.7
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+.+.|++ +...+ . .++..+.+ .+|.+++|+.+- +.+-...-.+...-+.++.+.|++++-
T Consensus 162 ~ak~L~~~gI~-~~~I~--D---sa~~~~~~--~vd~VivGad~I~~nG~lvnkiGT~~lA~~A~e~~~Pf~v~a 228 (301)
T COG1184 162 MAKELRQSGIP-VTVIV--D---SAVGAFMS--RVDKVLVGADAILANGALVNKIGTSPLALAARELRVPFYVVA 228 (301)
T ss_pred HHHHHHHcCCc-eEEEe--c---hHHHHHHH--hCCEEEECccceecCCcEEeccchHHHHHHHHHhCCCEEEEe
Confidence 34445667877 44433 2 23344445 889999998852 222222222334556778899999984
No 304
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=46.23 E-value=73 Score=20.61 Aligned_cols=41 Identities=10% Similarity=0.203 Sum_probs=24.1
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhh--hCCcEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVER--FHPTILVLG 129 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 129 (166)
.+.+.+++.|.. +.......+..+.|.+..++ ..+|+||..
T Consensus 22 ~l~~~l~~~G~~-~~~~~~v~Dd~~~I~~~l~~~~~~~dliitt 64 (135)
T smart00852 22 ALAELLTELGIE-VTRYVIVPDDKEAIKEALREALERADLVITT 64 (135)
T ss_pred HHHHHHHHCCCe-EEEEEEeCCCHHHHHHHHHHHHhCCCEEEEc
Confidence 445556777877 55444444555555554432 268988885
No 305
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=46.09 E-value=1.2e+02 Score=22.50 Aligned_cols=62 Identities=16% Similarity=0.207 Sum_probs=35.2
Q ss_pred HHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHHHH-hhcCCccEEEEc
Q 044140 90 TSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSDYS-AHHCSCTVMIVK 160 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~l-~~~~~~pVlvv~ 160 (166)
.+.+.+.|++ +. +..... +..+.+ .+|.+++|+..- +++-. -.|+..-.+ .++.++||+++-
T Consensus 127 a~~L~~~GI~-vt--li~Dsa---~~~~m~--~vd~VlvGAd~V~~nG~v~n-kvGT~~~Al~A~~~~vPv~V~~ 192 (253)
T PRK06372 127 AKLLVKSGID-VV--LLTDAS---MCEAVL--NVDAVIVGSDSVLYDGGLIH-KNGTFPLALCARYLKKPFYSLT 192 (253)
T ss_pred HHHHHHCCCC-EE--EEehhH---HHHHHH--hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEEe
Confidence 3344556888 53 322222 222233 699999998852 22222 235554444 467789999874
No 306
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=45.95 E-value=1.2e+02 Score=22.30 Aligned_cols=71 Identities=18% Similarity=0.147 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+.+..+...+++.|+. +.......++ ....++.....++|-||++........ ..-..+...++|++++-.
T Consensus 43 ~~~~~i~~~~~~~G~~-~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~------~~l~~~~~~~ipvV~~~~ 115 (295)
T PRK10653 43 SLKDGAQKEADKLGYN-LVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVG------NAVKMANQANIPVITLDR 115 (295)
T ss_pred HHHHHHHHHHHHcCCe-EEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH------HHHHHHHHCCCCEEEEcc
Confidence 4445555566667877 5443323333 234455556668998887653221111 112355567889988854
No 307
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=45.84 E-value=59 Score=23.93 Aligned_cols=43 Identities=12% Similarity=0.217 Sum_probs=28.3
Q ss_pred HHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 115 TEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 115 ~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
....+++++|.||.=..|..+....+ ...+...+||++|.++.
T Consensus 183 ~aL~~~~~i~~lVtK~SG~~g~~eKi------~AA~~lgi~vivI~RP~ 225 (248)
T PRK08057 183 RALLRQHRIDVVVTKNSGGAGTEAKL------EAARELGIPVVMIARPA 225 (248)
T ss_pred HHHHHHcCCCEEEEcCCCchhhHHHH------HHHHHcCCeEEEEeCCC
Confidence 35567889999998544433222221 45677899999997664
No 308
>PRK12361 hypothetical protein; Provisional
Probab=45.61 E-value=1.5e+02 Score=24.55 Aligned_cols=70 Identities=11% Similarity=0.171 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
+..+++.+.+.+. .+ +++..... ..+..+.+.+.+.++|+||+.. |.+.+ ..+...+. +..+|+-++|..
T Consensus 260 ~~~~~i~~~L~~~-~~-~~v~~t~~~~~a~~la~~~~~~~~d~Viv~G-GDGTl-----~ev~~~l~-~~~~~lgiiP~G 330 (547)
T PRK12361 260 EYGEQIQRELKAY-FD-LTVKLTTPEISAEALAKQARKAGADIVIACG-GDGTV-----TEVASELV-NTDITLGIIPLG 330 (547)
T ss_pred HHHHHHHHHHhcC-Cc-eEEEECCCCccHHHHHHHHHhcCCCEEEEEC-CCcHH-----HHHHHHHh-cCCCCEEEecCC
Confidence 3445555555543 44 54444432 4467777766666788877642 23323 23444443 457899999864
No 309
>COG1691 NCAIR mutase (PurE)-related proteins [General function prediction only]
Probab=45.57 E-value=1.2e+02 Score=22.31 Aligned_cols=60 Identities=13% Similarity=0.124 Sum_probs=38.4
Q ss_pred HHhCCCCcccEEeecC--CchhHHH--HHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 93 CAKREVNDMPVHVMQG--DPRNVMT--EAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 93 ~~~~~i~~~~~~v~~g--~~~~~I~--~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+...|.+ +...+-.| .+.+-+. +..+..++|.+|+...-.+.+. .-+.-=..|||+-+|-
T Consensus 140 ae~lG~e-v~~~~DvGVAGiHRLl~~l~r~~~~~~~~lIVvAGMEGaLP--------svvagLvD~PVIavPT 203 (254)
T COG1691 140 AEELGVE-VQKVYDVGVAGIHRLLSALKRLKIEDADVLIVVAGMEGALP--------SVVAGLVDVPVIAVPT 203 (254)
T ss_pred HHHhCce-EEEEEeeccchHHhhhhHHHHHHhhCCCeEEEEcccccchH--------HHHHhccCCCeEeccc
Confidence 3445777 66666555 5556665 6667779999888765444332 2233345899999984
No 310
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=45.41 E-value=1e+02 Score=23.40 Aligned_cols=66 Identities=8% Similarity=0.009 Sum_probs=33.5
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccc-hhhhcccHHHHHhhcCCccEEEE
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAV-KRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~-~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
+.+.+++.|+. +-.. .++. ...+.+.+.++|.|++-.+..++. .....-....++....++||+.-
T Consensus 101 ~i~~lk~~g~~-v~~~--v~s~--~~a~~a~~~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaa 167 (307)
T TIGR03151 101 YIPRLKENGVK-VIPV--VASV--ALAKRMEKAGADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAA 167 (307)
T ss_pred HHHHHHHcCCE-EEEE--cCCH--HHHHHHHHcCCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEE
Confidence 33444555655 3322 2333 345677778999999832211111 11101223445666668998764
No 311
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=45.41 E-value=2e+02 Score=25.09 Aligned_cols=147 Identities=6% Similarity=-0.044 Sum_probs=78.9
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHH---HHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELD---TKK 80 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~ 80 (166)
+..-+||.++-..++-..++......-. ....+ ..+.++|.++......+...... ...+..... ..+
T Consensus 441 ~~~Lril~cl~~~~~is~~i~~le~~~~-~~~~p--~~v~~lhlveL~~~~~~~li~h~------~~~~~~~~~~s~~~~ 511 (769)
T KOG1650|consen 441 NSELRILTCLHGPENISGIINLLELSSG-SLESP--LSVYALHLVELVGRATPLLISHK------LRKNGRVESRSSSSD 511 (769)
T ss_pred CCceEEEEEecCCCcchHHHHHHHHcCC-CCCCC--cceeeeeeeecccccchhhhhhh------hccccccccccccch
Confidence 3446799999888876666666655554 33211 27888888876443322111000 000000000 000
Q ss_pred HHHHHHHHHHHHHHhCCCCcccEEeec---CCchhHHHHHHhhhCCcEEEEcccCCccch------hhhcccHHHHHhhc
Q 044140 81 RAQKVADKATSICAKREVNDMPVHVMQ---GDPRNVMTEAVERFHPTILVLGSHGYGAVK------RAVLGSVSDYSAHH 151 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~~~i~~~~~~v~~---g~~~~~I~~~a~~~~~dliV~g~~~~~~~~------~~~~gs~~~~l~~~ 151 (166)
.....++.+...- ..++. ++.-... ..-.+.|+..|...+.++|++.-+.+-... +..+.++...++++
T Consensus 512 ~i~~aF~~f~~~~-~~~v~-v~~~Ta~s~~~~m~edic~la~~~~~~liilpfhk~~~~~~~~e~~~~~~r~in~~vl~~ 589 (769)
T KOG1650|consen 512 QINVAFEAFEKLS-QEGVM-VRTFTALSPEKLMHEDICTLALDKGVSLIILPFHKHWSDGGTLESDDPAIRELNRNVLKN 589 (769)
T ss_pred hhHHHHHHHHHhc-CCcEE-EEeehhhCChhhchhhhhHHHHhhCCcEEEeehhhhccCCCceecCcHHHHHHHHHHHhc
Confidence 1122222322211 12333 3222111 355788999999999999999976542111 12234678899999
Q ss_pred CCccEEEEcC
Q 044140 152 CSCTVMIVKM 161 (166)
Q Consensus 152 ~~~pVlvv~~ 161 (166)
+||.|-+.=+
T Consensus 590 aPCSVgIlvd 599 (769)
T KOG1650|consen 590 APCSVGILVD 599 (769)
T ss_pred CCCeEEEEEe
Confidence 9999987754
No 312
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=45.40 E-value=1e+02 Score=23.45 Aligned_cols=60 Identities=17% Similarity=0.280 Sum_probs=33.6
Q ss_pred HHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHH-HHhhcCCccEEEEc
Q 044140 92 ICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSD-YSAHHCSCTVMIVK 160 (166)
Q Consensus 92 ~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~-~l~~~~~~pVlvv~ 160 (166)
.+.+.|++ +.. ...+..-.+ .+ .+|.+++|+..- |++-. -.|+..- -+.++.+.||+++=
T Consensus 166 ~L~~~GI~-vtl--I~Dsav~~~---m~--~vd~VivGAd~v~~nG~v~n-kiGT~~~A~~Ak~~~vPv~V~a 229 (310)
T PRK08535 166 ELAEYGIP-VTL--IVDSAVRYF---MK--DVDKVVVGADAITANGAVIN-KIGTSQIALAAHEARVPFMVAA 229 (310)
T ss_pred HHHHCCCC-EEE--EehhHHHHH---HH--hCCEEEECccEEecCCCEEe-HHhHHHHHHHHHHhCCCEEEec
Confidence 33456877 443 333333233 23 599999998752 22222 2355433 34466789999983
No 313
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=45.37 E-value=58 Score=20.83 Aligned_cols=38 Identities=18% Similarity=0.287 Sum_probs=29.6
Q ss_pred hCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 121 FHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 121 ~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+++.||+|+...+.+ -++.-+....++-.|-|.+.|-
T Consensus 60 e~~E~ivvGTG~~G~l---~l~~ea~e~~r~k~~~vi~~pT 97 (121)
T COG1504 60 EGPEVIVVGTGQSGML---ELSEEAREFFRKKGCEVIELPT 97 (121)
T ss_pred cCCcEEEEecCceeEE---EeCHHHHHHHHhcCCeEEEeCC
Confidence 5999999998766544 3466778888888999988874
No 314
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=45.14 E-value=92 Score=22.52 Aligned_cols=45 Identities=9% Similarity=0.146 Sum_probs=32.1
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhh---hCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVER---FHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~---~~~dliV~g~~ 131 (166)
.+.+++.+.+.|+. -.+.+..|+..+.+-+...+ ..+|+|++...
T Consensus 106 ~~~A~~n~~~~gl~-~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 106 YEVGLEFIKKAGVD-HKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred HHHHHHHHHHcCCC-CcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 44555556667887 66788889888877666543 57999999854
No 315
>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=45.08 E-value=1.1e+02 Score=21.55 Aligned_cols=58 Identities=10% Similarity=0.094 Sum_probs=36.1
Q ss_pred HHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc
Q 044140 90 TSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH 151 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~ 151 (166)
...++..|.+ +.. +-..-+.+.+++.++++++|+|.+.......... +..+.+.+-..
T Consensus 105 ~~~l~~~G~~-vi~-LG~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~--~~~~i~~l~~~ 162 (197)
T TIGR02370 105 VTMLRANGFD-VID-LGRDVPIDTVVEKVKKEKPLMLTGSALMTTTMYG--QKDINDKLKEE 162 (197)
T ss_pred HHHHHhCCcE-EEE-CCCCCCHHHHHHHHHHcCCCEEEEccccccCHHH--HHHHHHHHHHc
Confidence 3344555666 211 2234778999999999999999998764443332 24444544444
No 316
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=45.06 E-value=50 Score=23.35 Aligned_cols=15 Identities=20% Similarity=0.142 Sum_probs=7.6
Q ss_pred HHHHhhcCCccEEEE
Q 044140 145 SDYSAHHCSCTVMIV 159 (166)
Q Consensus 145 ~~~l~~~~~~pVlvv 159 (166)
...++...++||++|
T Consensus 125 ~adl~~~l~~pvilV 139 (222)
T PRK00090 125 LADLAKQLQLPVILV 139 (222)
T ss_pred HHHHHHHhCCCEEEE
Confidence 334555555555554
No 317
>TIGR00486 YbgI_SA1388 dinuclear metal center protein, YbgI/SA1388 family. The characterization of this family of uncharacterized proteins as orthologous is tentative. Members are found in all three domains of life. Several members (from Bacillus subtilis, Listeria monocytogenes, and Mycobacterium tuberculosis - all classified as Firmicutes within the Eubacteria) share a long insert relative to other members.
Probab=44.94 E-value=1.2e+02 Score=22.16 Aligned_cols=51 Identities=10% Similarity=0.013 Sum_probs=27.9
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCcc------------------chhhhcccHHHHHhhcCCccEEEEcC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGA------------------VKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~------------------~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+...+..+.+.++|++|-|--++.. ...+++...++.+-...+++|.....
T Consensus 177 G~~~~~~a~~~gaD~~ITGd~k~h~~~~A~~~gi~li~~gH~~sE~~~~~~la~~L~~~~~i~v~~~~~ 245 (249)
T TIGR00486 177 GLSFIMKALREGVDAYITGDLSHHTAHLARELGLNVIDAGHYATERGGLRKLMEDLNENEGLEVVFSDI 245 (249)
T ss_pred hHHHHHHHHHcCCCEEEecCCchHHHHHHHHCCCEEEEcCcHHHHHHHHHHHHHHHHHhcCceEEEEeC
Confidence 4445656656788888887443322 12223344555555455667666653
No 318
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=44.80 E-value=1.3e+02 Score=22.85 Aligned_cols=45 Identities=11% Similarity=0.065 Sum_probs=25.4
Q ss_pred hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 111 RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+.+.+.+++.++|.|| +|...-....++ +..+. ....|++.||=
T Consensus 67 v~~~~~~~~~~~~d~IIaiGGGs~~D~aK~-----ia~~~-~~~~p~i~iPT 112 (332)
T cd07766 67 VKEAVERARAAEVDAVIAVGGGSTLDTAKA-----VAALL-NRGLPIIIVPT 112 (332)
T ss_pred HHHHHHHHHhcCcCEEEEeCCchHHHHHHH-----HHHHh-cCCCCEEEEeC
Confidence 55677777888999988 663322211111 11111 12689998884
No 319
>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=44.52 E-value=54 Score=24.16 Aligned_cols=46 Identities=11% Similarity=0.158 Sum_probs=28.9
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
....+..++++.|++|+.+....... ..-+..++....+|.+|+.+
T Consensus 49 ~~~~~~~~~~~pdf~I~isPN~~~PG----P~~ARE~l~~~~iP~IvI~D 94 (276)
T PF01993_consen 49 EVVTKMLKEWDPDFVIVISPNAAAPG----PTKAREMLSAKGIPCIVISD 94 (276)
T ss_dssp HHHHHHHHHH--SEEEEE-S-TTSHH----HHHHHHHHHHSSS-EEEEEE
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCCC----cHHHHHHHHhCCCCEEEEcC
Confidence 44456667999999999877543221 23477888889999999864
No 320
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=44.42 E-value=1.4e+02 Score=22.81 Aligned_cols=93 Identities=13% Similarity=0.120 Sum_probs=50.7
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADK 88 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 88 (166)
.+++..|+-.+.-+...|..+.. . +. .+.++-... .. . ...++
T Consensus 118 ~lvGpnGsGKTTt~~kLA~~l~~-~-g~----~V~Li~~D~---~r---------------------~-------~a~eq 160 (318)
T PRK10416 118 LVVGVNGVGKTTTIGKLAHKYKA-Q-GK----KVLLAAGDT---FR---------------------A-------AAIEQ 160 (318)
T ss_pred EEECCCCCcHHHHHHHHHHHHHh-c-CC----eEEEEecCc---cc---------------------h-------hhHHH
Confidence 34555666677777888877766 4 43 666664321 00 0 01122
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHH---HHHHhhhCCcEEEEcccCCccchhh
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVM---TEAVERFHPTILVLGSHGYGAVKRA 139 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~ 139 (166)
+..+....+++ +...-...++...+ +..+...++|+|++-+.++......
T Consensus 161 l~~~a~~~~i~-~~~~~~~~dpa~~v~~~l~~~~~~~~D~ViIDTaGr~~~~~~ 213 (318)
T PRK10416 161 LQVWGERVGVP-VIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNKTN 213 (318)
T ss_pred HHHHHHHcCce-EEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCCcCCHH
Confidence 22333444666 43332223554332 3455667999999999887654443
No 321
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=44.29 E-value=1.2e+02 Score=21.98 Aligned_cols=37 Identities=14% Similarity=0.093 Sum_probs=28.3
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNP 51 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~ 51 (166)
.++.+|-..+..+|...+-||.+- +. +|+.+++....
T Consensus 2 ~~kavvl~SGG~DStt~l~~a~~~-----~~----ev~alsfdYGQ 38 (222)
T COG0603 2 MKKAVVLLSGGLDSTTCLAWAKKE-----GY----EVHALTFDYGQ 38 (222)
T ss_pred CceEEEEccCChhHHHHHHHHHhc-----CC----EEEEEEeeCCC
Confidence 477888899999999888887543 23 89999886643
No 322
>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=44.08 E-value=1e+02 Score=21.04 Aligned_cols=80 Identities=13% Similarity=0.137 Sum_probs=50.1
Q ss_pred HHHHHHHHHhcCCCCCCCCceEEEEEEeec--CCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 044140 20 YYALEWALDYFFPPFAPNHTFQLVLIHARP--NPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKRE 97 (166)
Q Consensus 20 ~~al~~a~~la~~~~~~~~~~~l~lv~v~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 97 (166)
..-+..++++|+ .+++ +...+|... ..... . .+...+...+.+..+.+.+.+.|
T Consensus 70 ~~~~~~~i~~a~-~lg~----~~i~~~~g~~~~~~~~---------------~----~~~~~~~~~~~l~~l~~~a~~~g 125 (213)
T PF01261_consen 70 LEYLKKAIDLAK-RLGA----KYIVVHSGRYPSGPED---------------D----TEENWERLAENLRELAEIAEEYG 125 (213)
T ss_dssp HHHHHHHHHHHH-HHTB----SEEEEECTTESSSTTS---------------S----HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHH-HhCC----CceeecCcccccccCC---------------C----HHHHHHHHHHHHHHHHhhhhhhc
Confidence 567888888888 8888 777777541 11100 0 12344455556777778888888
Q ss_pred CCcccEEeecCCc---h---hHHHHHHhhhCCc
Q 044140 98 VNDMPVHVMQGDP---R---NVMTEAVERFHPT 124 (166)
Q Consensus 98 i~~~~~~v~~g~~---~---~~I~~~a~~~~~d 124 (166)
+. +-.+-..+.. . +.+.++.++.+.+
T Consensus 126 v~-i~lE~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (213)
T PF01261_consen 126 VR-IALENHPGPFSETPFSVEEIYRLLEEVDSP 157 (213)
T ss_dssp SE-EEEE-SSSSSSSEESSHHHHHHHHHHHTTT
T ss_pred ce-EEEecccCccccchhhHHHHHHHHhhcCCC
Confidence 88 6665544432 2 7888888877654
No 323
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=43.96 E-value=2e+02 Score=26.40 Aligned_cols=91 Identities=13% Similarity=0.105 Sum_probs=59.3
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHH
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQ 83 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (166)
.++.|++++==|--..+-|++.|+.-+. . |- +|-++ +++ .=.++
T Consensus 614 kpMDRLiCGDVGFGKTEVAmRAAFkAV~-~-GK----QVAvL--VPT----------------------------TlLA~ 657 (1139)
T COG1197 614 KPMDRLICGDVGFGKTEVAMRAAFKAVM-D-GK----QVAVL--VPT----------------------------TLLAQ 657 (1139)
T ss_pred CcchheeecCcCCcHHHHHHHHHHHHhc-C-CC----eEEEE--ccc----------------------------HHhHH
Confidence 4445555554344567888888877766 4 32 55554 111 11234
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecC--CchhHHHHHHhhhCCcEEEEcccC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQG--DPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
+..+.+.+++...+++ ++...+.- .....+++-.++-.+|+| +|+|.
T Consensus 658 QHy~tFkeRF~~fPV~-I~~LSRF~s~kE~~~il~~la~G~vDIv-IGTHr 706 (1139)
T COG1197 658 QHYETFKERFAGFPVR-IEVLSRFRSAKEQKEILKGLAEGKVDIV-IGTHR 706 (1139)
T ss_pred HHHHHHHHHhcCCCee-EEEecccCCHHHHHHHHHHHhcCCccEE-EechH
Confidence 5677888999988888 87766663 557788888888899854 57763
No 324
>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=43.95 E-value=44 Score=26.58 Aligned_cols=27 Identities=19% Similarity=0.316 Sum_probs=18.8
Q ss_pred CCchhHHHHHHhhhCCcEEEEcccCCc
Q 044140 108 GDPRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 108 g~~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
|+-.+++++.+++.++.+|.+.+.+..
T Consensus 102 GdDi~~v~~~~~~~~~~vi~v~t~gf~ 128 (427)
T cd01971 102 GDDVGAVVSEFQEGGAPIVYLETGGFK 128 (427)
T ss_pred hcCHHHHHHHhhhcCCCEEEEECCCcC
Confidence 666666766666667888888776644
No 325
>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=43.90 E-value=47 Score=23.09 Aligned_cols=34 Identities=12% Similarity=0.122 Sum_probs=27.7
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEe
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v 47 (166)
||++++.++-.+.++.+..-.+.+ . +. +++++-.
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~~-~-g~----~V~vv~T 34 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLKE-A-GV----EVHLVIS 34 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHHH-C-CC----EEEEEEC
Confidence 589999999999999999988866 4 55 7666633
No 326
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=43.85 E-value=1.5e+02 Score=22.99 Aligned_cols=66 Identities=12% Similarity=0.205 Sum_probs=36.3
Q ss_pred HHHHHHHHhCCCCcccEEeecC-C------chhHHHHHHhhhCC----cEEE-EcccCCccchhhhcccHHHHHh--hcC
Q 044140 87 DKATSICAKREVNDMPVHVMQG-D------PRNVMTEAVERFHP----TILV-LGSHGYGAVKRAVLGSVSDYSA--HHC 152 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g-~------~~~~I~~~a~~~~~----dliV-~g~~~~~~~~~~~~gs~~~~l~--~~~ 152 (166)
+.+.+.+...|+. +...+..+ + ..+.+.+.+.+.++ |+|| +|...- +.++..+. ...
T Consensus 43 ~~v~~~l~~~g~~-~~~~v~~~~e~~~s~~~v~~~~~~l~~~~~~r~~d~IVaiGGG~v--------~D~ak~~A~~~~r 113 (354)
T cd08199 43 KKLREYFAHHNIP-LTILVLRAGEAAKTMDTVLKIVDALDAFGISRRREPVLAIGGGVL--------TDVAGLAASLYRR 113 (354)
T ss_pred HHHHHHHHhcCCc-eEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCCEEEEECCcHH--------HHHHHHHHHHhcC
Confidence 4555666667777 66544432 2 23445555566677 9888 553321 22222222 334
Q ss_pred CccEEEEcC
Q 044140 153 SCTVMIVKM 161 (166)
Q Consensus 153 ~~pVlvv~~ 161 (166)
.+|++.||-
T Consensus 114 g~p~i~VPT 122 (354)
T cd08199 114 GTPYVRIPT 122 (354)
T ss_pred CCCEEEEcC
Confidence 688888885
No 327
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=43.81 E-value=1.3e+02 Score=21.98 Aligned_cols=73 Identities=8% Similarity=0.090 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccH---HHHHhhcCCccEEE
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSV---SDYSAHHCSCTVMI 158 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~---~~~l~~~~~~pVlv 158 (166)
....+.+.+++.|+. .-..+....+.+.|..+++...--+.+|+..+-.+....+..+. ..++-...++||++
T Consensus 117 e~~~~~~~~~~~g~~-~i~~i~P~T~~~~i~~i~~~~~~~vy~~s~~g~tG~~~~~~~~~~~~i~~lr~~~~~pI~v 192 (242)
T cd04724 117 EAEEFREAAKEYGLD-LIFLVAPTTPDERIKKIAELASGFIYYVSRTGVTGARTELPDDLKELIKRIRKYTDLPIAV 192 (242)
T ss_pred HHHHHHHHHHHcCCc-EEEEeCCCCCHHHHHHHHhhCCCCEEEEeCCCCCCCccCCChhHHHHHHHHHhcCCCcEEE
Confidence 345677777888888 55555556666666666653222234555444333332222222 33333345678776
No 328
>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=43.63 E-value=66 Score=23.24 Aligned_cols=19 Identities=11% Similarity=-0.008 Sum_probs=10.7
Q ss_pred hhHHHHHHhhhCCcEEEEc
Q 044140 111 RNVMTEAVERFHPTILVLG 129 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g 129 (166)
.+.+++.+++.++|+||+.
T Consensus 20 le~l~~~~~~~~~D~vv~~ 38 (224)
T cd07388 20 LEKLVGLAPETGADAIVLI 38 (224)
T ss_pred HHHHHHHHhhcCCCEEEEC
Confidence 3445555555566666654
No 329
>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=43.39 E-value=93 Score=20.35 Aligned_cols=21 Identities=10% Similarity=0.249 Sum_probs=14.8
Q ss_pred hHHHHHHhhhCCcEEEEcccCCc
Q 044140 112 NVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
+.+.+... .+|.||+++.-+.
T Consensus 62 ~~~~~~l~--~aD~iI~~sP~y~ 82 (152)
T PF03358_consen 62 QELYDKLK--EADGIIFASPVYN 82 (152)
T ss_dssp HHHHHHHH--HSSEEEEEEEEBT
T ss_pred HHHHhcee--cCCeEEEeecEEc
Confidence 44455555 8999999987543
No 330
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=43.03 E-value=24 Score=24.50 Aligned_cols=42 Identities=7% Similarity=0.234 Sum_probs=20.9
Q ss_pred HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 113 VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 113 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
...+.++..++..|+++..+.+.+.+.+ .+-..+++-.++++
T Consensus 120 ~n~dia~~L~a~vIlV~~~~~g~i~~~l---~~~~~~~~~g~~v~ 161 (199)
T PF13500_consen 120 LNADIAKALGAPVILVASGRLGTINHTL---LTIEALKQRGIRVL 161 (199)
T ss_dssp EHHHHHHHHT-EEEEEEESSTTHHHHHH---HHHHHHHCTTS-EE
T ss_pred HHHHHHHHcCCCEEEEeCCCCCCHHHHH---HHHHHHHhcCCCEE
Confidence 3556667777777777665555444432 22333444444444
No 331
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=42.82 E-value=1.2e+02 Score=22.09 Aligned_cols=56 Identities=5% Similarity=0.022 Sum_probs=35.7
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccH
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSV 144 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~ 144 (166)
..++.+.+++.|.. +=.-+-.+.+.+.+..+.. ..|+|.+-+-.-+...+.|...+
T Consensus 97 ~~~~i~~Ik~~G~k-aGlalnP~T~~~~l~~~l~--~vD~VLvMsV~PGf~GQ~fi~~~ 152 (229)
T PRK09722 97 AFRLIDEIRRAGMK-VGLVLNPETPVESIKYYIH--LLDKITVMTVDPGFAGQPFIPEM 152 (229)
T ss_pred HHHHHHHHHHcCCC-EEEEeCCCCCHHHHHHHHH--hcCEEEEEEEcCCCcchhccHHH
Confidence 34555666777777 6555556788899999998 77877776543343333344433
No 332
>PF00215 OMPdecase: Orotidine 5'-phosphate decarboxylase / HUMPS family; InterPro: IPR001754 Orotidine 5'-phosphate decarboxylase (OMPdecase) [, ] catalyses the last step in the de novo biosynthesis of pyrimidines, the decarboxylation of OMP into UMP. In higher eukaryotes OMPdecase is part, with orotate phosphoribosyltransferase, of a bifunctional enzyme, while the prokaryotic and fungal OMPdecases are monofunctional protein. Some parts of the sequence of OMPdecase are well conserved across species. The best conserved region is located in the N-terminal half of OMPdecases and is centred around a lysine residue which is essential for the catalytic function of the enzyme. This entry also includes enzymes such as 3-hexulose-6-phosphate synthase 4.1.2.43 from EC and 3-keto-L-gulonate-6-phosphate decarboxylase 4.1.1.85 from EC.; GO: 0004590 orotidine-5'-phosphate decarboxylase activity, 0006207 'de novo' pyrimidine base biosynthetic process; PDB: 2YYT_D 2YYU_B 3RU6_D 2CZE_B 2CZ5_B 2CZF_A 2CZD_A 3R89_A 2ZCG_A 2ZA1_A ....
Probab=42.79 E-value=81 Score=22.56 Aligned_cols=45 Identities=9% Similarity=0.054 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHH------hhhCCcEEEEcc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAV------ERFHPTILVLGS 130 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a------~~~~~dliV~g~ 130 (166)
.+.++.+.+++.+.. +-.....+|..+....++ .+.++|.+.+-.
T Consensus 43 ~l~~~i~~l~~~~~~-I~~D~K~~Dig~t~~~~~~~~~~~~~~gaD~vTv~~ 93 (226)
T PF00215_consen 43 ALPEIIEELKERGKP-IFLDLKLGDIGNTVARYAEAGFAAFELGADAVTVHP 93 (226)
T ss_dssp HHHHHHHHHHHTTSE-EEEEEEE-SSHHHHHHHHHSCHHHHTTTESEEEEEG
T ss_pred hHHHHHHHHHHhcCC-EeeeeeecccchHHHHHHHHhhhhhcCCCcEEEEec
Confidence 455666666666766 666677788888888888 477888887743
No 333
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=42.68 E-value=98 Score=22.76 Aligned_cols=45 Identities=11% Similarity=0.158 Sum_probs=33.9
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhh----hCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVER----FHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~----~~~dliV~g~~ 131 (166)
.+.+++.+.+.|+. -.+.+..|+..+.+-+...+ ..+|+|.+-..
T Consensus 117 ~~~Ar~~~~~ag~~-~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDad 165 (247)
T PLN02589 117 YELGLPVIQKAGVA-HKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDAD 165 (247)
T ss_pred HHHHHHHHHHCCCC-CceEEEeccHHHHHHHHHhccccCCcccEEEecCC
Confidence 34556666777887 77888899988888776643 48999999765
No 334
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=42.63 E-value=1.3e+02 Score=21.70 Aligned_cols=44 Identities=9% Similarity=0.171 Sum_probs=28.0
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.++++...+.+.. +...+ -|.....=+..+.+.++|.+|+|+.
T Consensus 154 I~~l~~~~~~~~~~-~~I~v-dGGI~~eni~~l~~aGAd~vVvGSa 197 (220)
T PRK08883 154 LRAVRKMIDESGRD-IRLEI-DGGVKVDNIREIAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHhcCCC-eeEEE-ECCCCHHHHHHHHHcCCCEEEEeHH
Confidence 44555555555655 55555 4544455555666779999999965
No 335
>cd02933 OYE_like_FMN Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include 12-oxophytodienoate reductase, pentaerythritol tetranitrate reductase, morphinone reductase, and related enzymes.
Probab=42.62 E-value=1.6e+02 Score=22.76 Aligned_cols=49 Identities=6% Similarity=-0.023 Sum_probs=29.2
Q ss_pred HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 113 VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 113 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.|++..++.++|+|-+...........+.-..+..+-...++||+++-.
T Consensus 245 ~~~~~l~~~g~d~i~vs~g~~~~~~~~~~~~~~~~ik~~~~ipvi~~G~ 293 (338)
T cd02933 245 YLAKELNKRGLAYLHLVEPRVAGNPEDQPPDFLDFLRKAFKGPLIAAGG 293 (338)
T ss_pred HHHHHHHHcCCcEEEEecCCCCCcccccchHHHHHHHHHcCCCEEEECC
Confidence 5666777778999988432221111222334455666667899988743
No 336
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=42.45 E-value=1.3e+02 Score=21.84 Aligned_cols=71 Identities=13% Similarity=0.085 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
..++.+.+.+.+.|.. +-..-..++.. ..+++.....++|-||+-........ +.. ..+....+||+++-.
T Consensus 17 ~~~~gi~~~a~~~gy~-~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~-----~~~-~~~~~~~iPvV~~d~ 89 (280)
T cd06315 17 GVGEGVREAAKAIGWN-LRILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ-----AEL-ELAQKAGIPVVGWHA 89 (280)
T ss_pred HHHHHHHHHHHHcCcE-EEEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH-----HHH-HHHHHCCCCEEEecC
Confidence 4455555666666766 43332223332 35677777889999999643211111 111 335567899999843
No 337
>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=42.30 E-value=1.7e+02 Score=22.96 Aligned_cols=130 Identities=12% Similarity=0.074 Sum_probs=69.5
Q ss_pred CCEEEEEEcCC--hhHHHHHHHHHHhcCCCC---CCCCceEEEEEEee-cCCCCCcCCCCCCCCCCCchhhHHHHHHHHH
Q 044140 6 KPIMMVAIDDS--NHSYYALEWALDYFFPPF---APNHTFQLVLIHAR-PNPPSLLGLSGAGQGSAGSAHVINLVELDTK 79 (166)
Q Consensus 6 ~~~Ilv~vd~s--~~s~~al~~a~~la~~~~---~~~~~~~l~lv~v~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (166)
..++||.+.+. ++-+.+++||.++.. .. ..+ -+.++.++ +.+.....+.+..+ .+.++... ..
T Consensus 52 d~rllvI~GPCSI~d~~~aleyA~~Lk~-l~~~~~d~---l~ivmR~y~eKPRT~~gwkGli~-----DP~ldgs~--~i 120 (353)
T PRK12755 52 DDRLLVVVGPCSIHDPEAALEYARRLKA-LADELSDR---LLIVMRVYFEKPRTTVGWKGLIN-----DPHLDGSF--DI 120 (353)
T ss_pred CCCeEEEeCCCCCCCHHHHHHHHHHHHH-HHhhhhcc---eEEEEEeccccCCCCcCCcCCCC-----Cccccccc--cH
Confidence 46778888775 567788999998876 42 110 23455554 22322233333211 11111100 01
Q ss_pred HHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 80 KRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 80 ~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
+..-++..++.....+.|++ +-+++..-...+.+.++ +|.+.+|++.-.. ..-.+++...+|||.+=
T Consensus 121 ~~GL~~~R~ll~~~~e~Glp-~atE~ld~~~~~y~~Dl-----vs~~aIGARt~es-------q~hre~aSgl~~PVgfK 187 (353)
T PRK12755 121 EEGLRIARKLLLDLVELGLP-LATEALDPISPQYLGDL-----ISWGAIGARTTES-------QTHREMASGLSMPVGFK 187 (353)
T ss_pred HHHHHHHHHHHHHHHHhCCC-EEEEecCcccHHHHHhh-----hhheeeccchhcC-------HHHHHHhcCCCCeeEec
Confidence 12222222332225667999 87877776655555544 5688888875332 22345666788898773
No 338
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=42.12 E-value=91 Score=19.87 Aligned_cols=42 Identities=12% Similarity=-0.004 Sum_probs=30.3
Q ss_pred HHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccCC
Q 044140 89 ATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
+...++..|.. +.... ..+.+.+++.+++.++|.|++.....
T Consensus 19 ~~~~l~~~G~~---vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~ 61 (122)
T cd02071 19 IARALRDAGFE---VIYTGLRQTPEEIVEAAIQEDVDVIGLSSLSG 61 (122)
T ss_pred HHHHHHHCCCE---EEECCCCCCHHHHHHHHHHcCCCEEEEcccch
Confidence 34455666777 32323 37888999999999999999986643
No 339
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=42.12 E-value=1.3e+02 Score=21.80 Aligned_cols=91 Identities=16% Similarity=0.194 Sum_probs=52.0
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
++++-+.+..+|..|+-+|.+.-. . -..++.+.+.....+-+.... ++
T Consensus 2 k~~aL~SGGKDS~~Al~~a~~~G~-e-------V~~Ll~~~p~~~dS~m~H~~n------------------------~~ 49 (223)
T COG2102 2 KVIALYSGGKDSFYALYLALEEGH-E-------VVYLLTVKPENGDSYMFHTPN------------------------LE 49 (223)
T ss_pred cEEEEEecCcHHHHHHHHHHHcCC-e-------eEEEEEEecCCCCeeeeeccc------------------------hH
Confidence 467788899999877777755422 1 345555555444222111110 11
Q ss_pred HHHHHHHhCCCCcccEEeecC---CchhHHHHHHhhhCCcEEEEccc
Q 044140 88 KATSICAKREVNDMPVHVMQG---DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g---~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+...+..-|++ +......| .-.+.+.+..+..++|-||.|.=
T Consensus 50 ~~~~~Ae~~gi~-l~~~~~~g~~e~eve~L~~~l~~l~~d~iv~GaI 95 (223)
T COG2102 50 LAELQAEAMGIP-LVTFDTSGEEEREVEELKEALRRLKVDGIVAGAI 95 (223)
T ss_pred HHHHHHHhcCCc-eEEEecCccchhhHHHHHHHHHhCcccEEEEchh
Confidence 122222333777 54444444 45677778888888999999864
No 340
>PRK08227 autoinducer 2 aldolase; Validated
Probab=42.11 E-value=1.4e+02 Score=22.21 Aligned_cols=70 Identities=9% Similarity=0.014 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhCCCCcccEEeecCC----chhHH---HHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC
Q 044140 81 RAQKVADKATSICAKREVNDMPVHVMQGD----PRNVM---TEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS 153 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~~~i~~~~~~v~~g~----~~~~I---~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~ 153 (166)
+.-+.+.++.+.|.++|++ +-.....|. ..+.| .+.+-+.++|+|=+.-. |..-++++..++
T Consensus 124 ~~l~~l~~v~~ea~~~G~P-lla~~prG~~~~~~~~~ia~aaRiaaELGADiVK~~y~----------~~~f~~vv~a~~ 192 (264)
T PRK08227 124 QSIKNIIQLVDAGLRYGMP-VMAVTAVGKDMVRDARYFSLATRIAAEMGAQIIKTYYV----------EEGFERITAGCP 192 (264)
T ss_pred HHHHHHHHHHHHHHHhCCc-EEEEecCCCCcCchHHHHHHHHHHHHHHcCCEEecCCC----------HHHHHHHHHcCC
Confidence 3444567778889999999 554333341 12222 34566889998876543 222346777899
Q ss_pred ccEEEEcC
Q 044140 154 CTVMIVKM 161 (166)
Q Consensus 154 ~pVlvv~~ 161 (166)
+||++--.
T Consensus 193 vPVviaGG 200 (264)
T PRK08227 193 VPIVIAGG 200 (264)
T ss_pred CcEEEeCC
Confidence 99998643
No 341
>PLN02285 methionyl-tRNA formyltransferase
Probab=41.68 E-value=1.6e+02 Score=22.68 Aligned_cols=43 Identities=9% Similarity=0.190 Sum_probs=26.7
Q ss_pred HHHHHHhCCCCcccEEeecCC-chhHHHHHHhhhCCcEEEEcccC
Q 044140 89 ATSICAKREVNDMPVHVMQGD-PRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~-~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
+.+.+.+.|++ ......... ....+++..++.++|++|+...+
T Consensus 60 v~~~A~~~gIp-~~~v~~~~~~~~~~~~~~l~~~~~Dliv~~~~~ 103 (334)
T PLN02285 60 VAQLALDRGFP-PDLIFTPEKAGEEDFLSALRELQPDLCITAAYG 103 (334)
T ss_pred HHHHHHHcCCC-cceecCccccCCHHHHHHHHhhCCCEEEhhHhh
Confidence 34445667887 543222222 23466777888999999998653
No 342
>TIGR02127 pyrF_sub2 orotidine 5'-phosphate decarboxylase, subfamily 2. This model represents orotidine 5'-monophosphate decarboxylase, the PyrF protein of pyrimidine nucleotide biosynthesis. See TIGR01740 for a related but distinct subfamily of the same enzyme.
Probab=41.40 E-value=1.5e+02 Score=22.08 Aligned_cols=34 Identities=12% Similarity=0.055 Sum_probs=23.4
Q ss_pred CEEEEEEcCChh----------HHHHHHHHHHhcCCCCCCCCceEEEEE
Q 044140 7 PIMMVAIDDSNH----------SYYALEWALDYFFPPFAPNHTFQLVLI 45 (166)
Q Consensus 7 ~~Ilv~vd~s~~----------s~~al~~a~~la~~~~~~~~~~~l~lv 45 (166)
..+.|.+|..+. .....+|...+++ ..+. .+..+
T Consensus 14 s~lcvglDp~~~~~~~~~~~~~~~~~~~f~~~ii~-~l~~----~v~~v 57 (261)
T TIGR02127 14 SPLCVGLDPRLELLPEWGLPSSAAGLQAFCLRIID-ATAE----YAAVV 57 (261)
T ss_pred CCEEEEECCChhhcccccccchHHHHHHHHHHHHH-hcCC----cceEE
Confidence 456778888764 3445688999999 7765 55444
No 343
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=41.39 E-value=80 Score=22.81 Aligned_cols=50 Identities=10% Similarity=0.104 Sum_probs=29.8
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC-ccEEEEcCCC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS-CTVMIVKMPK 163 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv~~~~ 163 (166)
...+.+.+.+.+.|.|++|....-. .-...+...+-+.++ .||++.|...
T Consensus 14 ~~~~~~~~~~~gtdai~vGGS~~v~---~~~~~~~~~ik~~~~~~Pvilfp~~~ 64 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVGGSDGVS---STLDNVVRLIKRIRRPVPVILFPSNP 64 (219)
T ss_pred HHHHHHHHHhcCCCEEEECCccchh---hhHHHHHHHHHHhcCCCCEEEeCCCc
Confidence 4557777787889999999653211 112223333333333 8999988654
No 344
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=41.36 E-value=95 Score=20.69 Aligned_cols=40 Identities=8% Similarity=0.055 Sum_probs=24.1
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhh----hCCcEEEEc
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVER----FHPTILVLG 129 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~----~~~dliV~g 129 (166)
+...++++|.+ +.....-.|..+.|.+..++ ..+|+||..
T Consensus 25 l~~~l~~~G~~-v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVitt 68 (152)
T cd00886 25 LVELLEEAGHE-VVAYEIVPDDKDEIREALIEWADEDGVDLILTT 68 (152)
T ss_pred HHHHHHHcCCe-eeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 34456777877 65554445555555554432 279999985
No 345
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=41.33 E-value=1.2e+02 Score=20.87 Aligned_cols=41 Identities=15% Similarity=0.170 Sum_probs=26.5
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhh--hCCcEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVER--FHPTILVLG 129 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 129 (166)
.+...+.+.|+. +......+|..+.|.+..++ ..+|+||..
T Consensus 23 ~l~~~L~~~G~~-v~~~~~v~Dd~~~I~~~l~~~~~~~dlVItt 65 (170)
T cd00885 23 FLAKELAELGIE-VYRVTVVGDDEDRIAEALRRASERADLVITT 65 (170)
T ss_pred HHHHHHHHCCCE-EEEEEEeCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 444556777888 76655556666556555443 278998885
No 346
>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=41.29 E-value=1.7e+02 Score=22.77 Aligned_cols=33 Identities=9% Similarity=0.032 Sum_probs=25.5
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEee
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHAR 48 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~ 48 (166)
++|+|++.+.-+|.-++..+.+ .+. +++.+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~-----~G~----~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ-----QGY----EVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH-----cCC----eEEEEEEE
Confidence 4799999999999888766544 234 88888884
No 347
>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=41.24 E-value=72 Score=23.47 Aligned_cols=44 Identities=16% Similarity=0.234 Sum_probs=29.6
Q ss_pred HHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCCC
Q 044140 115 TEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPKS 164 (166)
Q Consensus 115 ~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~~ 164 (166)
....+++++|.||.=..|..+.... -...+...+||++|.++..
T Consensus 187 ~al~~~~~i~~lVtK~SG~~g~~eK------i~AA~~lgi~vivI~RP~~ 230 (249)
T PF02571_consen 187 RALFRQYGIDVLVTKESGGSGFDEK------IEAARELGIPVIVIKRPPE 230 (249)
T ss_pred HHHHHHcCCCEEEEcCCCchhhHHH------HHHHHHcCCeEEEEeCCCC
Confidence 4567889999999855544332222 2356678999999977654
No 348
>PRK08349 hypothetical protein; Validated
Probab=41.08 E-value=1.2e+02 Score=21.11 Aligned_cols=34 Identities=15% Similarity=0.069 Sum_probs=26.1
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
+++++.+.|..+|..++-++.+ .+. ++.++|+..
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~-----~g~----~v~av~~d~ 34 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR-----RGV----EVYPVHFRQ 34 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH-----cCC----eEEEEEEeC
Confidence 3689999999999888854432 356 899999964
No 349
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=40.86 E-value=94 Score=20.13 Aligned_cols=41 Identities=5% Similarity=0.016 Sum_probs=23.6
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhh--hCCcEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVER--FHPTILVLG 129 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 129 (166)
.+...+++.|.+ +.....-.|..+.|.+..++ ..+|+||..
T Consensus 23 ~l~~~l~~~G~~-v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvitt 65 (133)
T cd00758 23 ALEALLEDLGCE-VIYAGVVPDDADSIRAALIEASREADLVLTT 65 (133)
T ss_pred HHHHHHHHCCCE-EEEeeecCCCHHHHHHHHHHHHhcCCEEEEC
Confidence 334455667877 65554445555555544432 158998885
No 350
>PRK09875 putative hydrolase; Provisional
Probab=40.81 E-value=1e+02 Score=23.35 Aligned_cols=49 Identities=10% Similarity=-0.005 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCC--cEEEEcccC
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHP--TILVLGSHG 132 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~--dliV~g~~~ 132 (166)
++.++.+.....+-|.+ +.+|.-.++...++++..++.++ +-+|+|.-.
T Consensus 138 ~kvl~Aaa~a~~~TG~p-i~~Ht~~~~~g~e~l~il~e~Gvd~~rvvi~H~d 188 (292)
T PRK09875 138 EKVFIAAALAHNQTGRP-ISTHTSFSTMGLEQLALLQAHGVDLSRVTVGHCD 188 (292)
T ss_pred HHHHHHHHHHHHHHCCc-EEEcCCCccchHHHHHHHHHcCcCcceEEEeCCC
Confidence 33444444444555888 77776667777778888888888 889998764
No 351
>PRK08392 hypothetical protein; Provisional
Probab=40.65 E-value=1.2e+02 Score=21.48 Aligned_cols=66 Identities=9% Similarity=-0.052 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCcc--chhhhcccHHHHHhhcCCcc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGA--VKRAVLGSVSDYSAHHCSCT 155 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~--~~~~~~gs~~~~l~~~~~~p 155 (166)
.++++.+.+.+.|+. +++-....-|...+++.+++.+. .+++|+-.+.. +.. + ..+..+++++..+
T Consensus 138 ~~~~i~~~~~~~g~~-lEiNt~~~~p~~~~l~~~~~~G~-~~~igSDAH~~~~vg~--~-~~a~~~~~~~g~~ 205 (215)
T PRK08392 138 ELKEILDLAEAYGKA-FEISSRYRVPDLEFIRECIKRGI-KLTFASDAHRPEDVGN--V-SWSLKVFKKAGGK 205 (215)
T ss_pred HHHHHHHHHHHhCCE-EEEeCCCCCCCHHHHHHHHHcCC-EEEEeCCCCChHHCCc--H-HHHHHHHHHcCCC
Confidence 445666777777887 77665556777889999998886 58999775543 222 1 2356677766654
No 352
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=40.58 E-value=1.2e+02 Score=20.68 Aligned_cols=40 Identities=5% Similarity=0.024 Sum_probs=24.1
Q ss_pred HHHHHHhCCCCcccEEeecCCchhHHHHHHhh----hCCcEEEEc
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRNVMTEAVER----FHPTILVLG 129 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~----~~~dliV~g 129 (166)
+...+++.|.. +.......|..+.|.+..++ ..+|+||..
T Consensus 27 l~~~L~~~G~~-v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVItt 70 (163)
T TIGR02667 27 LVERLTEAGHR-LADRAIVKDDIYQIRAQVSAWIADPDVQVILIT 70 (163)
T ss_pred HHHHHHHCCCe-EEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 34445667887 65544445555555554433 479999985
No 353
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=40.51 E-value=1.8e+02 Score=22.85 Aligned_cols=37 Identities=14% Similarity=0.222 Sum_probs=23.0
Q ss_pred hCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCc
Q 044140 95 KREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 95 ~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
..|++ ++..-........|..... ++|.||+|+...+
T Consensus 276 ~~g~~-v~~~~~~~~~~~~i~~~~~--~~d~ii~GspT~~ 312 (394)
T PRK11921 276 NKDVT-VKLYNSAKSDKNDIITEVF--KSKAILVGSSTIN 312 (394)
T ss_pred CCCCe-EEEEECCCCCHHHHHHHHH--hCCEEEEECCCcC
Confidence 44666 5544334444455555444 7999999998743
No 354
>COG0107 HisF Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]
Probab=40.46 E-value=65 Score=23.64 Aligned_cols=60 Identities=18% Similarity=0.125 Sum_probs=38.6
Q ss_pred CCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 97 EVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 97 ~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
|++ +.-+-..|+|.+....|.++ ++|-||.=--..+.-.+...-++.+++...+-+|+.|
T Consensus 20 Gv~-F~~lrd~GDpVelA~~Y~e~-GADElvFlDItAs~~gr~~~~~vv~r~A~~vfiPltV 79 (256)
T COG0107 20 GVN-FKNLRDAGDPVELAKRYNEE-GADELVFLDITASSEGRETMLDVVERVAEQVFIPLTV 79 (256)
T ss_pred ccc-ccchhhcCChHHHHHHHHHc-CCCeEEEEecccccccchhHHHHHHHHHhhceeeeEe
Confidence 555 55555568888777777665 7777766433233333445556778888888888876
No 355
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=40.28 E-value=86 Score=24.92 Aligned_cols=24 Identities=13% Similarity=0.152 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDP 110 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~ 110 (166)
..++++...+.+.+ +...++.||.
T Consensus 26 ~~l~~l~~~i~~~~---~D~viIaGDi 49 (407)
T PRK10966 26 AFLDWLLEQVQEHQ---VDAIIVAGDI 49 (407)
T ss_pred HHHHHHHHHHHhcC---CCEEEECCcc
Confidence 34455555555443 4456666644
No 356
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=40.16 E-value=93 Score=19.43 Aligned_cols=66 Identities=8% Similarity=-0.037 Sum_probs=40.0
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC--ccEEE
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS--CTVMI 158 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~--~pVlv 158 (166)
.+...+++.|.. +... ....+.+.+.+.+.+.++|+|.+........ ..-.....+.+..+ +++++
T Consensus 18 ~~~~~l~~~G~~-v~~l-~~~~~~~~~~~~i~~~~pdiV~iS~~~~~~~---~~~~~~~~~~~~~p~~~~ivv 85 (125)
T cd02065 18 IVAIALRDNGFE-VIDL-GVDVPPEEIVEAAKEEDADVVGLSALSTTHM---EAMKLVIEALKELGIDIPVVV 85 (125)
T ss_pred HHHHHHHHCCCE-EEEc-CCCCCHHHHHHHHHHcCCCEEEEecchHhHH---HHHHHHHHHHHhcCCCCeEEE
Confidence 344446666777 3332 2246778889999999999999986543322 11223455556555 55554
No 357
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=40.01 E-value=1.2e+02 Score=24.45 Aligned_cols=58 Identities=10% Similarity=0.092 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 73 LVELDTKKRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 73 ~~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.+...-+....+++++.+.+.+.|.. +.+---..+..+-|-+.+++.+.+.||.+..
T Consensus 54 eik~~~lenLd~~l~~~~~~v~~~Gg~-vy~A~~aedA~~ii~~iv~~k~~k~vVKsKS 111 (459)
T COG1139 54 EIKLHVLENLDEYLEQLEENVTRNGGH-VYFAKDAEDAREIIGEIVGEKNGKKVVKSKS 111 (459)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHcCCE-EEEeCCHHHHHHHHHHHHhhccCcEEEEecc
Confidence 333444455566777777777777877 4332222255555668888899999999865
No 358
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=39.38 E-value=81 Score=24.17 Aligned_cols=43 Identities=9% Similarity=0.082 Sum_probs=24.9
Q ss_pred hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 111 RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+.+.+.+++.++|.|| +|..+-- .++..+....+.|++.||=
T Consensus 66 v~~~~~~~~~~~~d~IIaiGGGs~i--------D~aK~ia~~~~~p~i~IPT 109 (337)
T cd08177 66 TEAAVAAAREAGADGIVAIGGGSTI--------DLAKAIALRTGLPIIAIPT 109 (337)
T ss_pred HHHHHHHHHhcCCCEEEEeCCcHHH--------HHHHHHHHHhcCCEEEEcC
Confidence 45566666778999988 6633221 1222222223788888884
No 359
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=39.37 E-value=84 Score=18.73 Aligned_cols=52 Identities=12% Similarity=0.256 Sum_probs=27.8
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCc--cchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYG--AVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~--~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
.+.|.+..++++++.|.+|..+.- .....+.-.+.+.+-++.++||.+.-+.
T Consensus 40 ~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~~~l~~~l~~~~~~pv~~~nDa 93 (99)
T smart00732 40 AARLKKLIKKYQPDLIVIGLPLNMNGTASRETEEAFAELLKERFNLPVVLVDER 93 (99)
T ss_pred HHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHHHHHHHHHHHhhCCcEEEEeCC
Confidence 455555555566777777755421 1111111233444555678999988653
No 360
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=39.29 E-value=1.8e+02 Score=22.41 Aligned_cols=67 Identities=9% Similarity=0.068 Sum_probs=38.6
Q ss_pred HHHHHHHHHhCCCCcccE-EeecCCc----hhHHHHHHhhhCCcEEE-EcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 86 ADKATSICAKREVNDMPV-HVMQGDP----RNVMTEAVERFHPTILV-LGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~-~v~~g~~----~~~I~~~a~~~~~dliV-~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
.+++.+.+++.|+. +.. ....+++ .+.+.+.+++.++|.|| +|..+-- .++..+.....+|++.|
T Consensus 38 ~~~v~~~l~~~~~~-~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavGGGs~~--------D~aK~ia~~~~~p~i~V 108 (345)
T cd08171 38 KDKIKAALEQSGIE-ITDFIWYGGESTYENVERLKKNPAVQEADMIFAVGGGKAI--------DTVKVLADKLGKPVFTF 108 (345)
T ss_pred HHHHHHHHHHCCCe-EEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeCCcHHH--------HHHHHHHHHcCCCEEEe
Confidence 45556666667776 542 2334544 34566777888999998 5533211 12222222336899998
Q ss_pred cC
Q 044140 160 KM 161 (166)
Q Consensus 160 ~~ 161 (166)
|-
T Consensus 109 PT 110 (345)
T cd08171 109 PT 110 (345)
T ss_pred cC
Confidence 84
No 361
>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=39.26 E-value=90 Score=19.02 Aligned_cols=33 Identities=15% Similarity=0.106 Sum_probs=25.1
Q ss_pred EEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecC
Q 044140 9 MMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPN 50 (166)
Q Consensus 9 Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~ 50 (166)
|+|++.+..+|...+..+.+. . . ++.++|+...
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~-~----~----~~~~~~~~~~ 33 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKL-G----Y----QVIAVTVDHG 33 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHh-C----C----CEEEEEEcCC
Confidence 589999999998888777654 2 2 6788888654
No 362
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=39.18 E-value=33 Score=27.35 Aligned_cols=23 Identities=9% Similarity=0.239 Sum_probs=20.2
Q ss_pred CchhHHHHHHhhhCCcEEEEccc
Q 044140 109 DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+..+.|+++|++.++||+|+|..
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCc
Confidence 45789999999999999999965
No 363
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 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 [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=39.18 E-value=1.3e+02 Score=20.65 Aligned_cols=50 Identities=12% Similarity=0.278 Sum_probs=26.6
Q ss_pred ccEEeecCCchhHHH--HHH-hhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 101 MPVHVMQGDPRNVMT--EAV-ERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 101 ~~~~v~~g~~~~~I~--~~a-~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
+++.+..+...+++- +.. .+.++|.||-. |.+++.|=++.+.||+-++..
T Consensus 10 ~~i~v~~~~~e~~v~~a~~~~~~~g~dViIsR------------G~ta~~lr~~~~iPVV~I~~s 62 (176)
T PF06506_consen 10 AEIDVIEASLEEAVEEARQLLESEGADVIISR------------GGTAELLRKHVSIPVVEIPIS 62 (176)
T ss_dssp SEEEEEE--HHHHHHHHHHHHTTTT-SEEEEE------------HHHHHHHHCC-SS-EEEE---
T ss_pred ceEEEEEecHHHHHHHHHHhhHhcCCeEEEEC------------CHHHHHHHHhCCCCEEEECCC
Confidence 455566664444443 333 45789988863 556666666778999988753
No 364
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=39.12 E-value=28 Score=28.79 Aligned_cols=51 Identities=14% Similarity=0.202 Sum_probs=32.5
Q ss_pred chhHHHHHHhhhCCcEEEEcccCC--ccchh----hhcccHHHHHhhcCCccEEEEc
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGY--GAVKR----AVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~--~~~~~----~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
.-++|+..|++++.|||++|.--+ ....+ ..++..-.+++..-||-+=++.
T Consensus 40 tFeEIl~iA~e~~VDmiLlGGDLFHeNkPSr~~L~~~i~lLRryClgdkP~~le~lS 96 (646)
T KOG2310|consen 40 TFEEILEIAQENDVDMILLGGDLFHENKPSRKTLHRCLELLRRYCLGDKPVQLEILS 96 (646)
T ss_pred HHHHHHHHHHhcCCcEEEecCcccccCCccHHHHHHHHHHHHHHccCCCceeeEEec
Confidence 368999999999999999996421 11111 1234455566656566555553
No 365
>PRK10799 metal-binding protein; Provisional
Probab=38.74 E-value=1.5e+02 Score=21.59 Aligned_cols=56 Identities=14% Similarity=0.339 Sum_probs=32.4
Q ss_pred cCCchhHHHHHHhhhCCcEEEEcccCCcc------------------chhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 107 QGDPRNVMTEAVERFHPTILVLGSHGYGA------------------VKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 107 ~g~~~~~I~~~a~~~~~dliV~g~~~~~~------------------~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
.|. +..++..+.+.++|++|-|--.+.. ...+.+...++.|-.+.+.|+.+++-+.
T Consensus 172 ~Gs-G~~~i~~a~~~gaD~~ITGd~k~h~~~~A~~~gl~li~~GH~~sE~~~~~~la~~L~~~~~~~~~~i~~~~ 245 (247)
T PRK10799 172 TGG-GQSFIDSAARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHATERGGIRALSEWLNENTDLDVTFIDIPN 245 (247)
T ss_pred CCc-hHHHHHHHHHcCCCEEEECCcchHHHHHHHHCCCeEEEcCchHHHHHHHHHHHHHHHHhcCCCEEEeCCCC
Confidence 343 3345666666788998887443221 1222334455555566778888877553
No 366
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=38.73 E-value=1.2e+02 Score=23.48 Aligned_cols=62 Identities=8% Similarity=0.180 Sum_probs=35.3
Q ss_pred HHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHHHH-hhcCCccEEEEc
Q 044140 92 ICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSDYS-AHHCSCTVMIVK 160 (166)
Q Consensus 92 ~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~l-~~~~~~pVlvv~ 160 (166)
.+.+.|++ +.. ...+. +..+..+.++|++++|...- +.+-. -.|+..-.+ .++.++|++++=
T Consensus 191 eL~~~GI~-vtl--I~Dsa---~~~~M~~~~Vd~VivGAd~I~aNG~v~N-KiGT~~lAl~Ak~~~VPfyV~a 256 (329)
T PRK06371 191 ELAQEGID-HAI--IADNA---AGYFMRKKEIDLVIVGADRIASNGDFAN-KIGTYEKAVLAKVNGIPFYVAA 256 (329)
T ss_pred HHHHCCCC-EEE--EcccH---HHHHhhhcCCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEec
Confidence 44556887 443 22222 22333445899999998752 22221 235554444 466789999974
No 367
>PRK14974 cell division protein FtsY; Provisional
Probab=38.53 E-value=1.9e+02 Score=22.45 Aligned_cols=51 Identities=12% Similarity=0.118 Sum_probs=28.9
Q ss_pred HHHHHHhCCCCcccEEeecCCchh---HHHHHHhhhCCcEEEEcccCCccchhhh
Q 044140 89 ATSICAKREVNDMPVHVMQGDPRN---VMTEAVERFHPTILVLGSHGYGAVKRAV 140 (166)
Q Consensus 89 ~~~~~~~~~i~~~~~~v~~g~~~~---~I~~~a~~~~~dliV~g~~~~~~~~~~~ 140 (166)
+...+...|++ +......+++.. ..+++++..++|+|++-+.++......+
T Consensus 187 L~~~a~~lgv~-v~~~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~~l 240 (336)
T PRK14974 187 LEEHAERLGVK-VIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMHTDANL 240 (336)
T ss_pred HHHHHHHcCCc-eecccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccCCcHHH
Confidence 33444455666 443222335544 3344566678999999888766433333
No 368
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=38.27 E-value=1.6e+02 Score=23.14 Aligned_cols=61 Identities=8% Similarity=0.111 Sum_probs=35.2
Q ss_pred HHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHH-HHhhcCCccEEEEc
Q 044140 93 CAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSD-YSAHHCSCTVMIVK 160 (166)
Q Consensus 93 ~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~-~l~~~~~~pVlvv~ 160 (166)
+.+.|++ +... ..+. +..+..+..+|++|+|...- +..-. -.|...- -+.++.++|++|+=
T Consensus 215 L~~~GI~-vtlI--~Dsa---v~~~M~~~~Vd~VivGAd~I~~nG~v~N-KiGTy~lA~~Ak~~~vPfyV~A 279 (356)
T PRK08334 215 YHYDGIP-LKLI--SDNM---AGFVMQQGKVDAIIVGADRIVANGDFAN-KIGTYTLAVLAKEHGIPFFTVA 279 (356)
T ss_pred HHHCCCC-EEEE--ehhH---HHHHhhhcCCCEEEECccEEecCCCEee-hhhHHHHHHHHHHhCCCEEEEc
Confidence 4456888 4432 2222 22334456899999998752 22221 2355543 34467789999983
No 369
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=38.18 E-value=1.1e+02 Score=21.93 Aligned_cols=11 Identities=18% Similarity=0.205 Sum_probs=6.7
Q ss_pred ccEEeecCCch
Q 044140 101 MPVHVMQGDPR 111 (166)
Q Consensus 101 ~~~~v~~g~~~ 111 (166)
++..+..||..
T Consensus 33 ~d~vv~~GDl~ 43 (239)
T TIGR03729 33 IDHLHIAGDIS 43 (239)
T ss_pred CCEEEECCccc
Confidence 45666677644
No 370
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=38.11 E-value=1.5e+02 Score=22.95 Aligned_cols=21 Identities=14% Similarity=0.298 Sum_probs=16.0
Q ss_pred hhHHHHHHhhhCCcEEE-Eccc
Q 044140 111 RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV-~g~~ 131 (166)
.+.+.+.++++++|.|| +|..
T Consensus 66 v~~~~~~~~~~~~D~IIavGGG 87 (367)
T cd08182 66 LAAGIRLLREFGPDAVLAVGGG 87 (367)
T ss_pred HHHHHHHHHhcCcCEEEEeCCc
Confidence 45677888899999988 5543
No 371
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=38.00 E-value=2e+02 Score=22.63 Aligned_cols=34 Identities=9% Similarity=-0.011 Sum_probs=23.2
Q ss_pred ccEEeecC--CchhHHHHHHhhhCCcEEEEcccCCc
Q 044140 101 MPVHVMQG--DPRNVMTEAVERFHPTILVLGSHGYG 134 (166)
Q Consensus 101 ~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~~~ 134 (166)
.++.++.+ .....|++.+++.+.+.+.+|+.+..
T Consensus 235 a~vVvv~~~~~~~~~l~~~a~~~g~~~~wigs~~w~ 270 (403)
T cd06361 235 VNVIVVFARQFHVFLLFNKAIERNINKVWIASDNWS 270 (403)
T ss_pred CeEEEEEeChHHHHHHHHHHHHhCCCeEEEEECccc
Confidence 34444444 46677788888888888888876543
No 372
>PRK11907 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed
Probab=37.88 E-value=2.6e+02 Score=24.71 Aligned_cols=42 Identities=14% Similarity=0.110 Sum_probs=31.0
Q ss_pred HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 113 VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 113 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
-+++..+..++|...+|.|.+.....+| .+++..+++|++.-
T Consensus 192 P~i~amN~LGyDA~tLGNHEFDyG~d~L-----~~~l~~a~fPvl~A 233 (814)
T PRK11907 192 PMYAALEALGFDAGTLGNHEFNYGLDYL-----EKVIATANMPIVNA 233 (814)
T ss_pred HHHHHHhccCCCEEEechhhcccCHHHH-----HHHHHhCCCCEEEe
Confidence 3788888999999999999765443332 35677888998753
No 373
>PRK13690 hypothetical protein; Provisional
Probab=37.80 E-value=1.4e+02 Score=20.86 Aligned_cols=114 Identities=12% Similarity=0.126 Sum_probs=67.8
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKR 96 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 96 (166)
.....+++-.++.+. .... ++.++-.....-.....+. ....+-++...+.+.+.+.+.
T Consensus 8 ~~~~~~~~El~~~a~-l~~g----~i~VvGcSTSEV~G~~IGt----------------~ss~eva~~i~~~l~~~~~~~ 66 (184)
T PRK13690 8 KQTRQILEELLEQAN-LKPG----QIFVLGCSTSEVLGERIGT----------------AGSLEVAEAIVEALLEVLKET 66 (184)
T ss_pred HHHHHHHHHHHHhhC-CCCC----CEEEEecchHhhCCcccCC----------------cChHHHHHHHHHHHHHHhhhc
Confidence 345566666677777 5444 7877776543332222222 113455566777777777788
Q ss_pred CCCcccEEeecC-CchhHHHH-HHhhhCCcEEEE-cccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 97 EVNDMPVHVMQG-DPRNVMTE-AVERFHPTILVL-GSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 97 ~i~~~~~~v~~g-~~~~~I~~-~a~~~~~dliV~-g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
|+. .-....+. +.+-.+-+ .+++++.+.+-+ .....+ ||.+....++.+.||+|=
T Consensus 67 gi~-LA~QcCEHLNRALvvEr~~a~~~~le~V~VvP~~~AG-------Gs~a~~Ay~~~~dPV~VE 124 (184)
T PRK13690 67 GIH-LAVQGCEHLNRALVVEREVAEKYGLEIVTVVPVLHAG-------GSLATAAYQHMKDPVVVE 124 (184)
T ss_pred CcE-EEEechhhhHHHHHHhHHHHHHcCCeEEEEecCCCCC-------cHHHHHHHHhCCCCEEEE
Confidence 888 55544443 33333333 567677776655 333333 777778888889998874
No 374
>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=37.77 E-value=84 Score=22.67 Aligned_cols=50 Identities=12% Similarity=0.032 Sum_probs=30.7
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
...+++.+++.++|.|++......+......-....++...+++||+..-
T Consensus 151 ~~~~~~~l~~~G~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~~~pvia~G 200 (243)
T cd04731 151 AVEWAKEVEELGAGEILLTSMDRDGTKKGYDLELIRAVSSAVNIPVIASG 200 (243)
T ss_pred HHHHHHHHHHCCCCEEEEeccCCCCCCCCCCHHHHHHHHhhCCCCEEEeC
Confidence 34566777788999888754433221111223456777777889988764
No 375
>PRK03673 hypothetical protein; Provisional
Probab=37.67 E-value=1.8e+02 Score=23.18 Aligned_cols=42 Identities=10% Similarity=0.195 Sum_probs=30.8
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhh--CCcEEEEc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERF--HPTILVLG 129 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~--~~dliV~g 129 (166)
..+...+.+.|+. +......+|..+.|.+..++. .+|+||+.
T Consensus 24 ~~la~~L~~~G~~-v~~~~~v~D~~~~i~~~l~~a~~~~DlVI~t 67 (396)
T PRK03673 24 AWLADFFFHQGLP-LSRRNTVGDNLDALVAILRERSQHADVLIVN 67 (396)
T ss_pred HHHHHHHHHCCCE-EEEEEEcCCCHHHHHHHHHHHhccCCEEEEc
Confidence 3445567778999 888888888888887775533 68988885
No 376
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=37.53 E-value=99 Score=21.92 Aligned_cols=68 Identities=6% Similarity=-0.100 Sum_probs=34.5
Q ss_pred HHHHHHHHhC-CCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc---CCccEEEE
Q 044140 87 DKATSICAKR-EVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH---CSCTVMIV 159 (166)
Q Consensus 87 ~~~~~~~~~~-~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~---~~~pVlvv 159 (166)
..+...+.+. |.. +....... ...+.+... ++|.|+++........+.+-++-...+++. ...|++-+
T Consensus 49 ~~~~~a~~~l~G~~-~~~~~~~~--~~~~~~~l~--~ad~I~l~GG~~~~~~~~l~~~~l~~~l~~~~~~g~~i~G~ 120 (212)
T cd03146 49 ARFYAAFESLRGVE-VSHLHLFD--TEDPLDALL--EADVIYVGGGNTFNLLAQWREHGLDAILKAALERGVVYIGW 120 (212)
T ss_pred HHHHHHHhhccCcE-EEEEeccC--cccHHHHHh--cCCEEEECCchHHHHHHHHHHcCHHHHHHHHHHCCCEEEEE
Confidence 3444444555 665 44322222 334445555 899999987433333444444444445543 24666544
No 377
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=37.30 E-value=1.6e+02 Score=21.23 Aligned_cols=43 Identities=12% Similarity=0.188 Sum_probs=30.7
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+.++...+++.|.. +=.-+-.+.+.+.+..+.. ..|+|.+-+-
T Consensus 95 ~~~~l~~ik~~g~k-~GlalnP~Tp~~~i~~~l~--~~D~vlvMtV 137 (220)
T PRK08883 95 VDRTLQLIKEHGCQ-AGVVLNPATPLHHLEYIMD--KVDLILLMSV 137 (220)
T ss_pred HHHHHHHHHHcCCc-EEEEeCCCCCHHHHHHHHH--hCCeEEEEEe
Confidence 44555666777877 6555666789999999988 7777766443
No 378
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=37.17 E-value=1.7e+02 Score=21.46 Aligned_cols=35 Identities=23% Similarity=0.305 Sum_probs=25.4
Q ss_pred cCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCC
Q 044140 14 DDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSL 54 (166)
Q Consensus 14 d~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~ 54 (166)
.|.-.+..++-.|..++. . |. .+.++-..+..+..
T Consensus 11 GGaGKTT~~~~LAs~la~-~-G~----~V~lIDaDpn~pl~ 45 (231)
T PF07015_consen 11 GGAGKTTAAMALASELAA-R-GA----RVALIDADPNQPLA 45 (231)
T ss_pred CCCcHHHHHHHHHHHHHH-C-CC----eEEEEeCCCCCcHH
Confidence 345567888888989988 4 55 89999887665543
No 379
>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=37.08 E-value=70 Score=19.20 Aligned_cols=43 Identities=16% Similarity=0.222 Sum_probs=25.5
Q ss_pred HHHHHHHHhCCCCcccEEeecCC-chhHHH-HHHhhhCCcEEEEcccC
Q 044140 87 DKATSICAKREVNDMPVHVMQGD-PRNVMT-EAVERFHPTILVLGSHG 132 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~-~~~~I~-~~a~~~~~dliV~g~~~ 132 (166)
+.+.+.+++.|+. +.++..... +.+.+. +.+. .+|+||+....
T Consensus 18 e~L~~aA~~~G~~-i~VE~qg~~g~~~~lt~~~i~--~Ad~viia~d~ 62 (85)
T TIGR00829 18 EALEKAAKKRGWE-VKVETQGSVGAQNALTAEDIA--AADGVILAADR 62 (85)
T ss_pred HHHHHHHHHCCCe-EEEEecCCcCccCCCCHHHHH--hCCEEEEeccC
Confidence 4455566777888 776664432 222222 2334 89999998654
No 380
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=37.00 E-value=2.1e+02 Score=22.50 Aligned_cols=111 Identities=11% Similarity=0.017 Sum_probs=58.3
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHH-----
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTK----- 79 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 79 (166)
..++|+|+..+.-+|.-+ +.+.+ ..+- +|..+|...... .....- ...+...+.+....
T Consensus 2 ~~~kV~v~mSGGVDSSVa----A~lLk-~QGy----eViGl~m~~~~~--~~~~~C-----~s~~d~~da~~va~~LGIp 65 (356)
T COG0482 2 KKKKVLVGMSGGVDSSVA----AYLLK-EQGY----EVIGLFMKNWDE--DGGGGC-----CSEEDLRDAERVADQLGIP 65 (356)
T ss_pred CCcEEEEEccCCHHHHHH----HHHHH-HcCC----eEEEEEEEeecc--CCCCcC-----CchhHHHHHHHHHHHhCCc
Confidence 468999999998666433 34445 5566 999999864432 000000 12222233332222
Q ss_pred --------HHHHHHHHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEcccC
Q 044140 80 --------KRAQKVADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 80 --------~~~~~~l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
+..+..++.+.+.......+ ---.... ----..++++|++.++|.|+.|..-
T Consensus 66 ~~~vdf~~~y~~~V~~~f~~~Y~~G~TP-NPci~CN~~iKF~~~l~~a~~lgad~iATGHYa 126 (356)
T COG0482 66 LYVVDFEKEFWNKVFEYFLAEYKAGKTP-NPCILCNKEIKFKALLDYAKELGADYIATGHYA 126 (356)
T ss_pred eEEEchHHHHHHHHHHHHHHHHhCCCCC-CcchhcCHHHHHHHHHHHHHHcCCCeEEEeeeE
Confidence 22233334444444332222 1111111 1235678899999999999999753
No 381
>PRK00766 hypothetical protein; Provisional
Probab=36.95 E-value=75 Score=22.49 Aligned_cols=55 Identities=16% Similarity=0.218 Sum_probs=36.0
Q ss_pred ccEEeecC-CchhHHHHHHhh----hCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 101 MPVHVMQG-DPRNVMTEAVER----FHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 101 ~~~~v~~g-~~~~~I~~~a~~----~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
+....+.| |.-+.|++..+. .+..+|++..-..+++.-. ..+.|-+.+..||++|
T Consensus 45 ~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNvv----D~~~l~~~tg~PVI~V 104 (194)
T PRK00766 45 SRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNVV----DIEELYRETGLPVIVV 104 (194)
T ss_pred EEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEEe----cHHHHHHHHCCCEEEE
Confidence 33444456 778888888875 3555777765545444311 2467778889999999
No 382
>PRK00211 sulfur relay protein TusC; Validated
Probab=36.50 E-value=1.2e+02 Score=19.50 Aligned_cols=37 Identities=8% Similarity=0.038 Sum_probs=25.4
Q ss_pred CEEEEEEcCCh----hHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 7 PIMMVAIDDSN----HSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 7 ~~Ilv~vd~s~----~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
++|++.+..+| .+..+++.|+..+. ++- ++.++...+
T Consensus 2 ~ki~~i~~~~Pyg~~~~~eaLd~ala~~a--~~~----~v~vff~~D 42 (119)
T PRK00211 2 KRIAFVFRQAPHGTASGREGLDALLATSA--FTE----DIGVFFIDD 42 (119)
T ss_pred ceEEEEecCCCCCCHHHHHHHHHHHHHhc--ccC----CeeEEEEhh
Confidence 67999988765 46677777777665 444 677776643
No 383
>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=36.35 E-value=68 Score=25.51 Aligned_cols=27 Identities=22% Similarity=0.437 Sum_probs=15.0
Q ss_pred CCchhHHHHHHh-hhCCcEEEEcccCCc
Q 044140 108 GDPRNVMTEAVE-RFHPTILVLGSHGYG 134 (166)
Q Consensus 108 g~~~~~I~~~a~-~~~~dliV~g~~~~~ 134 (166)
|+-.+.+++.++ +.++.+|.+.+.+..
T Consensus 105 GdDi~~v~~~~~~~~~~pvi~v~t~gf~ 132 (426)
T cd01972 105 GDDVESVVEELEDEIGIPVVALHCEGFK 132 (426)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCccC
Confidence 444555555444 446666666665543
No 384
>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=36.28 E-value=1.9e+02 Score=21.78 Aligned_cols=74 Identities=12% Similarity=0.076 Sum_probs=41.4
Q ss_pred HHHHHHHHHhCCCCcccEEeec--C------------CchhHHHHHHhhhCCcEEEE--cc-cCCccchhhhcccHHHHH
Q 044140 86 ADKATSICAKREVNDMPVHVMQ--G------------DPRNVMTEAVERFHPTILVL--GS-HGYGAVKRAVLGSVSDYS 148 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~--g------------~~~~~I~~~a~~~~~dliV~--g~-~~~~~~~~~~~gs~~~~l 148 (166)
..++.+.+...|+. ++..+-. | +..++..++.++.++|.|.+ |+ ++...-...+-=...+.+
T Consensus 117 t~~v~~~a~~~gv~-Ve~ElG~~gg~ed~~~g~~~~~t~~eea~~f~~~tgvD~Lavs~Gt~hg~~~~~~~l~~e~L~~i 195 (282)
T TIGR01859 117 TKKVVEIAHAKGVS-VEAELGTLGGIEDGVDEKEAELADPDEAEQFVKETGVDYLAAAIGTSHGKYKGEPGLDFERLKEI 195 (282)
T ss_pred HHHHHHHHHHcCCE-EEEeeCCCcCccccccccccccCCHHHHHHHHHHHCcCEEeeccCccccccCCCCccCHHHHHHH
Confidence 45666667777877 7655533 1 13455677777789999994 54 221100111111234556
Q ss_pred hhcCCccEEEEc
Q 044140 149 AHHCSCTVMIVK 160 (166)
Q Consensus 149 ~~~~~~pVlvv~ 160 (166)
-..+++|+.+.-
T Consensus 196 ~~~~~iPlv~hG 207 (282)
T TIGR01859 196 KELTNIPLVLHG 207 (282)
T ss_pred HHHhCCCEEEEC
Confidence 666689986653
No 385
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=36.22 E-value=67 Score=25.06 Aligned_cols=41 Identities=12% Similarity=0.075 Sum_probs=33.7
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.+.+|.|...|..+|--.+..++++|+ ..+-. +|.++|..-
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar-~~~~~---~i~VlfiD~ 66 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVAR-ENGRD---KISVLFIDW 66 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHH-HhCCC---ceEEEEEcc
Confidence 467899999999999999999999999 65442 788888743
No 386
>PRK07226 fructose-bisphosphate aldolase; Provisional
Probab=36.17 E-value=1.8e+02 Score=21.52 Aligned_cols=72 Identities=8% Similarity=0.103 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHhCCCCcccEEe------ecCCc----hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhh
Q 044140 81 RAQKVADKATSICAKREVNDMPVHV------MQGDP----RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAH 150 (166)
Q Consensus 81 ~~~~~l~~~~~~~~~~~i~~~~~~v------~~g~~----~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~ 150 (166)
...+.+.++.+.+.++|++ +.+.. .++.. ....++.+.+.++|.|=.+..+ . ...-.++..
T Consensus 123 ~~~~~~~~v~~~~~~~g~p-l~vi~~~~g~~~e~~~~~~~i~~a~~~a~e~GAD~vKt~~~~--~------~~~l~~~~~ 193 (267)
T PRK07226 123 EMLEDLGEVAEECEEWGMP-LLAMMYPRGPGIKNEYDPEVVAHAARVAAELGADIVKTNYTG--D------PESFREVVE 193 (267)
T ss_pred HHHHHHHHHHHHHHHcCCc-EEEEEecCCCccCCCccHHHHHHHHHHHHHHCCCEEeeCCCC--C------HHHHHHHHH
Confidence 3455667777888888998 76643 12211 1222466677899999443110 0 123445666
Q ss_pred cCCccEEEEcC
Q 044140 151 HCSCTVMIVKM 161 (166)
Q Consensus 151 ~~~~pVlvv~~ 161 (166)
.+++||.+.-.
T Consensus 194 ~~~ipV~a~GG 204 (267)
T PRK07226 194 GCPVPVVIAGG 204 (267)
T ss_pred hCCCCEEEEeC
Confidence 67899977643
No 387
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=36.17 E-value=1.2e+02 Score=22.07 Aligned_cols=50 Identities=4% Similarity=0.077 Sum_probs=30.6
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
..++++.+.+.+.|.|++|....-... -+..+... +++...||++.|...
T Consensus 16 ~~~~~~~~~~~gtdai~vGGS~~vt~~--~~~~~v~~-ik~~~lPvilfp~~~ 65 (223)
T TIGR01768 16 ADEIAKAAAESGTDAILIGGSQGVTYE--KTDTLIEA-LRRYGLPIILFPSNP 65 (223)
T ss_pred cHHHHHHHHhcCCCEEEEcCCCcccHH--HHHHHHHH-HhccCCCEEEeCCCc
Confidence 445777777789999999966311111 11223333 445569999988643
No 388
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=36.01 E-value=1.2e+02 Score=19.41 Aligned_cols=69 Identities=9% Similarity=0.030 Sum_probs=39.2
Q ss_pred HHHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCC-cEEEEcccCCccchhhhcccHHHHHhhcC---CccEEEEcC
Q 044140 87 DKATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHP-TILVLGSHGYGAVKRAVLGSVSDYSAHHC---SCTVMIVKM 161 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~-dliV~g~~~~~~~~~~~~gs~~~~l~~~~---~~pVlvv~~ 161 (166)
+++...+...+.. +++..... +..+.+......... |.||+... -+.+ ..+...++... ++|+-++|.
T Consensus 18 ~~v~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~GG-DGTl-----~~vv~~l~~~~~~~~~~l~iiP~ 90 (130)
T PF00781_consen 18 KKVEPALRAAGID-YEVIETESAGHAEALARILALDDYPDVIVVVGG-DGTL-----NEVVNGLMGSDREDKPPLGIIPA 90 (130)
T ss_dssp HHHHHHHHHTTCE-EEEEEESSTTHHHHHHHHHHHTTS-SEEEEEES-HHHH-----HHHHHHHCTSTSSS--EEEEEE-
T ss_pred HHHHHHHHHcCCc-eEEEEEeccchHHHHHHHHhhccCccEEEEEcC-ccHH-----HHHHHHHhhcCCCccceEEEecC
Confidence 4555666666777 77666554 777777775555565 77777533 2222 23344444433 358999985
Q ss_pred C
Q 044140 162 P 162 (166)
Q Consensus 162 ~ 162 (166)
.
T Consensus 91 G 91 (130)
T PF00781_consen 91 G 91 (130)
T ss_dssp S
T ss_pred C
Confidence 3
No 389
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=35.77 E-value=80 Score=22.38 Aligned_cols=8 Identities=0% Similarity=0.031 Sum_probs=4.8
Q ss_pred CCccEEEE
Q 044140 152 CSCTVMIV 159 (166)
Q Consensus 152 ~~~pVlvv 159 (166)
...|++|+
T Consensus 105 ~~~~~iv~ 112 (214)
T cd07399 105 PDRPAILT 112 (214)
T ss_pred CCCCEEEE
Confidence 34677665
No 390
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=35.63 E-value=2.1e+02 Score=22.29 Aligned_cols=130 Identities=13% Similarity=0.103 Sum_probs=66.4
Q ss_pred CCEEEEEEcCC--hhHHHHHHHHHHhcCCCC---CCCCceEEEEEEeec-CCCCCcCCCCCCCCCCC-chhhHHHHHHHH
Q 044140 6 KPIMMVAIDDS--NHSYYALEWALDYFFPPF---APNHTFQLVLIHARP-NPPSLLGLSGAGQGSAG-SAHVINLVELDT 78 (166)
Q Consensus 6 ~~~Ilv~vd~s--~~s~~al~~a~~la~~~~---~~~~~~~l~lv~v~~-~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 78 (166)
.++++|.+.+. ++-..+++||.+++. .. ..+ -+.++.++- .+.....+.+..+.+.. .....
T Consensus 46 d~rllvIvGPCSIhd~~~a~eyA~rLk~-l~~~~~d~---l~ivmR~y~eKPRTt~GWKGli~DP~ld~sf~i------- 114 (344)
T TIGR00034 46 DDRLLVVIGPCSIHDPEAAIEYATRLKA-LREELKDD---LEIVMRVYFEKPRTTVGWKGLINDPDLNGSFRI------- 114 (344)
T ss_pred CCCeEEEecCCCCCCHHHHHHHHHHHHH-HHHhhhcc---eEEEEEeccccCCCccccccccCCCCcCCCCCH-------
Confidence 46788888874 567788999988776 42 110 244555542 22222111111100000 00011
Q ss_pred HHHHHHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 79 KKRAQKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 79 ~~~~~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
+..-+.+.++.-.+.+.|++ +-++++.-...+.+.++. +..-+|++.-... .-.++....+|||.+
T Consensus 115 -~~GL~~~R~ll~~i~~~GlP-vatE~ld~~~~~y~~Dli-----sw~aIGARt~esq-------~hRelaSgl~~PVgf 180 (344)
T TIGR00034 115 -NHGLRIARKLLLDLVNLGLP-IAGEFLDMISPQYLADLF-----SWGAIGARTTESQ-------VHRELASGLSCPVGF 180 (344)
T ss_pred -HHHHHHHHHHHHHHHHhCCC-eEEEecCcCcHHHHHHHH-----hhccccCccccCH-------HHHHHHhCCCCceEe
Confidence 22233333333334677999 878777765555553333 2447787753221 225666678889876
Q ss_pred Ec
Q 044140 159 VK 160 (166)
Q Consensus 159 v~ 160 (166)
=.
T Consensus 181 Kn 182 (344)
T TIGR00034 181 KN 182 (344)
T ss_pred cC
Confidence 43
No 391
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=35.61 E-value=49 Score=23.99 Aligned_cols=38 Identities=18% Similarity=0.220 Sum_probs=25.5
Q ss_pred hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccE
Q 044140 111 RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTV 156 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pV 156 (166)
+..+.+..++-++|.||+|.-+.+.+ +++|=....+||
T Consensus 163 ~~~~~~a~~edgAeaIiLGCAGms~l--------a~~Lq~~~gvPV 200 (230)
T COG4126 163 VIEAAEALKEDGAEAIILGCAGMSDL--------ADQLQKAFGVPV 200 (230)
T ss_pred HHHHHHHhhhcCCCEEEEcCccHHHH--------HHHHHHHhCCCc
Confidence 34556667888999999998876543 444444455555
No 392
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=35.42 E-value=1.6e+02 Score=20.64 Aligned_cols=68 Identities=10% Similarity=0.003 Sum_probs=36.9
Q ss_pred HHHHHHHHhCCCCcccEEeecCCc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCC
Q 044140 87 DKATSICAKREVNDMPVHVMQGDP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMP 162 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~ 162 (166)
..+...+++.|+. +...-..+++ ....++.....++|.||+......... .-..+.+.++|++.+...
T Consensus 19 ~g~~~~~~~~g~~-l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~-------~~~~l~~~~ip~v~~~~~ 88 (264)
T cd01537 19 KGIEEAAKAAGYQ-VLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPT-------IVKLARKAGIPVVLVDRD 88 (264)
T ss_pred HHHHHHHHHcCCe-EEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchh-------HHHHhhhcCCCEEEeccC
Confidence 3444444445666 5443333333 334444444558999988654322111 235567788999887543
No 393
>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=35.23 E-value=77 Score=23.68 Aligned_cols=69 Identities=9% Similarity=0.180 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCchhHHH-HHHhhhCCcEEEEcccC------Cccchhhh-ccc-------HHHHH
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPRNVMT-EAVERFHPTILVLGSHG------YGAVKRAV-LGS-------VSDYS 148 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~-~~a~~~~~dliV~g~~~------~~~~~~~~-~gs-------~~~~l 148 (166)
++++++++...+. -+ ++-+.....|. +.+++-++|+|++-+.+ ++.+..++ +|+ .+.++
T Consensus 2 eil~~l~~~i~~~-~p-----Iig~gaGtGlsAk~ae~gGaDlI~~ynsGrfR~~G~~SlagllpygnaN~iv~em~~ei 75 (268)
T PF09370_consen 2 EILDRLRAQIKAG-KP-----IIGAGAGTGLSAKCAEKGGADLILIYNSGRFRMAGRGSLAGLLPYGNANEIVMEMAREI 75 (268)
T ss_dssp HHHHHHHHHHHTT--------EEEEEESSHHHHHHHHHTT-SEEEE-HHHHHHHTT--GGGGGBTEEEHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhCC-Cc-----eEEEeeccchhhHHHHhcCCCEEEEecchhHhhCCCcchhhhhcccCHhHHHHHHHHhh
Confidence 4556666655532 22 22334444444 77888899999996553 22222221 233 24566
Q ss_pred hhcCC-ccEEE
Q 044140 149 AHHCS-CTVMI 158 (166)
Q Consensus 149 ~~~~~-~pVlv 158 (166)
+-..+ .||+.
T Consensus 76 Lp~v~~tPVia 86 (268)
T PF09370_consen 76 LPVVKDTPVIA 86 (268)
T ss_dssp GGG-SSS-EEE
T ss_pred hhhccCCCEEE
Confidence 66665 77764
No 394
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=35.22 E-value=1.7e+02 Score=20.97 Aligned_cols=54 Identities=9% Similarity=0.159 Sum_probs=38.1
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhccc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGS 143 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs 143 (166)
..+.+.+++.|.. +=.-+-.|.+.+.|..++. ..|++.+-+-..+...+.|..+
T Consensus 102 ~~lv~~ir~~Gmk-~G~alkPgT~Ve~~~~~~~--~~D~vLvMtVePGFGGQkFme~ 155 (224)
T KOG3111|consen 102 AELVEKIREKGMK-VGLALKPGTPVEDLEPLAE--HVDMVLVMTVEPGFGGQKFMED 155 (224)
T ss_pred HHHHHHHHHcCCe-eeEEeCCCCcHHHHHHhhc--cccEEEEEEecCCCchhhhHHH
Confidence 3455566777888 7777888999999999999 8888877665444334444433
No 395
>PLN02461 Probable pyruvate kinase
Probab=35.10 E-value=97 Score=25.55 Aligned_cols=43 Identities=12% Similarity=0.254 Sum_probs=32.5
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEc
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVK 160 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~ 160 (166)
..+...++.|...++.+||+-+++ |.++..+.+.- +|||+.+-
T Consensus 382 ~ia~sav~~A~~l~a~aIiv~T~s---------G~tA~~iSk~RP~~pIia~t 425 (511)
T PLN02461 382 SLASSAVRTANKVKASLIVVLTRG---------GTTARLVAKYRPAVPILSVV 425 (511)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEe
Confidence 356677788899999999987653 56677777764 59999984
No 396
>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=34.97 E-value=69 Score=25.76 Aligned_cols=26 Identities=19% Similarity=0.400 Sum_probs=14.4
Q ss_pred CCchhHHHHHHh-hhCCcEEEEcccCC
Q 044140 108 GDPRNVMTEAVE-RFHPTILVLGSHGY 133 (166)
Q Consensus 108 g~~~~~I~~~a~-~~~~dliV~g~~~~ 133 (166)
|+..+.+++.++ +.++.++.+.+.+.
T Consensus 137 GdDi~~v~~e~~~~~~~~vi~v~t~gf 163 (456)
T TIGR01283 137 GDDLEAVCKAAAEKTGIPVIPVDSEGF 163 (456)
T ss_pred cCCHHHHHHHHHHHhCCCEEEEECCCC
Confidence 555555555443 34666666665554
No 397
>cd07391 MPP_PF1019 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to PF1019, an uncharacterized Pyrococcus furiosus protein. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for pro
Probab=34.84 E-value=1.3e+02 Score=20.40 Aligned_cols=8 Identities=25% Similarity=0.380 Sum_probs=3.2
Q ss_pred EEeecCCc
Q 044140 103 VHVMQGDP 110 (166)
Q Consensus 103 ~~v~~g~~ 110 (166)
..+.-||.
T Consensus 44 ~lii~GDl 51 (172)
T cd07391 44 RLIILGDL 51 (172)
T ss_pred EEEEeCcc
Confidence 34444433
No 398
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=34.72 E-value=1.3e+02 Score=21.81 Aligned_cols=46 Identities=15% Similarity=0.212 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhCCCCcccEEeec-CCchhHHHHHHhhhCCcEEEEccc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQ-GDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~-g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
+..+.+++.+++.|+. -.+.++. |+..+.+.+ -....+|+|.+-+-
T Consensus 95 e~~~~A~~n~~~ag~~-~~i~~~~~gdal~~l~~-~~~~~fDliFIDad 141 (219)
T COG4122 95 ERAEIARENLAEAGVD-DRIELLLGGDALDVLSR-LLDGSFDLVFIDAD 141 (219)
T ss_pred HHHHHHHHHHHHcCCc-ceEEEEecCcHHHHHHh-ccCCCccEEEEeCC
Confidence 4556677778888999 5576777 588888877 22349999999754
No 399
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=34.56 E-value=95 Score=21.47 Aligned_cols=49 Identities=14% Similarity=0.188 Sum_probs=28.7
Q ss_pred HHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHh-----h--cCCccEEEEcCCC
Q 044140 114 MTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSA-----H--HCSCTVMIVKMPK 163 (166)
Q Consensus 114 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~-----~--~~~~pVlvv~~~~ 163 (166)
|.-..+--.+|++++..-..+...+...| +++.|+ . +..+||+++|..-
T Consensus 80 i~GrlqlGkYD~llvaPaTsNTvAKIa~G-IADtLVTNAVaqa~Kg~VPvyivP~D~ 135 (187)
T COG1036 80 IAGRLQLGKYDFLLVAPATSNTVAKIAYG-IADTLVTNAVAQAGKGKVPVYIVPVDY 135 (187)
T ss_pred eecceecccccEEEEcccccchHHHHHhh-hHHHHHHHHHHHhcCCCCcEEEecccc
Confidence 33334445899999986554444443333 233332 2 4579999999643
No 400
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=34.47 E-value=1.6e+02 Score=20.54 Aligned_cols=15 Identities=7% Similarity=-0.024 Sum_probs=11.8
Q ss_pred hhCCcEEEEcccCCc
Q 044140 120 RFHPTILVLGSHGYG 134 (166)
Q Consensus 120 ~~~~dliV~g~~~~~ 134 (166)
-..+|.||+|+..+.
T Consensus 67 l~~aD~ii~gsPty~ 81 (200)
T PRK03767 67 LADYDAIIFGTPTRF 81 (200)
T ss_pred HHhCCEEEEEecccC
Confidence 348999999988654
No 401
>PF03054 tRNA_Me_trans: tRNA methyl transferase; InterPro: IPR004506 tRNA-specific 2-thiouridylase catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.; GO: 0016740 transferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 2DET_A 2DER_A 2DEU_A 2HMA_A.
Probab=34.37 E-value=2.3e+02 Score=22.23 Aligned_cols=37 Identities=14% Similarity=0.046 Sum_probs=21.6
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPP 52 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~ 52 (166)
++|+|++++.-+|.-|. .+.+ ..+- +|+.+|......
T Consensus 1 ~kV~vamSGGVDSsvaA----~LLk-~~G~----~V~Gv~m~~~~~ 37 (356)
T PF03054_consen 1 KKVLVAMSGGVDSSVAA----ALLK-EQGY----DVIGVTMRNWDE 37 (356)
T ss_dssp -EEEEE--SSHHHHHHH----HHHH-HCT-----EEEEEEEE-SS-
T ss_pred CeEEEEccCCHHHHHHH----HHHH-hhcc----cceEEEEEEecc
Confidence 58999999997775443 3344 4566 899999865433
No 402
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=34.32 E-value=1.2e+02 Score=22.10 Aligned_cols=47 Identities=11% Similarity=0.099 Sum_probs=28.5
Q ss_pred HHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 114 MTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 114 I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
.++.+.+.+.|.|++|.... ...--+..+.+. +++.+.||++.|...
T Consensus 24 ~~~~~~~~gtdai~vGGS~~--vt~~~~~~~v~~-ik~~~lPvilfp~~~ 70 (232)
T PRK04169 24 ALEAICESGTDAIIVGGSDG--VTEENVDELVKA-IKEYDLPVILFPGNI 70 (232)
T ss_pred HHHHHHhcCCCEEEEcCCCc--cchHHHHHHHHH-HhcCCCCEEEeCCCc
Confidence 33666777899999996531 111112233333 445889999988643
No 403
>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=34.17 E-value=1.5e+02 Score=20.17 Aligned_cols=69 Identities=7% Similarity=0.032 Sum_probs=31.0
Q ss_pred HhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCcc----chhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 94 AKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGA----VKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 94 ~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~----~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
++.|++ .-+-+...++.......++++++.++-++...... ...-.+-..-+.++...+-||+|.=..+
T Consensus 29 ~~L~LK-TII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~~ild~~n~PvLiHC~~G 101 (164)
T PF03162_consen 29 ERLGLK-TIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALEIILDPRNYPVLIHCNHG 101 (164)
T ss_dssp HHHT-S-EEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHHHHH-GGG-SEEEE-SSS
T ss_pred HHCCCc-eEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHHHHhCCCCCCEEEEeCCC
Confidence 334666 33333334566777789999999999998765433 1121222233456667788999875443
No 404
>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=33.89 E-value=91 Score=24.47 Aligned_cols=27 Identities=11% Similarity=0.358 Sum_probs=15.3
Q ss_pred CCchhHHHHHHh-hhCCcEEEEcccCCc
Q 044140 108 GDPRNVMTEAVE-RFHPTILVLGSHGYG 134 (166)
Q Consensus 108 g~~~~~I~~~a~-~~~~dliV~g~~~~~ 134 (166)
|+-.+.+++.++ +.++.+|.+.+.+..
T Consensus 103 GdDi~~v~~~~~~~~~~~vi~v~t~gf~ 130 (406)
T cd01967 103 GDDIEAVAKEASKELGIPVIPVNCEGFR 130 (406)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCee
Confidence 555555555443 456777777666543
No 405
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=33.87 E-value=2.6e+02 Score=22.82 Aligned_cols=68 Identities=7% Similarity=0.007 Sum_probs=41.7
Q ss_pred HHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc------CCccEEEEc
Q 044140 88 KATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH------CSCTVMIVK 160 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~------~~~pVlvv~ 160 (166)
.+...++..++. +++..... .-+..+++.+...++|.||+... -+.+. .+..-++.. .++|+-++|
T Consensus 134 ~v~~~L~~~gi~-~~v~~T~~~ghA~~la~~~~~~~~D~VV~vGG-DGTln-----EVvNGL~~~~~~~~~~~~pLGiIP 206 (481)
T PLN02958 134 VVKPLLEDADIQ-LTIQETKYQLHAKEVVRTMDLSKYDGIVCVSG-DGILV-----EVVNGLLEREDWKTAIKLPIGMVP 206 (481)
T ss_pred HHHHHHHHcCCe-EEEEeccCccHHHHHHHHhhhcCCCEEEEEcC-CCHHH-----HHHHHHhhCccccccccCceEEec
Confidence 455566777888 77666554 55666776666667887776532 33232 233444432 368999998
Q ss_pred CC
Q 044140 161 MP 162 (166)
Q Consensus 161 ~~ 162 (166)
..
T Consensus 207 aG 208 (481)
T PLN02958 207 AG 208 (481)
T ss_pred Cc
Confidence 64
No 406
>PF10808 DUF2542: Protein of unknown function (DUF2542) ; InterPro: IPR020155 This entry represents transmembrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=33.73 E-value=50 Score=19.43 Aligned_cols=29 Identities=21% Similarity=0.108 Sum_probs=21.6
Q ss_pred cchhhhcccHHHHHhhcCCccEEEEcCCCC
Q 044140 135 AVKRAVLGSVSDYSAHHCSCTVMIVKMPKS 164 (166)
Q Consensus 135 ~~~~~~~gs~~~~l~~~~~~pVlvv~~~~~ 164 (166)
+++.+-.| ..+++.++++-||.+-+...|
T Consensus 23 a~KgwRsG-aVdK~vkna~ePvyi~R~~~P 51 (79)
T PF10808_consen 23 AWKGWRSG-AVDKIVKNAQEPVYIYRAKNP 51 (79)
T ss_pred HHHHHhhc-chHHHhcCCCCcEEEEecCCc
Confidence 34444444 568899999999999988765
No 407
>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=33.67 E-value=1.4e+02 Score=21.38 Aligned_cols=49 Identities=10% Similarity=0.029 Sum_probs=31.1
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+..++.++|.|++......+...-..-....++...++.||+..-
T Consensus 156 ~~~~~~~~~~G~d~i~i~~i~~~g~~~g~~~~~~~~i~~~~~ipvia~G 204 (232)
T TIGR03572 156 VEWAREAEQLGAGEILLNSIDRDGTMKGYDLELIKTVSDAVSIPVIALG 204 (232)
T ss_pred HHHHHHHHHcCCCEEEEeCCCccCCcCCCCHHHHHHHHhhCCCCEEEEC
Confidence 4566777788999888876433221111223456777778889988764
No 408
>PRK03670 competence damage-inducible protein A; Provisional
Probab=33.63 E-value=1.3e+02 Score=22.18 Aligned_cols=42 Identities=14% Similarity=0.165 Sum_probs=29.6
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhh---CCcEEEEc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERF---HPTILVLG 129 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~---~~dliV~g 129 (166)
..+.+.+.+.|+. +......+|..+.|.+..++. .+|+||+.
T Consensus 23 ~~la~~L~~~G~~-v~~~~iV~Dd~~~I~~~l~~a~~~~~DlVItt 67 (252)
T PRK03670 23 AFIAQKLTEKGYW-VRRITTVGDDVEEIKSVVLEILSRKPEVLVIS 67 (252)
T ss_pred HHHHHHHHHCCCE-EEEEEEcCCCHHHHHHHHHHHhhCCCCEEEEC
Confidence 3455567778999 877666777777777775542 47988885
No 409
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=33.57 E-value=1.7e+02 Score=20.65 Aligned_cols=66 Identities=8% Similarity=-0.035 Sum_probs=33.2
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchh--HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRN--VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~--~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
++.+.+.+++.|+. +.......+... .+++.....++|-||+....... . . .-+.+.+.+.|++++
T Consensus 18 ~~~i~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-~-----~-~~~~~~~~~ipvV~~ 85 (266)
T cd06282 18 VQGIQEEARAAGYS-LLLATTDYDAEREADAVETLLRQRVDGLILTVADAAT-S-----P-ALDLLDAERVPYVLA 85 (266)
T ss_pred HHHHHHHHHHCCCE-EEEeeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCCc-h-----H-HHHHHhhCCCCEEEE
Confidence 34444555556666 554333333322 34444455678888875432111 1 1 123455667887766
No 410
>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=33.43 E-value=1.5e+02 Score=19.82 Aligned_cols=82 Identities=4% Similarity=0.016 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHHHhCCCCcccEEeecC--CchhHHHHHHhhhCCcEEEEcccC-CccchhhhcccHHHHHhhcCCccE
Q 044140 80 KRAQKVADKATSICAKREVNDMPVHVMQG--DPRNVMTEAVERFHPTILVLGSHG-YGAVKRAVLGSVSDYSAHHCSCTV 156 (166)
Q Consensus 80 ~~~~~~l~~~~~~~~~~~i~~~~~~v~~g--~~~~~I~~~a~~~~~dliV~g~~~-~~~~~~~~~gs~~~~l~~~~~~pV 156 (166)
....+.+...+++....|.+ +...+.-+ +..+.+.+.....++|-++.-... ..............+++.+..+.+
T Consensus 15 ~~~~e~l~~A~~La~~~g~~-v~av~~G~~~~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~l 93 (164)
T PF01012_consen 15 PVSLEALEAARRLAEALGGE-VTAVVLGPAEEAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDL 93 (164)
T ss_dssp HHHHHHHHHHHHHHHCTTSE-EEEEEEETCCCHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SE
T ss_pred HHHHHHHHHHHHHHhhcCCe-EEEEEEecchhhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCE
Confidence 34446666777777766766 66655543 345556666666899977775443 222222334556677888878888
Q ss_pred EEEcCC
Q 044140 157 MIVKMP 162 (166)
Q Consensus 157 lvv~~~ 162 (166)
++++..
T Consensus 94 Vl~~~t 99 (164)
T PF01012_consen 94 VLFGST 99 (164)
T ss_dssp EEEESS
T ss_pred EEEcCc
Confidence 888753
No 411
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=33.38 E-value=1.8e+02 Score=20.86 Aligned_cols=70 Identities=13% Similarity=0.115 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+..+.+.+++.|+. +...-..+++. ...++.....++|-||+......... ...+ .+.....||+++-
T Consensus 16 ~~~~~i~~~~~~~g~~-v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~-----~~i~-~~~~~~iPvV~~~ 87 (282)
T cd06318 16 ALTEAAKAHAKALGYE-LISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV-----PAVA-AAKAAGVPVVVVD 87 (282)
T ss_pred HHHHHHHHHHHHcCCE-EEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH-----HHHH-HHHHCCCCEEEec
Confidence 3445555566667777 54433333443 24556667779999999653221111 1122 3345678888874
No 412
>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=33.23 E-value=87 Score=22.21 Aligned_cols=59 Identities=7% Similarity=0.092 Sum_probs=34.2
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHH
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDY 147 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~ 147 (166)
..++.+.+++.|.. +=.-+-.+++.+.+..+.. ..|+|.+-+-..+...+.|...+.++
T Consensus 94 ~~~~i~~ik~~g~k-~GialnP~T~~~~~~~~l~--~vD~VlvMsV~PG~~Gq~f~~~~~~K 152 (201)
T PF00834_consen 94 PKETIKYIKEAGIK-AGIALNPETPVEELEPYLD--QVDMVLVMSVEPGFGGQKFIPEVLEK 152 (201)
T ss_dssp HHHHHHHHHHTTSE-EEEEE-TTS-GGGGTTTGC--CSSEEEEESS-TTTSSB--HGGHHHH
T ss_pred HHHHHHHHHHhCCC-EEEEEECCCCchHHHHHhh--hcCEEEEEEecCCCCcccccHHHHHH
Confidence 34455566667777 6666666788888888888 88887665543343334444444443
No 413
>PRK14561 hypothetical protein; Provisional
Probab=33.22 E-value=1.7e+02 Score=20.45 Aligned_cols=31 Identities=13% Similarity=0.034 Sum_probs=22.0
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEee
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHAR 48 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~ 48 (166)
+|+|++.|..+|..++..+.++ . ++.++++.
T Consensus 2 kV~ValSGG~DSslll~~l~~~------~----~v~a~t~~ 32 (194)
T PRK14561 2 KAGVLFSGGKDSSLAAILLERF------Y----DVELVTVN 32 (194)
T ss_pred EEEEEEechHHHHHHHHHHHhc------C----CeEEEEEe
Confidence 6999999999998877655322 2 55666664
No 414
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=33.14 E-value=1.2e+02 Score=22.32 Aligned_cols=12 Identities=17% Similarity=-0.125 Sum_probs=5.2
Q ss_pred hcCCccEEEEcC
Q 044140 150 HHCSCTVMIVKM 161 (166)
Q Consensus 150 ~~~~~pVlvv~~ 161 (166)
...++|+++++.
T Consensus 70 ~~l~~p~~~v~G 81 (267)
T cd07396 70 DRLKGPVHHVLG 81 (267)
T ss_pred HhcCCCEEEecC
Confidence 333444444443
No 415
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=33.07 E-value=1.9e+02 Score=20.98 Aligned_cols=46 Identities=13% Similarity=0.187 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 83 QKVADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 83 ~~~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
..+.+++++.+++.|.. +.-.-+.-.+...|..... ++|.|.+|..
T Consensus 48 ~~Yv~k~~~~l~~lg~~-v~~L~l~~~~~~~Ie~~l~--~~d~IyVgGG 93 (224)
T COG3340 48 DFYVEKVRNALAKLGLE-VSELHLSKPPLAAIENKLM--KADIIYVGGG 93 (224)
T ss_pred HHHHHHHHHHHHHcCCe-eeeeeccCCCHHHHHHhhh--hccEEEECCc
Confidence 35667777888888988 7766667788888888888 8999999854
No 416
>PRK06247 pyruvate kinase; Provisional
Probab=33.00 E-value=1.2e+02 Score=24.70 Aligned_cols=44 Identities=14% Similarity=0.120 Sum_probs=32.4
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEEcCC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIVKMP 162 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv~~~ 162 (166)
.+...+..|+..++.+||+-+.+ |+++..+.+. .+|||+.+-+.
T Consensus 357 ia~sa~~~A~~l~a~~Iv~~T~s---------G~ta~~isk~RP~~pI~a~t~~ 401 (476)
T PRK06247 357 ISYAARDIAERLDLAALVAYTSS---------GDTALRAARERPPLPILALTPN 401 (476)
T ss_pred HHHHHHHHHHhCCCCEEEEEcCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 55667788888999999997652 5666667665 45999988653
No 417
>TIGR03264 met_CoM_red_C methyl-coenzyme M reductase I operon protein C. has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this protein occurs only operons of type I. The precise function is unknown.
Probab=32.95 E-value=1.7e+02 Score=20.47 Aligned_cols=66 Identities=20% Similarity=0.275 Sum_probs=38.9
Q ss_pred HHHHHHHHhCCCCcccEEeec---CCc--------------hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHh
Q 044140 87 DKATSICAKREVNDMPVHVMQ---GDP--------------RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSA 149 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~---g~~--------------~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~ 149 (166)
=.+...+++.|+. ..+.++. |-| ...=.+..++++.-++.+|.- +.-+. .-+..++
T Consensus 52 CdIt~~LRr~Gi~-ts~lvLnaG~GvP~da~~~~~g~~fgl~~~E~~qI~~HklAV~h~GNv-----k~hIi-~K~r~il 124 (194)
T TIGR03264 52 CEITYALREAGIQ-TSVLVLNAGSGIPPDAPRGGGGSTFGLTPEEIEQINRHKLAVIHLGNV-----KSHII-YKARLIL 124 (194)
T ss_pred HHHHHHHHHcCCc-cceEEEecCCCCCCcccccccccccCCCHHHHHHHhhcCEEEEEeCCH-----HHHHH-HHHHHHH
Confidence 3455666777888 7777765 211 122345566666666666633 21111 1234578
Q ss_pred hcCCccEEEE
Q 044140 150 HHCSCTVMIV 159 (166)
Q Consensus 150 ~~~~~pVlvv 159 (166)
++..+|+++|
T Consensus 125 r~vdIP~IiV 134 (194)
T TIGR03264 125 KHVDIPAIIV 134 (194)
T ss_pred hcCCCCEEEE
Confidence 8999999965
No 418
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=32.93 E-value=2e+02 Score=21.03 Aligned_cols=71 Identities=14% Similarity=0.104 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
..++.+.+.+.+.|+. +.+.-..+++. ..+++.+...++|-||+.......... ..+ .+.+.++||+.+-.
T Consensus 16 ~~~~gi~~~a~~~g~~-~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~-----~l~-~l~~~~ipvV~~~~ 88 (288)
T cd01538 16 RDRPNFEAALKELGAE-VIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALAS-----AVE-KAADAGIPVIAYDR 88 (288)
T ss_pred HHHHHHHHHHHHcCCE-EEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHH-----HHH-HHHHCCCCEEEECC
Confidence 4445555566667777 55443333433 345555556789988886432221111 112 34456789888843
No 419
>PRK02628 nadE NAD synthetase; Reviewed
Probab=32.92 E-value=2.1e+02 Score=24.49 Aligned_cols=38 Identities=13% Similarity=0.037 Sum_probs=28.6
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCC--CCCceEEEEEEe
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFA--PNHTFQLVLIHA 47 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~--~~~~~~l~lv~v 47 (166)
.++++|++.|.-+|.-++..+.+... ..+ .. +|+.|+.
T Consensus 361 ~~~vvvglSGGiDSal~l~l~~~a~~-~lg~~~~---~v~~v~m 400 (679)
T PRK02628 361 LKKVVIGISGGLDSTHALLVAAKAMD-RLGLPRK---NILAYTM 400 (679)
T ss_pred CCeEEEECCCCHHHHHHHHHHHHHHH-hhCCCcc---eEEEEEC
Confidence 68999999999999987777777654 334 11 7777776
No 420
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=32.51 E-value=1.8e+02 Score=20.53 Aligned_cols=41 Identities=15% Similarity=0.221 Sum_probs=26.0
Q ss_pred HHHHHhCCCCcccEEeec---C--CchhHHHHHHhhhCCcEEEEccc
Q 044140 90 TSICAKREVNDMPVHVMQ---G--DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~~---g--~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.+.+.+.|++ +...-.. + .....+.+..++.++|++|+...
T Consensus 44 ~~~a~~~gIp-~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~iv~~~~ 89 (200)
T PRK05647 44 LERAEAAGIP-TFVLDHKDFPSREAFDAALVEALDAYQPDLVVLAGF 89 (200)
T ss_pred HHHHHHcCCC-EEEECccccCchhHhHHHHHHHHHHhCcCEEEhHHh
Confidence 4556777888 5331111 1 12457788888899999998644
No 421
>PRK09271 flavodoxin; Provisional
Probab=32.40 E-value=81 Score=21.19 Aligned_cols=11 Identities=18% Similarity=0.368 Sum_probs=8.1
Q ss_pred CCcEEEEcccC
Q 044140 122 HPTILVLGSHG 132 (166)
Q Consensus 122 ~~dliV~g~~~ 132 (166)
++|+|++|+..
T Consensus 51 ~~d~vilgt~T 61 (160)
T PRK09271 51 DYDLYLLGTWT 61 (160)
T ss_pred cCCEEEEECcc
Confidence 67888888754
No 422
>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=32.39 E-value=1.9e+02 Score=20.69 Aligned_cols=64 Identities=14% Similarity=0.114 Sum_probs=38.4
Q ss_pred HHHHHhCCCCcccEEee-cCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEE
Q 044140 90 TSICAKREVNDMPVHVM-QGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMI 158 (166)
Q Consensus 90 ~~~~~~~~i~~~~~~v~-~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlv 158 (166)
...++..|.. +..+ ..-+.+.+++.+++.++|+|.+.......... +..+.+.+-... +++|++
T Consensus 109 ~~~l~~~G~~---Vi~LG~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~--~~~~i~~L~~~~~~~~i~v 174 (213)
T cd02069 109 GVILSNNGYE---VIDLGVMVPIEKILEAAKEHKADIIGLSGLLVPSLDE--MVEVAEEMNRRGIKIPLLI 174 (213)
T ss_pred HHHHHhCCCE---EEECCCCCCHHHHHHHHHHcCCCEEEEccchhccHHH--HHHHHHHHHhcCCCCeEEE
Confidence 3344556766 2222 24779999999999999999998654333322 234445444332 355544
No 423
>cd07385 MPP_YkuE_C Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE 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-dia
Probab=32.10 E-value=1.8e+02 Score=20.36 Aligned_cols=9 Identities=56% Similarity=0.995 Sum_probs=5.3
Q ss_pred EEEEcccCC
Q 044140 125 ILVLGSHGY 133 (166)
Q Consensus 125 liV~g~~~~ 133 (166)
..+.|.|..
T Consensus 67 ~~v~GNHD~ 75 (223)
T cd07385 67 YAVLGNHDY 75 (223)
T ss_pred EEECCCccc
Confidence 456666654
No 424
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=31.99 E-value=1.9e+02 Score=20.49 Aligned_cols=61 Identities=13% Similarity=0.031 Sum_probs=34.1
Q ss_pred CCcccEEeecCC----chhHHHHHHhhhCCcEEEEcccCCcc--chhhhcccHHHHHhhcCCccEEEEc
Q 044140 98 VNDMPVHVMQGD----PRNVMTEAVERFHPTILVLGSHGYGA--VKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 98 i~~~~~~v~~g~----~~~~I~~~a~~~~~dliV~g~~~~~~--~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
++ +.+.+..|. ....+++..++.++|.|.+..+.... .....+ ....++.+..++||+..-
T Consensus 124 ~~-v~vk~r~~~~~~~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~-~~~~~i~~~~~ipvi~~G 190 (231)
T cd02801 124 IP-VTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGPADW-DYIAEIKEAVSIPVIANG 190 (231)
T ss_pred CC-EEEEEeeccCCchHHHHHHHHHHHhCCCEEEECCCCHHHcCCCCCCH-HHHHHHHhCCCCeEEEeC
Confidence 44 555544442 45566777778899999885542211 111111 223456666788988754
No 425
>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=31.98 E-value=1e+02 Score=24.36 Aligned_cols=26 Identities=19% Similarity=0.473 Sum_probs=15.8
Q ss_pred CCchhHHHHHHh-hhCCcEEEEcccCC
Q 044140 108 GDPRNVMTEAVE-RFHPTILVLGSHGY 133 (166)
Q Consensus 108 g~~~~~I~~~a~-~~~~dliV~g~~~~ 133 (166)
|+-.+.+++.++ +.++.+|.+.+.+.
T Consensus 102 GdDi~~v~~~~~~~~~~~vi~v~t~gf 128 (410)
T cd01968 102 GDDIDAVCKTASEKFGIPVIPVHSPGF 128 (410)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCCc
Confidence 555666665554 44666777766654
No 426
>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=31.95 E-value=82 Score=21.54 Aligned_cols=44 Identities=14% Similarity=0.070 Sum_probs=27.4
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
....|++.+++.++|+|++|-..- -+..+ +.+.....+.+|++.
T Consensus 87 ~~~~i~~~I~~~~pdiv~vglG~P--kQE~~----~~~~~~~l~~~v~~~ 130 (171)
T cd06533 87 EEEEIIERINASGADILFVGLGAP--KQELW----IARHKDRLPVPVAIG 130 (171)
T ss_pred hHHHHHHHHHHcCCCEEEEECCCC--HHHHH----HHHHHHHCCCCEEEE
Confidence 345589999999999999985421 12222 234444556666653
No 427
>PLN02496 probable phosphopantothenoylcysteine decarboxylase
Probab=31.93 E-value=1.6e+02 Score=21.12 Aligned_cols=37 Identities=11% Similarity=0.040 Sum_probs=28.3
Q ss_pred CCCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEe
Q 044140 4 QTKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 4 ~~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v 47 (166)
.+.++||+++.+|-.+.++.+..-.+ + . +. +|.++-.
T Consensus 17 ~~~k~IllgVtGSIAAyk~~~lvr~L-~-~-g~----~V~VvmT 53 (209)
T PLN02496 17 PRKPRILLAASGSVAAIKFGNLCHCF-S-E-WA----EVRAVVT 53 (209)
T ss_pred CCCCEEEEEEeCHHHHHHHHHHHHHh-c-C-CC----eEEEEEC
Confidence 35689999999999999999877655 4 3 45 7776643
No 428
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=31.91 E-value=2e+02 Score=20.96 Aligned_cols=49 Identities=12% Similarity=0.057 Sum_probs=29.7
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+..++.++|.|++-.....+...-+.-....++...+++||+..-
T Consensus 158 ~~~~~~l~~~G~~~iivt~i~~~g~~~g~~~~~~~~i~~~~~ipvia~G 206 (254)
T TIGR00735 158 VEWAKEVEKLGAGEILLTSMDKDGTKSGYDLELTKAVSEAVKIPVIASG 206 (254)
T ss_pred HHHHHHHHHcCCCEEEEeCcCcccCCCCCCHHHHHHHHHhCCCCEEEeC
Confidence 4556666778999888843332221111112456777788899998764
No 429
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=31.82 E-value=1.3e+02 Score=21.91 Aligned_cols=51 Identities=14% Similarity=0.183 Sum_probs=32.0
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhccc--HHH-----HHhhcCCccEEEEcCCCC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGS--VSD-----YSAHHCSCTVMIVKMPKS 164 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs--~~~-----~l~~~~~~pVlvv~~~~~ 164 (166)
....+...+.+..+|++|++.. +.-+-+|. .+. .-+.....||+.+|...+
T Consensus 18 ~~~k~~~~~~~~~~D~lviaGD----lt~~~~~~~~~~~~~~~~e~l~~~~~~v~avpGNcD 75 (226)
T COG2129 18 SLKKLLNAAADIRADLLVIAGD----LTYFHFGPKEVAEELNKLEALKELGIPVLAVPGNCD 75 (226)
T ss_pred HHHHHHHHHhhccCCEEEEecc----eehhhcCchHHHHhhhHHHHHHhcCCeEEEEcCCCC
Confidence 3577888888889999999743 11111222 122 234557789999997654
No 430
>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=31.78 E-value=1.8e+02 Score=20.26 Aligned_cols=21 Identities=10% Similarity=0.194 Sum_probs=17.2
Q ss_pred hHHHHHHhhhCCcEEEEcccC
Q 044140 112 NVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~ 132 (166)
..+..+|++++++-|++|.+.
T Consensus 101 ~~a~~~A~~~g~~~v~~G~~~ 121 (201)
T TIGR00364 101 SIAASYAEALGAEAVITGVCE 121 (201)
T ss_pred HHHHHHHHHCCCCEEEEEecc
Confidence 335688999999999999764
No 431
>KOG0830 consensus 40S ribosomal protein SA (P40)/Laminin receptor 1 [Translation, ribosomal structure and biogenesis]
Probab=31.73 E-value=58 Score=23.85 Aligned_cols=25 Identities=16% Similarity=0.250 Sum_probs=16.4
Q ss_pred hhhcccHHHHHhhcCCcc-EEEEcCC
Q 044140 138 RAVLGSVSDYSAHHCSCT-VMIVKMP 162 (166)
Q Consensus 138 ~~~~gs~~~~l~~~~~~p-Vlvv~~~ 162 (166)
+|.-|+.+.++-....-| ++||-++
T Consensus 73 ~ftpg~ftn~iq~~f~epr~lvvtdp 98 (254)
T KOG0830|consen 73 RFTPGTFTNQIQAAFREPRLLVVTDP 98 (254)
T ss_pred cccccccchHHHHhhcCCceeeecCc
Confidence 455678888877777666 5555443
No 432
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=31.68 E-value=1.6e+02 Score=19.74 Aligned_cols=66 Identities=6% Similarity=-0.046 Sum_probs=40.0
Q ss_pred HHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEE
Q 044140 88 KATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVM 157 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVl 157 (166)
-+...++..|.. +...=.. ...+++++.|-++++|.|++.+..... ..++-.+.+.+-..-.-.++
T Consensus 31 via~~l~d~Gfe-Vi~~g~~-~tp~e~v~aA~~~dv~vIgvSsl~g~h--~~l~~~lve~lre~G~~~i~ 96 (143)
T COG2185 31 VIARALADAGFE-VINLGLF-QTPEEAVRAAVEEDVDVIGVSSLDGGH--LTLVPGLVEALREAGVEDIL 96 (143)
T ss_pred HHHHHHHhCCce-EEecCCc-CCHHHHHHHHHhcCCCEEEEEeccchH--HHHHHHHHHHHHHhCCcceE
Confidence 344455666777 3221111 556889999988999999998664322 23445566665555444555
No 433
>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=31.60 E-value=2.5e+02 Score=21.79 Aligned_cols=33 Identities=12% Similarity=0.091 Sum_probs=24.2
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
+|+|++.+.-+|..++..+.+ .+. +++.+|+..
T Consensus 1 kVlValSGGvDSsvla~lL~~-----~g~----~v~~v~i~~ 33 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE-----QGY----EVIGVFMKN 33 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH-----cCC----cEEEEEEec
Confidence 589999999988887655533 344 788888754
No 434
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=31.53 E-value=1.5e+02 Score=22.44 Aligned_cols=51 Identities=12% Similarity=0.202 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhCCCCccc-EEeecCCchhHHHHHHhhhCCcEEEEcccCC
Q 044140 82 AQKVADKATSICAKREVNDMP-VHVMQGDPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 82 ~~~~l~~~~~~~~~~~i~~~~-~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
....++..++.+.-.|++ .. +....++..+.+.+.-+...+|+||+-....
T Consensus 155 S~~al~~a~~N~~lNg~~-~~~~~~~~~Dvf~~l~~~~~~~~fD~IIlDPPsF 206 (286)
T PF10672_consen 155 SKRALEWAKENAALNGLD-LDRHRFIQGDVFKFLKRLKKGGRFDLIILDPPSF 206 (286)
T ss_dssp -HHHHHHHHHHHHHTT-C-CTCEEEEES-HHHHHHHHHHTT-EEEEEE--SSE
T ss_pred CHHHHHHHHHHHHHcCCC-ccceEEEecCHHHHHHHHhcCCCCCEEEECCCCC
Confidence 455566666666666776 43 5566788888887766677999999986643
No 435
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=31.29 E-value=1e+02 Score=25.40 Aligned_cols=27 Identities=4% Similarity=0.149 Sum_probs=15.8
Q ss_pred CCchhHHHHHHh-hhCCcEEEEcccCCc
Q 044140 108 GDPRNVMTEAVE-RFHPTILVLGSHGYG 134 (166)
Q Consensus 108 g~~~~~I~~~a~-~~~~dliV~g~~~~~ 134 (166)
|+-...+++.++ +.++++|.+.+.++.
T Consensus 101 GDDi~~v~~~~~~~~~~pVi~v~t~~f~ 128 (513)
T CHL00076 101 QEDLQNFVDRASIESDSDVILADVNHYR 128 (513)
T ss_pred hcCHHHHHHHhhcccCCCEEEeCCCCCc
Confidence 555555555554 456677777766544
No 436
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=31.25 E-value=1.4e+02 Score=20.65 Aligned_cols=18 Identities=0% Similarity=0.220 Sum_probs=8.5
Q ss_pred hhHHHHHHhhhCCcEEEE
Q 044140 111 RNVMTEAVERFHPTILVL 128 (166)
Q Consensus 111 ~~~I~~~a~~~~~dliV~ 128 (166)
...|.+..+..+...++.
T Consensus 47 ~~~I~~~i~~~~~pvv~~ 64 (172)
T cd07015 47 AGNIVQRIQQSKIPVIIY 64 (172)
T ss_pred HHHHHHHHHhcCcCEEEE
Confidence 444555555444444443
No 437
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=31.07 E-value=1.3e+02 Score=18.33 Aligned_cols=39 Identities=3% Similarity=0.178 Sum_probs=24.9
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.++++.+.+.|++ +++.- .+.. ++..+++ ++|+|+.+..
T Consensus 21 ~ki~~~l~~~gi~-~~v~~--~~~~-e~~~~~~--~~D~iv~t~~ 59 (94)
T PRK10310 21 EEIKELCQSHNIP-VELIQ--CRVN-EIETYMD--GVHLICTTAR 59 (94)
T ss_pred HHHHHHHHHCCCe-EEEEE--ecHH-HHhhhcC--CCCEEEECCc
Confidence 5666777778888 65433 3333 3444444 7899988864
No 438
>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=30.90 E-value=1.2e+02 Score=24.76 Aligned_cols=45 Identities=13% Similarity=0.158 Sum_probs=33.1
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~~ 162 (166)
..+...++.|+..++++||+-+.+ |+++..+.+.- +|||+.+-+.
T Consensus 360 ~ia~~a~~~a~~~~akaIVv~T~S---------G~TA~~vSr~rp~~PIiAvT~~ 405 (473)
T TIGR01064 360 AIALSAVEAAEKLDAKAIVVLTES---------GRTARLLSKYRPNAPIIAVTPN 405 (473)
T ss_pred HHHHHHHHHHhhcCCCEEEEEcCC---------hHHHHHHHhhCCCCCEEEEcCC
Confidence 456677788889999999997653 55666666654 5999988653
No 439
>PRK14057 epimerase; Provisional
Probab=30.81 E-value=2.3e+02 Score=21.10 Aligned_cols=46 Identities=9% Similarity=0.109 Sum_probs=29.8
Q ss_pred ccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHH
Q 044140 101 MPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYS 148 (166)
Q Consensus 101 ~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l 148 (166)
+=.-+-.+.+.+.|..+.. ..|+|.+-+-.-+...+.|..++.+++
T Consensus 135 aGlAlnP~Tp~e~i~~~l~--~vD~VLvMtV~PGfgGQ~Fi~~~l~KI 180 (254)
T PRK14057 135 RGISLCPATPLDVIIPILS--DVEVIQLLAVNPGYGSKMRSSDLHERV 180 (254)
T ss_pred eEEEECCCCCHHHHHHHHH--hCCEEEEEEECCCCCchhccHHHHHHH
Confidence 3334445799999999999 788887766544444445555544444
No 440
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=30.81 E-value=2e+02 Score=20.58 Aligned_cols=33 Identities=18% Similarity=0.346 Sum_probs=16.9
Q ss_pred ccEEeecCCchh--------HHHHHHhhhCC-cEEEEcccCC
Q 044140 101 MPVHVMQGDPRN--------VMTEAVERFHP-TILVLGSHGY 133 (166)
Q Consensus 101 ~~~~v~~g~~~~--------~I~~~a~~~~~-dliV~g~~~~ 133 (166)
....++.||... ..++..+.... =++|.|.|..
T Consensus 42 ~D~viiaGDl~~~~~~~~~~~~l~~l~~l~~~v~~V~GNHD~ 83 (232)
T cd07393 42 EDIVLIPGDISWAMKLEEAKLDLAWIDALPGTKVLLKGNHDY 83 (232)
T ss_pred CCEEEEcCCCccCCChHHHHHHHHHHHhCCCCeEEEeCCccc
Confidence 667777776441 12222333322 2667777754
No 441
>PTZ00300 pyruvate kinase; Provisional
Probab=30.65 E-value=1.3e+02 Score=24.44 Aligned_cols=44 Identities=18% Similarity=0.198 Sum_probs=31.9
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKM 161 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~ 161 (166)
..+...++.|...++++||+-+++ |.++..+.+.- +||++.+-+
T Consensus 335 ~ia~sa~~~a~~l~a~aIiv~T~s---------G~tA~~vs~~RP~~pIia~t~ 379 (454)
T PTZ00300 335 AVCSSAVNSVYETKAKALVVLSNT---------GRSARLVAKYRPNCPIVCVTT 379 (454)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECC
Confidence 345667788889999999886552 55666677664 589988854
No 442
>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=30.64 E-value=1.4e+02 Score=18.52 Aligned_cols=61 Identities=10% Similarity=0.061 Sum_probs=35.7
Q ss_pred HhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 94 AKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 94 ~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
.+.|++ ++...........|.+..++.++|+||-...+.... -.|-...+..-...+|++-
T Consensus 40 ~~~gi~-~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~~~~~~---~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 40 QEAGIP-VEVVNKVSEGRPNIVDLIKNGEIQLVINTPSGKRAI---RDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred HHcCCe-EEEEeecCCCchhHHHHHHcCCeEEEEECCCCCccC---ccHHHHHHHHHHhCCCEEe
Confidence 446777 654433323447789999999999999864432211 1133334444455677763
No 443
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=30.57 E-value=1.3e+02 Score=24.16 Aligned_cols=52 Identities=17% Similarity=0.114 Sum_probs=37.4
Q ss_pred CchhHHHHHHhh--hCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcCCC
Q 044140 109 DPRNVMTEAVER--FHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKMPK 163 (166)
Q Consensus 109 ~~~~~I~~~a~~--~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~~~ 163 (166)
...+.|++..++ .++|.+|+.-.+++.+.. -...-++.++.+.||++=|...
T Consensus 128 ~~~~~ll~~~~~~l~~~~~vVLSDY~KG~L~~---~q~~I~~ar~~~~pVLvDPKg~ 181 (467)
T COG2870 128 EDENKLLEKIKNALKSFDALVLSDYAKGVLTN---VQKMIDLAREAGIPVLVDPKGK 181 (467)
T ss_pred hhHHHHHHHHHHHhhcCCEEEEeccccccchh---HHHHHHHHHHcCCcEEECCCCc
Confidence 345666666665 589999999888876654 2234467888999999988654
No 444
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=30.53 E-value=85 Score=20.43 Aligned_cols=51 Identities=16% Similarity=0.113 Sum_probs=26.2
Q ss_pred HHHHHHHhCCCCcccEEeecC-CchhHHHHHHhhhCCcEEEEcccCCccchhhh
Q 044140 88 KATSICAKREVNDMPVHVMQG-DPRNVMTEAVERFHPTILVLGSHGYGAVKRAV 140 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g-~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~ 140 (166)
.+.+.+.+.|+. ++++---. ...+.|. .-+-..+|+||+...-.-...++|
T Consensus 23 aLe~~A~~~g~~-IKVETqGs~G~eN~LT-~edI~~Ad~VI~AaD~~i~~~~ff 74 (122)
T COG1445 23 ALEKAAKKLGVE-IKVETQGAVGIENRLT-AEDIAAADVVILAADIEVDLSRFF 74 (122)
T ss_pred HHHHHHHHcCCe-EEEEcCCcccccCcCC-HHHHHhCCEEEEEecccccHhHhh
Confidence 333444555666 55544222 2233333 222338999999876544444443
No 445
>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=30.45 E-value=2.3e+02 Score=21.06 Aligned_cols=75 Identities=9% Similarity=-0.021 Sum_probs=41.2
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+++.+.+.+. ..++ +-..+...+. .-++.+.+++.++|-+++....+.....--+=..-+.|...++.|+++...
T Consensus 59 l~~~~~~~~~-~~~~-vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~~~~pi~iYn~ 135 (289)
T PF00701_consen 59 LLEIVVEAAA-GRVP-VIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIADATDLPIIIYNN 135 (289)
T ss_dssp HHHHHHHHHT-TSSE-EEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHHHHSSSEEEEEEB
T ss_pred HHHHHHHHcc-CceE-EEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHHhhcCCCEEEEEC
Confidence 3344444332 2344 4444433333 445567789999998887765443322211123346677788999998754
No 446
>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=30.45 E-value=2.1e+02 Score=20.62 Aligned_cols=90 Identities=16% Similarity=0.180 Sum_probs=41.6
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHH
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVAD 87 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 87 (166)
++++-+.+..+|..|+-.|.+. . . -..+++..+.....+.+... ..+. ++
T Consensus 2 k~v~l~SGGKDS~lAl~~a~~~-~-~-------v~~L~t~~~~~~~s~~~H~~------~~~~---------------~~ 51 (218)
T PF01902_consen 2 KVVALWSGGKDSCLALYRALRQ-H-E-------VVCLLTMVPEEEDSYMFHGV------NIEL---------------IE 51 (218)
T ss_dssp EEEEE--SSHHHHHHHHHHHHT---E-------EEEEEEEEESTTT-SSS-ST------TGTC---------------HH
T ss_pred cEEEEEcCcHHHHHHHHHHHHh-C-C-------ccEEEEeccCCCCccccccc------CHHH---------------HH
Confidence 6778899999999999888766 4 2 44566666544332222221 1100 11
Q ss_pred HHHHHHHhCCCCcccEEeecC---CchhHHHHHHhhhCCcEEEEccc
Q 044140 88 KATSICAKREVNDMPVHVMQG---DPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 88 ~~~~~~~~~~i~~~~~~v~~g---~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
..+..-|++ ....-..| +-.+.+.+..++.+++.+|.|.=
T Consensus 52 ---~qA~algip-l~~~~~~g~~~~~~~~l~~~l~~~~v~~vv~GdI 94 (218)
T PF01902_consen 52 ---AQAEALGIP-LIEIPTSGDEEDYVEDLKEALKELKVEAVVFGDI 94 (218)
T ss_dssp ---HHHHHHT---EEEEEE---CCCHHHHHHHHHCTC--SEEE--TT
T ss_pred ---HHHHHCCCC-EEEEEccCccchhhHHHHHHHHHcCCCEEEECcC
Confidence 111122666 43333333 33455666667777888888754
No 447
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=30.42 E-value=1e+02 Score=17.31 Aligned_cols=25 Identities=8% Similarity=-0.073 Sum_probs=19.0
Q ss_pred CEEEEEEcCChhHHHHHHHHHHhcC
Q 044140 7 PIMMVAIDDSNHSYYALEWALDYFF 31 (166)
Q Consensus 7 ~~Ilv~vd~s~~s~~al~~a~~la~ 31 (166)
.+|.++.|++.....+.....+...
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~ 72 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLK 72 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhh
Confidence 5688888888888777777666555
No 448
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=30.42 E-value=1.6e+02 Score=23.42 Aligned_cols=12 Identities=25% Similarity=0.368 Sum_probs=5.4
Q ss_pred hhhCCcEEEEcc
Q 044140 119 ERFHPTILVLGS 130 (166)
Q Consensus 119 ~~~~~dliV~g~ 130 (166)
+..+.-|++.|+
T Consensus 185 ~av~vPLIL~gs 196 (389)
T TIGR00381 185 QAVDVPIVIGGS 196 (389)
T ss_pred HhCCCCEEEeCC
Confidence 333444544444
No 449
>PRK08649 inosine 5-monophosphate dehydrogenase; Validated
Probab=30.41 E-value=2.5e+02 Score=22.10 Aligned_cols=36 Identities=11% Similarity=0.113 Sum_probs=24.0
Q ss_pred HHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcc
Q 044140 93 CAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGS 130 (166)
Q Consensus 93 ~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~ 130 (166)
+++.+++ +.+.+ ......++++.+.+.++|+|++..
T Consensus 127 ~~~~~V~-v~vr~-~~~~~~e~a~~l~eaGvd~I~vhg 162 (368)
T PRK08649 127 IRDAGVI-VAVSL-SPQRAQELAPTVVEAGVDLFVIQG 162 (368)
T ss_pred HHhCeEE-EEEec-CCcCHHHHHHHHHHCCCCEEEEec
Confidence 3334555 44433 223467888999999999999953
No 450
>TIGR02151 IPP_isom_2 isopentenyl-diphosphate delta-isomerase, type 2. Isopentenyl-diphosphate delta-isomerase (IPP isomerase) interconverts isopentenyl diphosphate and dimethylallyl diphosphate. This model represents the type 2 enzyme. FMN, NADPH, and Mg2+ are required by this form, which lacks homology to the type 1 enzyme (TIGR02150). IPP is precursor to many compounds, including enzyme cofactors, sterols, and isoprenoids.
Probab=30.40 E-value=2.5e+02 Score=21.56 Aligned_cols=47 Identities=13% Similarity=0.149 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccC
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHG 132 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~ 132 (166)
.++.+.......+++ +-+...-......+++..++.++|.|+++.++
T Consensus 167 ~le~i~~i~~~~~vP-VivK~~g~g~~~~~a~~L~~aGvd~I~Vsg~g 213 (333)
T TIGR02151 167 WLEKIAEICSQLSVP-VIVKEVGFGISKEVAKLLADAGVSAIDVAGAG 213 (333)
T ss_pred HHHHHHHHHHhcCCC-EEEEecCCCCCHHHHHHHHHcCCCEEEECCCC
Confidence 334444444444666 55443322345677788888899999998754
No 451
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=30.34 E-value=2.1e+02 Score=20.49 Aligned_cols=16 Identities=6% Similarity=0.110 Sum_probs=8.0
Q ss_pred HHHHHHhhhCCcEEEE
Q 044140 113 VMTEAVERFHPTILVL 128 (166)
Q Consensus 113 ~I~~~a~~~~~dliV~ 128 (166)
.+++...+.++|-||+
T Consensus 46 ~~i~~l~~~~vdgii~ 61 (269)
T cd06281 46 EILRSFEQRRMDGIII 61 (269)
T ss_pred HHHHHHHHcCCCEEEE
Confidence 3334444455665555
No 452
>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative. Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.
Probab=30.29 E-value=2.2e+02 Score=20.77 Aligned_cols=62 Identities=3% Similarity=-0.195 Sum_probs=36.2
Q ss_pred hCCCCcccEEeecC-C--chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCC-ccEEEE
Q 044140 95 KREVNDMPVHVMQG-D--PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCS-CTVMIV 159 (166)
Q Consensus 95 ~~~i~~~~~~v~~g-~--~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~-~pVlvv 159 (166)
+.+++ +.+.++-+ + ....+.+.+++.++|.|.+-....+. ...--....++-...+ +||+..
T Consensus 132 ~~~~P-VsvKiR~~~~~~~~~~~a~~l~~aGad~i~Vd~~~~g~--~~a~~~~I~~i~~~~~~ipIIgN 197 (231)
T TIGR00736 132 ELNKP-IFVKIRGNCIPLDELIDALNLVDDGFDGIHVDAMYPGK--PYADMDLLKILSEEFNDKIIIGN 197 (231)
T ss_pred cCCCc-EEEEeCCCCCcchHHHHHHHHHHcCCCEEEEeeCCCCC--chhhHHHHHHHHHhcCCCcEEEE
Confidence 44677 77777665 2 34478888999999999984322111 0001123444555554 887754
No 453
>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=30.28 E-value=1.8e+02 Score=20.55 Aligned_cols=10 Identities=20% Similarity=0.305 Sum_probs=4.4
Q ss_pred ccEEeecCCc
Q 044140 101 MPVHVMQGDP 110 (166)
Q Consensus 101 ~~~~v~~g~~ 110 (166)
....+..||.
T Consensus 41 ~d~vi~~GDl 50 (240)
T cd07402 41 PDLVLVTGDL 50 (240)
T ss_pred CCEEEECccC
Confidence 3444444443
No 454
>PRK13980 NAD synthetase; Provisional
Probab=30.16 E-value=2.3e+02 Score=20.92 Aligned_cols=37 Identities=5% Similarity=-0.026 Sum_probs=27.5
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeec
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARP 49 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~ 49 (166)
.++++|+++|.-+|.-++..+.+... . . +++.+++..
T Consensus 30 ~~~vvv~lSGGiDSsv~a~l~~~~~~-~--~----~v~av~~~~ 66 (265)
T PRK13980 30 AKGVVLGLSGGIDSAVVAYLAVKALG-K--E----NVLALLMPS 66 (265)
T ss_pred CCcEEEECCCCHHHHHHHHHHHHHhC-c--c----ceEEEEeeC
Confidence 47899999999999888777665433 2 3 778888754
No 455
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=30.03 E-value=1.1e+02 Score=21.52 Aligned_cols=42 Identities=17% Similarity=0.343 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.++.....+++.|++ ...+++|+..+.+.... .+|.|+||..
T Consensus 70 a~~~~~~N~~~fg~~--n~~vv~g~Ap~~L~~~~---~~daiFIGGg 111 (187)
T COG2242 70 ALELIERNAARFGVD--NLEVVEGDAPEALPDLP---SPDAIFIGGG 111 (187)
T ss_pred HHHHHHHHHHHhCCC--cEEEEeccchHhhcCCC---CCCEEEECCC
Confidence 344555555666755 67788899888887333 7999999965
No 456
>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=29.87 E-value=1.2e+02 Score=24.19 Aligned_cols=27 Identities=15% Similarity=0.176 Sum_probs=15.1
Q ss_pred CCchhHHHHHHh-hhCCcEEEEcccCCc
Q 044140 108 GDPRNVMTEAVE-RFHPTILVLGSHGYG 134 (166)
Q Consensus 108 g~~~~~I~~~a~-~~~~dliV~g~~~~~ 134 (166)
|+..+.+++.++ +.++.++.+.+.+..
T Consensus 101 GdDi~~v~~~~~~~~~~~vi~v~t~gf~ 128 (430)
T cd01981 101 QEDLQNFVRAAGLSSKSPVLPLDVNHYR 128 (430)
T ss_pred hhCHHHHHHHhhhccCCCeEEecCCCcc
Confidence 444555555443 446666766666554
No 457
>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=29.84 E-value=69 Score=24.33 Aligned_cols=53 Identities=6% Similarity=0.045 Sum_probs=34.0
Q ss_pred CCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcC
Q 044140 108 GDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKM 161 (166)
Q Consensus 108 g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~ 161 (166)
....+.+.+.+++.++|.+|......-.... .......+.++.. .+|++.+-.
T Consensus 272 ~~r~~~~~~~~~~~~~dgvi~~~~~~C~~~~-~~~~~l~~~~~~~~gIP~l~le~ 325 (349)
T PF06050_consen 272 ERRIEYIDDLIEKYGADGVIFHGHKGCDPYS-YDQPLLKEALREFLGIPVLFLEG 325 (349)
T ss_dssp HCHHHHHHHHHHHTT-SEEEEEEETT-HHHH-CCHHHHHHHHHCCHT--EEEEEE
T ss_pred HhHHHHHHHHHHHhCCCEEEEhHhcCCCcHH-HHHHHHHHHHHHhcCCCeEeecc
Confidence 4677889999999999999998664321111 2233456667777 999998863
No 458
>PLN02765 pyruvate kinase
Probab=29.75 E-value=1.3e+02 Score=24.86 Aligned_cols=42 Identities=12% Similarity=0.158 Sum_probs=32.1
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEc
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVK 160 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~ 160 (166)
.+...++.|+..++.+||+-+.+ |.++..+.+.- +|||+.+-
T Consensus 396 ia~sav~~A~~l~a~aIvv~T~s---------G~tAr~isk~RP~~pIla~t 438 (526)
T PLN02765 396 IASSAVRAAIKVKASVIIVFTSS---------GRAARLIAKYRPTMPVLSVV 438 (526)
T ss_pred HHHHHHHHHhhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEe
Confidence 56677788889999999987653 66677777764 49999875
No 459
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=29.74 E-value=2.1e+02 Score=20.48 Aligned_cols=24 Identities=25% Similarity=0.173 Sum_probs=19.0
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFF 31 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~ 31 (166)
.++++-.++-.|.-++++|+.+|.
T Consensus 4 ~ll~g~~G~GKS~lal~la~~va~ 27 (239)
T cd01125 4 SALVAPGGTGKSSLLLVLALAMAL 27 (239)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHhc
Confidence 356666777889999999998875
No 460
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=29.70 E-value=3e+02 Score=22.11 Aligned_cols=18 Identities=6% Similarity=0.065 Sum_probs=13.4
Q ss_pred hCCcEEEEcccCCccchh
Q 044140 121 FHPTILVLGSHGYGAVKR 138 (166)
Q Consensus 121 ~~~dliV~g~~~~~~~~~ 138 (166)
.++|+|++-+.|++....
T Consensus 284 ~~~D~VLIDTAGr~~~d~ 301 (407)
T PRK12726 284 NCVDHILIDTVGRNYLAE 301 (407)
T ss_pred CCCCEEEEECCCCCccCH
Confidence 468999999888765433
No 461
>PLN00096 isocitrate dehydrogenase (NADP+); Provisional
Probab=29.65 E-value=2.9e+02 Score=22.02 Aligned_cols=34 Identities=3% Similarity=-0.126 Sum_probs=25.7
Q ss_pred EEE-EEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEe
Q 044140 9 MMV-AIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 9 Ilv-~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v 47 (166)
+++ -++..+++++..++|+++|. ..+- +|+++|=
T Consensus 167 v~~~~~N~~~si~RiAr~AF~~A~-~r~~----~Vt~v~K 201 (393)
T PLN00096 167 AVVTYHNPLDNVHHLARIFFGRCL-DAGI----VPYVVTK 201 (393)
T ss_pred EEEEeccCHHHHHHHHHHHHHHHH-HhCC----cEEEEeC
Confidence 444 45666789999999999999 7665 7777764
No 462
>PRK14181 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.55 E-value=2.4e+02 Score=21.34 Aligned_cols=39 Identities=8% Similarity=0.079 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCC-chhHHHHHHhhhCC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGD-PRNVMTEAVERFHP 123 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~-~~~~I~~~a~~~~~ 123 (166)
.+.+...+.|++.|+. ++...+..+ ..+++.+..++.+.
T Consensus 42 ~Yv~~k~k~~~~~Gi~-~~~~~l~~~~t~~el~~~I~~lN~ 81 (287)
T PRK14181 42 VYVGMKVKKATDLGMV-SKAHRLPSDATLSDILKLIHRLNN 81 (287)
T ss_pred HHHHHHHHHHHHcCCE-EEEEECCCCCCHHHHHHHHHHHhC
Confidence 3444555566677888 766555543 23345555554433
No 463
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.44 E-value=2.5e+02 Score=21.19 Aligned_cols=40 Identities=13% Similarity=0.225 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCC-chhHHHHHHhhhCCc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGD-PRNVMTEAVERFHPT 124 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~-~~~~I~~~a~~~~~d 124 (166)
.+.+...+.+++-|+. ++...+..+ ..+++.+..++.+.|
T Consensus 42 ~Yv~~k~k~~~~~Gi~-~~~~~l~~~~~~~el~~~I~~lN~D 82 (279)
T PRK14178 42 MYVRMKHRACERVGIG-SVGIELPGDATTRTVLERIRRLNED 82 (279)
T ss_pred HHHHHHHHHHHHcCCE-EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4445556667777888 776666554 344566766666555
No 464
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=29.44 E-value=2.4e+02 Score=20.88 Aligned_cols=42 Identities=12% Similarity=0.057 Sum_probs=24.6
Q ss_pred HHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 113 VMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 113 ~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
.+++.+...++|-||+........ ..... -+....+||+++-
T Consensus 48 ~~i~~l~~~~vdgiii~~~~~~~~-----~~~~~-~~~~~giPvV~~~ 89 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVDPTAA-----QTVIN-KAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHcCCCEEEEecCchhhH-----HHHHH-HHHHCCCCEEEeC
Confidence 455666677999888864321111 12223 3456788998874
No 465
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=29.43 E-value=55 Score=25.41 Aligned_cols=29 Identities=10% Similarity=0.047 Sum_probs=23.3
Q ss_pred ChhHHHHHHHHHHhcCCCC-CCCCceEEEEEEeec
Q 044140 16 SNHSYYALEWALDYFFPPF-APNHTFQLVLIHARP 49 (166)
Q Consensus 16 s~~s~~al~~a~~la~~~~-~~~~~~~l~lv~v~~ 49 (166)
...+++.+++|+++|+ .+ .. +|+.+|=-.
T Consensus 155 r~~~eRI~r~AFe~A~-~R~~k----kvTsv~KaN 184 (348)
T COG0473 155 RKGSERIARFAFELAR-KRGRK----KVTSVHKAN 184 (348)
T ss_pred HHHHHHHHHHHHHHHH-hhCCC----ceEEEehhh
Confidence 3578999999999999 77 34 899998543
No 466
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=29.39 E-value=2.1e+02 Score=20.32 Aligned_cols=66 Identities=12% Similarity=0.167 Sum_probs=34.6
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
...+.+.+++.|.. +.+....+++. ..+++.....++|-||+....... ..-..+...++||+++-
T Consensus 18 ~~~~~~~~~~~g~~-~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~--------~~~~~~~~~~ipvV~~~ 85 (264)
T cd06274 18 AKRLEALARERGYQ-LLIACSDDDPETERETVETLIARQVDALIVAGSLPPD--------DPYYLCQKAGLPVVALD 85 (264)
T ss_pred HHHHHHHHHHCCCE-EEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCch--------HHHHHHHhcCCCEEEec
Confidence 33444445556766 55544444443 245555666788877775432211 11123445677887773
No 467
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=29.32 E-value=2.5e+02 Score=21.21 Aligned_cols=52 Identities=10% Similarity=0.056 Sum_probs=35.4
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.+-++.++|++.++|-|++-..-......--+=..-..+...++.|+++.--
T Consensus 87 eai~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~~lPvilYN~ 138 (299)
T COG0329 87 EAIELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAVDLPVILYNI 138 (299)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3566778999999999999877654433221112335677778999998753
No 468
>TIGR00024 SbcD_rel_arch putative phosphoesterase, SbcD/Mre11-related. Members of this uncharacterized family share a motif approximating DXH(X25)GDXXD(X25)GNHD as found in several phosphoesterases, including the nucleases SbcD and Mre11. SbcD is a subunit of the SbcCD nuclease of E. coli that can cleave DNA hairpins to unblock stalled DNA replication. All members of this family are archaeal.
Probab=29.31 E-value=1.8e+02 Score=21.00 Aligned_cols=43 Identities=19% Similarity=0.388 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCch---------hHHHHHHhhhCCcEEEEc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDPR---------NVMTEAVERFHPTILVLG 129 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~~---------~~I~~~a~~~~~dliV~g 129 (166)
+.++++.....+.+ ++..+.-||.. +.+.+..++...+++++.
T Consensus 45 ~~l~rl~~li~~~~---~d~vIi~GDl~h~~~~~~~~~~~~~~l~~~~~~v~~V~ 96 (225)
T TIGR00024 45 EIIERALSIADKYG---IEALIINGDLKHEFKKGLEWRFIREFIEVTFRDLILIR 96 (225)
T ss_pred HHHHHHHHHHhhcC---CCEEEEcCccccccCChHHHHHHHHHHHhcCCcEEEEC
Confidence 44555555555443 33555556543 344445555555665553
No 469
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=29.30 E-value=2.8e+02 Score=21.73 Aligned_cols=105 Identities=10% Similarity=0.082 Sum_probs=57.3
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKR 96 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 96 (166)
++.+.++++|..+.. . +. ++.--..+.+-+..+++.+. .++-++.+.+..++.
T Consensus 112 Es~eq~l~~A~~lk~-~-g~----~~~r~g~~kpRtsp~sf~G~---------------------g~~gl~~L~~~~~e~ 164 (352)
T PRK13396 112 ENEEMIVETAKRVKA-A-GA----KFLRGGAYKPRTSPYAFQGH---------------------GESALELLAAAREAT 164 (352)
T ss_pred cCHHHHHHHHHHHHH-c-CC----CEEEeeeecCCCCCcccCCc---------------------hHHHHHHHHHHHHHc
Confidence 556778888888766 4 55 55444455433333333221 123344555566677
Q ss_pred CCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 97 EVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 97 ~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
|+. +-+.+..-+..+.+.+ . +|++=+|++.-..+. + .+ -+.++..||++=+.
T Consensus 165 Gl~-~~tev~d~~~v~~~~~----~-~d~lqIga~~~~n~~--L----L~-~va~t~kPVllk~G 216 (352)
T PRK13396 165 GLG-IITEVMDAADLEKIAE----V-ADVIQVGARNMQNFS--L----LK-KVGAQDKPVLLKRG 216 (352)
T ss_pred CCc-EEEeeCCHHHHHHHHh----h-CCeEEECcccccCHH--H----HH-HHHccCCeEEEeCC
Confidence 988 7666654444444433 3 788888877544321 1 11 12245667766544
No 470
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=29.29 E-value=2.1e+02 Score=20.35 Aligned_cols=68 Identities=15% Similarity=0.047 Sum_probs=34.8
Q ss_pred HHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 86 ADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 86 l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
++.+...+.+.|+. +......+++. ..+++.....++|-||+......... ... ..+...++||+++-
T Consensus 19 ~~g~~~~~~~~g~~-~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~-----~~l-~~~~~~~iPvV~~~ 88 (275)
T cd06317 19 NKAFQAAAEEDGVE-VIVLDANGDVARQAAQVEDLIAQKVDGIILWPTDGQAYI-----PGL-RKAKQAGIPVVITN 88 (275)
T ss_pred HHHHHHHHHhcCCE-EEEEcCCcCHHHHHHHHHHHHHcCCCEEEEecCCccccH-----HHH-HHHHHCCCcEEEeC
Confidence 33444444456776 54433223332 23444455568998888643221111 112 23466789988874
No 471
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=29.28 E-value=2e+02 Score=21.02 Aligned_cols=51 Identities=12% Similarity=0.206 Sum_probs=27.9
Q ss_pred EeecCC---chhHHHHHHhhhCCcE-EEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 104 HVMQGD---PRNVMTEAVERFHPTI-LVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 104 ~v~~g~---~~~~I~~~a~~~~~dl-iV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.|..|+ +.+.+.+.++ .+|+ ||||+...-... .+... ..+....+|++|-.
T Consensus 153 vV~FGE~~~~~~~~~~~~~--~~DlllviGTSl~V~pa----~~l~~-~a~~~g~~vi~IN~ 207 (242)
T PTZ00408 153 IVWFGEMPLYMDEIESVMS--KTDLFVAVGTSGNVYPA----AGFVG-RAQFYGATTLELNL 207 (242)
T ss_pred EEEcCCCCCcHHHHHHHHH--hCCEEEEEccCCccccH----HHHHH-HHHHcCCeEEEECC
Confidence 445576 3455666655 6887 667776432211 11111 24456788888854
No 472
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=29.26 E-value=2.2e+02 Score=20.53 Aligned_cols=66 Identities=9% Similarity=0.063 Sum_probs=35.7
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHh---hcCCccEEEEcCCC
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSA---HHCSCTVMIVKMPK 163 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~---~~~~~pVlvv~~~~ 163 (166)
+.+...+...|.. +.. -...+.....++.. +|+|++...-.. .. |-..-+-+ .....||+++-...
T Consensus 14 ~~l~~~L~~~g~~-v~~----~~~~~~a~~~~~~~-~dlviLD~~lP~-~d----G~~~~~~iR~~~~~~~PIi~Lta~~ 82 (229)
T COG0745 14 ELLKEYLEEEGYE-VDV----AADGEEALEAAREQ-PDLVLLDLMLPD-LD----GLELCRRLRAKKGSGPPIIVLTARD 82 (229)
T ss_pred HHHHHHHHHCCCE-EEE----ECCHHHHHHHHhcC-CCEEEEECCCCC-CC----HHHHHHHHHhhcCCCCcEEEEECCC
Confidence 3444555666766 222 12226666666666 999999864221 11 11111222 34667899987653
No 473
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=29.19 E-value=2e+02 Score=20.07 Aligned_cols=14 Identities=7% Similarity=0.026 Sum_probs=11.4
Q ss_pred hCCcEEEEcccCCc
Q 044140 121 FHPTILVLGSHGYG 134 (166)
Q Consensus 121 ~~~dliV~g~~~~~ 134 (166)
.++|.||+|+..+.
T Consensus 67 ~~aD~ii~GSPty~ 80 (197)
T TIGR01755 67 ADYDAIIFGTPTRF 80 (197)
T ss_pred HHCCEEEEEecccc
Confidence 48999999998653
No 474
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=29.02 E-value=2.6e+02 Score=21.22 Aligned_cols=39 Identities=8% Similarity=0.227 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCC-chhHHHHHHhhhCC
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGD-PRNVMTEAVERFHP 123 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~-~~~~I~~~a~~~~~ 123 (166)
.+.+...+.|++-|+. ++...+..+ ..+++.+..++.+.
T Consensus 54 ~Yv~~k~k~~~~~Gi~-~~~~~l~~~~~~~el~~~I~~LN~ 93 (287)
T PRK14176 54 MYVRLKHKACERVGIR-AEDQFLPADTTQEELLELIDSLNK 93 (287)
T ss_pred HHHHHHHHHHHHcCCE-EEEEECCCCCCHHHHHHHHHHHhC
Confidence 3445555667777888 776665543 33445555555543
No 475
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=28.93 E-value=2.7e+02 Score=21.64 Aligned_cols=45 Identities=13% Similarity=0.256 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhCCCCcccEEeec-----------C-CchhHHHHHHhhhCCcEEEEcc
Q 044140 85 VADKATSICAKREVNDMPVHVMQ-----------G-DPRNVMTEAVERFHPTILVLGS 130 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~-----------g-~~~~~I~~~a~~~~~dliV~g~ 130 (166)
.++.+..++...|.. +--.+.. | .-.++|.+.+++.++|+||+..
T Consensus 18 ~~~E~~~L~~~~~~~-v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~ 74 (351)
T TIGR03156 18 SLEELAELAETAGAE-VVGTVTQKRSRPDPATYIGKGKVEEIAELVEELEADLVIFDH 74 (351)
T ss_pred hHHHHHHHHHHCCCE-EEEEEEEecCCCCCCeEecccHHHHHHHHHHhcCCCEEEECC
Confidence 366777777777776 4322221 3 4468899999999999999974
No 476
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.88 E-value=3.4e+02 Score=22.56 Aligned_cols=123 Identities=8% Similarity=0.040 Sum_probs=65.0
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
+|--.+|+|++--.|......|.+|.. . +- .|. +-.-++.... ..++++-+.++
T Consensus 378 PYVi~fvGVNGVGKSTNLAKIayWLlq-N-kf----rVL-IAACDTFRsG-------------------AvEQLrtHv~r 431 (587)
T KOG0781|consen 378 PYVISFVGVNGVGKSTNLAKIAYWLLQ-N-KF----RVL-IAACDTFRSG-------------------AVEQLRTHVER 431 (587)
T ss_pred CeEEEEEeecCccccchHHHHHHHHHh-C-Cc----eEE-EEeccchhhh-------------------HHHHHHHHHHH
Confidence 344567888998888888899999988 3 11 222 2223322211 11333333332
Q ss_pred HH---HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEE
Q 044140 85 VA---DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 85 ~l---~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 159 (166)
+. ....++++ .|.. =. ...++..-+++|+.+++|.|.|.+-|+-.-...++++.+.-+--+-|--|+.|
T Consensus 432 l~~l~~~~v~lfe-kGYg-kd----~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~v 503 (587)
T KOG0781|consen 432 LSALHGTMVELFE-KGYG-KD----AAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFV 503 (587)
T ss_pred HHHhccchhHHHh-hhcC-CC----hHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEe
Confidence 21 01111111 1111 00 11456778889999999999998777655555566766553333333334433
No 477
>KOG1256 consensus Long-chain acyl-CoA synthetases (AMP-forming) [Lipid transport and metabolism]
Probab=28.84 E-value=3.9e+02 Score=23.17 Aligned_cols=69 Identities=10% Similarity=0.080 Sum_probs=45.6
Q ss_pred HHHHHHHHhCCCCcc-cEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 87 DKATSICAKREVNDM-PVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~-~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
.++...+...|++.- .+-+..-+..+.|+-.---..+++++++-....+. ...++|++++..++++|-.
T Consensus 119 ~~~~~~l~~lG~~~~~~VGIy~~N~pEWiis~~a~~~~~~v~VplYdTlg~------ea~~~Ii~~~e~~iv~vd~ 188 (691)
T KOG1256|consen 119 ENLGSGLRKLGVKEDSKVGIYAFNRPEWIISEMACYAYSLVNVPLYDTLGA------EAVHYIINHAEISIVFVDN 188 (691)
T ss_pred HHHHHHHHHhCCCCCceEEEeccCChhhHHhHHHHHhcCCEEeecccCCCH------HHHHHHHHhcceeEEEEeC
Confidence 344444445566522 23333446677777665566999999998755433 3578999999999999964
No 478
>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=28.62 E-value=2.9e+02 Score=21.60 Aligned_cols=26 Identities=8% Similarity=0.102 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHhCCCCcccEEeecCCc
Q 044140 84 KVADKATSICAKREVNDMPVHVMQGDP 110 (166)
Q Consensus 84 ~~l~~~~~~~~~~~i~~~~~~v~~g~~ 110 (166)
+.+++|.+.+.+.|+. +.++-..|.-
T Consensus 301 ~~~~~F~~~L~~~gi~-~tvR~s~G~d 326 (345)
T PRK14466 301 ARMEAFRDYLTSHGVF-TTIRASRGED 326 (345)
T ss_pred HHHHHHHHHHHHCCCc-EEEeCCCCCc
Confidence 4466777788888999 8777666643
No 479
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=28.51 E-value=2.9e+02 Score=21.72 Aligned_cols=61 Identities=10% Similarity=0.159 Sum_probs=34.8
Q ss_pred HHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCC---ccchhhhcccHHHH-HhhcCCccEEEEc
Q 044140 93 CAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGY---GAVKRAVLGSVSDY-SAHHCSCTVMIVK 160 (166)
Q Consensus 93 ~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~---~~~~~~~~gs~~~~-l~~~~~~pVlvv~ 160 (166)
+.+.|++ +.. ...+... .+..+..+|.+++|..+- +..- .-.|+..-. +.++.++|++|+=
T Consensus 223 L~~~GIp-vtl--I~Dsa~~---~~m~~~~Vd~VivGAD~I~~NG~v~-NKiGTy~lA~~Ak~~~vPfyV~a 287 (363)
T PRK05772 223 LMEEGIK-VTL--ITDTAVG---LVMYKDMVNNVMVGADRILRDGHVF-NKIGTFKEAVIAHELGIPFYALA 287 (363)
T ss_pred HHHCCCC-EEE--EehhHHH---HHHhhcCCCEEEECccEEecCCCEe-ehhhhHHHHHHHHHhCCCEEEEc
Confidence 4456888 443 2222222 223335799999998752 2221 124665544 4467789999984
No 480
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=28.46 E-value=2.2e+02 Score=20.31 Aligned_cols=69 Identities=10% Similarity=-0.005 Sum_probs=36.1
Q ss_pred HHHHHHHHHhC---CCCcccEEeecC--Cc--hhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEE
Q 044140 86 ADKATSICAKR---EVNDMPVHVMQG--DP--RNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 86 l~~~~~~~~~~---~i~~~~~~v~~g--~~--~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
.+.+.+.+.+. |.. ++..+... +. ....++.+...++|-||+.......... .. ..+...++||++
T Consensus 18 ~~~i~~~~~~~~~~g~~-~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~-----~l-~~~~~~~iPvv~ 90 (272)
T cd06300 18 LDEFKAQAKELKKAGLI-SEFIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNP-----VI-EEACEAGIPVVS 90 (272)
T ss_pred HHHHHHHHHhhhccCCe-eEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHH-----HH-HHHHHCCCeEEE
Confidence 33444444555 665 45555443 22 2234444455699999996543221111 12 234567889988
Q ss_pred EcC
Q 044140 159 VKM 161 (166)
Q Consensus 159 v~~ 161 (166)
+-.
T Consensus 91 ~~~ 93 (272)
T cd06300 91 FDG 93 (272)
T ss_pred Eec
Confidence 753
No 481
>KOG3123 consensus Diphthine synthase [Translation, ribosomal structure and biogenesis]
Probab=28.43 E-value=66 Score=23.22 Aligned_cols=47 Identities=17% Similarity=0.321 Sum_probs=30.9
Q ss_pred CchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhh--cCCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAH--HCSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~--~~~~pVlvv~~~ 162 (166)
...+.|++-|..++..++|+|.. .+.- ..++-+++ .-.+||=++++.
T Consensus 64 q~sd~il~~ad~~dVa~LVVGdP-fgAT------THsDlvlRAk~~~ipv~vIHNA 112 (272)
T KOG3123|consen 64 QESDKILDEADKEDVAFLVVGDP-FGAT------THSDLVLRAKELGIPVEVIHNA 112 (272)
T ss_pred hhHHHHhhhhhhcceEEEEecCc-cccc------chhhhheehhhcCCCeEEEech
Confidence 45788999999999999999965 1111 11222222 346899888864
No 482
>COG1540 Uncharacterized proteins, homologs of lactam utilization protein B [General function prediction only]
Probab=28.39 E-value=2.1e+02 Score=21.09 Aligned_cols=99 Identities=11% Similarity=0.078 Sum_probs=55.0
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQKVADKATSICAKR 96 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 96 (166)
......++...++|+ ..+. -+.-|.-.+....+.-.. +.-..+++.....-.+-.+...++..
T Consensus 40 AGDp~~M~rtV~lA~-e~gV-----~IGAHPgyPDl~gFGRr~-----------m~~~~~e~~a~~lYQiGAL~a~~~a~ 102 (252)
T COG1540 40 AGDPLTMRRTVRLAK-ENGV-----AIGAHPGYPDLVGFGRRE-----------MALSPEELYAQVLYQIGALQAFARAQ 102 (252)
T ss_pred CCCHHHHHHHHHHHH-HcCC-----eeccCCCCccccccCccc-----------cCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 334566778888888 6553 223333322222221111 11111223333333455566667777
Q ss_pred CCCcccEEeecC----------CchhHHHHHHhhhCCcEEEEcccCC
Q 044140 97 EVNDMPVHVMQG----------DPRNVMTEAVERFHPTILVLGSHGY 133 (166)
Q Consensus 97 ~i~~~~~~v~~g----------~~~~~I~~~a~~~~~dliV~g~~~~ 133 (166)
|.. +...-.+| ..++.|++....++.+|++||..+.
T Consensus 103 G~~-~~hVKpHGALYN~~a~D~~la~av~~av~~~dp~L~l~~Lags 148 (252)
T COG1540 103 GGV-VQHVKPHGALYNQAAKDRALADAVAEAVAAFDPSLILMGLAGS 148 (252)
T ss_pred CCe-EEEecccHHHHHHhhcCHHHHHHHHHHHHHhCCCceEEecCcH
Confidence 776 55544433 3468899999999999999997643
No 483
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=28.36 E-value=1.2e+02 Score=19.76 Aligned_cols=42 Identities=10% Similarity=0.109 Sum_probs=24.3
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhh--hCCcEEEEc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVER--FHPTILVLG 129 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~--~~~dliV~g 129 (166)
..+...+.+.|.. +.....-.|..+.|.+..++ .++|+||.-
T Consensus 20 ~~l~~~l~~~G~~-v~~~~~v~Dd~~~i~~~l~~~~~~~D~Vitt 63 (144)
T PF00994_consen 20 PFLAALLEELGIE-VIRYGIVPDDPDAIKEALRRALDRADLVITT 63 (144)
T ss_dssp HHHHHHHHHTTEE-EEEEEEEESSHHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHcCCe-eeEEEEECCCHHHHHHHHHhhhccCCEEEEc
Confidence 3445566667887 65444444455555544432 266999884
No 484
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=28.36 E-value=76 Score=24.57 Aligned_cols=29 Identities=7% Similarity=0.077 Sum_probs=22.2
Q ss_pred ChhHHHHHHHHHHhcCCCCCCCCceEEEEEEee
Q 044140 16 SNHSYYALEWALDYFFPPFAPNHTFQLVLIHAR 48 (166)
Q Consensus 16 s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~ 48 (166)
...+++.+++|+++|+ .++.+ +|+++|=.
T Consensus 146 r~~~eRi~r~Af~~A~-~r~~~---~Vt~v~Ka 174 (334)
T PRK08997 146 RKGAERIVRFAYELAR-KEGRK---KVTAVHKA 174 (334)
T ss_pred HHHHHHHHHHHHHHHH-hcCCC---eEEEEeCC
Confidence 3678999999999999 66432 68888743
No 485
>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=28.30 E-value=1.2e+02 Score=17.22 Aligned_cols=30 Identities=17% Similarity=0.279 Sum_probs=22.2
Q ss_pred CCEEEEEEcCChhHHHHHHHHHHhcCCCCCC
Q 044140 6 KPIMMVAIDDSNHSYYALEWALDYFFPPFAP 36 (166)
Q Consensus 6 ~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~ 36 (166)
.++|.++.|+......+...+.+.+. ..+.
T Consensus 43 ~~~vii~~D~D~~G~~~~~~~~~~~~-~~~~ 72 (79)
T cd01029 43 ARTVILAFDNDEAGKKAAARALELLL-ALGG 72 (79)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHH-HCCC
Confidence 38999999999888777777766666 4333
No 486
>PLN02762 pyruvate kinase complex alpha subunit
Probab=28.30 E-value=1.6e+02 Score=24.29 Aligned_cols=44 Identities=7% Similarity=0.158 Sum_probs=32.0
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcC-CccEEEEcCC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHC-SCTVMIVKMP 162 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~-~~pVlvv~~~ 162 (166)
.+...++.|+..++.+||+-+++ |.++..+.+.- +|||+.+-+.
T Consensus 397 ia~sa~~~A~~l~a~aIv~~T~s---------G~tA~~iSk~RP~~pIia~t~~ 441 (509)
T PLN02762 397 ICNSAAKMANNLGVDAIFVYTKH---------GHMASLLSRNRPDCPIFAFTDT 441 (509)
T ss_pred HHHHHHHHHhhcCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 45667788889999999997653 56666676664 5899888543
No 487
>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=28.28 E-value=2.7e+02 Score=21.15 Aligned_cols=61 Identities=10% Similarity=0.032 Sum_probs=31.7
Q ss_pred CCCcccEEeecC--Cc---hhHHHHHHhhhCCcEEEEcccCCc-cchhhhcccHHHHHhhcCCccEEE
Q 044140 97 EVNDMPVHVMQG--DP---RNVMTEAVERFHPTILVLGSHGYG-AVKRAVLGSVSDYSAHHCSCTVMI 158 (166)
Q Consensus 97 ~i~~~~~~v~~g--~~---~~~I~~~a~~~~~dliV~g~~~~~-~~~~~~~gs~~~~l~~~~~~pVlv 158 (166)
+++ +.+.++-| +. ...+++..++.+++.|.+-.+... ......--.....+....++||+.
T Consensus 122 ~~p-vsvKiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~~i~~i~~~~~ipvi~ 188 (309)
T PF01207_consen 122 PIP-VSVKIRLGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGPADWEAIAEIKEALPIPVIA 188 (309)
T ss_dssp SSE-EEEEEESECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS---HHHHHHCHHC-TSEEEE
T ss_pred ccc-eEEecccccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcccchHHHHHHhhcccceeEE
Confidence 455 55555544 22 466777888899999999655322 111111223345677777888875
No 488
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=28.28 E-value=2.3e+02 Score=20.32 Aligned_cols=65 Identities=6% Similarity=0.029 Sum_probs=33.1
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
+.+.+.+++.|+. +.+.....+..+.+.+.....++|-||+...... . .. -+.+...++||+++-
T Consensus 30 ~gi~~~~~~~g~~-~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~--~-----~~-~~~~~~~~ipvV~~~ 94 (275)
T cd06295 30 GGIADALAERGYD-LLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ--D-----PL-PERLAETGLPFVVWG 94 (275)
T ss_pred HHHHHHHHHcCCE-EEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC--h-----HH-HHHHHhCCCCEEEEC
Confidence 3334445555666 5443332333445556666667887766422111 1 11 123456778888774
No 489
>PRK07565 dihydroorotate dehydrogenase 2; Reviewed
Probab=28.25 E-value=2.8e+02 Score=21.29 Aligned_cols=47 Identities=11% Similarity=-0.017 Sum_probs=25.7
Q ss_pred HHHHHHhhhCCcEEEEccc---CCccch----hhhcccHHHHHhhcCCccEEEE
Q 044140 113 VMTEAVERFHPTILVLGSH---GYGAVK----RAVLGSVSDYSAHHCSCTVMIV 159 (166)
Q Consensus 113 ~I~~~a~~~~~dliV~g~~---~~~~~~----~~~~gs~~~~l~~~~~~pVlvv 159 (166)
.+.+.+++.++|.|-+.-. ...... ...+-.+...+-..+++||++=
T Consensus 118 ~~a~~~~~agad~ielN~scpp~~~~~~g~~~~~~~~eil~~v~~~~~iPV~vK 171 (334)
T PRK07565 118 DYARQIEQAGADALELNIYYLPTDPDISGAEVEQRYLDILRAVKSAVSIPVAVK 171 (334)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCCCCCCccccHHHHHHHHHHHHHhccCCcEEEE
Confidence 5555666678999998421 111110 0112334456666778998763
No 490
>cd03086 PGM3 PGM3 (phosphoglucomutase 3), also known as PAGM (phosphoacetylglucosamine mutase) and AGM1 (N-acetylglucosamine-phosphate mutase), is an essential enzyme found in eukaryotes that reversibly catalyzes the conversion of GlcNAc-6-phosphate into GlcNAc-1-phosphate as part of the UDP-N-acetylglucosamine (UDP-GlcNAc) biosynthetic pathway. UDP-GlcNAc is an essential metabolite that serves as the biosynthetic precursor of many glycoproteins and mucopolysaccharides. AGM1 is a member of the alpha-D-phosphohexomutase superfamily, which catalyzes the intramolecular phosphoryl transfer of sugar substrates. The alpha-D-phosphohexomutases have four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=28.24 E-value=3.4e+02 Score=22.41 Aligned_cols=120 Identities=13% Similarity=0.088 Sum_probs=66.8
Q ss_pred CCCEEEEEEcCChhHHHHHHHHHHhcCCCCCCCCceEEEEEEeecCCCCCcCCCCCCCCCCCchhhHHHHHHHHHHHHHH
Q 044140 5 TKPIMMVAIDDSNHSYYALEWALDYFFPPFAPNHTFQLVLIHARPNPPSLLGLSGAGQGSAGSAHVINLVELDTKKRAQK 84 (166)
Q Consensus 5 ~~~~Ilv~vd~s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (166)
...+|+|+.|....+....+..+.-.. ..+. ++.-+...++|...+............... .+...+....
T Consensus 101 ~~~~V~vg~D~R~ss~~l~~a~~~gl~-~~G~----~V~d~g~~~TP~~~~~v~~~~~~g~~~~~~----~~~Y~~~l~~ 171 (513)
T cd03086 101 VPANVFVGRDTRPSGPALLQALLDGLK-ALGG----NVIDYGLVTTPQLHYLVRAANTEGAYGEPT----EEGYYEKLSK 171 (513)
T ss_pred CCCEEEEEeCCChhHHHHHHHHHHHHH-HCCC----eEEEccCcCcHHHHHHHHhcCCCCccCCcc----HHHHHHHHHH
Confidence 457899999999999888888888777 7777 888887766655443111110000000000 1111222222
Q ss_pred HHHHHHHHHH---hCCCCcccEEeecCCchhHHHHHHhhhC--CcEEEEcccCCc
Q 044140 85 VADKATSICA---KREVNDMPVHVMQGDPRNVMTEAVERFH--PTILVLGSHGYG 134 (166)
Q Consensus 85 ~l~~~~~~~~---~~~i~~~~~~v~~g~~~~~I~~~a~~~~--~dliV~g~~~~~ 134 (166)
.+.++.+... ..+.+ +-+....|-....+-+..+..+ ++++++.....+
T Consensus 172 ~f~~lv~~~~~~~~~~~k-VvvD~aNGag~~~~~~ll~~Lg~~~~v~~in~~~dg 225 (513)
T cd03086 172 AFNELYNLLQDGGDEPEK-LVVDCANGVGALKLKELLKRLKKGLSVKIINDGEEG 225 (513)
T ss_pred HHHHHHhhccccccCCCE-EEEECCCcHHHHHHHHHHHHcCCCcEEEEEccCCCC
Confidence 2112222111 23444 4444455666666667888888 999999876443
No 491
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=27.99 E-value=2e+02 Score=19.72 Aligned_cols=43 Identities=12% Similarity=0.122 Sum_probs=27.7
Q ss_pred HHHHHHHHhCCCCcccEEeecCCchhHHHHHHhhhCCcEEEEccc
Q 044140 87 DKATSICAKREVNDMPVHVMQGDPRNVMTEAVERFHPTILVLGSH 131 (166)
Q Consensus 87 ~~~~~~~~~~~i~~~~~~v~~g~~~~~I~~~a~~~~~dliV~g~~ 131 (166)
.++.+.++..+-. +...+--|=..+.|.+|++. ++|.|.+|+-
T Consensus 115 ~~~v~~l~~~~~~-v~ie~SGGI~~~ni~~ya~~-gvD~isvg~~ 157 (169)
T PF01729_consen 115 KEAVEELRELNPR-VKIEASGGITLENIAEYAKT-GVDVISVGSL 157 (169)
T ss_dssp HHHHHHHHHHTTT-SEEEEESSSSTTTHHHHHHT-T-SEEEECHH
T ss_pred HHHHHHHhhcCCc-EEEEEECCCCHHHHHHHHhc-CCCEEEcChh
Confidence 3333333334444 66666667778888899864 7899999964
No 492
>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=27.87 E-value=61 Score=24.91 Aligned_cols=27 Identities=11% Similarity=0.071 Sum_probs=21.4
Q ss_pred ChhHHHHHHHHHHhcCCCCCCCCceEEEEEEe
Q 044140 16 SNHSYYALEWALDYFFPPFAPNHTFQLVLIHA 47 (166)
Q Consensus 16 s~~s~~al~~a~~la~~~~~~~~~~~l~lv~v 47 (166)
.+.+++.+++|+++|+ .++. +|+++|=
T Consensus 140 r~~~eRi~r~AF~~A~-~r~~----~Vt~v~K 166 (322)
T TIGR02088 140 REGSERIARFAFNLAK-ERNR----KVTCVHK 166 (322)
T ss_pred HHHHHHHHHHHHHHHH-HcCC----cEEEEeC
Confidence 4678999999999999 7665 7666653
No 493
>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=27.84 E-value=2.1e+02 Score=19.72 Aligned_cols=25 Identities=8% Similarity=-0.136 Sum_probs=17.9
Q ss_pred EEEEEEcCChhHHHHHHHHHHhcCCC
Q 044140 8 IMMVAIDDSNHSYYALEWALDYFFPP 33 (166)
Q Consensus 8 ~Ilv~vd~s~~s~~al~~a~~la~~~ 33 (166)
||++.+-.+..+..+.+.+..+.+ .
T Consensus 2 r~V~vtld~~~~~al~~aa~~l~~-~ 26 (164)
T PF11965_consen 2 RFVIVTLDEHYNSALYRAAARLNR-D 26 (164)
T ss_pred EEEEEeCchhhhHHHHHHHHHHhh-c
Confidence 566666667777777777777777 5
No 494
>PRK08194 tartrate dehydrogenase; Provisional
Probab=27.81 E-value=62 Score=25.25 Aligned_cols=27 Identities=7% Similarity=0.037 Sum_probs=21.7
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEee
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHAR 48 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~ 48 (166)
..+++.+++|+++|+ .++. +|+++|=.
T Consensus 161 ~~~eRI~r~Af~~A~-~r~~----~Vt~v~Ka 187 (352)
T PRK08194 161 KGTERAMRYAFELAA-KRRK----HVTSATKS 187 (352)
T ss_pred HHHHHHHHHHHHHHH-HcCC----cEEEEeCc
Confidence 568999999999999 6554 78888753
No 495
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=27.73 E-value=2.6e+02 Score=20.74 Aligned_cols=69 Identities=12% Similarity=0.024 Sum_probs=34.1
Q ss_pred HHHHHHHHHHhCCCCcccEEeecCCch--hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEc
Q 044140 85 VADKATSICAKREVNDMPVHVMQGDPR--NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVK 160 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~v~~g~~~--~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 160 (166)
..+.+.+.+++.|+. +...-...+.. ..+++.....++|-||+........ .+..+. +...++||+++-
T Consensus 16 ~~~~i~~~a~~~g~~-v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~-----~~~l~~-~~~~~iPvV~~d 86 (302)
T TIGR02634 16 DRDIFVAAAESLGAK-VFVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVL-----SNAVQE-AKDEGIKVVAYD 86 (302)
T ss_pred HHHHHHHHHHhcCCE-EEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHH-----HHHHHH-HHHCCCeEEEec
Confidence 334455555556666 43322222333 2455556666788777764322111 112222 345677887773
No 496
>PRK06354 pyruvate kinase; Provisional
Probab=27.70 E-value=1.6e+02 Score=24.84 Aligned_cols=44 Identities=7% Similarity=0.097 Sum_probs=32.2
Q ss_pred chhHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEEcCC
Q 044140 110 PRNVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIVKMP 162 (166)
Q Consensus 110 ~~~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv~~~ 162 (166)
.+...++.|+..++++||+-+++ |.++..+.+. .+|||+.+-+.
T Consensus 365 ia~aa~~~a~~~~a~~Iv~~T~s---------G~ta~~vsk~Rp~~pI~a~t~~ 409 (590)
T PRK06354 365 ISQAVSHIALQLDAAAIVTLTKS---------GATARNVSKYRPKTPILAVTPN 409 (590)
T ss_pred HHHHHHHHHhhcCCCEEEEECCC---------hHHHHHHHhhCCCCCEEEECCC
Confidence 44566677889999999997653 6667777776 45999988653
No 497
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=27.69 E-value=1.9e+02 Score=22.61 Aligned_cols=46 Identities=15% Similarity=0.155 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhCCCCcccEE-eecCCc----hhHHHHHHhhhCCcEEE-Eccc
Q 044140 85 VADKATSICAKREVNDMPVH-VMQGDP----RNVMTEAVERFHPTILV-LGSH 131 (166)
Q Consensus 85 ~l~~~~~~~~~~~i~~~~~~-v~~g~~----~~~I~~~a~~~~~dliV-~g~~ 131 (166)
..+++.+.+++.|+. +..- -...++ .+.+.+.+++.++|.|| +|..
T Consensus 42 ~~~~v~~~L~~~~~~-~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavGGG 93 (380)
T cd08185 42 YLDRVIELLKQAGVE-VVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLGGG 93 (380)
T ss_pred HHHHHHHHHHHcCCe-EEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeCCc
Confidence 345566666666776 4321 122233 45666788899999999 7744
No 498
>PRK07667 uridine kinase; Provisional
Probab=27.63 E-value=1.7e+02 Score=20.26 Aligned_cols=50 Identities=10% Similarity=0.185 Sum_probs=24.1
Q ss_pred hHHHHHHhhhCCcEEEEcccCCccchhhhcccHHHHHhhcCCccEEEEcC
Q 044140 112 NVMTEAVERFHPTILVLGSHGYGAVKRAVLGSVSDYSAHHCSCTVMIVKM 161 (166)
Q Consensus 112 ~~I~~~a~~~~~dliV~g~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~~ 161 (166)
+.|++...+.+-+-+++|-.|.++.++-.+.......+....+|+.+++-
T Consensus 4 ~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~ 53 (193)
T PRK07667 4 NELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHI 53 (193)
T ss_pred HHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEc
Confidence 34445555555554566655544444433333333333444556666653
No 499
>PRK05826 pyruvate kinase; Provisional
Probab=27.53 E-value=1.8e+02 Score=23.73 Aligned_cols=45 Identities=9% Similarity=0.048 Sum_probs=31.7
Q ss_pred CchhHHHHHHhhhC-CcEEEEcccCCccchhhhcccHHHHHhhc-CCccEEEEcCC
Q 044140 109 DPRNVMTEAVERFH-PTILVLGSHGYGAVKRAVLGSVSDYSAHH-CSCTVMIVKMP 162 (166)
Q Consensus 109 ~~~~~I~~~a~~~~-~dliV~g~~~~~~~~~~~~gs~~~~l~~~-~~~pVlvv~~~ 162 (166)
..+...+..|.+.+ +++||+-+.+ |.++..+.+. -+|||+++-+.
T Consensus 359 ~ia~aa~~~a~~l~~a~~Ivv~T~s---------G~ta~~isk~RP~~pI~~~t~~ 405 (465)
T PRK05826 359 AIAMSAMYAANHLKGVKAIVALTES---------GRTARLISRFRPGAPIFAVTRD 405 (465)
T ss_pred HHHHHHHHHHHhcCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEcCC
Confidence 44566678888888 9888886542 5566667665 45999988653
No 500
>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=27.52 E-value=63 Score=25.16 Aligned_cols=27 Identities=4% Similarity=-0.132 Sum_probs=21.7
Q ss_pred hhHHHHHHHHHHhcCCCCCCCCceEEEEEEee
Q 044140 17 NHSYYALEWALDYFFPPFAPNHTFQLVLIHAR 48 (166)
Q Consensus 17 ~~s~~al~~a~~la~~~~~~~~~~~l~lv~v~ 48 (166)
..+++.+++|+++|+ .++. .|+++|=.
T Consensus 163 ~~~eRI~r~AF~~A~-~r~~----~Vt~v~Ka 189 (349)
T TIGR00169 163 PEIERIARVAFEMAR-KRRK----KVTSVDKA 189 (349)
T ss_pred HHHHHHHHHHHHHHH-HcCC----cEEEEECC
Confidence 568999999999999 6654 78888743
Done!