Query 037436
Match_columns 236
No_of_seqs 146 out of 1811
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 12:13:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037436.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037436hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15005 universal stress prot 99.9 2.7E-23 5.9E-28 163.0 16.1 134 67-213 1-144 (144)
2 PRK15456 universal stress prot 99.9 3E-23 6.6E-28 163.0 16.3 133 67-213 1-142 (142)
3 PRK09982 universal stress prot 99.9 4.4E-23 9.5E-28 162.6 14.6 135 66-217 1-142 (142)
4 cd01989 STK_N The N-terminal d 99.9 2.1E-22 4.5E-27 158.5 16.0 133 70-214 1-145 (146)
5 PF00582 Usp: Universal stress 99.9 2.1E-21 4.5E-26 148.6 16.3 135 67-213 1-140 (140)
6 PRK15118 universal stress glob 99.9 4.7E-21 1E-25 150.7 14.6 136 66-216 1-141 (144)
7 PRK10116 universal stress prot 99.9 2.3E-20 5.1E-25 146.1 15.9 137 66-216 1-141 (142)
8 cd01988 Na_H_Antiporter_C The 99.8 9.8E-20 2.1E-24 140.0 16.0 131 70-213 1-132 (132)
9 PRK11175 universal stress prot 99.8 5.9E-20 1.3E-24 161.2 16.6 149 66-226 1-159 (305)
10 PRK11175 universal stress prot 99.8 8.4E-20 1.8E-24 160.3 13.9 172 1-216 113-302 (305)
11 cd01987 USP_OKCHK USP domain i 99.8 2E-19 4.3E-24 137.7 12.8 122 70-213 1-124 (124)
12 cd00293 USP_Like Usp: Universa 99.8 1.2E-17 2.7E-22 126.4 15.9 130 70-212 1-130 (130)
13 COG0589 UspA Universal stress 99.7 4.5E-16 9.7E-21 121.8 16.5 139 66-215 3-153 (154)
14 PRK12652 putative monovalent c 99.5 2.2E-13 4.9E-18 122.4 16.3 148 65-226 2-163 (357)
15 PRK10490 sensor protein KdpD; 99.1 8.7E-10 1.9E-14 110.3 15.4 130 64-216 246-376 (895)
16 COG2205 KdpD Osmosensitive K+ 99.1 2.4E-09 5.3E-14 103.2 14.6 149 65-234 245-396 (890)
17 cd01984 AANH_like Adenine nucl 98.3 3.5E-06 7.7E-11 60.2 7.4 84 71-211 1-85 (86)
18 PLN03159 cation/H(+) antiporte 96.8 0.021 4.5E-07 57.3 13.1 147 67-217 457-618 (832)
19 PLN03159 cation/H(+) antiporte 96.8 0.023 5E-07 57.0 13.3 146 67-216 629-796 (832)
20 TIGR02432 lysidine_TilS_N tRNA 96.6 0.028 6E-07 45.8 10.2 100 70-183 1-116 (189)
21 PF01171 ATP_bind_3: PP-loop f 96.4 0.017 3.8E-07 47.0 7.9 103 70-186 1-116 (182)
22 cd01992 PP-ATPase N-terminal d 95.2 0.21 4.5E-06 40.3 9.5 100 70-183 1-113 (185)
23 cd01993 Alpha_ANH_like_II This 93.5 0.52 1.1E-05 37.8 8.3 100 70-183 1-123 (185)
24 COG0037 MesJ tRNA(Ile)-lysidin 93.5 0.65 1.4E-05 40.5 9.4 104 68-184 21-138 (298)
25 COG0041 PurE Phosphoribosylcar 93.3 0.79 1.7E-05 36.5 8.5 64 141-221 29-95 (162)
26 TIGR00591 phr2 photolyase PhrI 93.3 3.1 6.6E-05 38.9 14.0 98 69-175 23-122 (454)
27 PRK12342 hypothetical protein; 93.1 0.92 2E-05 39.3 9.5 87 75-177 31-120 (254)
28 PRK03359 putative electron tra 92.9 0.86 1.9E-05 39.5 9.1 87 76-177 33-123 (256)
29 COG2086 FixA Electron transfer 91.7 3 6.5E-05 36.2 10.9 111 75-215 33-147 (260)
30 PF00875 DNA_photolyase: DNA p 90.8 0.58 1.3E-05 37.2 5.4 115 80-215 12-126 (165)
31 PRK10696 tRNA 2-thiocytidine b 90.6 5.2 0.00011 34.4 11.5 100 66-182 27-147 (258)
32 PRK10660 tilS tRNA(Ile)-lysidi 90.5 1.6 3.6E-05 40.6 8.8 104 67-186 14-130 (436)
33 PF00731 AIRC: AIR carboxylase 89.1 5 0.00011 31.9 9.3 73 129-220 17-92 (150)
34 TIGR01162 purE phosphoribosyla 88.9 4.9 0.00011 32.2 9.1 74 128-220 14-90 (156)
35 PF01012 ETF: Electron transfe 87.4 4.6 0.0001 31.9 8.3 88 70-176 1-100 (164)
36 KOG1650 Predicted K+/H+-antipo 87.4 2.7 5.9E-05 42.1 8.3 143 67-215 613-765 (769)
37 TIGR03556 photolyase_8HDF deox 87.3 2.7 5.9E-05 39.5 7.9 91 76-176 10-100 (471)
38 TIGR00268 conserved hypothetic 87.1 4.2 9.2E-05 34.8 8.4 90 67-176 11-117 (252)
39 TIGR02765 crypto_DASH cryptoch 84.7 4.5 9.8E-05 37.4 7.9 91 76-176 10-106 (429)
40 PRK13820 argininosuccinate syn 84.6 10 0.00022 35.0 10.0 37 67-106 1-38 (394)
41 PLN02948 phosphoribosylaminoim 83.5 29 0.00063 33.6 13.1 135 54-220 361-502 (577)
42 PF03808 Glyco_tran_WecB: Glyc 83.2 22 0.00048 28.5 10.6 94 84-212 36-132 (172)
43 PF13167 GTP-bdg_N: GTP-bindin 82.8 12 0.00027 27.3 7.9 50 124-175 6-66 (95)
44 TIGR02852 spore_dpaB dipicolin 81.3 14 0.00031 30.4 8.7 35 69-103 1-35 (187)
45 cd06533 Glyco_transf_WecG_TagA 80.7 28 0.0006 28.0 10.3 70 128-212 59-130 (171)
46 PF02601 Exonuc_VII_L: Exonucl 80.6 11 0.00023 33.5 8.4 72 130-211 30-112 (319)
47 PRK05253 sulfate adenylyltrans 79.4 9.5 0.00021 33.8 7.6 95 67-177 26-138 (301)
48 cd01985 ETF The electron trans 79.4 29 0.00063 27.8 10.0 79 77-178 17-103 (181)
49 cd01990 Alpha_ANH_like_I This 78.6 12 0.00026 30.5 7.7 88 71-177 1-106 (202)
50 cd01986 Alpha_ANH_like Adenine 78.5 22 0.00049 25.6 8.3 76 71-181 1-76 (103)
51 PRK07313 phosphopantothenoylcy 77.3 12 0.00026 30.6 7.2 35 68-103 1-35 (182)
52 COG1927 Mtd Coenzyme F420-depe 76.8 12 0.00026 31.6 6.8 57 156-225 50-115 (277)
53 PLN00200 argininosuccinate syn 76.6 57 0.0012 30.3 12.0 38 66-106 3-40 (404)
54 PRK00286 xseA exodeoxyribonucl 76.6 16 0.00035 33.9 8.6 76 127-212 148-230 (438)
55 cd01712 ThiI ThiI is required 76.0 36 0.00077 27.1 9.6 33 70-106 1-33 (177)
56 TIGR00696 wecB_tagA_cpsF bacte 74.1 46 0.001 27.0 9.7 47 127-175 60-109 (177)
57 TIGR02113 coaC_strep phosphopa 73.3 18 0.00038 29.5 7.1 33 69-102 1-33 (177)
58 COG1570 XseA Exonuclease VII, 72.9 23 0.00049 33.1 8.4 75 127-211 148-230 (440)
59 PRK10674 deoxyribodipyrimidine 72.4 31 0.00067 32.5 9.5 92 76-176 11-106 (472)
60 cd01713 PAPS_reductase This do 71.1 28 0.00062 26.7 7.8 36 70-106 1-36 (173)
61 PF00448 SRP54: SRP54-type pro 70.9 30 0.00065 28.5 8.1 92 71-182 5-99 (196)
62 PRK14665 mnmA tRNA-specific 2- 70.1 77 0.0017 28.9 11.2 93 67-177 4-124 (360)
63 TIGR00237 xseA exodeoxyribonuc 69.0 31 0.00068 32.1 8.6 76 127-212 142-225 (432)
64 cd01995 ExsB ExsB is a transcr 68.9 47 0.001 26.1 8.6 85 70-177 1-87 (169)
65 PF07355 GRDB: Glycine/sarcosi 67.7 27 0.00059 31.6 7.5 77 141-226 47-137 (349)
66 cd05565 PTS_IIB_lactose PTS_II 67.0 28 0.0006 25.6 6.3 66 127-215 16-81 (99)
67 TIGR00032 argG argininosuccina 66.9 47 0.001 30.7 9.2 33 70-106 1-33 (394)
68 PF12683 DUF3798: Protein of u 66.9 20 0.00042 31.4 6.2 93 70-177 4-97 (275)
69 TIGR00342 thiazole biosynthesi 66.2 1E+02 0.0023 28.0 11.8 37 66-106 170-206 (371)
70 PF02844 GARS_N: Phosphoribosy 66.0 6.3 0.00014 29.1 2.7 70 70-175 2-71 (100)
71 PRK09590 celB cellobiose phosp 66.0 19 0.00042 26.7 5.4 68 127-215 17-84 (104)
72 COG0415 PhrB Deoxyribodipyrimi 64.0 91 0.002 29.5 10.5 90 76-176 11-100 (461)
73 TIGR00930 2a30 K-Cl cotranspor 63.9 1.4E+02 0.0031 30.9 12.8 97 69-176 576-677 (953)
74 PRK13982 bifunctional SbtC-lik 63.8 63 0.0014 30.7 9.5 121 66-216 68-190 (475)
75 PRK00994 F420-dependent methyl 63.1 35 0.00075 29.4 6.9 56 157-225 51-115 (277)
76 PRK00919 GMP synthase subunit 63.0 61 0.0013 28.9 8.8 35 69-106 22-56 (307)
77 PRK12563 sulfate adenylyltrans 62.0 78 0.0017 28.3 9.3 95 67-177 36-148 (312)
78 TIGR00421 ubiX_pad polyprenyl 61.8 65 0.0014 26.2 8.3 33 70-103 1-33 (181)
79 TIGR00853 pts-lac PTS system, 61.7 35 0.00075 24.7 6.0 66 127-215 19-84 (95)
80 PRK10867 signal recognition pa 61.4 1.1E+02 0.0024 28.6 10.6 92 73-182 106-199 (433)
81 cd03557 L-arabinose_isomerase 61.2 1.4E+02 0.003 28.4 11.4 84 112-216 13-101 (484)
82 PRK05579 bifunctional phosphop 61.0 1.1E+02 0.0023 28.4 10.4 116 67-213 5-123 (399)
83 PF02568 ThiI: Thiamine biosyn 59.4 85 0.0018 26.1 8.6 94 68-175 3-117 (197)
84 TIGR02766 crypt_chrom_pln cryp 58.8 52 0.0011 30.9 8.2 89 76-175 7-96 (475)
85 PF03746 LamB_YcsF: LamB/YcsF 58.6 1.2E+02 0.0026 26.1 11.2 139 66-226 25-178 (242)
86 TIGR00521 coaBC_dfp phosphopan 57.6 1.5E+02 0.0032 27.3 10.7 117 67-214 2-120 (390)
87 PRK02929 L-arabinose isomerase 57.5 1.7E+02 0.0037 28.0 11.3 83 113-216 20-107 (499)
88 PRK14664 tRNA-specific 2-thiou 57.4 1.5E+02 0.0033 27.0 10.6 88 67-177 4-119 (362)
89 PRK05370 argininosuccinate syn 57.3 1.6E+02 0.0035 27.7 10.8 107 65-179 8-135 (447)
90 PRK08349 hypothetical protein; 57.1 82 0.0018 25.7 8.2 34 69-106 1-34 (198)
91 COG2069 CdhD CO dehydrogenase/ 56.9 1.3E+02 0.0029 26.9 9.6 87 82-172 150-257 (403)
92 TIGR02039 CysD sulfate adenyly 56.8 95 0.0021 27.5 8.9 94 68-177 19-130 (294)
93 PRK00143 mnmA tRNA-specific 2- 56.7 80 0.0017 28.4 8.7 34 69-106 1-34 (346)
94 PRK00109 Holliday junction res 56.6 26 0.00056 27.3 4.8 55 155-215 43-98 (138)
95 PRK12569 hypothetical protein; 56.0 1.3E+02 0.0029 25.9 9.7 132 73-226 37-183 (245)
96 PRK00509 argininosuccinate syn 55.2 1.8E+02 0.0038 27.0 11.7 37 67-106 1-37 (399)
97 TIGR00884 guaA_Cterm GMP synth 54.5 96 0.0021 27.6 8.7 35 69-106 17-51 (311)
98 COG1184 GCD2 Translation initi 54.0 1.6E+02 0.0035 26.2 11.3 121 79-226 100-241 (301)
99 PRK04527 argininosuccinate syn 53.5 1.6E+02 0.0036 27.2 10.2 36 67-106 1-36 (400)
100 cd01997 GMP_synthase_C The C-t 53.2 84 0.0018 27.7 8.1 34 70-106 1-34 (295)
101 cd01996 Alpha_ANH_like_III Thi 51.3 1.1E+02 0.0024 23.5 7.9 34 70-106 3-36 (154)
102 PF04459 DUF512: Protein of un 50.8 1.3E+02 0.0028 25.1 8.4 80 126-215 110-202 (204)
103 PRK05406 LamB/YcsF family prot 50.6 1.2E+02 0.0025 26.3 8.2 131 73-225 34-179 (246)
104 PRK08745 ribulose-phosphate 3- 50.0 99 0.0021 26.1 7.7 50 122-175 152-201 (223)
105 cd05564 PTS_IIB_chitobiose_lic 49.7 70 0.0015 23.0 5.9 65 128-215 16-80 (96)
106 PRK15411 rcsA colanic acid cap 49.7 1.4E+02 0.003 24.5 8.5 49 151-215 33-86 (207)
107 cd01998 tRNA_Me_trans tRNA met 49.2 1.1E+02 0.0023 27.6 8.3 33 70-106 1-33 (349)
108 cd08550 GlyDH-like Glycerol_de 49.1 2E+02 0.0042 25.7 10.4 69 128-215 38-110 (349)
109 cd06375 PBP1_mGluR_groupII Lig 48.7 1.5E+02 0.0033 27.5 9.5 22 155-176 245-266 (458)
110 TIGR01917 gly_red_sel_B glycin 48.4 65 0.0014 30.0 6.7 77 141-226 43-133 (431)
111 TIGR01918 various_sel_PB selen 48.3 66 0.0014 30.0 6.7 77 141-226 43-133 (431)
112 cd01714 ETF_beta The electron 48.2 1.6E+02 0.0034 24.3 10.5 84 73-177 29-119 (202)
113 KOG2310 DNA repair exonuclease 47.8 25 0.00055 33.8 4.0 57 155-217 41-100 (646)
114 COG1606 ATP-utilizing enzymes 46.6 2E+02 0.0043 25.1 10.9 88 69-175 18-122 (269)
115 PRK09722 allulose-6-phosphate 46.4 1.6E+02 0.0034 25.0 8.4 52 120-175 148-199 (229)
116 PRK08091 ribulose-phosphate 3- 46.4 1.2E+02 0.0026 25.8 7.6 49 123-175 161-209 (228)
117 PF00532 Peripla_BP_1: Peripla 45.9 1.9E+02 0.0041 24.8 9.1 75 124-217 16-90 (279)
118 cd01994 Alpha_ANH_like_IV This 45.7 1.3E+02 0.0028 24.6 7.7 33 70-106 1-33 (194)
119 PRK14057 epimerase; Provisiona 45.6 1.4E+02 0.0031 25.8 8.1 52 120-175 172-223 (254)
120 TIGR00250 RNAse_H_YqgF RNAse H 45.5 53 0.0012 25.2 5.0 55 155-215 37-92 (130)
121 COG0151 PurD Phosphoribosylami 45.2 1.3E+02 0.0028 28.1 8.1 21 155-175 52-72 (428)
122 PRK08384 thiamine biosynthesis 45.0 2.5E+02 0.0054 25.8 10.8 37 66-106 178-214 (381)
123 KOG3886 GTP-binding protein [S 44.2 56 0.0012 28.3 5.2 24 1-24 10-36 (295)
124 PF03652 UPF0081: Uncharacteri 44.2 40 0.00088 26.1 4.1 56 155-216 40-97 (135)
125 PRK09213 pur operon repressor; 43.6 1.9E+02 0.0041 25.3 8.6 49 156-221 120-168 (271)
126 cd06361 PBP1_GPC6A_like Ligand 43.3 2.6E+02 0.0056 25.5 11.3 98 67-176 171-268 (403)
127 PRK12858 tagatose 1,6-diphosph 43.2 2.5E+02 0.0055 25.3 11.4 133 71-215 86-250 (340)
128 PRK03692 putative UDP-N-acetyl 43.0 2.1E+02 0.0046 24.4 10.1 68 127-211 117-187 (243)
129 PF03054 tRNA_Me_trans: tRNA m 42.9 2.6E+02 0.0057 25.4 10.2 98 69-177 1-127 (356)
130 cd01125 repA Hexameric Replica 42.7 2E+02 0.0043 24.0 10.6 59 155-219 100-162 (239)
131 COG0299 PurN Folate-dependent 42.3 2E+02 0.0044 24.0 9.6 126 69-217 1-144 (200)
132 TIGR00959 ffh signal recogniti 41.3 3E+02 0.0066 25.7 10.4 93 72-182 104-198 (428)
133 PRK08576 hypothetical protein; 40.8 1.1E+02 0.0023 28.8 7.0 33 70-106 236-268 (438)
134 cd03364 TOPRIM_DnaG_primases T 40.6 88 0.0019 21.3 5.1 35 68-102 43-77 (79)
135 TIGR02699 archaeo_AfpA archaeo 40.3 2E+02 0.0043 23.3 8.8 33 70-102 1-34 (174)
136 PRK08194 tartrate dehydrogenas 40.2 1.2E+02 0.0026 27.6 7.1 28 78-105 160-187 (352)
137 TIGR00169 leuB 3-isopropylmala 40.1 1.2E+02 0.0027 27.5 7.1 77 78-173 162-239 (349)
138 COG1197 Mfd Transcription-repa 39.9 1.5E+02 0.0032 31.3 8.3 90 67-176 615-706 (1139)
139 PF02571 CbiJ: Precorrin-6x re 39.3 1.8E+02 0.0038 25.0 7.7 48 157-219 185-232 (249)
140 cd00578 L-fuc_L-ara-isomerases 39.2 1.7E+02 0.0036 27.2 8.2 47 155-216 52-98 (452)
141 COG1066 Sms Predicted ATP-depe 38.9 3.4E+02 0.0073 25.6 10.6 121 65-217 90-221 (456)
142 COG1440 CelA Phosphotransferas 38.9 93 0.002 23.1 5.0 62 130-214 20-81 (102)
143 cd01715 ETF_alpha The electron 38.7 1.9E+02 0.0042 22.7 7.6 24 155-178 72-95 (168)
144 TIGR02089 TTC tartrate dehydro 38.7 1.1E+02 0.0024 27.8 6.6 28 78-105 163-190 (352)
145 COG2102 Predicted ATPases of P 38.6 2.5E+02 0.0054 23.9 8.4 89 70-175 2-95 (223)
146 PRK11070 ssDNA exonuclease Rec 38.4 98 0.0021 30.1 6.6 93 67-176 68-161 (575)
147 COG2201 CheB Chemotaxis respon 38.1 1.1E+02 0.0023 27.9 6.3 50 155-217 36-85 (350)
148 COG0036 Rpe Pentose-5-phosphat 37.9 1.8E+02 0.004 24.6 7.3 48 123-175 152-199 (220)
149 PRK06029 3-octaprenyl-4-hydrox 37.8 68 0.0015 26.3 4.7 35 68-102 1-35 (185)
150 COG0615 TagD Cytidylyltransfer 37.4 1.6E+02 0.0035 23.1 6.5 34 142-177 63-97 (140)
151 COG0541 Ffh Signal recognition 37.2 3.6E+02 0.0079 25.4 9.9 94 70-183 103-199 (451)
152 PF02887 PK_C: Pyruvate kinase 37.1 1E+02 0.0022 22.8 5.3 44 155-216 5-49 (117)
153 PRK11914 diacylglycerol kinase 37.1 2E+02 0.0043 25.1 7.9 33 141-173 39-71 (306)
154 TIGR01743 purR_Bsub pur operon 36.7 2.8E+02 0.006 24.2 8.5 45 157-218 119-163 (268)
155 cd02067 B12-binding B12 bindin 36.4 1.7E+02 0.0037 21.4 7.4 35 141-177 27-61 (119)
156 PF01261 AP_endonuc_2: Xylose 35.9 2.2E+02 0.0047 22.4 7.8 82 81-168 69-157 (213)
157 PRK15424 propionate catabolism 35.5 1.5E+02 0.0032 28.7 7.2 65 129-216 27-93 (538)
158 TIGR00646 MG010 DNA primase-re 35.3 2.1E+02 0.0044 24.3 7.3 37 68-104 154-190 (218)
159 COG1504 Uncharacterized conser 34.6 92 0.002 23.6 4.5 40 164-215 59-98 (121)
160 cd02070 corrinoid_protein_B12- 34.5 1.8E+02 0.004 23.7 6.9 38 141-180 110-147 (201)
161 TIGR01826 CofD_related conserv 34.3 1.1E+02 0.0025 27.2 5.9 50 155-216 163-214 (310)
162 PF01993 MTD: methylene-5,6,7, 34.2 1E+02 0.0022 26.6 5.3 56 157-225 50-114 (276)
163 PRK00766 hypothetical protein; 34.2 1.2E+02 0.0026 25.2 5.6 59 141-212 42-104 (194)
164 PRK08997 isocitrate dehydrogen 34.1 2E+02 0.0043 26.0 7.4 28 78-105 146-174 (334)
165 COG0452 Dfp Phosphopantothenoy 34.0 2.5E+02 0.0055 25.8 8.3 116 68-216 4-123 (392)
166 PLN00118 isocitrate dehydrogen 33.4 1.7E+02 0.0036 26.9 6.9 79 77-173 182-262 (372)
167 TIGR01425 SRP54_euk signal rec 33.2 4.1E+02 0.0089 24.9 10.4 92 73-183 106-199 (429)
168 PRK00772 3-isopropylmalate deh 33.1 1.7E+02 0.0037 26.7 6.9 77 78-173 165-242 (358)
169 KOG0781 Signal recognition par 32.9 3.3E+02 0.0072 26.2 8.8 102 65-183 376-483 (587)
170 cd07044 CofD_YvcK Family of Co 32.6 1.2E+02 0.0026 27.1 5.7 50 155-216 165-216 (309)
171 TIGR02329 propionate_PrpR prop 32.6 1.9E+02 0.0042 27.7 7.6 50 145-216 31-83 (526)
172 COG3867 Arabinogalactan endo-1 32.5 3.8E+02 0.0082 24.2 9.1 99 124-229 198-315 (403)
173 PRK12857 fructose-1,6-bisphosp 32.5 1.5E+02 0.0032 26.1 6.3 57 151-215 27-83 (284)
174 PF14639 YqgF: Holliday-juncti 32.4 73 0.0016 25.2 4.0 20 156-175 53-72 (150)
175 COG1597 LCB5 Sphingosine kinas 32.4 1.5E+02 0.0033 26.0 6.4 50 123-175 17-67 (301)
176 PRK00074 guaA GMP synthase; Re 32.4 2.5E+02 0.0054 26.8 8.2 37 67-106 214-250 (511)
177 TIGR02088 LEU3_arch isopropylm 32.2 2.1E+02 0.0046 25.7 7.3 28 77-104 139-166 (322)
178 PRK13054 lipid kinase; Reviewe 32.2 3.4E+02 0.0073 23.6 8.7 33 141-173 31-63 (300)
179 PRK13606 LPPG:FO 2-phospho-L-l 31.9 1.8E+02 0.0039 25.9 6.7 46 155-214 176-223 (303)
180 PRK08185 hypothetical protein; 31.9 1.3E+02 0.0028 26.5 5.7 51 155-214 26-76 (283)
181 PRK10653 D-ribose transporter 31.4 2.9E+02 0.0063 23.3 8.0 74 125-215 42-116 (295)
182 TIGR03156 GTP_HflX GTP-binding 31.4 2.7E+02 0.0057 25.1 7.9 48 126-175 17-75 (351)
183 PF13662 Toprim_4: Toprim doma 31.4 83 0.0018 21.5 3.7 33 68-100 46-78 (81)
184 cd07187 YvcK_like family of mo 31.2 1.4E+02 0.0029 26.7 5.9 51 155-217 166-218 (308)
185 TIGR02634 xylF D-xylose ABC tr 31.0 3.4E+02 0.0074 23.2 8.4 74 125-215 14-88 (302)
186 PRK12737 gatY tagatose-bisphos 30.9 1.7E+02 0.0036 25.8 6.3 55 153-215 29-83 (284)
187 cd06301 PBP1_rhizopine_binding 30.9 3E+02 0.0066 22.6 8.1 74 126-215 16-90 (272)
188 PRK05452 anaerobic nitric oxid 30.8 4.6E+02 0.01 24.7 9.9 91 70-177 221-315 (479)
189 COG0482 TrmU Predicted tRNA(5- 30.8 2.3E+02 0.0051 25.8 7.3 36 67-106 2-37 (356)
190 PRK14025 multifunctional 3-iso 30.6 2.5E+02 0.0054 25.3 7.5 28 78-105 139-171 (330)
191 cd07186 CofD_like LPPG:FO 2-ph 30.4 2.2E+02 0.0047 25.4 7.0 48 155-214 174-223 (303)
192 COG1540 Uncharacterized protei 30.4 2.7E+02 0.0059 24.0 7.2 101 74-177 35-148 (252)
193 PRK06806 fructose-bisphosphate 30.4 2E+02 0.0044 25.2 6.7 56 151-215 27-83 (281)
194 PF05679 CHGN: Chondroitin N-a 30.3 4.8E+02 0.01 24.8 10.5 101 67-177 247-351 (499)
195 PF01220 DHquinase_II: Dehydro 30.0 1.8E+02 0.0039 22.9 5.7 60 141-215 40-101 (140)
196 TIGR01088 aroQ 3-dehydroquinat 30.0 2.6E+02 0.0057 22.0 6.6 58 142-214 40-99 (141)
197 PF02441 Flavoprotein: Flavopr 29.8 94 0.002 23.4 4.1 114 69-215 1-119 (129)
198 cd00408 DHDPS-like Dihydrodipi 29.7 3.3E+02 0.0072 23.2 8.1 83 123-217 51-134 (281)
199 PRK01269 tRNA s(4)U8 sulfurtra 29.6 4.9E+02 0.011 24.6 10.6 37 66-106 175-211 (482)
200 PRK10852 thiosulfate transport 29.5 3E+02 0.0065 24.7 7.9 81 84-176 10-91 (338)
201 PHA02031 putative DnaG-like pr 29.4 1.5E+02 0.0033 25.9 5.6 37 68-104 206-242 (266)
202 COG0381 WecB UDP-N-acetylgluco 29.4 2E+02 0.0044 26.5 6.7 105 67-176 2-128 (383)
203 TIGR00175 mito_nad_idh isocitr 29.3 2.1E+02 0.0045 25.8 6.8 29 78-106 144-173 (333)
204 PRK13015 3-dehydroquinate dehy 29.3 2.5E+02 0.0055 22.2 6.4 57 143-214 43-101 (146)
205 COG1922 WecG Teichoic acid bio 29.1 3.8E+02 0.0083 23.2 11.0 49 127-175 120-170 (253)
206 TIGR00420 trmU tRNA (5-methyla 28.9 4.4E+02 0.0095 23.8 10.2 33 69-105 1-33 (352)
207 COG1609 PurR Transcriptional r 28.8 4.1E+02 0.0089 23.5 9.2 76 123-217 72-148 (333)
208 PRK09219 xanthine phosphoribos 28.7 1.7E+02 0.0036 24.0 5.6 22 198-219 65-86 (189)
209 TIGR01769 GGGP geranylgeranylg 28.6 2.4E+02 0.0052 23.5 6.6 60 156-226 14-77 (205)
210 PRK13337 putative lipid kinase 28.5 3.9E+02 0.0085 23.2 9.8 42 130-173 23-64 (304)
211 cd06362 PBP1_mGluR Ligand bind 28.3 4.6E+02 0.01 23.9 9.5 30 67-96 171-200 (452)
212 PRK06801 hypothetical protein; 28.2 2.1E+02 0.0047 25.1 6.5 54 154-215 30-83 (286)
213 PRK11058 GTPase HflX; Provisio 28.2 3.6E+02 0.0078 25.1 8.4 48 126-175 25-83 (426)
214 COG0816 Predicted endonuclease 28.2 1.4E+02 0.003 23.4 4.8 55 155-215 42-97 (141)
215 KOG0785 Isocitrate dehydrogena 28.1 93 0.002 27.9 4.2 28 79-106 178-206 (365)
216 cd03416 CbiX_SirB_N Sirohydroc 28.0 2.2E+02 0.0048 20.1 7.4 48 126-173 16-64 (101)
217 TIGR01858 tag_bisphos_ald clas 27.8 2E+02 0.0044 25.2 6.3 55 153-216 27-82 (282)
218 PRK12738 kbaY tagatose-bisphos 27.4 2.2E+02 0.0048 25.1 6.5 54 153-215 29-83 (286)
219 COG0420 SbcD DNA repair exonuc 27.4 1E+02 0.0022 27.9 4.6 47 101-152 3-49 (390)
220 COG1810 Uncharacterized protei 27.3 3.9E+02 0.0084 22.7 8.5 96 69-183 2-97 (224)
221 PRK05395 3-dehydroquinate dehy 27.3 3.1E+02 0.0068 21.7 6.6 57 143-214 43-101 (146)
222 PRK09222 isocitrate dehydrogen 27.2 1.9E+02 0.004 27.6 6.3 28 78-105 148-176 (482)
223 PRK14561 hypothetical protein; 26.8 3.5E+02 0.0076 22.0 9.1 32 70-106 2-33 (194)
224 PRK05920 aromatic acid decarbo 26.8 1.4E+02 0.0031 24.8 5.0 36 67-103 2-37 (204)
225 KOG1467 Translation initiation 26.6 4.4E+02 0.0095 25.3 8.4 114 67-217 358-472 (556)
226 cd02801 DUS_like_FMN Dihydrour 26.5 3.6E+02 0.0078 22.0 8.0 130 69-213 55-190 (231)
227 COG1646 Predicted phosphate-bi 26.5 4.2E+02 0.009 22.8 9.0 61 155-226 30-94 (240)
228 PLN00123 isocitrate dehydrogen 26.3 2.4E+02 0.0051 25.8 6.6 78 78-173 167-246 (360)
229 PRK08057 cobalt-precorrin-6x r 26.3 3.3E+02 0.0072 23.3 7.3 44 159-217 183-226 (248)
230 PRK08883 ribulose-phosphate 3- 26.3 3.8E+02 0.0083 22.4 7.5 47 125-175 151-197 (220)
231 COG0655 WrbA Multimeric flavod 26.3 3.6E+02 0.0078 22.0 9.3 74 78-177 13-86 (207)
232 cd06374 PBP1_mGluR_groupI Liga 26.2 5.3E+02 0.011 23.9 9.8 95 67-176 185-281 (472)
233 cd06320 PBP1_allose_binding Pe 26.2 3.7E+02 0.0081 22.1 9.1 74 125-215 15-91 (275)
234 PF13727 CoA_binding_3: CoA-bi 26.1 1.4E+02 0.0029 23.0 4.6 46 155-213 130-175 (175)
235 TIGR00364 exsB protein. This p 26.1 3.5E+02 0.0076 21.8 8.2 32 71-106 1-32 (201)
236 COG1058 CinA Predicted nucleot 26.1 4.4E+02 0.0094 22.9 8.0 33 141-174 34-68 (255)
237 KOG2749 mRNA cleavage and poly 26.1 5.3E+02 0.011 23.9 10.0 54 121-175 190-248 (415)
238 PF06925 MGDG_synth: Monogalac 25.9 1.4E+02 0.003 23.5 4.6 94 80-175 3-98 (169)
239 cd01029 TOPRIM_primases TOPRIM 25.7 2.1E+02 0.0045 19.1 5.0 32 68-99 43-74 (79)
240 cd00951 KDGDH 5-dehydro-4-deox 25.4 3.6E+02 0.0077 23.4 7.5 76 125-214 56-133 (289)
241 cd00958 DhnA Class I fructose- 25.3 3.9E+02 0.0085 22.1 9.0 101 84-213 77-186 (235)
242 PRK06027 purU formyltetrahydro 25.2 4.6E+02 0.01 22.9 9.7 96 67-187 88-186 (286)
243 TIGR00290 MJ0570_dom MJ0570-re 25.1 3.5E+02 0.0077 22.8 7.1 91 70-175 2-94 (223)
244 cd01540 PBP1_arabinose_binding 25.0 3.7E+02 0.0079 22.4 7.4 72 126-214 16-87 (289)
245 cd00466 DHQase_II Dehydroquina 24.9 3.4E+02 0.0073 21.3 6.4 57 143-214 41-99 (140)
246 PF02878 PGM_PMM_I: Phosphoglu 24.8 1E+02 0.0022 23.4 3.6 40 67-106 39-78 (137)
247 PRK03170 dihydrodipicolinate s 24.7 3.6E+02 0.0079 23.2 7.4 79 124-216 56-137 (292)
248 PF12877 DUF3827: Domain of un 24.7 2.9E+02 0.0063 27.3 7.1 98 118-234 32-138 (684)
249 COG0391 Uncharacterized conser 24.5 2E+02 0.0044 25.8 5.8 51 155-217 180-232 (323)
250 TIGR00715 precor6x_red precorr 24.5 4.6E+02 0.0099 22.6 8.0 43 159-217 190-234 (256)
251 PRK01565 thiamine biosynthesis 24.3 5.5E+02 0.012 23.5 11.6 37 66-106 174-210 (394)
252 cd08171 GlyDH-like2 Glycerol d 24.3 5.1E+02 0.011 23.0 9.7 44 128-173 38-86 (345)
253 PF00180 Iso_dh: Isocitrate/is 24.2 1.5E+02 0.0032 26.8 5.0 78 78-173 159-238 (348)
254 PF01933 UPF0052: Uncharacteri 23.9 1.8E+02 0.0038 25.8 5.3 50 155-216 174-225 (300)
255 PF00072 Response_reg: Respons 23.9 2.5E+02 0.0055 19.4 10.1 49 155-216 32-81 (112)
256 cd06295 PBP1_CelR Ligand bindi 23.9 4.1E+02 0.009 21.8 8.7 45 126-173 27-71 (275)
257 COG2262 HflX GTPases [General 23.8 5.1E+02 0.011 24.2 8.2 25 151-175 54-78 (411)
258 PF01207 Dus: Dihydrouridine s 23.7 2.4E+02 0.0052 24.9 6.1 129 69-212 54-189 (309)
259 cd00950 DHDPS Dihydrodipicolin 23.7 2.9E+02 0.0063 23.7 6.6 52 155-216 84-136 (284)
260 cd06322 PBP1_ABC_sugar_binding 23.3 4.2E+02 0.009 21.7 8.2 74 125-215 15-89 (267)
261 PRK06395 phosphoribosylamine-- 23.1 4.1E+02 0.0089 24.7 7.8 23 67-91 1-23 (435)
262 cd08173 Gro1PDH Sn-glycerol-1- 23.1 3.1E+02 0.0067 24.3 6.8 44 155-215 67-111 (339)
263 PRK07998 gatY putative fructos 23.1 2.5E+02 0.0054 24.7 6.0 56 151-215 27-83 (283)
264 cd01537 PBP1_Repressors_Sugar_ 23.1 3.9E+02 0.0086 21.3 8.3 73 126-216 16-89 (264)
265 PF13362 Toprim_3: Toprim doma 23.0 2.2E+02 0.0047 20.0 4.8 39 66-104 39-79 (96)
266 PLN02329 3-isopropylmalate deh 22.9 1.5E+02 0.0033 27.5 4.8 27 78-104 210-236 (409)
267 cd01539 PBP1_GGBP Periplasmic 22.9 4.6E+02 0.01 22.3 7.7 74 126-214 16-90 (303)
268 PRK09197 fructose-bisphosphate 22.9 3E+02 0.0065 25.1 6.5 63 151-217 30-103 (350)
269 cd06309 PBP1_YtfQ_like Peripla 22.8 4.4E+02 0.0095 21.7 8.3 74 125-215 15-89 (273)
270 cd00947 TBP_aldolase_IIB Tagat 22.7 2.5E+02 0.0054 24.6 5.9 56 154-217 25-80 (276)
271 KOG1552 Predicted alpha/beta h 22.7 4.9E+02 0.011 22.6 7.5 68 143-215 128-201 (258)
272 PRK00861 putative lipid kinase 22.6 5E+02 0.011 22.4 8.5 32 142-173 33-64 (300)
273 PRK03437 3-isopropylmalate deh 22.5 2.1E+02 0.0045 26.0 5.5 29 78-106 159-188 (344)
274 COG0473 LeuB Isocitrate/isopro 22.2 2.4E+02 0.0052 25.7 5.7 29 78-106 155-184 (348)
275 COG0178 UvrA Excinuclease ATPa 22.2 4.9E+02 0.011 26.8 8.3 68 88-175 489-558 (935)
276 cd02071 MM_CoA_mut_B12_BD meth 22.1 3.1E+02 0.0067 20.3 5.7 23 155-177 39-61 (122)
277 PRK11106 queuosine biosynthesi 22.0 4.1E+02 0.0089 22.5 6.9 34 69-106 2-35 (231)
278 TIGR02924 ICDH_alpha isocitrat 21.7 2.3E+02 0.005 26.9 5.7 29 77-105 143-172 (473)
279 cd02064 FAD_synthetase_N FAD s 21.6 3.3E+02 0.0073 21.7 6.2 63 156-231 88-153 (180)
280 PRK09195 gatY tagatose-bisphos 21.6 3E+02 0.0064 24.2 6.2 52 155-214 31-82 (284)
281 cd00946 FBP_aldolase_IIA Class 21.6 3.3E+02 0.0071 24.8 6.5 64 153-216 27-97 (345)
282 TIGR00640 acid_CoA_mut_C methy 21.6 3.3E+02 0.0072 20.8 5.8 23 155-177 42-64 (132)
283 PRK11921 metallo-beta-lactamas 21.3 6.2E+02 0.013 22.9 10.2 34 141-177 278-311 (394)
284 cd06315 PBP1_ABC_sugar_binding 21.3 4.6E+02 0.01 21.9 7.3 72 126-214 17-89 (280)
285 COG0603 Predicted PP-loop supe 21.2 4.3E+02 0.0093 22.4 6.8 36 67-106 1-36 (222)
286 TIGR03249 KdgD 5-dehydro-4-deo 21.1 5E+02 0.011 22.5 7.6 121 72-213 14-137 (296)
287 COG3640 CooC CO dehydrogenase 21.1 2.6E+02 0.0056 24.2 5.4 46 51-99 142-188 (255)
288 PRK13856 two-component respons 21.1 3.9E+02 0.0084 21.7 6.7 22 155-176 34-55 (241)
289 COG0426 FpaA Uncharacterized f 21.1 6.7E+02 0.014 23.2 9.4 35 140-177 274-308 (388)
290 PRK03620 5-dehydro-4-deoxygluc 21.0 5.6E+02 0.012 22.3 8.4 79 124-215 62-141 (303)
291 cd02072 Glm_B12_BD B12 binding 21.0 2.9E+02 0.0062 21.2 5.3 22 155-176 39-60 (128)
292 TIGR03702 lip_kinase_YegS lipi 20.8 5.5E+02 0.012 22.1 8.4 33 141-173 27-59 (293)
293 PF00834 Ribul_P_3_epim: Ribul 20.8 1.1E+02 0.0025 25.3 3.3 51 120-174 145-195 (201)
294 cd03411 Ferrochelatase_N Ferro 20.8 3.6E+02 0.0079 21.1 6.1 51 124-174 70-120 (159)
295 PRK04147 N-acetylneuraminate l 20.6 4.8E+02 0.01 22.6 7.4 51 156-216 89-140 (293)
296 cd06313 PBP1_ABC_sugar_binding 20.6 5E+02 0.011 21.6 7.8 73 126-215 16-89 (272)
297 PLN02285 methionyl-tRNA formyl 20.6 3.2E+02 0.007 24.5 6.3 33 155-187 82-114 (334)
298 KOG3123 Diphthine synthase [Tr 20.5 1.2E+02 0.0025 25.9 3.1 21 155-175 66-86 (272)
299 COG2870 RfaE ADP-heptose synth 20.4 2.5E+02 0.0054 26.3 5.5 60 155-226 130-194 (467)
300 PRK13059 putative lipid kinase 20.3 5.7E+02 0.012 22.1 8.4 19 197-215 72-91 (295)
301 COG0191 Fba Fructose/tagatose 20.2 3E+02 0.0065 24.3 5.8 56 151-215 27-84 (286)
No 1
>PRK15005 universal stress protein F; Provisional
Probab=99.91 E-value=2.7e-23 Score=163.01 Aligned_cols=134 Identities=17% Similarity=0.214 Sum_probs=106.6
Q ss_pred CCCEEEEEecCCHh--HHHHHHHHHHhhccCCCEEEEEEEEecCCCCch------h--HHHHHHHHHHHHHHHHHHHHhh
Q 037436 67 YGNKVMVVADSSLD--AKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK------E--TKGKKLYLRAYEKLHSMKSTCQ 136 (236)
Q Consensus 67 ~~~~ILV~vD~s~~--s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~------~--~~~~~~~~~~~~~l~~~~~~~~ 136 (236)
|+++||||+|+|+. +..|++||+.+|+..+++|+++||++....... . ...+...+...+.++++.+.+.
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 80 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKKFK 80 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHHhC
Confidence 68999999999998 579999999999999999999999974322100 0 1112333444555555555444
Q ss_pred hhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 137 LKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 137 ~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
.+++++++++..|++ .+.|++++++.++||||||+++ +.+.++ ++||++++|+++++||||+||
T Consensus 81 --~~~~~~~~~v~~G~p-~~~I~~~a~~~~~DLIV~Gs~~-~~~~~~---------llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 81 --LPTDRVHVHVEEGSP-KDRILELAKKIPADMIIIASHR-PDITTY---------LLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred --CCCCceEEEEeCCCH-HHHHHHHHHHcCCCEEEEeCCC-CCchhe---------eecchHHHHHHhCCCCEEEeC
Confidence 457788999999999 8999999999999999999984 567777 899999999999999999996
No 2
>PRK15456 universal stress protein UspG; Provisional
Probab=99.91 E-value=3e-23 Score=163.04 Aligned_cols=133 Identities=20% Similarity=0.172 Sum_probs=106.2
Q ss_pred CCCEEEEEecCC--HhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCc----h---hHHHHHHHHHHHHHHHHHHHHhhh
Q 037436 67 YGNKVMVVADSS--LDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQV----K---ETKGKKLYLRAYEKLHSMKSTCQL 137 (236)
Q Consensus 67 ~~~~ILV~vD~s--~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~----~---~~~~~~~~~~~~~~l~~~~~~~~~ 137 (236)
||++||||+|+| +.+..|+++|+.+|+.. ++|+++||++.+.... . +...+...+..++.++++.+.+.
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~~-~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~- 78 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQDD-GVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHFT- 78 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhcC-CeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHhC-
Confidence 689999999998 48999999999999874 6999999997432210 0 11223334445555666655443
Q ss_pred hCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 138 KKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 138 ~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
..++++++.+..|++ .+.|++++++.++||||||+++++ +.++ ++||++++++++++|||||||
T Consensus 79 -~~~~~v~~~v~~G~~-~~~I~~~a~~~~~DLIVmG~~g~~-~~~~---------llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 79 -IDPSRIKQHVRFGSV-RDEVNELAEELGADVVVIGSRNPS-ISTH---------LLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred -CCCcceEEEEcCCCh-HHHHHHHHhhcCCCEEEEcCCCCC-ccce---------ecCccHHHHHHcCCCCEEEeC
Confidence 347888999999999 899999999999999999999976 6677 899999999999999999996
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.90 E-value=4.4e-23 Score=162.61 Aligned_cols=135 Identities=16% Similarity=0.098 Sum_probs=106.6
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCch-------hHHHHHHHHHHHHHHHHHHHHhhhh
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK-------ETKGKKLYLRAYEKLHSMKSTCQLK 138 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~~~~~~~ 138 (236)
||+++||||+|+|+.+..|+++|+++|+..+++|+++||++....... +...+...+..++.++++.+.+.
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-- 78 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQ-- 78 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcC--
Confidence 589999999999999999999999999999999999999873221100 12223333444455555554433
Q ss_pred CCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 139 KPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 139 ~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
...+++.+..|++ ++.|+++|++.++||||||++ ++++.++ + | ++++++++++||||+||...|
T Consensus 79 --~~~~~~~v~~G~p-~~~I~~~A~~~~aDLIVmG~~-~~~~~~~---------~-~-va~~V~~~s~~pVLvv~~~~~ 142 (142)
T PRK09982 79 --WPKTKLRIERGEM-PETLLEIMQKEQCDLLVCGHH-HSFINRL---------M-P-AYRGMINKMSADLLIVPFIDK 142 (142)
T ss_pred --CCcceEEEEecCH-HHHHHHHHHHcCCCEEEEeCC-hhHHHHH---------H-H-HHHHHHhcCCCCEEEecCCCC
Confidence 3457788888999 899999999999999999986 7888887 6 5 999999999999999997643
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=99.90 E-value=2.1e-22 Score=158.48 Aligned_cols=133 Identities=24% Similarity=0.272 Sum_probs=110.3
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCch--------hHHHHHHHHHHHHHHHHHHHHhhhhCCC
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK--------ETKGKKLYLRAYEKLHSMKSTCQLKKPG 141 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~--------~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 141 (236)
+||||+|+|+.+..|++||+++|...+++|+++||++.+..... ....++..+..++.++++.+.+.. .+
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~ 78 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSR--KG 78 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhh--cC
Confidence 59999999999999999999999999999999999874322111 122233445566777777777663 48
Q ss_pred ceEEEEEEec-CChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccC-cHHHHHHHhCC--CeEEEEeC
Q 037436 142 VQVEIAITEG-KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVG-DIADYCIQNSS--RMTIAVRR 214 (236)
Q Consensus 142 v~v~~~v~~G-~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~g-s~~~~ll~~s~--~PVlvV~~ 214 (236)
+.+++.++.| ++ .+.|+++|++.++|+||||+++++.+.++ ++| |++.+++++++ ||||||++
T Consensus 79 ~~~~~~~~~g~~~-~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~---------~~gssva~~Vi~~a~~~c~Vlvv~~ 145 (146)
T cd01989 79 VQCEDVVLEDDDV-AKAIVEYVADHGITKLVMGASSDNHFSMK---------FKKSDVASSVLKEAPDFCTVYVVSK 145 (146)
T ss_pred CeEEEEEEeCCcH-HHHHHHHHHHcCCCEEEEeccCCCceeec---------ccCCchhHHHHhcCCCCceEEEEeC
Confidence 8999999987 56 89999999999999999999999998887 777 69999999999 99999986
No 5
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.88 E-value=2.1e-21 Score=148.59 Aligned_cols=135 Identities=23% Similarity=0.312 Sum_probs=101.9
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHH-HHHHHHHHH----HHHHHhhhhCCC
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKL-YLRAYEKLH----SMKSTCQLKKPG 141 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~-~~~~~~~l~----~~~~~~~~~~~~ 141 (236)
|+++|||++|+++.+..+++||+.+|...+++|+++||.+.+............ ......... ....... ...
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~ 78 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSFSAAEDEESEEEAEEEEQARQAEAEEAEA--EGG 78 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HTT
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeeccccccccccccccccccccchhhhhhhHHHHHHhh--hcc
Confidence 689999999999999999999999999999999999999954433211111110 000000000 0011112 235
Q ss_pred ceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 142 VQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 142 v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
......+..|+. .+.|++++++.++|+||||+++++.+.++ ++||++++|+++++|||||||
T Consensus 79 ~~~~~~~~~~~~-~~~i~~~~~~~~~dliv~G~~~~~~~~~~---------~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 79 IVIEVVIESGDV-ADAIIEFAEEHNADLIVMGSRGRSGLERL---------LFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp SEEEEEEEESSH-HHHHHHHHHHTTCSEEEEESSSTTSTTTS---------SSHHHHHHHHHHTSSEEEEEE
T ss_pred ceeEEEEEeecc-chhhhhccccccceeEEEeccCCCCccCC---------CcCCHHHHHHHcCCCCEEEeC
Confidence 666777777777 89999999999999999999999999888 999999999999999999997
No 6
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.87 E-value=4.7e-21 Score=150.69 Aligned_cols=136 Identities=17% Similarity=0.180 Sum_probs=96.9
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCch----hHHHHHHHHHHHHHHHHHHHHhhhhCCC
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK----ETKGKKLYLRAYEKLHSMKSTCQLKKPG 141 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 141 (236)
|+|++||||+|+|+.+..|+++|+.+|...+++|++|||......... .......+...++..+.+.+.+. ..+
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~ 78 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDLYTGLIDVNLGDMQKRISEETHHALTELST--NAG 78 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHH--hCC
Confidence 579999999999999999999999999999999999999531111100 00001111112222233333333 236
Q ss_pred ceEE-EEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 142 VQVE-IAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 142 v~v~-~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
+.+. ..+..|++ .++|+++|++.++||||||+++ +.+ +. +||++++++++++||||+||...
T Consensus 79 ~~~~~~~~~~G~p-~~~I~~~a~~~~~DLIV~Gs~~-~~~-~~----------lgSva~~v~~~a~~pVLvv~~~~ 141 (144)
T PRK15118 79 YPITETLSGSGDL-GQVLVDAIKKYDMDLVVCGHHQ-DFW-SK----------LMSSARQLINTVHVDMLIVPLRD 141 (144)
T ss_pred CCceEEEEEecCH-HHHHHHHHHHhCCCEEEEeCcc-cHH-HH----------HHHHHHHHHhhCCCCEEEecCCc
Confidence 6654 44557999 8999999999999999999995 333 32 36999999999999999999653
No 7
>PRK10116 universal stress protein UspC; Provisional
Probab=99.86 E-value=2.3e-20 Score=146.10 Aligned_cols=137 Identities=15% Similarity=0.121 Sum_probs=101.6
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCch--hHHHHHHHHHHH-HHHHHHHHHhhhhCCCc
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK--ETKGKKLYLRAY-EKLHSMKSTCQLKKPGV 142 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~--~~~~~~~~~~~~-~~l~~~~~~~~~~~~~v 142 (236)
|+|++|||++|+++.+..++++|+.+|+..+++|+++|+++.+..... ....+...+... +..+.+.+.+. ..++
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~ 78 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQ--DADY 78 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHH--hcCC
Confidence 579999999999999999999999999999999999999874322211 111111111111 11122222222 2355
Q ss_pred eE-EEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 143 QV-EIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 143 ~v-~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
.. ...+..|++ .+.|++++++.++||||||+++++.+.++ + |++++++++++|||||||..+
T Consensus 79 ~~~~~~~~~G~~-~~~I~~~a~~~~~DLiV~g~~~~~~~~~~---------~--s~a~~v~~~~~~pVLvv~~~~ 141 (142)
T PRK10116 79 PIEKTFIAYGEL-SEHILEVCRKHHFDLVICGNHNHSFFSRA---------S--CSAKRVIASSEVDVLLVPLTG 141 (142)
T ss_pred CeEEEEEecCCH-HHHHHHHHHHhCCCEEEEcCCcchHHHHH---------H--HHHHHHHhcCCCCEEEEeCCC
Confidence 54 356667998 79999999999999999999999888776 4 799999999999999998653
No 8
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.84 E-value=9.8e-20 Score=140.00 Aligned_cols=131 Identities=18% Similarity=0.206 Sum_probs=107.9
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+||||+|+++++..++++|..+|...+++|+++|+++.+..... .......+..++.++.+.+.+.. .++.++..+.
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~--~g~~~~~~~~ 77 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSSP-SQLEVNVQRARKLLRQAERIAAS--LGVPVHTIIR 77 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCCc-chhHHHHHHHHHHHHHHHHHhhh--cCCceEEEEE
Confidence 59999999999999999999999999999999999985432211 11223344566777777776663 4788888876
Q ss_pred e-cCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 150 E-GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 150 ~-G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
. |++ .+.|++++++.++|+||||.++++.+... ++||++.+++++++|||++++
T Consensus 78 ~~~~~-~~~I~~~a~~~~~dlIV~G~~~~~~~~~~---------~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 78 IDHDI-ASGILRTAKERQADLIIMGWHGSTSLRDR---------LFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred ecCCH-HHHHHHHHHhcCCCEEEEecCCCCCccce---------ecCchHHHHHhcCCCCEEEeC
Confidence 5 666 79999999999999999999999887777 899999999999999999985
No 9
>PRK11175 universal stress protein UspE; Provisional
Probab=99.84 E-value=5.9e-20 Score=161.25 Aligned_cols=149 Identities=13% Similarity=0.143 Sum_probs=115.8
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCC-----chhHH---HHHHHHHHHHHHHHHHHHhhh
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQ-----VKETK---GKKLYLRAYEKLHSMKSTCQL 137 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~-----~~~~~---~~~~~~~~~~~l~~~~~~~~~ 137 (236)
|++++|||++|+|+.+..|+++|+.+|+..+++|+++|+++.+... ..... .+...+...+.++++...+.
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~- 79 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAKPYL- 79 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence 6899999999999999999999999999999999999998632211 01111 11122334445555555444
Q ss_pred hCCCceEEEEEE-ecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 138 KKPGVQVEIAIT-EGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 138 ~~~~v~v~~~v~-~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
..+++++..+. .|++ .+.|++++++.++||||||+++++.+.+. ++||++++++++++||||+||...
T Consensus 80 -~~~~~~~~~v~~~g~~-~~~i~~~a~~~~~DLiV~G~~~~~~~~~~---------~~gs~~~~l~~~~~~pvlvv~~~~ 148 (305)
T PRK11175 80 -DAGIPIEIKVVWHNRP-FEAIIQEVIAGGHDLVVKMTHQHDKLESV---------IFTPTDWHLLRKCPCPVLMVKDQD 148 (305)
T ss_pred -hcCCceEEEEecCCCc-HHHHHHHHHhcCCCEEEEeCCCCcHHHhh---------ccChhHHHHHhcCCCCEEEecccc
Confidence 34788888877 4888 89999999999999999999999989888 999999999999999999999854
Q ss_pred -CCCCceeeec
Q 037436 217 -SKLGGYLITT 226 (236)
Q Consensus 217 -~~~~~~li~t 226 (236)
......|+.+
T Consensus 149 ~~~~~~Ilva~ 159 (305)
T PRK11175 149 WPEGGKILVAV 159 (305)
T ss_pred cCCCCeEEEEe
Confidence 3344566655
No 10
>PRK11175 universal stress protein UspE; Provisional
Probab=99.83 E-value=8.4e-20 Score=160.29 Aligned_cols=172 Identities=13% Similarity=0.154 Sum_probs=125.2
Q ss_pred CCCCC-CCCCccccccccccccccCCCcccccccCCCcccccccccCCCCChhhhhhccCCCCCCCCCCCEEEEEecCCH
Q 037436 1 MAKSH-SRSPRLSISRSISRVRVHSPSLQRKKVSKNSVETDQNVEFLGGGNAEEVEYVGNESSGSERYGNKVMVVADSSL 79 (236)
Q Consensus 1 ~~~~~-~~~~~~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ILV~vD~s~ 79 (236)
||..| ..+.++++|....++...+|.++. -. +. +....+++||||+|+++
T Consensus 113 ~G~~~~~~~~~~~~gs~~~~l~~~~~~pvl-vv--------------~~--------------~~~~~~~~Ilva~D~s~ 163 (305)
T PRK11175 113 KMTHQHDKLESVIFTPTDWHLLRKCPCPVL-MV--------------KD--------------QDWPEGGKILVAVNVAS 163 (305)
T ss_pred EeCCCCcHHHhhccChhHHHHHhcCCCCEE-Ee--------------cc--------------cccCCCCeEEEEeCCCC
Confidence 67776 678899999988888888877666 21 00 00224689999999986
Q ss_pred hH-------HHHHHHHHHhhccC-CCEEEEEEEEecCCCCc--------hhHHHHHHHHHHHHHHHHHHHHhhhhCCCce
Q 037436 80 DA-------KGALEWALSHTVQC-QDTIVLLYVIAKSSKQV--------KETKGKKLYLRAYEKLHSMKSTCQLKKPGVQ 143 (236)
Q Consensus 80 ~s-------~~al~~A~~la~~~-~~~l~llhV~~~~~~~~--------~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~ 143 (236)
.+ ..++++|..+|... +++|+++||++...... .....+...+...+.+ .+..+.. ++.
T Consensus 164 ~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~--~~~ 238 (305)
T PRK11175 164 EEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPINIAIELPEFDPSVYNDAIRGQHLLAM---KALRQKF--GID 238 (305)
T ss_pred CccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchhccccccccchhhHHHHHHHHHHHHH---HHHHHHh--CCC
Confidence 53 67999999999998 99999999986332110 1111112222222333 3333322 443
Q ss_pred E-EEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 144 V-EIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 144 v-~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
. .+.+..|++ .+.|.+++++.++||||||+++++++.++ ++||++++++++++||||+||+.+
T Consensus 239 ~~~~~v~~G~~-~~~I~~~a~~~~~DLIVmG~~~~~~~~~~---------llGS~a~~v~~~~~~pVLvv~~~~ 302 (305)
T PRK11175 239 EEQTHVEEGLP-EEVIPDLAEHLDAELVILGTVGRTGLSAA---------FLGNTAEHVIDHLNCDLLAIKPDG 302 (305)
T ss_pred hhheeeccCCH-HHHHHHHHHHhCCCEEEECCCccCCCcce---------eecchHHHHHhcCCCCEEEEcCCC
Confidence 2 456678988 89999999999999999999999999998 999999999999999999998643
No 11
>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=99.82 E-value=2e-19 Score=137.67 Aligned_cols=122 Identities=18% Similarity=0.215 Sum_probs=99.3
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+||||+|+++.++.+++||+.+|...+++|++|||.+.+... ..+..++.++.+.+.++.. ++. +.++
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~~--------~~~~~~~~l~~~~~~~~~~--~~~--~~~~ 68 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLNR--------LSEAERRRLAEALRLAEEL--GAE--VVTL 68 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCcccc--------CCHHHHHHHHHHHHHHHHc--CCE--EEEE
Confidence 599999999999999999999999999999999999832210 1223445566666665532 343 4444
Q ss_pred e-cCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhC-CCeEEEEe
Q 037436 150 E-GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNS-SRMTIAVR 213 (236)
Q Consensus 150 ~-G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s-~~PVlvV~ 213 (236)
. |++ .+.|.+++++.++|+||||+++++.+.++ ++||+++++++++ +|||+|++
T Consensus 69 ~~~~~-~~~I~~~~~~~~~dllviG~~~~~~~~~~---------~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 69 PGDDV-AEAIVEFAREHNVTQIVVGKSRRSRWREL---------FRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred eCCcH-HHHHHHHHHHcCCCEEEeCCCCCchHHHH---------hcccHHHHHHHhCCCCeEEEeC
Confidence 4 455 89999999999999999999999999999 9999999999999 99999984
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=99.78 E-value=1.2e-17 Score=126.36 Aligned_cols=130 Identities=25% Similarity=0.400 Sum_probs=108.6
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+|||++|+++.+..++++|..+|+..+++|+++||.+....... ...+......++.++++...+. ..++.+...+.
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~ 77 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSAA-ELAELLEEEARALLEALREALA--EAGVKVETVVL 77 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcch-hHHHHHHHHHHHHHHHHHHHHh--cCCCceEEEEe
Confidence 59999999999999999999999999999999999884332211 2223344555677777776654 45888999988
Q ss_pred ecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 150 EGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 150 ~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
.|.+ .++|.+++++.++|+||||+++++.+... ++|+++++++++++||||++
T Consensus 78 ~~~~-~~~i~~~~~~~~~dlvvig~~~~~~~~~~---------~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 78 EGDP-AEAILEAAEELGADLIVMGSRGRSGLRRL---------LLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred cCCC-HHHHHHHHHHcCCCEEEEcCCCCCcccee---------eeccHHHHHHhCCCCCEEeC
Confidence 9998 89999999999999999999998888777 89999999999999999985
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.72 E-value=4.5e-16 Score=121.81 Aligned_cols=139 Identities=27% Similarity=0.330 Sum_probs=114.0
Q ss_pred CCCCEEEEEec-CCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchh----------HHHHHHHHHHHHHHHHHHHH
Q 037436 66 RYGNKVMVVAD-SSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKE----------TKGKKLYLRAYEKLHSMKST 134 (236)
Q Consensus 66 ~~~~~ILV~vD-~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~----------~~~~~~~~~~~~~l~~~~~~ 134 (236)
.++++|++++| +++.+..++.++..++...+..+.+++|.+........ ...........+.++.+.+.
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAEAKAL 82 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHHHHHH
Confidence 47899999999 99999999999999999999999999998733322110 11123345556677777776
Q ss_pred hhhhCCCce-EEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 135 CQLKKPGVQ-VEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 135 ~~~~~~~v~-v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
.... ++. ++..+..|.+..+.|++++.+.++|+||||+++++.+.++ ++||++++++++++|||+++|
T Consensus 83 ~~~~--~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~---------llGsvs~~v~~~~~~pVlvv~ 151 (154)
T COG0589 83 AEAA--GVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRL---------LLGSVAEKVLRHAPCPVLVVR 151 (154)
T ss_pred HHHc--CCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccce---------eeehhHHHHHhcCCCCEEEEc
Confidence 6643 666 5888899998669999999999999999999999999888 999999999999999999998
Q ss_pred CC
Q 037436 214 RK 215 (236)
Q Consensus 214 ~~ 215 (236)
..
T Consensus 152 ~~ 153 (154)
T COG0589 152 SE 153 (154)
T ss_pred cC
Confidence 65
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.54 E-value=2.2e-13 Score=122.43 Aligned_cols=148 Identities=13% Similarity=0.154 Sum_probs=103.9
Q ss_pred CCCCCEEEEEecCCHhHHHHHHHHHHhhccC--CCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhh----h
Q 037436 65 ERYGNKVMVVADSSLDAKGALEWALSHTVQC--QDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQL----K 138 (236)
Q Consensus 65 ~~~~~~ILV~vD~s~~s~~al~~A~~la~~~--~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~ 138 (236)
.++++|||||+|+|+.+..|+++|+++|+.. +++|++|||++....... ........++.++++++.++. +
T Consensus 2 ~~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~---~~~~~~~~eelle~~~~~~~~~l~~~ 78 (357)
T PRK12652 2 MMAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDPE---GQDELAAAEELLERVEVWATEDLGDD 78 (357)
T ss_pred CcccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCcccccc---hhHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3689999999999999999999999999884 699999999984322211 122334445566666665543 2
Q ss_pred CCCceEEEEEEe--------cCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEE
Q 037436 139 KPGVQVEIAITE--------GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTI 210 (236)
Q Consensus 139 ~~~v~v~~~v~~--------G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVl 210 (236)
..++++++.++. |++ +++|+++|++.++||||||..-..+-... ++-.. +.-+.++.|.+=
T Consensus 79 ~~gV~ve~~vv~~~~~~~~~G~p-ae~Iv~~Aee~~aDLIVm~~~~~~~~~~~---------~~~~~-~~~~~~~~~~~~ 147 (357)
T PRK12652 79 ASSVTIETALLGTDEYLFGPGDY-AEVLIAYAEEHGIDRVVLDPEYNPGGTAP---------MLQPL-ERELARAGITYE 147 (357)
T ss_pred cCCCceEEEEEeccccccCCCCH-HHHHHHHHHHcCCCEEEECCCCCCCCCCc---------ccchH-HHHHHhcCCcee
Confidence 358999999876 788 89999999999999999999754222111 22223 556677887776
Q ss_pred EEeCCCCCCCceeeec
Q 037436 211 AVRRKSSKLGGYLITT 226 (236)
Q Consensus 211 vV~~~~~~~~~~li~t 226 (236)
.-|-......+-+.+.
T Consensus 148 ~~~~~~~~~~~~~~~~ 163 (357)
T PRK12652 148 EAPVERPTRRGRLVRA 163 (357)
T ss_pred cCCccCccCcccccch
Confidence 6654444444445543
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.14 E-value=8.7e-10 Score=110.35 Aligned_cols=130 Identities=12% Similarity=0.105 Sum_probs=99.8
Q ss_pred CCCCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCce
Q 037436 64 SERYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQ 143 (236)
Q Consensus 64 ~~~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~ 143 (236)
.+....+|||||++++.++.++++|.++|.+.++++++|||....... ...+ ....+.+.+ +.++ .+.
T Consensus 246 ~~~~~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~~----~~~~---~~~~l~~~~-~lA~----~lG 313 (895)
T PRK10490 246 VWHTRDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLHR----LPEK---KRRAILSAL-RLAQ----ELG 313 (895)
T ss_pred CCCcCCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcCc----CCHH---HHHHHHHHH-HHHH----HcC
Confidence 356788999999999999999999999999999999999998621111 0111 112222222 3444 344
Q ss_pred EEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC-CeEEEEeCCC
Q 037436 144 VEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS-RMTIAVRRKS 216 (236)
Q Consensus 144 v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~-~PVlvV~~~~ 216 (236)
.++..+.|+.++.+|+++|++.+++.||||.+.++.+ + +.||+++++++.++ +.|.||+...
T Consensus 314 a~~~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~---------~~~s~~~~l~r~~~~idi~iv~~~~ 376 (895)
T PRK10490 314 AETATLSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--W---------RRESFADRLARLGPDLDLVIVALDE 376 (895)
T ss_pred CEEEEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--c---------cCCCHHHHHHHhCCCCCEEEEeCCc
Confidence 4566777877799999999999999999999988764 5 67899999999997 9999997553
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.08 E-value=2.4e-09 Score=103.18 Aligned_cols=149 Identities=17% Similarity=0.185 Sum_probs=117.3
Q ss_pred CCCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceE
Q 037436 65 ERYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQV 144 (236)
Q Consensus 65 ~~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v 144 (236)
+....+||||++.++.++..+++|.++|.+.++.+++|||.. |... ...+.....+.+..+.++ .+..
T Consensus 245 ~~~~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~-~~~~-------~~~~~~~~~l~~~~~Lae----~lGa 312 (890)
T COG2205 245 WAARERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVET-PELH-------RLSEKEARRLHENLRLAE----ELGA 312 (890)
T ss_pred ccccceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEec-cccc-------cccHHHHHHHHHHHHHHH----HhCC
Confidence 567789999999999999999999999999999999999987 3221 111234555666667666 4667
Q ss_pred EEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC-CeEEEEeCCCC--CCCc
Q 037436 145 EIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS-RMTIAVRRKSS--KLGG 221 (236)
Q Consensus 145 ~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~-~PVlvV~~~~~--~~~~ 221 (236)
++..+.|...+.+|.++|+.+++.-||+|.+.++.++.+ +.|++++++++..+ +.+.+|+.... +...
T Consensus 313 e~~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~---------~~~~l~~~L~~~~~~idv~ii~~~~~~~~~~~ 383 (890)
T COG2205 313 EIVTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWRRL---------FKGSLADRLAREAPGIDVHIVALDAPPDKRPN 383 (890)
T ss_pred eEEEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHH---------hcccHHHHHHhcCCCceEEEeeCCCCcccccc
Confidence 888888887799999999999999999999999999888 89999999999996 99999987544 1111
Q ss_pred eeeeccccccccc
Q 037436 222 YLITTKRHKNFWL 234 (236)
Q Consensus 222 ~li~t~~~~~fwl 234 (236)
..-..-+++.||.
T Consensus 384 ~~~~~~~~~~~~~ 396 (890)
T COG2205 384 AVKWRPKIQGSWS 396 (890)
T ss_pred ccchhhhccccch
Confidence 1222233467875
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=98.29 E-value=3.5e-06 Score=60.18 Aligned_cols=84 Identities=15% Similarity=0.158 Sum_probs=72.2
Q ss_pred EEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe
Q 037436 71 VMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE 150 (236)
Q Consensus 71 ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~ 150 (236)
|+|+++++.+|..++.++.+.+ ..+..++++|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence 6899999999999999999987 557788888885
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccC-cHHHHHHHhCCCeEEE
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVG-DIADYCIQNSSRMTIA 211 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~g-s~~~~ll~~s~~PVlv 211 (236)
.....+.+.+++.++|+|++|++.....+.. +.| +++.+++..++|||+.
T Consensus 35 --~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~---------~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 --AFVRILKRLAAEEGADVIILGHNADDVAGRR---------LGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred --HHHHHHHHHHHHcCCCEEEEcCCchhhhhhc---------cCchhhhhhcccccCCceeC
Confidence 3367888999999999999999988777776 666 8999999999999974
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=96.82 E-value=0.021 Score=57.35 Aligned_cols=147 Identities=10% Similarity=0.080 Sum_probs=89.8
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHh--hccCCCEEEEEEEEecCCCCch--------hHHHH---HHHHHHHHHHHHHHH
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSH--TVQCQDTIVLLYVIAKSSKQVK--------ETKGK---KLYLRAYEKLHSMKS 133 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~l--a~~~~~~l~llhV~~~~~~~~~--------~~~~~---~~~~~~~~~l~~~~~ 133 (236)
.--+||+|+...++....+..+-.. ..+..-.|+++|.++-...... +.... +.....++.++.++.
T Consensus 457 ~elriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~~l~~h~~~~~~~~~~~~~~~~~~~i~~af~~ 536 (832)
T PLN03159 457 AELRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASAMLIVHNTRKSGRPALNRTQAQSDHIINAFEN 536 (832)
T ss_pred CceeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCccceeeeecccccccccccccccccHHHHHHHH
Confidence 3447999999888887777654332 2223358999999984433211 00000 011123455555444
Q ss_pred HhhhhCCCceEEEEEEec--CChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEE
Q 037436 134 TCQLKKPGVQVEIAITEG--KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIA 211 (236)
Q Consensus 134 ~~~~~~~~v~v~~~v~~G--~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlv 211 (236)
..+.. ..+.++...... +.-.+.|...|++.++++||++.+++....+-+ .+....++.+.+++++++||+|-|
T Consensus 537 ~~~~~-~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~---~~~~~~~r~~n~~VL~~ApCsVgI 612 (832)
T PLN03159 537 YEQHA-GCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGM---EATNPAFRGVNQNVLANAPCSVGI 612 (832)
T ss_pred HHhhc-CceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCc---cccCchHHHHHHHHHccCCCCEEE
Confidence 43321 256666544433 244799999999999999999999753322210 000114567889999999999999
Q ss_pred EeCCCC
Q 037436 212 VRRKSS 217 (236)
Q Consensus 212 V~~~~~ 217 (236)
.=+++.
T Consensus 613 lVDRg~ 618 (832)
T PLN03159 613 LVDRGL 618 (832)
T ss_pred EEeCCC
Confidence 877653
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=96.81 E-value=0.023 Score=57.05 Aligned_cols=146 Identities=18% Similarity=0.209 Sum_probs=89.2
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCch----------------hHHHHHHHHHHHHHHHH
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK----------------ETKGKKLYLRAYEKLHS 130 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~----------------~~~~~~~~~~~~~~l~~ 130 (236)
...+|.+..=+.++++.||.+|.++|.+++-.++++|.+........ ....+..++..++.+++
T Consensus 629 ~~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~D~~~~~e 708 (832)
T PLN03159 629 VSHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGEDAAPTASQPASSPSDPRIPTVETDGKKERQLDEEYINE 708 (832)
T ss_pred cceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEcccccccccccccccccccccccccccchhHHHHHHHHHHH
Confidence 45699999999999999999999999999999999999873221110 00011122234555666
Q ss_pred HHHHhhhhCCCceEEEEEEe-cCChHHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHh---
Q 037436 131 MKSTCQLKKPGVQVEIAITE-GKEKGPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQN--- 204 (236)
Q Consensus 131 ~~~~~~~~~~~v~v~~~v~~-G~~~~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~--- 204 (236)
++..... ...+.+.-.++. |......|.+. ..++||+|+|.++. +.+-.-|..|.+-+ =+|-+.+.+...
T Consensus 709 f~~~~~~-~~~v~y~E~~V~~~~e~~~~l~~~--~~~ydL~iVGr~~~~~~~~~~gL~~w~e~p-ELG~iGD~LaS~d~~ 784 (832)
T PLN03159 709 FRARNAG-NESIVYTEKVVSNGEETVAAIRSM--DSAHDLFIVGRGQGMISPLTAGLTDWSECP-ELGAIGDLLASSDFA 784 (832)
T ss_pred HHHhcCC-CCceEEEEEecCCHHHHHHHHHHh--hccCcEEEEecCCCCCcchhccccccccCC-ccchhhhHHhcCCCC
Confidence 5554432 234554444443 33322233222 23599999998643 34433468898877 556565555443
Q ss_pred CCCeEEEEeCCC
Q 037436 205 SSRMTIAVRRKS 216 (236)
Q Consensus 205 s~~PVlvV~~~~ 216 (236)
+...||||-.+.
T Consensus 785 ~~~SVLVvQQ~~ 796 (832)
T PLN03159 785 ATVSVLVVQQYV 796 (832)
T ss_pred CceeEEEEEeec
Confidence 246789987654
No 20
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=96.58 E-value=0.028 Score=45.83 Aligned_cols=100 Identities=14% Similarity=0.192 Sum_probs=66.4
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+|+|++.++.+|.-++..+...+...+.++.++||.... .. ...+..+.+++.|+.. ++.+.+.-.
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~-~~-----------~~~~~~~~~~~~~~~~--gi~~~~~~~ 66 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGL-RP-----------ESDEEAEFVQQFCKKL--NIPLEIKKV 66 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCC-Ch-----------hHHHHHHHHHHHHHHc--CCCEEEEEe
Confidence 589999999999999999888877667789999996511 10 1122334455555532 555444333
Q ss_pred ec--------CC--------hHHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 150 EG--------KE--------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 150 ~G--------~~--------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
.. .. +...+.+.|++.+++.|+.|++.......+
T Consensus 67 ~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~D~~e~~ 116 (189)
T TIGR02432 67 DVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHADDQAETI 116 (189)
T ss_pred cchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccHHHHHHH
Confidence 21 11 115788899999999999999876544443
No 21
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=96.40 E-value=0.017 Score=47.00 Aligned_cols=103 Identities=15% Similarity=0.178 Sum_probs=64.7
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
||+|++.+..+|..++..+..+....+-++.++||...-. . ...+..+.+++.|+.. ++...+...
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~-~-----------~s~~~~~~v~~~~~~~--~i~~~~~~~ 66 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLR-E-----------ESDEEAEFVEEICEQL--GIPLYIVRI 66 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STS-C-----------CHHHHHHHHHHHHHHT--T-EEEEEE-
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCC-c-----------ccchhHHHHHHHHHhc--CCceEEEEe
Confidence 6999999999999999999999888888999999987221 1 1122233456666643 566665554
Q ss_pred ec-----CC--------hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhh
Q 037436 150 EG-----KE--------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNR 186 (236)
Q Consensus 150 ~G-----~~--------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~ 186 (236)
.- .. +...+.+.|++.+++.|++|++.....+.+||.
T Consensus 67 ~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~dD~~ET~l~~ 116 (182)
T PF01171_consen 67 DEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHLDDQAETFLMN 116 (182)
T ss_dssp -CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BHHHHHHHHHHH
T ss_pred eeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcCCccHHHHHHH
Confidence 41 11 234778899999999999999876555555444
No 22
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=95.22 E-value=0.21 Score=40.35 Aligned_cols=100 Identities=15% Similarity=0.138 Sum_probs=65.0
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEE--
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIA-- 147 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~-- 147 (236)
+|+|++.+..+|.-++..+.......+.+|.++|+.... .. ...+..+.+.+.|... +++..+.
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~-~~-----------~~~~~~~~~~~~~~~~--~i~~~~~~~ 66 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGL-RP-----------ESDEEAAFVADLCAKL--GIPLYILVV 66 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCC-Cc-----------hHHHHHHHHHHHHHHc--CCcEEEEee
Confidence 589999999999999998888776556789999996511 11 1123334445555532 5555443
Q ss_pred E-EecCC----------hHHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 148 I-TEGKE----------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 148 v-~~G~~----------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
. ..+.. +...+.++|++.+++.|+.|++........
T Consensus 67 ~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD~~e~~ 113 (185)
T cd01992 67 ALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADDQAETV 113 (185)
T ss_pred ccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHHHHHHH
Confidence 1 11111 125678889999999999999865544443
No 23
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=93.52 E-value=0.52 Score=37.82 Aligned_cols=100 Identities=17% Similarity=0.121 Sum_probs=59.8
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccC--CCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQC--QDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIA 147 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~--~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~ 147 (236)
+|+|++.+..+|..++..+....... +-.++++|+....... .. ...+.+++.|... ++.+.+.
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~~~~-----~~-------~~~~~~~~~~~~~--~i~~~~~ 66 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGY-----RD-------ESLEVVERLAEEL--GIELEIV 66 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCCCCC-----cH-------HHHHHHHHHHHHc--CCceEEE
Confidence 58999999999998888887765543 5688999987521110 00 1111223333321 3333322
Q ss_pred EEe-------------c--------CChHHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 148 ITE-------------G--------KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 148 v~~-------------G--------~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
-.. + ......+.+.|++++++.|+.|++.......+
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~c~~~r~~~l~~~a~~~g~~~l~~Gh~~dD~~et~ 123 (185)
T cd01993 67 SFKEEYTDDIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNLDDEAETL 123 (185)
T ss_pred ehhhhcchhhhhhccCCCCCCCccHHHHHHHHHHHHHHcCCCEEEEcCChHHHHHHH
Confidence 221 0 11235778899999999999999865444433
No 24
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=93.48 E-value=0.65 Score=40.46 Aligned_cols=104 Identities=12% Similarity=0.070 Sum_probs=63.6
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIA 147 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~ 147 (236)
..+|+|++.|..+|..++..+..+... -.+.++||...-... . ....+..+.+.+.+.. +-+...+.
T Consensus 21 ~~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~~~~~-~--------~~~~~~~~~~~~~~~~--~~~v~~~~ 87 (298)
T COG0037 21 EYKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHGLRGY-S--------DQEAELVEKLCEKLGI--PLIVERVT 87 (298)
T ss_pred CCeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCCCCCc-c--------chHHHHHHHHHHHhCC--ceEEEEEE
Confidence 589999999999999888887777554 789999997722111 0 1122222223332221 11222222
Q ss_pred EEec--------------CChHHHHHHHHHHCCCCEEEEccCCCCchhhhh
Q 037436 148 ITEG--------------KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLM 184 (236)
Q Consensus 148 v~~G--------------~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~ 184 (236)
...+ ..+...+.+.|++.++|.|+.|++.......+|
T Consensus 88 ~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD~~et~l 138 (298)
T COG0037 88 DDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDDQAETFL 138 (298)
T ss_pred eeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHHHHHHHH
Confidence 1111 112356888899999999999999876665543
No 25
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=93.29 E-value=0.79 Score=36.51 Aligned_cols=64 Identities=20% Similarity=0.309 Sum_probs=47.0
Q ss_pred CceEEEEEEecCChHHHHHH---HHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 141 GVQVEIAITEGKEKGPIIVE---EAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~---~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
+|.++..++.....-+.+.+ .+++.++..+|-|.-+-..+-+. +...++.||+-||-+++
T Consensus 29 gi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPGm-----------------vAa~T~lPViGVPv~s~ 91 (162)
T COG0041 29 GVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPGM-----------------VAAKTPLPVIGVPVQSK 91 (162)
T ss_pred CCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcchh-----------------hhhcCCCCeEeccCccc
Confidence 88999999885543344544 45678899999998775444443 34578999999999988
Q ss_pred CCCc
Q 037436 218 KLGG 221 (236)
Q Consensus 218 ~~~~ 221 (236)
..+|
T Consensus 92 ~L~G 95 (162)
T COG0041 92 ALSG 95 (162)
T ss_pred cccc
Confidence 7776
No 26
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.25 E-value=3.1 Score=38.87 Aligned_cols=98 Identities=10% Similarity=0.126 Sum_probs=67.8
Q ss_pred CEEEEEe--cCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 69 NKVMVVA--DSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 69 ~~ILV~v--D~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
..||+=. |..-....||..|+..|...+..|++|++.+ |..... ......-..+.|.++.+.++. ..+..
T Consensus 23 ~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~d-p~~~~~---~~~r~~Fl~esL~~L~~~L~~----~g~~L 94 (454)
T TIGR00591 23 GVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLV-DFFLAA---TRRHYFFMLGGLDEVANECER----LIIPF 94 (454)
T ss_pred CeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeC-CCcccc---cHHHHHHHHHHHHHHHHHHHH----cCCce
Confidence 3355433 6666777788888887766677899999987 332211 122233445666677776663 34455
Q ss_pred EEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 147 AITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 147 ~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.+..|++ ...|.+.+++.+++.|+....
T Consensus 95 ~v~~g~~-~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 95 HLLDGPP-KELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred EEeecCh-HHHHHHHHHHcCCCEEEEecc
Confidence 6678999 799999999999999999875
No 27
>PRK12342 hypothetical protein; Provisional
Probab=93.12 E-value=0.92 Score=39.28 Aligned_cols=87 Identities=21% Similarity=0.073 Sum_probs=55.4
Q ss_pred ecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCC-
Q 037436 75 ADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKE- 153 (236)
Q Consensus 75 vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~- 153 (236)
...+++..+|++.|+++. +.+.+|++|++=+ +. .....++.+...+-.+ .++-++-....|..
T Consensus 31 ~~iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp-~~------------a~~~~l~r~alamGaD--~avli~d~~~~g~D~ 94 (254)
T PRK12342 31 AKISQFDLNAIEAASQLA-TDGDEIAALTVGG-SL------------LQNSKVRKDVLSRGPH--SLYLVQDAQLEHALP 94 (254)
T ss_pred ccCChhhHHHHHHHHHHh-hcCCEEEEEEeCC-Ch------------HhHHHHHHHHHHcCCC--EEEEEecCccCCCCH
Confidence 345789999999999998 6789999999966 10 0111222333333221 13444333233433
Q ss_pred --hHHHHHHHHHHCCCCEEEEccCCC
Q 037436 154 --KGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 154 --~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+..|-.++++.++|||+.|...-
T Consensus 95 ~ata~~La~~i~~~~~DLVl~G~~s~ 120 (254)
T PRK12342 95 LDTAKALAAAIEKIGFDLLLFGEGSG 120 (254)
T ss_pred HHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 257888888888999999997653
No 28
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=92.95 E-value=0.86 Score=39.49 Aligned_cols=87 Identities=16% Similarity=0.059 Sum_probs=55.5
Q ss_pred cCCHhHHHHHHHHHHhhccCC-CEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCC-
Q 037436 76 DSSLDAKGALEWALSHTVQCQ-DTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKE- 153 (236)
Q Consensus 76 D~s~~s~~al~~A~~la~~~~-~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~- 153 (236)
-.+++..+|++.|+++..+.+ .+|++|.+-+ +. ......|.+...+-.++ ++-++-.-..|..
T Consensus 33 ~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp-~~------------a~~~~~lr~aLAmGaD~--avli~d~~~~g~D~ 97 (256)
T PRK03359 33 KISQYDLNAIEAACQLKQQAAEAQVTALSVGG-KA------------LTNAKGRKDVLSRGPDE--LIVVIDDQFEQALP 97 (256)
T ss_pred ccChhhHHHHHHHHHHhhhcCCCEEEEEEECC-cc------------hhhHHHHHHHHHcCCCE--EEEEecCcccCcCH
Confidence 347789999999999998765 7999999976 11 01123333333332211 3444333222322
Q ss_pred --hHHHHHHHHHHCCCCEEEEccCCC
Q 037436 154 --KGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 154 --~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+..|-..+++.++|||+.|...-
T Consensus 98 ~~tA~~La~ai~~~~~DLVl~G~~s~ 123 (256)
T PRK03359 98 QQTASALAAAAQKAGFDLILCGDGSS 123 (256)
T ss_pred HHHHHHHHHHHHHhCCCEEEEcCccc
Confidence 367888888888999999998653
No 29
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=91.70 E-value=3 Score=36.23 Aligned_cols=111 Identities=13% Similarity=0.056 Sum_probs=69.0
Q ss_pred ecCCHhHHHHHHHHHHhhc-cCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecC-
Q 037436 75 ADSSLDAKGALEWALSHTV-QCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGK- 152 (236)
Q Consensus 75 vD~s~~s~~al~~A~~la~-~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~- 152 (236)
..-++....|++.|+++.. ..+.+|++|++=+ ..+++.+..+..+--+ ..+-++-....+.
T Consensus 33 ~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp---------------~~a~~~lr~aLAmGaD--raili~d~~~~~~d 95 (260)
T COG2086 33 LSINPFDLNAVEEALRLKEKGYGGEVTVLTMGP---------------PQAEEALREALAMGAD--RAILITDRAFAGAD 95 (260)
T ss_pred cccChhhHHHHHHHHHhhccCCCceEEEEEecc---------------hhhHHHHHHHHhcCCC--eEEEEecccccCcc
Confidence 3446788999999999998 5889999999976 1233333333333221 1344443222232
Q ss_pred --ChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 153 --EKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 153 --~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
..+..|...+++.+.|||++|...-.. -.|.+.-.+......|.+-.-.+
T Consensus 96 ~~~ta~~Laa~~~~~~~~LVl~G~qa~D~-------------~t~qvg~~lAe~Lg~P~~t~v~~ 147 (260)
T COG2086 96 PLATAKALAAAVKKIGPDLVLTGKQAIDG-------------DTGQVGPLLAELLGWPQVTYVSK 147 (260)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEecccccC-------------CccchHHHHHHHhCCceeeeEEE
Confidence 236789999999999999999875321 22334445555556666554333
No 30
>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=90.85 E-value=0.58 Score=37.24 Aligned_cols=115 Identities=11% Similarity=0.108 Sum_probs=66.2
Q ss_pred hHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHH
Q 037436 80 DAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIV 159 (236)
Q Consensus 80 ~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~ 159 (236)
....||..| .+.+..|+.|+|.+ +..............-..+.|.++++.+.. ..+...+..|++ .+.|.
T Consensus 12 ~DN~aL~~A----~~~~~~v~~vfv~d-~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~----~g~~L~v~~g~~-~~~l~ 81 (165)
T PF00875_consen 12 HDNPALHAA----AQNGDPVLPVFVFD-PEEFHPYRIGPRRRRFLLESLADLQESLRK----LGIPLLVLRGDP-EEVLP 81 (165)
T ss_dssp TT-HHHHHH----HHTTSEEEEEEEE--HHGGTTCSSCHHHHHHHHHHHHHHHHHHHH----TTS-EEEEESSH-HHHHH
T ss_pred hhhHHHHHH----HHcCCCeEEEEEec-ccccccccCcchHHHHHHHHHHHHHHHHHh----cCcceEEEecch-HHHHH
Confidence 334455544 55678899999998 321100011222333456666677776663 455678888998 78999
Q ss_pred HHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 160 EEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 160 ~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
+.+++.+++.|+....-. ....- .-....+.+.+..|.+..+...
T Consensus 82 ~l~~~~~~~~V~~~~~~~-~~~~~----------rd~~v~~~l~~~~i~~~~~~~~ 126 (165)
T PF00875_consen 82 ELAKEYGATAVYFNEEYT-PYERR----------RDERVRKALKKHGIKVHTFDDH 126 (165)
T ss_dssp HHHHHHTESEEEEE---S-HHHHH----------HHHHHHHHHHHTTSEEEEE--S
T ss_pred HHHHhcCcCeeEeccccC-HHHHH----------HHHHHHHHHHhcceEEEEECCc
Confidence 999999999999886532 22111 1113345556667888777543
No 31
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=90.61 E-value=5.2 Score=34.41 Aligned_cols=100 Identities=21% Similarity=0.255 Sum_probs=62.8
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccC--CCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCce
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQC--QDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQ 143 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~--~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~ 143 (236)
....+|+|++.+..+|..++.++..+.... +-+|..+|+....... .+ +. +++.|+.. ++.
T Consensus 27 ~~~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~~-----~~-------~~---~~~~~~~l--gI~ 89 (258)
T PRK10696 27 EEGDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPGF-----PE-------HV---LPEYLESL--GVP 89 (258)
T ss_pred CCCCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCCC-----CH-------HH---HHHHHHHh--CCC
Confidence 356789999999999998888887765543 3478999986521111 00 11 24445532 444
Q ss_pred EEEEEEe-----------cC--------ChHHHHHHHHHHCCCCEEEEccCCCCchhh
Q 037436 144 VEIAITE-----------GK--------EKGPIIVEEAKRQNVSLLVLGQRRKSIVWT 182 (236)
Q Consensus 144 v~~~v~~-----------G~--------~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~ 182 (236)
..+.-.. +. .+...+.++|++.++|.|++|++.......
T Consensus 90 ~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~dD~~Et 147 (258)
T PRK10696 90 YHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHRDDILET 147 (258)
T ss_pred EEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCchHHHHHH
Confidence 4433221 11 123577888999999999999987644443
No 32
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=90.51 E-value=1.6 Score=40.64 Aligned_cols=104 Identities=14% Similarity=0.056 Sum_probs=60.5
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhh-ccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHT-VQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVE 145 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la-~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~ 145 (236)
...+|+|++.+..+|...+.....+. ...+-+|+++||...-. . .+.+..+.+++.|+.. +|...
T Consensus 14 ~~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvnhglr-~-----------~s~~~~~~~~~~~~~l--~i~~~ 79 (436)
T PRK10660 14 TSRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVHHGLS-P-----------NADSWVKHCEQVCQQW--QVPLV 79 (436)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEeCCCC-c-----------chHHHHHHHHHHHHHc--CCcEE
Confidence 45789999999999998877776654 23467999999986211 1 1122233456666643 56555
Q ss_pred EEEEec----CC--------hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhh
Q 037436 146 IAITEG----KE--------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNR 186 (236)
Q Consensus 146 ~~v~~G----~~--------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~ 186 (236)
+.-+.. .. +...+.+.++. .+.|++|++.....+.+|+.
T Consensus 80 ~~~~~~~~~~~~~e~~AR~~Ry~~~~~~~~~--~~~l~~aHh~DDq~ET~L~~ 130 (436)
T PRK10660 80 VERVQLDQRGLGIEAAARQARYQAFARTLLP--GEVLVTAQHLDDQCETFLLA 130 (436)
T ss_pred EEEEeccCCCCCHHHHHHHHHHHHHHHHHHh--CCEEEEcCchHHHHHHHHHH
Confidence 543331 11 01122222222 47888998876555555444
No 33
>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=89.09 E-value=5 Score=31.91 Aligned_cols=73 Identities=14% Similarity=0.131 Sum_probs=43.4
Q ss_pred HHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHC---CCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhC
Q 037436 129 HSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQ---NVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNS 205 (236)
Q Consensus 129 ~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~---~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s 205 (236)
+++...++.. ++.+++.+.......+.+.+++++. +++++|.+.-....+-.. +.-++
T Consensus 17 ~~a~~~L~~~--gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~Lpgv-----------------va~~t 77 (150)
T PF00731_consen 17 EEAAKTLEEF--GIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAALPGV-----------------VASLT 77 (150)
T ss_dssp HHHHHHHHHT--T-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--HHHH-----------------HHHHS
T ss_pred HHHHHHHHHc--CCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccchhh-----------------heecc
Confidence 3445555533 7888888887554356777777664 578888876654444333 55688
Q ss_pred CCeEEEEeCCCCCCC
Q 037436 206 SRMTIAVRRKSSKLG 220 (236)
Q Consensus 206 ~~PVlvV~~~~~~~~ 220 (236)
++||+-||.......
T Consensus 78 ~~PVIgvP~~~~~~~ 92 (150)
T PF00731_consen 78 TLPVIGVPVSSGYLG 92 (150)
T ss_dssp SS-EEEEEE-STTTT
T ss_pred CCCEEEeecCccccc
Confidence 999999998766443
No 34
>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=88.87 E-value=4.9 Score=32.17 Aligned_cols=74 Identities=12% Similarity=0.191 Sum_probs=47.1
Q ss_pred HHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHH---HHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHh
Q 037436 128 LHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEA---KRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQN 204 (236)
Q Consensus 128 l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a---~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~ 204 (236)
.+++...++. .++.+++.+..-....+.+.+++ ++.+++++|.+.-.-..+-.. +.-+
T Consensus 14 ~~~a~~~L~~--~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lpgv-----------------va~~ 74 (156)
T TIGR01162 14 MKKAADILEE--FGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLPGM-----------------VAAL 74 (156)
T ss_pred HHHHHHHHHH--cCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhHHH-----------------HHhc
Confidence 3444455543 37888888877443234555554 557899888887654444443 4557
Q ss_pred CCCeEEEEeCCCCCCC
Q 037436 205 SSRMTIAVRRKSSKLG 220 (236)
Q Consensus 205 s~~PVlvV~~~~~~~~ 220 (236)
++.||+-||......+
T Consensus 75 t~~PVIgvP~~~~~l~ 90 (156)
T TIGR01162 75 TPLPVIGVPVPSKALS 90 (156)
T ss_pred cCCCEEEecCCccCCC
Confidence 8999999998765333
No 35
>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=87.42 E-value=4.6 Score=31.94 Aligned_cols=88 Identities=16% Similarity=0.164 Sum_probs=55.3
Q ss_pred EEEEEecC-----CHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceE
Q 037436 70 KVMVVADS-----SLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQV 144 (236)
Q Consensus 70 ~ILV~vD~-----s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v 144 (236)
+|||.++. ++.+..+|..|.+++...+.+|+++.+-+.+. ..+ .+++.+.. .++.-
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g~~v~av~~G~~~~--------------~~~---~l~~~l~~--~G~d~ 61 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEALGGEVTAVVLGPAEE--------------AAE---ALRKALAK--YGADK 61 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTTSEEEEEEEETCCC--------------HHH---HHHHHHHS--TTESE
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhcCCeEEEEEEecchh--------------hHH---HHhhhhhh--cCCcE
Confidence 46777765 48899999999999999999999997753111 111 12333331 24433
Q ss_pred EEEEEec-------CChHHHHHHHHHHCCCCEEEEccCC
Q 037436 145 EIAITEG-------KEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 145 ~~~v~~G-------~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
-+.+-.. ......|.+.+++.++|+|++|...
T Consensus 62 v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 62 VYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp EEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred EEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 3333221 1135689999999999999999764
No 36
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=87.42 E-value=2.7 Score=42.09 Aligned_cols=143 Identities=19% Similarity=0.241 Sum_probs=80.7
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchh---HHHHHHHHHHHHHHHHHHHHhhhhCCCce
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKE---TKGKKLYLRAYEKLHSMKSTCQLKKPGVQ 143 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~~v~ 143 (236)
...+|.+..=+.++.+.|+.++..++.++.-.+++++.++........ ...+..+ +...+.+-..+.....++.
T Consensus 613 ~~~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~~~~~~~i~ 689 (769)
T KOG1650|consen 613 SSYKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDESKYNRKVLVEVGKMLD---QEGLEDFVKSTRESNLDII 689 (769)
T ss_pred ceeEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccchhhcccccchhhhhhh---hhHHHHHHHHhhhchhhhh
Confidence 556777888888888889999999999999999999999833322111 1111111 1111111011111111222
Q ss_pred E--EEEEEecCChHHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcc--cCcHHH-HHHHhCCCeEEEEeCC
Q 037436 144 V--EIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKA--VGDIAD-YCIQNSSRMTIAVRRK 215 (236)
Q Consensus 144 v--~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~--~gs~~~-~ll~~s~~PVlvV~~~ 215 (236)
. |..+..|.+ .-.+++...+ ++|+.++|.... +..-..+..|.+-+.+ .|+.-. .-. ++...|+++..+
T Consensus 690 ~~~ek~v~~~~e-t~~~~~~~~~-~ydL~ivGr~~~~~~~~t~gl~~W~e~pELg~IGd~las~~~-~~~~svlvvqq~ 765 (769)
T KOG1650|consen 690 YAEEKIVLNGAE-TTALLRSITE-DYDLFIVGRSHGMLSEATGGLSEWSECPELGVIGDLLASSDF-SSKVSVLVVQQQ 765 (769)
T ss_pred hhhHHHHhcchh-HHHHHHHhcc-ccceEEEecccccccchhcCchhcccCccccccCcccccccc-CccceEEEEEee
Confidence 2 234445666 3455555544 899999998753 2334457888776632 343311 112 556667776644
No 37
>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=87.34 E-value=2.7 Score=39.54 Aligned_cols=91 Identities=13% Similarity=0.087 Sum_probs=57.5
Q ss_pred cCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChH
Q 037436 76 DSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKG 155 (236)
Q Consensus 76 D~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~ 155 (236)
|..-....||..|+. .+..|++|+|.+ |..............-..+.|.++.+.++. ..+...+..|++ .
T Consensus 10 DLRl~DN~AL~~A~~----~~~~vl~vfi~d-p~~~~~~~~~~~r~~Fl~esL~~L~~~L~~----~G~~L~v~~G~p-~ 79 (471)
T TIGR03556 10 DLRLSDNIGLAAARQ----QSAKVVGLFCLD-PNILQADDMAPARVAYLIGCLQELQQRYQQ----AGSQLLILQGDP-V 79 (471)
T ss_pred CCCcchHHHHHHHHh----cCCCEEEEEEEc-hhhhccccCCHHHHHHHHHHHHHHHHHHHH----CCCCeEEEECCH-H
Confidence 444455567776664 356799999987 322111111111123345666666666663 344556778998 7
Q ss_pred HHHHHHHHHCCCCEEEEccCC
Q 037436 156 PIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~~ 176 (236)
+.|.+.+++.+++.|+....-
T Consensus 80 ~vl~~l~~~~~~~~V~~~~~~ 100 (471)
T TIGR03556 80 QLIPQLAQQLGAKAVYWNLDV 100 (471)
T ss_pred HHHHHHHHHcCCCEEEEeccc
Confidence 899999999999999987764
No 38
>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=87.08 E-value=4.2 Score=34.84 Aligned_cols=90 Identities=18% Similarity=0.197 Sum_probs=54.6
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
.+.+|+|++.+.-+|.-++.++.+. +.+++.+|+.. +... . + .++.+++.|+.. ++...+
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~~-~~~~--~---~--------e~~~a~~~a~~l--gi~~~i 70 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVVS-PSIS--P---R--------ELEDAIIIAKEI--GVNHEF 70 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEecC-CCCC--H---H--------HHHHHHHHHHHc--CCCEEE
Confidence 4577999999999999888777654 56799999965 2111 0 0 111223333321 333322
Q ss_pred EEEe-----------------cCChHHHHHHHHHHCCCCEEEEccCC
Q 037436 147 AITE-----------------GKEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 147 ~v~~-----------------G~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
.-.. .......+.+.|++.+++.|+.|+..
T Consensus 71 i~~~~~~~~~~~n~~~~c~~ck~~~~~~l~~~A~~~g~~~I~~G~n~ 117 (252)
T TIGR00268 71 VKIDKMINPFRANVEERCYFCKKMVLSILVKEAEKRGYDVVVDGTNA 117 (252)
T ss_pred EEcHHHHHHHHhCCCcccchhhHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 2111 11123467788999999999999854
No 39
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=84.74 E-value=4.5 Score=37.39 Aligned_cols=91 Identities=21% Similarity=0.227 Sum_probs=58.4
Q ss_pred cCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCch------hHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 76 DSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVK------ETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 76 D~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~------~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
|..-....||..|+.. +..|+.|+|.+ +..... .........-..+.|+++.+.++. ..+...+.
T Consensus 10 DLRl~DN~aL~~A~~~----~~~vl~vfi~d-p~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~----~g~~L~v~ 80 (429)
T TIGR02765 10 DLRVHDNPALYKASSS----SDTLIPLYCFD-PRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRK----LGSDLLVR 80 (429)
T ss_pred CCccccHHHHHHHHhc----CCeEEEEEEEC-chHhccccccccCCCCHHHHHHHHHHHHHHHHHHHH----cCCCeEEE
Confidence 4445556677777654 34799999988 322110 001122223345666677776663 34455667
Q ss_pred ecCChHHHHHHHHHHCCCCEEEEccCC
Q 037436 150 EGKEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 150 ~G~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
.|++ .+.|.+.+++.+++.|+.-..-
T Consensus 81 ~G~~-~~vl~~L~~~~~~~~V~~~~~~ 106 (429)
T TIGR02765 81 SGKP-EDVLPELIKELGVRTVFLHQEV 106 (429)
T ss_pred eCCH-HHHHHHHHHHhCCCEEEEeccC
Confidence 8988 7899999999999999998764
No 40
>PRK13820 argininosuccinate synthase; Provisional
Probab=84.58 E-value=10 Score=34.99 Aligned_cols=37 Identities=14% Similarity=0.110 Sum_probs=29.9
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCC-EEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQD-TIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~-~l~llhV~~ 106 (236)
++++|+|++.+.-+|.-++.|+.. ..+- +|+.+|+..
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e---~~g~~~Viav~vd~ 38 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKE---KYGYDEVITVTVDV 38 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHH---hcCCCEEEEEEEEC
Confidence 468999999999999988888643 2353 899999976
No 41
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=83.51 E-value=29 Score=33.64 Aligned_cols=135 Identities=16% Similarity=0.195 Sum_probs=72.0
Q ss_pred hhhccCCCCCCCCCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEE----EEEEEEecCCCCchhHHHHHHHHHHHHHHH
Q 037436 54 VEYVGNESSGSERYGNKVMVVADSSLDAKGALEWALSHTVQCQDTI----VLLYVIAKSSKQVKETKGKKLYLRAYEKLH 129 (236)
Q Consensus 54 ~~~~~~~~~~~~~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l----~llhV~~~~~~~~~~~~~~~~~~~~~~~l~ 129 (236)
|.-||+......+.+-+|.+.-+...+....++.+++......+-. ..|-|+- ...++.. .++
T Consensus 361 v~~ygk~~~r~~rkmGhV~~~g~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~------gs~sd~~-------~~~ 427 (577)
T PLN02948 361 VHWYGKPEMRKQRKMGHITVVGPSAAEVEARLDQLLAEESADPDALPKGTPLVGIIM------GSDSDLP-------TMK 427 (577)
T ss_pred EEEecCCCCCCCCeeEEEEEecCCHHHHHHHHHHHHhhhccCCCCCCCCCCeEEEEE------CchhhHH-------HHH
Confidence 4445542333335666777776666666666666665433211000 0011111 1222222 233
Q ss_pred HHHHHhhhhCCCceEEEEEEecCCh---HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC
Q 037436 130 SMKSTCQLKKPGVQVEIAITEGKEK---GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS 206 (236)
Q Consensus 130 ~~~~~~~~~~~~v~v~~~v~~G~~~---~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~ 206 (236)
++...++.. ++.+++.+..-... ...+.+.+++.+++++|.+.-.-..+-+. +.-+++
T Consensus 428 ~~~~~l~~~--g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~~~-----------------~a~~t~ 488 (577)
T PLN02948 428 DAAEILDSF--GVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLPGM-----------------VASMTP 488 (577)
T ss_pred HHHHHHHHc--CCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccchHH-----------------HhhccC
Confidence 344444433 77888777764322 34455556778999888887654444443 455789
Q ss_pred CeEEEEeCCCCCCC
Q 037436 207 RMTIAVRRKSSKLG 220 (236)
Q Consensus 207 ~PVlvV~~~~~~~~ 220 (236)
+||+-||......+
T Consensus 489 ~pvi~vp~~~~~~~ 502 (577)
T PLN02948 489 LPVIGVPVKTSHLD 502 (577)
T ss_pred CCEEEcCCCCCCCC
Confidence 99999998754333
No 42
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=83.19 E-value=22 Score=28.53 Aligned_cols=94 Identities=15% Similarity=0.045 Sum_probs=56.9
Q ss_pred HHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe---cCChHHHHHH
Q 037436 84 ALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE---GKEKGPIIVE 160 (236)
Q Consensus 84 al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~---G~~~~~~I~~ 160 (236)
.+...++.+.+.+..|.++--.+ +.++++.+.++..+|++++.-..-- ... .+.|++
T Consensus 36 l~~~l~~~~~~~~~~ifllG~~~-------------------~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~-~~~i~~ 95 (172)
T PF03808_consen 36 LFPDLLRRAEQRGKRIFLLGGSE-------------------EVLEKAAANLRRRYPGLRIVGYHHGYFDEEE-EEAIIN 95 (172)
T ss_pred HHHHHHHHHHHcCCeEEEEeCCH-------------------HHHHHHHHHHHHHCCCeEEEEecCCCCChhh-HHHHHH
Confidence 44444455555566666654433 2334455555556777777644321 233 689999
Q ss_pred HHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 161 EAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 161 ~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
.+++.++|+|++|-.. +.+.. ...+..++.+.++++.
T Consensus 96 ~I~~~~pdiv~vglG~--PkQE~-------------~~~~~~~~l~~~v~i~ 132 (172)
T PF03808_consen 96 RINASGPDIVFVGLGA--PKQER-------------WIARHRQRLPAGVIIG 132 (172)
T ss_pred HHHHcCCCEEEEECCC--CHHHH-------------HHHHHHHHCCCCEEEE
Confidence 9999999999999653 22333 4455666777665543
No 43
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=82.77 E-value=12 Score=27.31 Aligned_cols=50 Identities=20% Similarity=0.244 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhhhhCCCceEEEEEEe-----------cCChHHHHHHHHHHCCCCEEEEccC
Q 037436 124 AYEKLHSMKSTCQLKKPGVQVEIAITE-----------GKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 124 ~~~~l~~~~~~~~~~~~~v~v~~~v~~-----------G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.++.++++...+... ++.+--.+.. |+-+.+.|.+.++..++|+||....
T Consensus 6 ~~~~l~El~~L~~t~--g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 6 FEESLEELEELAETA--GYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred HHHHHHHHHHHHHHC--CCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC
Confidence 456677777777754 4444333322 3334689999999999999999864
No 44
>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=81.34 E-value=14 Score=30.42 Aligned_cols=35 Identities=11% Similarity=-0.028 Sum_probs=25.5
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLY 103 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llh 103 (236)
++|++++-++..+-.++...++...+.+.+|.++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L~~~g~~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKLVDEGAEVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHHHhCcCEEEEEE
Confidence 57999999999999887444444456677766554
No 45
>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=80.74 E-value=28 Score=27.97 Aligned_cols=70 Identities=14% Similarity=0.084 Sum_probs=43.6
Q ss_pred HHHHHHHhhhhCCCceEEEEE-E-ecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhC
Q 037436 128 LHSMKSTCQLKKPGVQVEIAI-T-EGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNS 205 (236)
Q Consensus 128 l~~~~~~~~~~~~~v~v~~~v-~-~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s 205 (236)
++++.+.++..+|++++.-.. . .+......|++.+.+.++|+|++|-.. +.+.. .+.+..++.
T Consensus 59 ~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv~vglG~--PkQE~-------------~~~~~~~~l 123 (171)
T cd06533 59 LEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGADILFVGLGA--PKQEL-------------WIARHKDRL 123 (171)
T ss_pred HHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCCEEEEECCC--CHHHH-------------HHHHHHHHC
Confidence 334444455557888876521 1 233224568999999999999999653 33333 445566666
Q ss_pred CCeEEEE
Q 037436 206 SRMTIAV 212 (236)
Q Consensus 206 ~~PVlvV 212 (236)
+.++++.
T Consensus 124 ~~~v~~~ 130 (171)
T cd06533 124 PVPVAIG 130 (171)
T ss_pred CCCEEEE
Confidence 7776664
No 46
>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=80.58 E-value=11 Score=33.45 Aligned_cols=72 Identities=18% Similarity=0.322 Sum_probs=42.6
Q ss_pred HHHHHhhhhCCCceEEE--EEEecCChHHHHHHHHHHC-------CCCEEEEccCCCCc--hhhhhhhccCCCcccCcHH
Q 037436 130 SMKSTCQLKKPGVQVEI--AITEGKEKGPIIVEEAKRQ-------NVSLLVLGQRRKSI--VWTLMNRWSSKKKAVGDIA 198 (236)
Q Consensus 130 ~~~~~~~~~~~~v~v~~--~v~~G~~~~~~I~~~a~~~-------~~DLLVmG~~~~s~--~~~l~~~~~~~~~~~gs~~ 198 (236)
++...+....|.+++.+ ..++|......|++..++- ++|+||++.-|.+. +|.+ -.-..
T Consensus 30 D~~~~~~~r~~~~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~eDL~~F----------N~e~v 99 (319)
T PF02601_consen 30 DFLRTLKRRNPIVEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGSIEDLWAF----------NDEEV 99 (319)
T ss_pred HHHHHHHHhCCCcEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEecCCCChHHhccc----------ChHHH
Confidence 33444443455555543 3556876567777777653 48999999877653 3433 11122
Q ss_pred HHHHHhCCCeEEE
Q 037436 199 DYCIQNSSRMTIA 211 (236)
Q Consensus 199 ~~ll~~s~~PVlv 211 (236)
-.-+.++++||+.
T Consensus 100 arai~~~~~Pvis 112 (319)
T PF02601_consen 100 ARAIAASPIPVIS 112 (319)
T ss_pred HHHHHhCCCCEEE
Confidence 3445678899775
No 47
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=79.40 E-value=9.5 Score=33.83 Aligned_cols=95 Identities=15% Similarity=0.037 Sum_probs=58.3
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
.+.+++|++.+..+|.-.|..|........-.+.+||+.. ...+ + + ..+..++ .++. .++++.+
T Consensus 26 ~f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iDT-G~~F--p----E----t~ef~d~---~a~~--~gl~l~v 89 (301)
T PRK05253 26 EFENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVDT-GWKF--P----E----MIEFRDR---RAKE--LGLELIV 89 (301)
T ss_pred hCCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEeC-CCCC--H----H----HHHHHHH---HHHH--hCCCEEE
Confidence 3567999999999999888777665443345788999976 2211 1 1 1112222 2221 1455544
Q ss_pred EEEe-----cC-------------ChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 147 AITE-----GK-------------EKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 147 ~v~~-----G~-------------~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.... |. -+...+.++++++++|.++.|.+..
T Consensus 90 ~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrD 138 (301)
T PRK05253 90 HSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRD 138 (301)
T ss_pred EeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccc
Confidence 3211 21 1235688889999999999999864
No 48
>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=79.40 E-value=29 Score=27.81 Aligned_cols=79 Identities=14% Similarity=0.081 Sum_probs=45.0
Q ss_pred CCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecC----
Q 037436 77 SSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGK---- 152 (236)
Q Consensus 77 ~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~---- 152 (236)
..+.+..++..|.+++. .+..|+++.+-. + .. ...+..+... +..--+. +.++
T Consensus 17 l~~~~~e~l~~A~~l~~-~~~~v~~v~~G~-~-----------~~---~~~~~~~~~~------Gad~v~~-~~~~~~~~ 73 (181)
T cd01985 17 LNPLDLEAVEAALRLKE-YGGEVTALVIGP-P-----------AA---EVALREALAM------GADKVLL-VEDPALAG 73 (181)
T ss_pred cCHhhHHHHHHHHHHhh-cCCeEEEEEECC-h-----------HH---HHHHHHHHHh------CCCEEEE-EecCcccC
Confidence 46677788888888866 456666665533 0 00 0111111111 3322222 2211
Q ss_pred ----ChHHHHHHHHHHCCCCEEEEccCCCC
Q 037436 153 ----EKGPIIVEEAKRQNVSLLVLGQRRKS 178 (236)
Q Consensus 153 ----~~~~~I~~~a~~~~~DLLVmG~~~~s 178 (236)
.....|.+.+++.++|+|++|....+
T Consensus 74 ~~~~~~a~~l~~~i~~~~p~~Vl~g~t~~g 103 (181)
T cd01985 74 YDPEATAKALAALIKKEKPDLILAGATSIG 103 (181)
T ss_pred CChHHHHHHHHHHHHHhCCCEEEECCcccc
Confidence 12467888889999999999998653
No 49
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=78.60 E-value=12 Score=30.51 Aligned_cols=88 Identities=17% Similarity=0.165 Sum_probs=51.3
Q ss_pred EEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe
Q 037436 71 VMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE 150 (236)
Q Consensus 71 ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~ 150 (236)
|+|++.+..+|..++.++.... +.++..+|+.... .. .+..+.+++.|+.. ++...+.-..
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~---~~~v~~v~vd~g~-~~-------------~~~~~~~~~~a~~l--gi~~~~~~~~ 61 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL---GDRVLAVTATSPL-FP-------------RRELEEAKRLAKEI--GIRHEVIETD 61 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh---CCcEEEEEeCCCC-CC-------------HHHHHHHHHHHHHc--CCcEEEEeCC
Confidence 6889999999988887775542 2378888886521 10 11122233333321 3332222111
Q ss_pred ------------------cCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 151 ------------------GKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 151 ------------------G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.......+.++|++.+++.|+.|+...
T Consensus 62 ~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~d 106 (202)
T cd01990 62 ELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNAD 106 (202)
T ss_pred ccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCccc
Confidence 111234677889999999999998753
No 50
>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=78.46 E-value=22 Score=25.60 Aligned_cols=76 Identities=16% Similarity=0.146 Sum_probs=50.1
Q ss_pred EEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe
Q 037436 71 VMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE 150 (236)
Q Consensus 71 ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~ 150 (236)
|+|++.+..+|.-++.++... +.++.++|+.. .... + .+...+.++.
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~----~~~~~~~~~~~-~~~~-------~--------~~~~~~~~~~------------- 47 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKL----GYQVIAVTVDH-GISP-------R--------LEDAKEIAKE------------- 47 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHh----CCCEEEEEEcC-CCcc-------c--------HHHHHHHHHH-------------
Confidence 589999999998887777665 23788999876 2111 0 1111222221
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCCchh
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVW 181 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~ 181 (236)
.....+.+.|++.+++.|+.|+.......
T Consensus 48 --~r~~~~~~~a~~~g~~~i~~g~~~~D~~~ 76 (103)
T cd01986 48 --AREEAAKRIAKEKGAETIATGTRRDDVAN 76 (103)
T ss_pred --HHHHHHHHHHHHcCCCEEEEcCCcchHHH
Confidence 33678888999999999999988654433
No 51
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=77.32 E-value=12 Score=30.55 Aligned_cols=35 Identities=14% Similarity=0.169 Sum_probs=26.7
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLY 103 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llh 103 (236)
+++|++++-++..+..+.++.-.+. +.+.+|.++-
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~-~~g~~V~vv~ 35 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLT-KRGYQVTVLM 35 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHH-HCCCEEEEEE
Confidence 5789999999999999887776664 4566665443
No 52
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=76.82 E-value=12 Score=31.61 Aligned_cols=57 Identities=14% Similarity=0.117 Sum_probs=42.1
Q ss_pred HHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC---------CCCceeee
Q 037436 156 PIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS---------KLGGYLIT 225 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~---------~~~~~li~ 225 (236)
.+..+..++.++|.||+++...... .-..++.++..+.+|++|+.+-.. +.-||+|-
T Consensus 50 aav~~~~e~~~pDfvi~isPNpaaP-------------GP~kARE~l~~s~~PaiiigDaPg~~vkdeleeqGlGYIiv 115 (277)
T COG1927 50 AAVTEMLEEFNPDFVIYISPNPAAP-------------GPKKAREILSDSDVPAIIIGDAPGLKVKDELEEQGLGYIIV 115 (277)
T ss_pred HHHHHHHHhcCCCEEEEeCCCCCCC-------------CchHHHHHHhhcCCCEEEecCCccchhHHHHHhcCCeEEEe
Confidence 4667788899999999998754322 224678999999999999976432 45677653
No 53
>PLN00200 argininosuccinate synthase; Provisional
Probab=76.65 E-value=57 Score=30.25 Aligned_cols=38 Identities=21% Similarity=0.216 Sum_probs=31.2
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
.|+.+|+|++.+.-+|.-++.|+.+ +.+.+|+.+|+..
T Consensus 3 ~~~~kVvva~SGGlDSsvla~~L~e---~~G~eViav~id~ 40 (404)
T PLN00200 3 GKLNKVVLAYSGGLDTSVILKWLRE---NYGCEVVCFTADV 40 (404)
T ss_pred CCCCeEEEEEeCCHHHHHHHHHHHH---hhCCeEEEEEEEC
Confidence 3568999999999999988888855 2367899999976
No 54
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=76.61 E-value=16 Score=33.93 Aligned_cols=76 Identities=20% Similarity=0.333 Sum_probs=46.3
Q ss_pred HHHHHHHHhhhhCCCceEEEE--EEecCChHHHHHHHHHHCC---CCEEEEccCCCCc--hhhhhhhccCCCcccCcHHH
Q 037436 127 KLHSMKSTCQLKKPGVQVEIA--ITEGKEKGPIIVEEAKRQN---VSLLVLGQRRKSI--VWTLMNRWSSKKKAVGDIAD 199 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~--v~~G~~~~~~I~~~a~~~~---~DLLVmG~~~~s~--~~~l~~~~~~~~~~~gs~~~ 199 (236)
.+.++...+....|.+++.+. .++|+.....|++..+.-+ +|+||++.-|.+. +|.+ -.-..-
T Consensus 148 a~~D~~~~~~~r~p~~~~~~~~~~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS~eDL~~F----------n~e~v~ 217 (438)
T PRK00286 148 AIRDILTVLRRRFPLVEVIIYPTLVQGEGAAASIVAAIERANARGEDVLIVARGGGSLEDLWAF----------NDEAVA 217 (438)
T ss_pred HHHHHHHHHHhcCCCCeEEEecCcCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCCHHHhhcc----------CcHHHH
Confidence 455566666655565554443 4568765677777776533 5999999877653 3332 122223
Q ss_pred HHHHhCCCeEEEE
Q 037436 200 YCIQNSSRMTIAV 212 (236)
Q Consensus 200 ~ll~~s~~PVlvV 212 (236)
..+.++++||+.-
T Consensus 218 ~ai~~~~~Pvis~ 230 (438)
T PRK00286 218 RAIAASRIPVISA 230 (438)
T ss_pred HHHHcCCCCEEEe
Confidence 4556789998753
No 55
>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=76.03 E-value=36 Score=27.14 Aligned_cols=33 Identities=12% Similarity=0.059 Sum_probs=27.9
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+..+|.-++.++.+. +.+++.+|+..
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~~----g~~v~av~~d~ 33 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMKR----GIEVDALHFNS 33 (177)
T ss_pred CEEEEecCChhHHHHHHHHHHc----CCeEEEEEEeC
Confidence 5899999999999888777653 77899999986
No 56
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=74.09 E-value=46 Score=27.04 Aligned_cols=47 Identities=17% Similarity=0.236 Sum_probs=32.8
Q ss_pred HHHHHHHHhhhhCCCceEEEEEEecC---ChHHHHHHHHHHCCCCEEEEccC
Q 037436 127 KLHSMKSTCQLKKPGVQVEIAITEGK---EKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~v~~G~---~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.++++.+.++..+|++++... .|. .-.+.|++.+.+.++|+|++|-.
T Consensus 60 v~~~~~~~l~~~yP~l~i~g~--~g~f~~~~~~~i~~~I~~s~~dil~VglG 109 (177)
T TIGR00696 60 VLQQLKVKLIKEYPKLKIVGA--FGPLEPEERKAALAKIARSGAGIVFVGLG 109 (177)
T ss_pred HHHHHHHHHHHHCCCCEEEEE--CCCCChHHHHHHHHHHHHcCCCEEEEEcC
Confidence 344455555556888887654 432 11467999999999999999965
No 57
>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=73.25 E-value=18 Score=29.47 Aligned_cols=33 Identities=15% Similarity=0.217 Sum_probs=24.4
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLL 102 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~ll 102 (236)
++|+|++-++..+..++++.-.+ ++.+.+|.++
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L-~~~g~~V~vi 33 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQL-TKLGYDVTVL 33 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHH-HHCCCEEEEE
Confidence 57999999999998888666555 4556665544
No 58
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=72.88 E-value=23 Score=33.13 Aligned_cols=75 Identities=25% Similarity=0.405 Sum_probs=45.3
Q ss_pred HHHHHHHHhhhhCCCceEEEE--EEecCChHHHHHHHHHH----CCCCEEEEccCCCCc--hhhhhhhccCCCcccCcHH
Q 037436 127 KLHSMKSTCQLKKPGVQVEIA--ITEGKEKGPIIVEEAKR----QNVSLLVLGQRRKSI--VWTLMNRWSSKKKAVGDIA 198 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~--v~~G~~~~~~I~~~a~~----~~~DLLVmG~~~~s~--~~~l~~~~~~~~~~~gs~~ 198 (236)
.+.++...+....|.+++.+. .+.|+.....|++.++. .++|+||+|.-|.|. +|.+ -.-..
T Consensus 148 airDIl~~~~rR~P~~~viv~pt~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGSiEDLW~F----------NdE~v 217 (440)
T COG1570 148 ALRDILHTLSRRFPSVEVIVYPTLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGGSIEDLWAF----------NDEIV 217 (440)
T ss_pred HHHHHHHHHHhhCCCCeEEEEeccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcchHHHHhcc----------ChHHH
Confidence 444555555555566554443 45688757788777754 459999999777553 3443 11222
Q ss_pred HHHHHhCCCeEEE
Q 037436 199 DYCIQNSSRMTIA 211 (236)
Q Consensus 199 ~~ll~~s~~PVlv 211 (236)
-+-+.+|.+||+=
T Consensus 218 aRAi~~s~iPvIS 230 (440)
T COG1570 218 ARAIAASRIPVIS 230 (440)
T ss_pred HHHHHhCCCCeEe
Confidence 3445677888763
No 59
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=72.38 E-value=31 Score=32.46 Aligned_cols=92 Identities=13% Similarity=0.158 Sum_probs=56.6
Q ss_pred cCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe----c
Q 037436 76 DSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE----G 151 (236)
Q Consensus 76 D~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~----G 151 (236)
|..-+...||..|++.+ +..|+.|+|.+ |..............-..+.|.++.+.++.. |+. ..+.. |
T Consensus 11 DLRl~DN~aL~~A~~~~---~~~vlpvyv~d-p~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~--g~~--L~v~~g~~~g 82 (472)
T PRK10674 11 DLRLHDNLALAAACRDP---SARVLALFIAT-PAQWAAHDMAPRQAAFINAQLNALQIALAEK--GIP--LLFHEVDDFA 82 (472)
T ss_pred CCCcchHHHHHHHHhCC---CCCEEEEEEEC-chhhccCCCCHHHHHHHHHHHHHHHHHHHHc--CCc--eEEEecCCcC
Confidence 55556666777776543 24699999998 3221111111222234456666777766633 444 45554 4
Q ss_pred CChHHHHHHHHHHCCCCEEEEccCC
Q 037436 152 KEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 152 ~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
.+ .+.|.+.+++.+++-|+.....
T Consensus 83 ~~-~~vl~~l~~~~~i~~v~~~~~~ 106 (472)
T PRK10674 83 AS-VEWLKQFCQQHQVTHLFYNYQY 106 (472)
T ss_pred CH-HHHHHHHHHHcCCCEEEEeccc
Confidence 57 6889999999999999997653
No 60
>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=71.12 E-value=28 Score=26.71 Aligned_cols=36 Identities=17% Similarity=0.217 Sum_probs=26.5
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+..+|..++..+....... ..+.++|+..
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~dt 36 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLDT 36 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeCC
Confidence 48899999999988777776654332 4678888865
No 61
>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=70.88 E-value=30 Score=28.47 Aligned_cols=92 Identities=13% Similarity=0.150 Sum_probs=49.7
Q ss_pred EEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe
Q 037436 71 VMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE 150 (236)
Q Consensus 71 ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~ 150 (236)
++|.-.+.--...+.+.|..+..+ +..|.++.... ... ...++++..++.- ++.+...-..
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~--~R~--------------ga~eQL~~~a~~l--~vp~~~~~~~ 65 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADT--YRI--------------GAVEQLKTYAEIL--GVPFYVARTE 65 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEEST--SST--------------HHHHHHHHHHHHH--TEEEEESSTT
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-cccceeecCCC--CCc--------------cHHHHHHHHHHHh--ccccchhhcc
Confidence 344455555666688888888777 77888777633 111 2223344444422 3333222111
Q ss_pred cCChHH---HHHHHHHHCCCCEEEEccCCCCchhh
Q 037436 151 GKEKGP---IIVEEAKRQNVSLLVLGQRRKSIVWT 182 (236)
Q Consensus 151 G~~~~~---~I~~~a~~~~~DLLVmG~~~~s~~~~ 182 (236)
.++ .+ ..++..+..++|+|++-+.+++....
T Consensus 66 ~~~-~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~ 99 (196)
T PF00448_consen 66 SDP-AEIAREALEKFRKKGYDLVLIDTAGRSPRDE 99 (196)
T ss_dssp SCH-HHHHHHHHHHHHHTTSSEEEEEE-SSSSTHH
T ss_pred hhh-HHHHHHHHHHHhhcCCCEEEEecCCcchhhH
Confidence 223 23 33455566889999999999877543
No 62
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=70.07 E-value=77 Score=28.85 Aligned_cols=93 Identities=14% Similarity=0.107 Sum_probs=57.0
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
...+|+|++.+.-+|.-++..+.+ .+.+|+.+|+....... ..+.++.+++.|+.. ++...+
T Consensus 4 ~~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~~~~~~~------------~~~d~~~a~~va~~L--gIp~~v 65 (360)
T PRK14665 4 KNKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFRFYEFNG------------STEYLEDARALAERL--GIGHIT 65 (360)
T ss_pred CCCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEecCCCCC------------ChHHHHHHHHHHHHh--CCCEEE
Confidence 346899999999999877766644 36789999986421110 011233444555532 443333
Q ss_pred EEE-----------------ecC---C--------hHHHHHHHHHHCCCCEEEEccCCC
Q 037436 147 AIT-----------------EGK---E--------KGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 147 ~v~-----------------~G~---~--------~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.-. .|. + +...+.++|++.++|.|+.|+..+
T Consensus 66 vd~~~~f~~~v~~~f~~~y~~g~tpnpC~~Cnr~ikf~~l~~~A~~~G~~~IATGHya~ 124 (360)
T PRK14665 66 YDARKVFRKQIIDYFIDEYMSGHTPVPCTLCNNYLKWPLLAKIADEMGIFYLATGHYVR 124 (360)
T ss_pred EecHHHHHHHHHhhhhhHHhccCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEECCccc
Confidence 211 121 1 134677999999999999998764
No 63
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=69.00 E-value=31 Score=32.13 Aligned_cols=76 Identities=20% Similarity=0.328 Sum_probs=44.9
Q ss_pred HHHHHHHHhhhhCCCceEEEE--EEecCChHHHHHHHHHH----CCCCEEEEccCCCCc--hhhhhhhccCCCcccCcHH
Q 037436 127 KLHSMKSTCQLKKPGVQVEIA--ITEGKEKGPIIVEEAKR----QNVSLLVLGQRRKSI--VWTLMNRWSSKKKAVGDIA 198 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~--v~~G~~~~~~I~~~a~~----~~~DLLVmG~~~~s~--~~~l~~~~~~~~~~~gs~~ 198 (236)
.+.++...+....|.+++.+. .++|+.....|++..+. .++|+||++.-|.+. +|.+ ---.+
T Consensus 142 a~~D~~~~~~~r~p~~~~~~~~~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~eDL~~F---------n~e~~- 211 (432)
T TIGR00237 142 ALADILHILKRRDPSLKVVIYPTLVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSLEDLWSF---------NDEKV- 211 (432)
T ss_pred HHHHHHHHHHhhCCCceEEEecccccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCHHHhhhc---------CcHHH-
Confidence 445555555555555554443 45687655677666553 347999999877654 3333 11222
Q ss_pred HHHHHhCCCeEEEE
Q 037436 199 DYCIQNSSRMTIAV 212 (236)
Q Consensus 199 ~~ll~~s~~PVlvV 212 (236)
-.-+.++++||+.-
T Consensus 212 ~rai~~~~~Pvis~ 225 (432)
T TIGR00237 212 ARAIFLSKIPIISA 225 (432)
T ss_pred HHHHHcCCCCEEEe
Confidence 34456788888753
No 64
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=68.94 E-value=47 Score=26.14 Aligned_cols=85 Identities=18% Similarity=0.228 Sum_probs=49.6
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+|+|.+.+..+|..++.++.+. +.++..+|+.. .... . .+. +. ++..++...+.. .+
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~~----~~~v~~~~~~~-~~~~--~---~~~-----~~---~~~~~~~~g~~~-----~~ 57 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKKE----GYEVHALSFDY-GQRH--A---KEE-----EA---AKLIAEKLGPST-----YV 57 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHHc----CCcEEEEEEEC-CCCC--h---hHH-----HH---HHHHHHHHCCCE-----EE
Confidence 5899999999999888776542 45788888865 2111 0 000 11 122222111111 12
Q ss_pred ecCCh--HHHHHHHHHHCCCCEEEEccCCC
Q 037436 150 EGKEK--GPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 150 ~G~~~--~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+... ...+.++|++.+++.|++|....
T Consensus 58 ~~~~~~~~~~l~~~a~~~g~~~i~~G~~~~ 87 (169)
T cd01995 58 PARNLIFLSIAAAYAEALGAEAIIIGVNAE 87 (169)
T ss_pred eCcCHHHHHHHHHHHHHCCCCEEEEeeccC
Confidence 22321 24567788999999999998864
No 65
>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=67.75 E-value=27 Score=31.62 Aligned_cols=77 Identities=16% Similarity=0.217 Sum_probs=54.4
Q ss_pred CceEEEEEEecCC--------hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 141 GVQVEIAITEGKE--------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 141 ~v~v~~~v~~G~~--------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
+.++..-++.|+. ....|++.+++.++|++|.|.-=..+-=+. ..|.++..+-.+..||++.-
T Consensus 47 ~~eIv~TiiCGDnyf~en~eea~~~i~~mv~~~~pD~viaGPaFnagrYG~---------acg~v~~aV~e~~~IP~vta 117 (349)
T PF07355_consen 47 DAEIVATIICGDNYFNENKEEALKKILEMVKKLKPDVVIAGPAFNAGRYGV---------ACGEVAKAVQEKLGIPVVTA 117 (349)
T ss_pred CCEEEEEEEECcchhhhCHHHHHHHHHHHHHhcCCCEEEEcCCcCCchHHH---------HHHHHHHHHHHhhCCCEEEE
Confidence 4677777777754 357899999999999999998643322223 56888889999999999876
Q ss_pred eCCCC------CCCceeeec
Q 037436 213 RRKSS------KLGGYLITT 226 (236)
Q Consensus 213 ~~~~~------~~~~~li~t 226 (236)
=.... +..-|++.|
T Consensus 118 M~~ENpgv~~yk~~~~Ivkt 137 (349)
T PF07355_consen 118 MYEENPGVEMYKKDVYIVKT 137 (349)
T ss_pred ecccChhHHHHhhccEEEEC
Confidence 43322 334566655
No 66
>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=66.98 E-value=28 Score=25.61 Aligned_cols=66 Identities=14% Similarity=0.080 Sum_probs=41.4
Q ss_pred HHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC
Q 037436 127 KLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS 206 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~ 206 (236)
..+++++.++.+ ++++++.-.. ...+.+.. .++|+|++|..-+..+..+ ++......
T Consensus 16 la~km~~~a~~~--gi~~~i~a~~----~~e~~~~~--~~~Dvill~PQv~~~~~~i---------------~~~~~~~~ 72 (99)
T cd05565 16 LANALNKGAKER--GVPLEAAAGA----YGSHYDMI--PDYDLVILAPQMASYYDEL---------------KKDTDRLG 72 (99)
T ss_pred HHHHHHHHHHHC--CCcEEEEEee----HHHHHHhc--cCCCEEEEcChHHHHHHHH---------------HHHhhhcC
Confidence 344566666644 7776654222 23455554 4789999998765554443 56666778
Q ss_pred CeEEEEeCC
Q 037436 207 RMTIAVRRK 215 (236)
Q Consensus 207 ~PVlvV~~~ 215 (236)
+||.+++..
T Consensus 73 ipv~~I~~~ 81 (99)
T cd05565 73 IKLVTTTGK 81 (99)
T ss_pred CCEEEeCHH
Confidence 899888743
No 67
>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=66.93 E-value=47 Score=30.66 Aligned_cols=33 Identities=18% Similarity=0.287 Sum_probs=28.1
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+.-+|.-++.|+.+. +.+|+.+|+..
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id~ 33 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTADV 33 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEec
Confidence 5899999999999888888653 67899999976
No 68
>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=66.92 E-value=20 Score=31.38 Aligned_cols=93 Identities=9% Similarity=0.080 Sum_probs=54.4
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+|-|.+...+.++.-++-|-.+.+..++. .++|+.. |..+ ..+.+..++++...+. +-.+...++
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg~~-~I~h~ty-Pdnf---------~~e~EttIskI~~lAd----Dp~mKaIVv 68 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKYGDV-MIKHVTY-PDNF---------MSEQETTISKIVSLAD----DPDMKAIVV 68 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHHHHH-EEEEEE---TTG---------GGCHHHHHHHHHGGGG-----TTEEEEEE
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHhCcc-eEEEEeC-CCcc---------cchHHHHHHHHHHhcc----CCCccEEEE
Confidence 47777877777777777777777776665 7889887 5443 1223455666677666 335555555
Q ss_pred e-cCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 150 E-GKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 150 ~-G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
. +.+-.-.-++-+++.+.|+|.+....+
T Consensus 69 ~q~vpGt~~af~kIkekRpDIl~ia~~~~ 97 (275)
T PF12683_consen 69 SQAVPGTAEAFRKIKEKRPDILLIAGEPH 97 (275)
T ss_dssp E-SS---HHHHHHHHHH-TTSEEEESS--
T ss_pred eCCCcchHHHHHHHHhcCCCeEEEcCCCc
Confidence 5 334234556667888999999887644
No 69
>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=66.16 E-value=1e+02 Score=27.96 Aligned_cols=37 Identities=14% Similarity=0.094 Sum_probs=30.3
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
....++||++.+.-+|.-|+.++.. .+.+|+.||+..
T Consensus 170 g~~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~~ 206 (371)
T TIGR00342 170 GTQGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFFN 206 (371)
T ss_pred CcCCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEeC
Confidence 4678899999999999988866644 377999999985
No 70
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=66.01 E-value=6.3 Score=29.15 Aligned_cols=70 Identities=21% Similarity=0.419 Sum_probs=42.6
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
||||.=.+ .-++||.|++.. +..+.-|++.+..... ... +-. +. +
T Consensus 2 kVLviGsG--gREHAia~~l~~----s~~v~~v~~aPGN~G~--------------------~~~------~~~--~~-~ 46 (100)
T PF02844_consen 2 KVLVIGSG--GREHAIAWKLSQ----SPSVEEVYVAPGNPGT--------------------AEL------GKN--VP-I 46 (100)
T ss_dssp EEEEEESS--HHHHHHHHHHTT----CTTEEEEEEEE--TTG--------------------GGT------SEE--E--S
T ss_pred EEEEECCC--HHHHHHHHHHhc----CCCCCEEEEeCCCHHH--------------------Hhh------cee--cC-C
Confidence 56776666 567788888654 3456667777721111 111 001 11 1
Q ss_pred ecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 150 EGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 150 ~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.-.. .+.|+++|++.++||+|+|..
T Consensus 47 ~~~d-~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 47 DITD-PEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp -TT--HHHHHHHHHHTTESEEEESSH
T ss_pred CCCC-HHHHHHHHHHcCCCEEEECCh
Confidence 2234 689999999999999999975
No 71
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=66.00 E-value=19 Score=26.66 Aligned_cols=68 Identities=6% Similarity=0.052 Sum_probs=40.4
Q ss_pred HHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC
Q 037436 127 KLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS 206 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~ 206 (236)
..+.+++.++.. ++++++... + ...+-+.....++|+|++|..-+.....+ ..+.....
T Consensus 17 la~k~k~~~~e~--gi~~~i~a~---~-~~e~~~~~~~~~~DvIll~PQi~~~~~~i---------------~~~~~~~~ 75 (104)
T PRK09590 17 MAKKTTEYLKEQ--GKDIEVDAI---T-ATEGEKAIAAAEYDLYLVSPQTKMYFKQF---------------EEAGAKVG 75 (104)
T ss_pred HHHHHHHHHHHC--CCceEEEEe---c-HHHHHHhhccCCCCEEEEChHHHHHHHHH---------------HHHhhhcC
Confidence 344456666644 666554422 2 23455555556799999997643333222 45555667
Q ss_pred CeEEEEeCC
Q 037436 207 RMTIAVRRK 215 (236)
Q Consensus 207 ~PVlvV~~~ 215 (236)
+||.+++..
T Consensus 76 ipv~~I~~~ 84 (104)
T PRK09590 76 KPVVQIPPQ 84 (104)
T ss_pred CCEEEeCHH
Confidence 899998764
No 72
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=63.98 E-value=91 Score=29.47 Aligned_cols=90 Identities=13% Similarity=0.208 Sum_probs=56.1
Q ss_pred cCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChH
Q 037436 76 DSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKG 155 (236)
Q Consensus 76 D~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~ 155 (236)
|..-+...||.+|+.... ..+++|++.+ +.... .....-..-..+.|..+++.+. ...+...+..|++ .
T Consensus 11 DLR~~DN~aL~~A~~~~~---~~~~~vfi~~-~~~~~--~~~~~~~~Fl~~sL~~L~~~L~----~~gi~L~v~~~~~-~ 79 (461)
T COG0415 11 DLRLTDNAALAAACQSGQ---PVIIAVFILD-PEQLG--HASPRHAAFLLQSLQALQQSLA----ELGIPLLVREGDP-E 79 (461)
T ss_pred ccccCChHHHHHHHhcCC---CceEEEEEec-hhhcc--ccCHHHHHHHHHHHHHHHHHHH----HcCCceEEEeCCH-H
Confidence 444555667777766543 2346777776 32221 0111112233445556666555 3456777888999 8
Q ss_pred HHHHHHHHHCCCCEEEEccCC
Q 037436 156 PIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~~ 176 (236)
..|.+++++.+++.|+-...-
T Consensus 80 ~~l~~~~~~~~~~~v~~n~~~ 100 (461)
T COG0415 80 QVLPELAKQLAATTVFWNRDY 100 (461)
T ss_pred HHHHHHHHHhCcceEEeeeee
Confidence 999999999998888887765
No 73
>TIGR00930 2a30 K-Cl cotransporter.
Probab=63.91 E-value=1.4e+02 Score=30.91 Aligned_cols=97 Identities=12% Similarity=0.103 Sum_probs=61.5
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
-+|||.+.........+++|-.+. +....+++.||++.+.. .. .++.+...+++....+.+ +++.=..+
T Consensus 576 PqiLvl~~~p~~~~~Ll~f~~~l~-~~~gl~i~~~v~~~~~~----~~----~~~~~~~~~~~~~~~~~~--~~~~f~~~ 644 (953)
T TIGR00930 576 PQCLVLTGPPVCRPALLDFASQFT-KGKGLMICGSVIQGPRL----EC----VKEAQAAEAKIQTWLEKN--KVKAFYAV 644 (953)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHhc-cCCcEEEEEEEecCchh----hh----HHHHHHHHHHHHHHHHHh--CCCeEEEE
Confidence 469999988777788999998887 44567888899873321 11 111222222333333322 56655556
Q ss_pred EecCChHHHHHHHHHH-----CCCCEEEEccCC
Q 037436 149 TEGKEKGPIIVEEAKR-----QNVSLLVLGQRR 176 (236)
Q Consensus 149 ~~G~~~~~~I~~~a~~-----~~~DLLVmG~~~ 176 (236)
+.+....+++....+- .++..|+||...
T Consensus 645 ~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~ 677 (953)
T TIGR00930 645 VVADDLREGVRHLIQASGLGRMKPNTLVMGYKK 677 (953)
T ss_pred ecCCCHHHHHHHHHHhcCCCCCCCCEEEecCcc
Confidence 6666546777777665 678999999875
No 74
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=63.85 E-value=63 Score=30.66 Aligned_cols=121 Identities=11% Similarity=0.126 Sum_probs=65.2
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEE
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVE 145 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~ 145 (236)
-..++|++++-++..+..++++.-.+. +.+.+|.++..-. .. +-.. ...+ ... . +..+-
T Consensus 68 l~~k~IllgVtGsIAayka~~lvr~L~-k~G~~V~VvmT~s------A~---~fv~---p~~~---~~l-s----~~~V~ 126 (475)
T PRK13982 68 LASKRVTLIIGGGIAAYKALDLIRRLK-ERGAHVRCVLTKA------AQ---QFVT---PLTA---SAL-S----GQRVY 126 (475)
T ss_pred cCCCEEEEEEccHHHHHHHHHHHHHHH-hCcCEEEEEECcC------HH---HHhh---HHHH---HHh-c----CCceE
Confidence 467899999999999999998887774 4577765554322 00 0011 1111 111 1 11121
Q ss_pred EEEEecCC--hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 146 IAITEGKE--KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 146 ~~v~~G~~--~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
........ .... ++.+ ..+|++|+..-.-+.+.++ +.+ +-.+....++-...+|++++|.-.
T Consensus 127 ~d~~~~~~~~~~~H-i~la--~~aD~~vVAPATANTIAKi----A~G--iADnLlt~v~La~~~PvliaPaMN 190 (475)
T PRK13982 127 TDLFDPESEFDAGH-IRLA--RDCDLIVVAPATADLMAKM----ANG--LADDLASAILLAANRPILLAPAMN 190 (475)
T ss_pred ecCCCcccccCccc-hhhh--hhcCEEEEeeCCHHHHHHH----Hcc--ccCcHHHHHHHhcCCCEEEEEcCC
Confidence 21111100 0111 2333 3589999998776655554 111 123333455566799999999654
No 75
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=63.14 E-value=35 Score=29.40 Aligned_cols=56 Identities=9% Similarity=0.090 Sum_probs=39.3
Q ss_pred HHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC---------CCCceeee
Q 037436 157 IIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS---------KLGGYLIT 225 (236)
Q Consensus 157 ~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~---------~~~~~li~ 225 (236)
......++.++|++|+.+...... .-.-+++++..+.+|++|+.+..- ..-||+|-
T Consensus 51 ~~~~~~~~~~pDf~i~isPN~a~P-------------GP~~ARE~l~~~~iP~IvI~D~p~~K~~d~l~~~g~GYIiv 115 (277)
T PRK00994 51 VVKKMLEEWKPDFVIVISPNPAAP-------------GPKKAREILKAAGIPCIVIGDAPGKKVKDAMEEQGLGYIIV 115 (277)
T ss_pred HHHHHHHhhCCCEEEEECCCCCCC-------------CchHHHHHHHhcCCCEEEEcCCCccchHHHHHhcCCcEEEE
Confidence 344566789999999997653321 123578999999999999976432 45677664
No 76
>PRK00919 GMP synthase subunit B; Validated
Probab=62.97 E-value=61 Score=28.86 Aligned_cols=35 Identities=17% Similarity=0.211 Sum_probs=29.2
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
.+++|++.+.-+|.-++.++.+. .+..+++||+..
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~~---lG~~v~aV~vD~ 56 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHRA---IGDRLTPVFVDT 56 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHHH---hCCeEEEEEEEC
Confidence 78999999999999888776552 367899999987
No 77
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=62.05 E-value=78 Score=28.31 Aligned_cols=95 Identities=14% Similarity=0.072 Sum_probs=56.8
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
.+.++++++.+..+|.-+|..+...+......+-+|||.. ...+ ++. .+..+.+.+. .++++.+
T Consensus 36 ~f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VDT-G~~F--pEt--------~efrD~~a~~-----~gl~Liv 99 (312)
T PRK12563 36 ECSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVDT-TWKF--REM--------IDFRDRRAKE-----LGLDLVV 99 (312)
T ss_pred hcCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeCC-CCCC--HHH--------HHHHHHHHHH-----hCCcEEE
Confidence 3567889999999999888888776654456788999865 2222 111 1111122211 1333332
Q ss_pred EEE------------------ecCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 147 AIT------------------EGKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 147 ~v~------------------~G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
... .+.-+...+.++++++++|.+|.|.|..
T Consensus 100 ~~~~~~~~~G~~~~~~~~~~~c~~~Kv~pL~raL~~~g~da~itG~RRd 148 (312)
T PRK12563 100 HHNPDGIARGIVPFRHGSALHTDVAKTQGLKQALDHHGFDAAIGGARRD 148 (312)
T ss_pred ecChHHHHhCCCcccCCHHHHhhHHhHHHHHHHHHhcCCCEEEEecCHH
Confidence 210 0112346788888889999999998853
No 78
>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=61.83 E-value=65 Score=26.22 Aligned_cols=33 Identities=6% Similarity=0.046 Sum_probs=24.6
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLY 103 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llh 103 (236)
+|++++-++..+-.+++..-.+. +.+.+|.++-
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~-~~g~~V~vv~ 33 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLK-EAGVEVHLVI 33 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHH-HCCCEEEEEE
Confidence 58999999999999988887774 4466654443
No 79
>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=61.67 E-value=35 Score=24.72 Aligned_cols=66 Identities=14% Similarity=0.112 Sum_probs=40.3
Q ss_pred HHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC
Q 037436 127 KLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS 206 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~ 206 (236)
.+..+++.++.. ++++++.... ...+.+.+ .++|+|+++..-+.....+ +.......
T Consensus 19 l~~k~~~~~~~~--gi~~~v~a~~----~~~~~~~~--~~~Dvill~pqi~~~~~~i---------------~~~~~~~~ 75 (95)
T TIGR00853 19 LVNKMNKAAEEY--GVPVKIAAGS----YGAAGEKL--DDADVVLLAPQVAYMLPDL---------------KKETDKKG 75 (95)
T ss_pred HHHHHHHHHHHC--CCcEEEEEec----HHHHHhhc--CCCCEEEECchHHHHHHHH---------------HHHhhhcC
Confidence 334556666643 6766555332 23344444 4689999997754444333 55667778
Q ss_pred CeEEEEeCC
Q 037436 207 RMTIAVRRK 215 (236)
Q Consensus 207 ~PVlvV~~~ 215 (236)
+||.+++..
T Consensus 76 ipv~~I~~~ 84 (95)
T TIGR00853 76 IPVEVINGA 84 (95)
T ss_pred CCEEEeChh
Confidence 999998765
No 80
>PRK10867 signal recognition particle protein; Provisional
Probab=61.36 E-value=1.1e+02 Score=28.60 Aligned_cols=92 Identities=13% Similarity=0.056 Sum_probs=49.8
Q ss_pred EEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecC
Q 037436 73 VVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGK 152 (236)
Q Consensus 73 V~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~ 152 (236)
+..-++--+..+...|..++.+.+..+.++-... + .. ...++++..++ ..++.+...-...+
T Consensus 106 vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~----~---------R~---aa~eQL~~~a~--~~gv~v~~~~~~~d 167 (433)
T PRK10867 106 VGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADV----Y---------RP---AAIEQLKTLGE--QIGVPVFPSGDGQD 167 (433)
T ss_pred ECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccc----c---------ch---HHHHHHHHHHh--hcCCeEEecCCCCC
Confidence 3444455666778888777665467777776643 0 00 11122333333 22444432211223
Q ss_pred Ch--HHHHHHHHHHCCCCEEEEccCCCCchhh
Q 037436 153 EK--GPIIVEEAKRQNVSLLVLGQRRKSIVWT 182 (236)
Q Consensus 153 ~~--~~~I~~~a~~~~~DLLVmG~~~~s~~~~ 182 (236)
+. ....+++++..++|+||+-+.++.....
T Consensus 168 p~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~ 199 (433)
T PRK10867 168 PVDIAKAALEEAKENGYDVVIVDTAGRLHIDE 199 (433)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEeCCCCcccCH
Confidence 31 2234456677889999999999865433
No 81
>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=61.22 E-value=1.4e+02 Score=28.41 Aligned_cols=84 Identities=10% Similarity=0.009 Sum_probs=50.9
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe-cCChHHHHHHHHHHC----CCCEEEEccCCCCchhhhhhh
Q 037436 112 VKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE-GKEKGPIIVEEAKRQ----NVSLLVLGQRRKSIVWTLMNR 186 (236)
Q Consensus 112 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~-G~~~~~~I~~~a~~~----~~DLLVmG~~~~s~~~~l~~~ 186 (236)
++++..++..+.++++.+.+.+. ..+.+++.... -.. .+.|.+..++. ++|.||+-....+.-.
T Consensus 13 yg~~~l~~~~~~~~~i~~~l~~~-----~~~~~~v~~~~~v~~-~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~----- 81 (484)
T cd03557 13 YGEEALKQVAAHSREIVDGLNAS-----GKLPVKIVFKPVLTT-PDEILAVCREANADDNCAGVITWMHTFSPAK----- 81 (484)
T ss_pred CChHHHHHHHHHHHHHHHHhccc-----CCCCeEEEEccccCC-HHHHHHHHHHccccCCccEEEEccCCCchHH-----
Confidence 34555555555555555444331 12444444332 122 46777777774 5999999888755432
Q ss_pred ccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 187 WSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 187 ~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
..-.+++...+|||+..-+.
T Consensus 82 ----------~~i~~~~~l~~PvL~~~~q~ 101 (484)
T cd03557 82 ----------MWIAGLTALQKPLLHLHTQF 101 (484)
T ss_pred ----------HHHHHHHHcCCCEEEEccCC
Confidence 33456888999999998774
No 82
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=61.04 E-value=1.1e+02 Score=28.36 Aligned_cols=116 Identities=11% Similarity=0.125 Sum_probs=62.5
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
..++|++++-++..+..++++.-.+ ++.+.+|.++-.-. ..+-.. ...+ ..... . .+-.+
T Consensus 5 ~~k~IllgvTGsiaa~k~~~lv~~L-~~~g~~V~vv~T~~---------A~~fi~---~~~l---~~l~~--~-~V~~~- 64 (399)
T PRK05579 5 AGKRIVLGVSGGIAAYKALELVRRL-RKAGADVRVVMTEA---------AKKFVT---PLTF---QALSG--N-PVSTD- 64 (399)
T ss_pred CCCeEEEEEeCHHHHHHHHHHHHHH-HhCCCEEEEEECHh---------HHHHHh---HHHH---HHhhC--C-ceEcc-
Confidence 5688999999999888888877666 45677765443211 001111 1112 22211 1 12111
Q ss_pred EEEec---CChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 147 AITEG---KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 147 ~v~~G---~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
.... .. ... ++.+ ..+|++|+..-.-+.+.++ +.+ +-.+....++..+.+|++++|
T Consensus 65 -~~~~~~~~~-~~h-i~l~--~~aD~~vVaPaTaNtlaKi----A~G--iaDnllt~~~la~~~pvvi~P 123 (399)
T PRK05579 65 -LWDPAAEAA-MGH-IELA--KWADLVLIAPATADLIAKL----AHG--IADDLLTTTLLATTAPVLVAP 123 (399)
T ss_pred -ccccccCCC-cch-hhcc--cccCEEEEeeCCHHHHHHH----Hcc--cCCcHHHHHHHhcCCCEEEEe
Confidence 1111 11 111 1222 3689999998776655544 111 223444556667799999999
No 83
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=59.42 E-value=85 Score=26.06 Aligned_cols=94 Identities=16% Similarity=0.203 Sum_probs=45.9
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIA 147 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~ 147 (236)
..++|+.+.+.-+|--|. .+..+.+.+|+.||+...+-.. +.. . +..+++.+.+....++.++...
T Consensus 3 ~gk~l~LlSGGiDSpVAa----~lm~krG~~V~~l~f~~~~~~~--~~~----~----~k~~~l~~~l~~~~~~~~~~l~ 68 (197)
T PF02568_consen 3 QGKALALLSGGIDSPVAA----WLMMKRGCEVIALHFDSPPFTG--EKA----R----EKVEELAEKLSEYSPGHKIRLY 68 (197)
T ss_dssp T-EEEEE-SSCCHHHHHH----HHHHCBT-EEEEEEEE-TTTSS--CCC----H----HHHHHHHHHHHCCSTTS-EEEE
T ss_pred CceEEEEecCCccHHHHH----HHHHHCCCEEEEEEEECCCCCC--HHH----H----HHHHHHHHHHHHhCCCcceeEE
Confidence 357899999988887544 4445569999999998523221 111 1 1122333333322234566666
Q ss_pred EEecCC-----------hH----------HHHHHHHHHCCCCEEEEccC
Q 037436 148 ITEGKE-----------KG----------PIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 148 v~~G~~-----------~~----------~~I~~~a~~~~~DLLVmG~~ 175 (236)
++.-.+ .. ..--++|++.+++.||.|-.
T Consensus 69 ~v~~~~~~~~i~~~~~~~~~ci~ckr~M~r~A~~ia~~~ga~~IvTGEs 117 (197)
T PF02568_consen 69 VVDFTEVQKEILRGVKERNPCIDCKRFMYRIAEEIAEEEGADAIVTGES 117 (197)
T ss_dssp EECHHHHHHHHHHHS-GGGHHHHHHHHHHHHHHHHHHHTT--EEE----
T ss_pred EECcHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHHCCCCEEEeCch
Confidence 654211 01 12236778999999999864
No 84
>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=58.76 E-value=52 Score=30.87 Aligned_cols=89 Identities=11% Similarity=0.144 Sum_probs=52.6
Q ss_pred cCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE-ecCCh
Q 037436 76 DSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT-EGKEK 154 (236)
Q Consensus 76 D~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~-~G~~~ 154 (236)
|..-....||..|+. .+ .|+.|+|.+ |..............-..+.|..+.+.++.. |.. ..++ .|++
T Consensus 7 DLRl~DN~aL~~A~~----~~-~vlpvyi~d-p~~~~~~~~~~~~~~fl~~sL~~L~~~L~~~--G~~--L~v~~~g~~- 75 (475)
T TIGR02766 7 DLRVEDNPALAAAAR----AG-PVIPVFVWA-PEEEGQYYPGRVSRWWLKQSLAHLDQSLRSL--GTC--LVTIRSTDT- 75 (475)
T ss_pred CCCcchHHHHHHHHh----CC-CEEEEEEec-hHHhccccccHHHHHHHHHHHHHHHHHHHHc--CCc--eEEEeCCCH-
Confidence 344455567766653 23 699999988 3211000001111123456666666666633 444 4444 3677
Q ss_pred HHHHHHHHHHCCCCEEEEccC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.+.|.+.+++.+++-|.....
T Consensus 76 ~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 76 VAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred HHHHHHHHHHcCCCEEEEecc
Confidence 789999999999999988876
No 85
>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=58.64 E-value=1.2e+02 Score=26.11 Aligned_cols=139 Identities=10% Similarity=0.080 Sum_probs=76.2
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCC----chhHHHHHHHHHHHHHHHHHHHHhhhhCCC
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQ----VKETKGKKLYLRAYEKLHSMKSTCQLKKPG 141 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 141 (236)
+-....=|+..+.-.....+..++.+|++.+-. +.-|.-..+... ...-..+++.......+..+...+... +
T Consensus 25 p~I~saNIACG~HAGDp~~M~~tv~lA~~~gV~-iGAHPsyPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~a~~~--g 101 (242)
T PF03746_consen 25 PYISSANIACGFHAGDPETMRRTVRLAKEHGVA-IGAHPSYPDREGFGRRSMDISPEELRDSVLYQIGALQAIAAAE--G 101 (242)
T ss_dssp TT-SEEEEE-SSSS--HHHHHHHHHHHHHTT-E-EEEE---S-TTTTT-S-----HHHHHHHHHHHHHHHHHHHHHT--T
T ss_pred HHhhhHHHhhcccccCHHHHHHHHHHHHHcCCE-eccCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHc--C
Confidence 345556677778777788899999999886644 456766523222 123344555555566666677777754 6
Q ss_pred ceEEEEEEec---------CChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 142 VQVEIAITEG---------KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 142 v~v~~~v~~G---------~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
.++...=-.| ...+..|++.++..+.+|.+++.. ||..++..++...+++.-
T Consensus 102 ~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a-------------------gs~~~~~A~~~Gl~~~~E 162 (242)
T PF03746_consen 102 VPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA-------------------GSELEKAAKELGLPVVFE 162 (242)
T ss_dssp --EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET-------------------TSHHHHHHHHCT--EEEE
T ss_pred CeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC-------------------CcHHHHHHHHCCCcEEEE
Confidence 6666554444 224789999999999999999944 556667777777777653
Q ss_pred e--CCCCCCCceeeec
Q 037436 213 R--RKSSKLGGYLITT 226 (236)
Q Consensus 213 ~--~~~~~~~~~li~t 226 (236)
- +..=..+|.|++.
T Consensus 163 ~FADR~Y~~dG~Lv~R 178 (242)
T PF03746_consen 163 AFADRAYDDDGSLVPR 178 (242)
T ss_dssp EETTBEB-TTSSBEET
T ss_pred EEEcccCcCCCCEeec
Confidence 2 2222345556644
No 86
>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=57.61 E-value=1.5e+02 Score=27.32 Aligned_cols=117 Identities=9% Similarity=0.078 Sum_probs=62.0
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHH--HHHHhhhhCCCceE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHS--MKSTCQLKKPGVQV 144 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~v~v 144 (236)
..++|++++-++..+..++++.-.+. +.+.+|.++-.-. +.+.+.. +...+. .+ +
T Consensus 2 ~~k~IllgiTGSiaa~~~~~ll~~L~-~~g~~V~vv~T~~-----------------A~~fv~~~~l~~~~~--~~-v-- 58 (390)
T TIGR00521 2 ENKKILLGVTGGIAAYKTVELVRELV-RQGAEVKVIMTEA-----------------AKKFITPLTLEALSG--HK-V-- 58 (390)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHH-hCCCEEEEEECHh-----------------HHHHHHHHHHHHhhC--Cc-e--
Confidence 35789999999999998888886664 4566655443211 1111111 111111 11 1
Q ss_pred EEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 145 EIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 145 ~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
......... ...+ ...-...+|++|+..-..+.+.++ +.+ +..+....++..+.+|++++|.
T Consensus 59 ~~~~~~~~~-~~~~-hi~l~~~aD~~vVaPaTanTlaKi----A~G--iaDnLlt~~~~~~~~plviaPa 120 (390)
T TIGR00521 59 VTELWGPIE-HNAL-HIDLAKWADLILIAPATANTISKI----AHG--IADDLVSTTALAASAPIILAPA 120 (390)
T ss_pred eehhccccc-cccc-hhhcccccCEEEEecCCHHHHHHH----Hcc--cCCcHHHHHHHHhCCCEEEEeC
Confidence 111111111 1111 222224789999988776665554 111 2234444555556699999997
No 87
>PRK02929 L-arabinose isomerase; Provisional
Probab=57.46 E-value=1.7e+02 Score=27.95 Aligned_cols=83 Identities=10% Similarity=0.006 Sum_probs=49.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe-cCChHHHHHHHHHHCC----CCEEEEccCCCCchhhhhhhc
Q 037436 113 KETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE-GKEKGPIIVEEAKRQN----VSLLVLGQRRKSIVWTLMNRW 187 (236)
Q Consensus 113 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~-G~~~~~~I~~~a~~~~----~DLLVmG~~~~s~~~~l~~~~ 187 (236)
.++..++..+.++++.+.+.. ...+.+++.... -.. .+.|.+.+++.+ +|.||+-....+.-.
T Consensus 20 ~~~~l~~~~~~~~~i~~~l~~-----~~~~~~~vv~~~~v~~-~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~------ 87 (499)
T PRK02929 20 GEETLRQVAEHAEEIVDGLNA-----SGKLPVKIVLKPVLTT-PDEITAVCREANYDDNCAGVITWMHTFSPAK------ 87 (499)
T ss_pred ChhHHHHHHHHHHHHHHHhcc-----cCCCCeEEEEcCccCC-HHHHHHHHHHccccCCCcEEEEccCCCchHH------
Confidence 344444444444444444332 112444544221 122 467777777766 999999888765433
Q ss_pred cCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 188 SSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 188 ~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
..-.+++...+|||+..-+.
T Consensus 88 ---------~~i~~~~~l~~PvL~~~~Q~ 107 (499)
T PRK02929 88 ---------MWIRGLSALQKPLLHLHTQF 107 (499)
T ss_pred ---------HHHHHHHHcCCCEEEEecCC
Confidence 33456889999999998744
No 88
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=57.40 E-value=1.5e+02 Score=27.03 Aligned_cols=88 Identities=14% Similarity=0.147 Sum_probs=53.3
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
...+|+|++.+.-+|.-++.++. ..+.+|+.||+.... + + .+.+++.|+.. ++...+
T Consensus 4 ~~~kVlVa~SGGvDSsv~a~lL~----~~G~eV~av~~~~~~-----~----e--------~~~a~~va~~L--GI~~~v 60 (362)
T PRK14664 4 SKKRVLVGMSGGIDSTATCLMLQ----EQGYEIVGVTMRVWG-----D----E--------PQDARELAARM--GIEHYV 60 (362)
T ss_pred CCCEEEEEEeCCHHHHHHHHHHH----HcCCcEEEEEecCcc-----h----h--------HHHHHHHHHHh--CCCEEE
Confidence 34689999999998887665433 346778888885310 0 0 01233333322 333322
Q ss_pred EEEe-----------------cC-----------ChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 147 AITE-----------------GK-----------EKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 147 ~v~~-----------------G~-----------~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.-.. |. .+...+.++|++.++|.|..|+..+
T Consensus 61 vd~~~~f~~~v~~~~~~~~~~G~tpnpC~~Cn~~iKf~~L~~~A~~~G~~~IATGHyar 119 (362)
T PRK14664 61 ADERVPFKDTIVKNFIDEYRQGRTPNPCVMCNPLFKFRMLIEWADKLGCAWIATGHYSR 119 (362)
T ss_pred EeChHHHHHHHHHHhHHHHHcCCCCCCchhhhHHHHHHHHHHHHHHcCCCEEEECCccc
Confidence 2111 11 1245689999999999999999864
No 89
>PRK05370 argininosuccinate synthase; Validated
Probab=57.29 E-value=1.6e+02 Score=27.66 Aligned_cols=107 Identities=15% Similarity=0.108 Sum_probs=61.2
Q ss_pred CCCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHH--------------HHHHH
Q 037436 65 ERYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAY--------------EKLHS 130 (236)
Q Consensus 65 ~~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~--------------~~l~~ 130 (236)
....++|++++.+.-++.-++.|..+- +.+|+.+++.--.... ++ .+..++++. +..+.
T Consensus 8 l~~~~KVvLAYSGGLDTSv~l~wL~e~----~~eVia~~aDvGQ~~~--ed-~~~i~~kA~~~GA~~~~viDlr~eF~e~ 80 (447)
T PRK05370 8 LPVGQRVGIAFSGGLDTSAALLWMRQK----GAVPYAYTANLGQPDE--DD-YDAIPRRAMEYGAENARLIDCRAQLVAE 80 (447)
T ss_pred CCCCCEEEEEecCCchHHHHHHHHHhc----CCeEEEEEEECCCCCc--cc-hHHHHHHHHHhCCCEEEEeccHHHHHHH
Confidence 457789999999999998899888653 7889999987522101 00 111111111 11112
Q ss_pred HHHHhhhh--C----CC-ceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCc
Q 037436 131 MKSTCQLK--K----PG-VQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSI 179 (236)
Q Consensus 131 ~~~~~~~~--~----~~-v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~ 179 (236)
....++.. + .+ .-..+.+. -...+..|++.|++.+++.|.-|..+++.
T Consensus 81 ~i~aI~anA~Y~~~~e~~Y~l~t~La-Rplia~~lv~~A~~~ga~aIAHG~TGKGN 135 (447)
T PRK05370 81 GIAAIQCGAFHISTGGVTYFNTTPLG-RAVTGTMLVAAMKEDGVNIWGDGSTYKGN 135 (447)
T ss_pred HHHHHHcCCccccccCccccCCCcch-HHHHHHHHHHHHHHhCCcEEEEcCCCCCC
Confidence 21222211 0 00 00001111 12247899999999999999999986643
No 90
>PRK08349 hypothetical protein; Validated
Probab=57.08 E-value=82 Score=25.67 Aligned_cols=34 Identities=15% Similarity=0.068 Sum_probs=27.0
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
.+++|++.+..+|.-++.++.. .+.+|+.+|+..
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d~ 34 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFRQ 34 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence 3689999999999988865543 367999999976
No 91
>COG2069 CdhD CO dehydrogenase/acetyl-CoA synthase delta subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=56.92 E-value=1.3e+02 Score=26.86 Aligned_cols=87 Identities=18% Similarity=0.139 Sum_probs=48.3
Q ss_pred HHHHHHHHHhhccCCCEEEEEEEEecCCCCch---hHHHHHHHHHH------------------HHHHHHHHHHhhhhCC
Q 037436 82 KGALEWALSHTVQCQDTIVLLYVIAKSSKQVK---ETKGKKLYLRA------------------YEKLHSMKSTCQLKKP 140 (236)
Q Consensus 82 ~~al~~A~~la~~~~~~l~llhV~~~~~~~~~---~~~~~~~~~~~------------------~~~l~~~~~~~~~~~~ 140 (236)
+.-.+||-...+.+++.++-+|.+...+...+ .+..+..+.-. -..|+.+.+.|+
T Consensus 150 edP~eWArk~Vk~fgadmvTiHlIsTdPki~D~p~~EAak~lEdvLqAVdvPiiiGGSGnpeKDpeVlekaAEvaE---- 225 (403)
T COG2069 150 EDPGEWARKCVKKFGADMVTIHLISTDPKIKDTPAKEAAKTLEDVLQAVDVPIIIGGSGNPEKDPEVLEKAAEVAE---- 225 (403)
T ss_pred hCHHHHHHHHHHHhCCceEEEEeecCCccccCCCHHHHHHHHHHHHHhcCcCEEecCCCCCccCHHHHHHHHHhhc----
Confidence 44678999999999999999998874444322 11111111111 124444444444
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEE
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVL 172 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVm 172 (236)
|-.+-.....-+--.+.|.+.|.+++.++|--
T Consensus 226 GeRclLaSanldlDy~~ia~AA~ky~H~VLsw 257 (403)
T COG2069 226 GERCLLASANLDLDYERIAEAALKYDHVVLSW 257 (403)
T ss_pred CceEEeeccccccCHHHHHHHHHhcCceEEEe
Confidence 33333333333323689999998765554433
No 92
>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=56.78 E-value=95 Score=27.47 Aligned_cols=94 Identities=16% Similarity=0.081 Sum_probs=56.4
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIA 147 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~ 147 (236)
+.++++++.+..+|.-+|..+........-.+.+||+.. ...+ . +..+..+.+.+. .++++.+.
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~IDT-G~~F--~--------Et~efrd~~a~~-----~gl~l~v~ 82 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVDT-GWKF--R--------EMIAFRDHMVAK-----YGLRLIVH 82 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEec-CCCC--H--------HHHHHHHHHHHH-----hCCCEEEE
Confidence 344678899999999888777666543345789999976 2111 1 122222222221 14444443
Q ss_pred EEe-----cC-------------ChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 148 ITE-----GK-------------EKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 148 v~~-----G~-------------~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
..+ |. -+...+.++++++++|.++.|.+..
T Consensus 83 ~~~~~~~~g~~~~~~~~~~~c~vlK~~pL~~al~e~g~da~itG~RRD 130 (294)
T TIGR02039 83 SNEEGIADGINPFTEGSALHTDIMKTEALRQALDKNQFDAAFGGARRD 130 (294)
T ss_pred echhhhhcCccccccChHHHhhHHHHHHHHHHHHHcCCCEEEecCChh
Confidence 221 11 1235678888899999999998753
No 93
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=56.66 E-value=80 Score=28.43 Aligned_cols=34 Identities=12% Similarity=0.117 Sum_probs=25.9
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
++|+|++.+.-+|.-++..+.+ .+.+|+.+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEeC
Confidence 3799999999999877655533 356788998875
No 94
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=56.65 E-value=26 Score=27.27 Aligned_cols=55 Identities=11% Similarity=-0.079 Sum_probs=36.2
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC-CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK-SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~-s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
...|.+++++++++.||+|-.-. ++...... +..-.+++.|-...++||..+-..
T Consensus 43 ~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~------~~v~~f~~~L~~~~~~~v~~~DEr 98 (138)
T PRK00109 43 WDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRT------ERARKFANRLEGRFGLPVVLVDER 98 (138)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCCCcCHHH------HHHHHHHHHHHHHhCCCEEEEcCC
Confidence 68899999999999999996532 22111000 022346667766678999988654
No 95
>PRK12569 hypothetical protein; Provisional
Probab=56.00 E-value=1.3e+02 Score=25.87 Aligned_cols=132 Identities=10% Similarity=0.093 Sum_probs=81.0
Q ss_pred EEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCC----chhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 73 VVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQ----VKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 73 V~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
|+..+.-.....++.++.+|++.+-.| .-|.-...... ..+-..+++.......+..++..|... +.++...=
T Consensus 37 IACG~HAGDp~~M~~tv~lA~~~~V~I-GAHPsyPD~~gFGRr~m~~s~~el~~~v~yQigaL~~~~~~~--g~~l~hVK 113 (245)
T PRK12569 37 IATGFHAGDPNIMRRTVELAKAHGVGI-GAHPGFRDLVGFGRRHINASPQELVNDVLYQLGALREFARAH--GVRLQHVK 113 (245)
T ss_pred HhccccCCCHHHHHHHHHHHHHcCCEe-ccCCCCCcCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHc--CCeeEEec
Confidence 344444455677888888888766443 34554412211 123345556666666677778888754 66665553
Q ss_pred Eec---------CChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEE--EeCCCC
Q 037436 149 TEG---------KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIA--VRRKSS 217 (236)
Q Consensus 149 ~~G---------~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlv--V~~~~~ 217 (236)
-.| ...+..|++.+++.+.+|++++.. ||..+...+....+++. +.+..=
T Consensus 114 PHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~-------------------~s~~~~~A~~~Gl~~~~E~FADR~Y 174 (245)
T PRK12569 114 PHGALYMHAARDEALARLLVEALARLDPLLILYCMD-------------------GSATERAARELGQPVVREFYADRDY 174 (245)
T ss_pred CCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecC-------------------CcHHHHHHHHcCCCeEEEEEecCcc
Confidence 334 234789999999999999998843 44556666777766664 334444
Q ss_pred CCCceeeec
Q 037436 218 KLGGYLITT 226 (236)
Q Consensus 218 ~~~~~li~t 226 (236)
..+|.|++.
T Consensus 175 ~~dG~Lv~R 183 (245)
T PRK12569 175 DDSGSIVFT 183 (245)
T ss_pred CCCCCEecC
Confidence 456667644
No 96
>PRK00509 argininosuccinate synthase; Provisional
Probab=55.25 E-value=1.8e+02 Score=27.01 Aligned_cols=37 Identities=14% Similarity=0.232 Sum_probs=30.3
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+..+|+|++.+.-+|.-++.|+.+. .+.+|+.+++..
T Consensus 1 ~~~kVvva~SGGlDSsvla~~l~e~---lG~eViavt~d~ 37 (399)
T PRK00509 1 MKKKVVLAYSGGLDTSVIIKWLKET---YGCEVIAFTADV 37 (399)
T ss_pred CCCeEEEEEcCCHHHHHHHHHHHHh---hCCeEEEEEEec
Confidence 3568999999999999888887653 267899999976
No 97
>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=54.51 E-value=96 Score=27.58 Aligned_cols=35 Identities=20% Similarity=0.230 Sum_probs=28.0
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
.+|+|++.+.-+|.-++.++... .+.+++++|+..
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~---~G~~v~av~vd~ 51 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRA---IGDRLTCVFVDH 51 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHH---hCCCEEEEEEeC
Confidence 67999999999998777666442 357899999986
No 98
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=54.03 E-value=1.6e+02 Score=26.19 Aligned_cols=121 Identities=14% Similarity=0.148 Sum_probs=0.0
Q ss_pred HhHHHHHHHHHHhhcc--CCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCCh--
Q 037436 79 LDAKGALEWALSHTVQ--CQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEK-- 154 (236)
Q Consensus 79 ~~s~~al~~A~~la~~--~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~-- 154 (236)
...+.+-+.....+.. .+.++++-|... ..+.++....... +-.+.+.+.++.|.
T Consensus 100 ~~~~~a~~~ia~~~a~~i~dg~~IlTh~~S-------------------~~v~~~l~~A~~~--~k~~~V~VtESRP~~e 158 (301)
T COG1184 100 DRVEKAKERIAEIGAERIHDGDVILTHSFS-------------------KTVLEVLKTAADR--GKRFKVIVTESRPRGE 158 (301)
T ss_pred HHHHHHHHHHHHHHHhhccCCCEEEEecCc-------------------HHHHHHHHHhhhc--CCceEEEEEcCCCcch
Q ss_pred HHHHHHHHHHCC-----------------CCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 155 GPIIVEEAKRQN-----------------VSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 155 ~~~I~~~a~~~~-----------------~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
+....+..++.+ +|.+++|...-..-..+++. ...+..--+.+++..|++++-..-|
T Consensus 159 G~~~ak~L~~~gI~~~~I~Dsa~~~~~~~vd~VivGad~I~~nG~lvnk------iGT~~lA~~A~e~~~Pf~v~aesyK 232 (301)
T COG1184 159 GRIMAKELRQSGIPVTVIVDSAVGAFMSRVDKVLVGADAILANGALVNK------IGTSPLALAARELRVPFYVVAESYK 232 (301)
T ss_pred HHHHHHHHHHcCCceEEEechHHHHHHHhCCEEEECccceecCCcEEec------cchHHHHHHHHHhCCCEEEEeeeec
Q ss_pred CCCceeeec
Q 037436 218 KLGGYLITT 226 (236)
Q Consensus 218 ~~~~~li~t 226 (236)
-+..|+..+
T Consensus 233 f~p~~~~~~ 241 (301)
T COG1184 233 FVPKTLLDT 241 (301)
T ss_pred ccccccCCC
No 99
>PRK04527 argininosuccinate synthase; Provisional
Probab=53.47 E-value=1.6e+02 Score=27.23 Aligned_cols=36 Identities=6% Similarity=0.114 Sum_probs=29.5
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
|.++|+|++.+.-+|.-++.|+.. .+.+|+.|++..
T Consensus 1 ~~~kVvVA~SGGvDSSvla~~l~e----~G~~Viavt~d~ 36 (400)
T PRK04527 1 SSKDIVLAFSGGLDTSFCIPYLQE----RGYAVHTVFADT 36 (400)
T ss_pred CCCcEEEEEcCChHHHHHHHHHHH----cCCcEEEEEEEe
Confidence 346899999999999989888765 267899999876
No 100
>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=53.19 E-value=84 Score=27.75 Aligned_cols=34 Identities=18% Similarity=0.200 Sum_probs=26.5
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+.-+|.-++..+... .+.+++++|+..
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd~ 34 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVDN 34 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEecC
Confidence 5899999999998777666542 356799999976
No 101
>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=51.31 E-value=1.1e+02 Score=23.46 Aligned_cols=34 Identities=12% Similarity=-0.043 Sum_probs=23.6
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+++|++.+..+|..++.++.... +-++.++|+..
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~---~~~v~~v~~~~ 36 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKY---GLNPLAVTVDN 36 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHh---CCceEEEEeCC
Confidence 58899999888888777765432 22666777754
No 102
>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=50.76 E-value=1.3e+02 Score=25.12 Aligned_cols=80 Identities=19% Similarity=0.152 Sum_probs=51.9
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEec-----------CChHHHHHHHHHHCCC-CEEEEccCCCCc-hhhhhhhccCCCc
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEG-----------KEKGPIIVEEAKRQNV-SLLVLGQRRKSI-VWTLMNRWSSKKK 192 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G-----------~~~~~~I~~~a~~~~~-DLLVmG~~~~s~-~~~l~~~~~~~~~ 192 (236)
..++.+.+.+ ...+++++++..+.- --.+.-|++..+..+. |.|++-..--.. -..+
T Consensus 110 ~~l~~~~~~l-~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~~~~~~f--------- 179 (204)
T PF04459_consen 110 PFLKPLVEKL-NRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLRHGEGVF--------- 179 (204)
T ss_pred HHHHHHHHHH-hccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhcCCCCcc---------
Confidence 3444444444 224577887776652 2237788888876444 899988653211 1222
Q ss_pred ccCcHHHHHHHhCCCeEEEEeCC
Q 037436 193 AVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 193 ~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
+-+-+.+.+.+...+||.+|+..
T Consensus 180 LDD~t~~el~~~lg~~v~vv~~~ 202 (204)
T PF04459_consen 180 LDDMTLEELEERLGVPVIVVRGP 202 (204)
T ss_pred CCCCcHHHHHHHhCCcEEEeCCC
Confidence 45778899999999999999864
No 103
>PRK05406 LamB/YcsF family protein; Provisional
Probab=50.58 E-value=1.2e+02 Score=26.28 Aligned_cols=131 Identities=11% Similarity=0.094 Sum_probs=80.5
Q ss_pred EEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCC----chhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 73 VVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQ----VKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 73 V~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
|+..+.-.....+..++.+|++.+-.| .-|.-...... ..+-..+++.......+..++..|+.. +.++...=
T Consensus 34 IACG~HAGDp~~M~~tv~lA~~~gV~I-GAHPgypD~~gFGRR~m~~s~~el~~~v~yQigAL~~~a~~~--g~~l~hVK 110 (246)
T PRK05406 34 IACGFHAGDPAVMRRTVRLAKENGVAI-GAHPGYPDLEGFGRRNMDLSPEELYALVLYQIGALQAIARAA--GGRVSHVK 110 (246)
T ss_pred HhccccCCCHHHHHHHHHHHHHcCCeE-ccCCCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHc--CCeeEEeC
Confidence 444444455677888888988766443 34554412111 123345566666666777788888854 66665554
Q ss_pred Eec---------CChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE--eCCCC
Q 037436 149 TEG---------KEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV--RRKSS 217 (236)
Q Consensus 149 ~~G---------~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV--~~~~~ 217 (236)
-.| ...+..|++.++..+.+|++++.. |+..++..+....+++.= -+..=
T Consensus 111 PHGALYN~~~~d~~~a~av~~ai~~~~~~l~l~~~~-------------------~s~~~~~A~~~Gl~~~~E~FADR~Y 171 (246)
T PRK05406 111 PHGALYNMAAKDPALADAVAEAVAAVDPSLILVGLA-------------------GSELIRAAEEAGLRTASEVFADRAY 171 (246)
T ss_pred ccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecC-------------------ChHHHHHHHHcCCcEEEEEEecCCc
Confidence 334 234789999999999999999943 445566677777777643 23333
Q ss_pred CCCceeee
Q 037436 218 KLGGYLIT 225 (236)
Q Consensus 218 ~~~~~li~ 225 (236)
..+|.|++
T Consensus 172 ~~dG~Lv~ 179 (246)
T PRK05406 172 TADGTLVP 179 (246)
T ss_pred CCCCCCcC
Confidence 34555654
No 104
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=50.00 E-value=99 Score=26.14 Aligned_cols=50 Identities=18% Similarity=0.265 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 122 LRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 122 ~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
...-+.+.++++..... +.++.+.+--|-. .+.|- .+.+.++|.+|+|+.
T Consensus 152 ~~~l~KI~~l~~~~~~~--~~~~~IeVDGGI~-~eti~-~l~~aGaDi~V~GSa 201 (223)
T PRK08745 152 PSALDKLRAIRKKIDAL--GKPIRLEIDGGVK-ADNIG-AIAAAGADTFVAGSA 201 (223)
T ss_pred HHHHHHHHHHHHHHHhc--CCCeeEEEECCCC-HHHHH-HHHHcCCCEEEEChh
Confidence 33444555566655533 4445555444555 45554 555679999999964
No 105
>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=49.74 E-value=70 Score=23.03 Aligned_cols=65 Identities=14% Similarity=0.215 Sum_probs=38.5
Q ss_pred HHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCC
Q 037436 128 LHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSR 207 (236)
Q Consensus 128 l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~ 207 (236)
++.+++.++.. ++++++.... . ..+-+.. .++|+|+++..-...+..+ +..+....+
T Consensus 16 ~~ki~~~~~~~--~~~~~v~~~~--~--~~~~~~~--~~~Diil~~Pqv~~~~~~i---------------~~~~~~~~~ 72 (96)
T cd05564 16 VKKMKKAAEKR--GIDAEIEAVP--E--SELEEYI--DDADVVLLGPQVRYMLDEV---------------KKKAAEYGI 72 (96)
T ss_pred HHHHHHHHHHC--CCceEEEEec--H--HHHHHhc--CCCCEEEEChhHHHHHHHH---------------HHHhccCCC
Confidence 44566666644 6665544332 2 2333333 5789999997754444333 334456689
Q ss_pred eEEEEeCC
Q 037436 208 MTIAVRRK 215 (236)
Q Consensus 208 PVlvV~~~ 215 (236)
||.+++..
T Consensus 73 pv~~I~~~ 80 (96)
T cd05564 73 PVAVIDMM 80 (96)
T ss_pred cEEEcChH
Confidence 99999875
No 106
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=49.72 E-value=1.4e+02 Score=24.49 Aligned_cols=49 Identities=8% Similarity=-0.042 Sum_probs=33.3
Q ss_pred cCChHHHHHHHHHHCCCCEEEEc----cCCCCchhhhhhhccCCCcccCcHHHHHHHhCC-CeEEEEeCC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLG----QRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS-RMTIAVRRK 215 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG----~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~-~PVlvV~~~ 215 (236)
... ++..++.+++..+|+|+|. -...++. ...+++....| ++++++-..
T Consensus 33 ~~~-~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~---------------~~i~~i~~~~p~~~iivlt~~ 86 (207)
T PRK15411 33 IET-VDDLAIACDSLRPSVVFINEDCFIHDASNS---------------QRIKQIINQHPNTLFIVFMAI 86 (207)
T ss_pred cCC-HHHHHHHHhccCCCEEEEeCcccCCCCChH---------------HHHHHHHHHCCCCeEEEEECC
Confidence 344 5667778888889999999 3333222 25677777666 898888543
No 107
>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=49.18 E-value=1.1e+02 Score=27.62 Aligned_cols=33 Identities=15% Similarity=0.161 Sum_probs=24.4
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+.-+|.-++..+.+ .+.+|+.+|+..
T Consensus 1 kVlValSGGvDSsvla~lL~~----~g~~v~~v~i~~ 33 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE----QGYEVIGVFMKN 33 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEec
Confidence 489999999888877655543 356788888764
No 108
>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=49.12 E-value=2e+02 Score=25.74 Aligned_cols=69 Identities=12% Similarity=0.134 Sum_probs=38.7
Q ss_pred HHHHHHHhhhhCCCceEEEEEEecCCh---HHHHHHHHHHCCCCEEE-EccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 128 LHSMKSTCQLKKPGVQVEIAITEGKEK---GPIIVEEAKRQNVSLLV-LGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 128 l~~~~~~~~~~~~~v~v~~~v~~G~~~---~~~I~~~a~~~~~DLLV-mG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
.+++.+.++.. ++.+++.+..|.+. ...+.+.+++.++|+|| +|.- +.+ +++..+..
T Consensus 38 ~~~v~~~l~~~--~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGG--s~~---------------D~aK~ia~ 98 (349)
T cd08550 38 RPRFEAALAKS--IIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGG--KTL---------------DTAKAVAD 98 (349)
T ss_pred HHHHHHHHHhc--CCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCc--HHH---------------HHHHHHHH
Confidence 34455555432 56555555555542 34567777888999877 5522 111 23333333
Q ss_pred hCCCeEEEEeCC
Q 037436 204 NSSRMTIAVRRK 215 (236)
Q Consensus 204 ~s~~PVlvV~~~ 215 (236)
...+|++.||=.
T Consensus 99 ~~~~p~i~VPTt 110 (349)
T cd08550 99 RLDKPIVIVPTI 110 (349)
T ss_pred HcCCCEEEeCCc
Confidence 446888888853
No 109
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=48.66 E-value=1.5e+02 Score=27.54 Aligned_cols=22 Identities=23% Similarity=0.238 Sum_probs=15.8
Q ss_pred HHHHHHHHHHCCCCEEEEccCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
+..|++.+++.+.+...+|+.+
T Consensus 245 ~~~ll~~a~~~g~~~~wigs~~ 266 (458)
T cd06375 245 ARELLAAAKRLNASFTWVASDG 266 (458)
T ss_pred HHHHHHHHHHcCCcEEEEEecc
Confidence 5667777777777777777654
No 110
>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=48.43 E-value=65 Score=30.05 Aligned_cols=77 Identities=16% Similarity=0.210 Sum_probs=53.3
Q ss_pred CceEEEEEEecCC--------hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 141 GVQVEIAITEGKE--------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 141 ~v~v~~~v~~G~~--------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
+.++.--++.|+. ....|++++++.++|++|.|.-=..+-=+. ..|.++..+-.+..||++.-
T Consensus 43 ~~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG~---------acg~va~aV~e~~~IP~vta 113 (431)
T TIGR01917 43 DAEIVATVVCGDSFFGENLEEAKAKVLEMIKGANPDIFIAGPAFNAGRYGM---------AAGAITKAVQDELGIKAFTA 113 (431)
T ss_pred CCEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHHH---------HHHHHHHHHHHhhCCCeEEE
Confidence 5666666777754 236899999999999999998643222223 56778888888899999876
Q ss_pred eCCCC------CCCceeeec
Q 037436 213 RRKSS------KLGGYLITT 226 (236)
Q Consensus 213 ~~~~~------~~~~~li~t 226 (236)
=.... +..-|++-|
T Consensus 114 My~ENpgvd~yk~~vyIv~t 133 (431)
T TIGR01917 114 MYEENPGADMFKKEVYVIPT 133 (431)
T ss_pred ecccChHHHHHhhCcEEEEC
Confidence 43321 334566655
No 111
>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=48.25 E-value=66 Score=30.02 Aligned_cols=77 Identities=14% Similarity=0.189 Sum_probs=53.0
Q ss_pred CceEEEEEEecCC--------hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 141 GVQVEIAITEGKE--------KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 141 ~v~v~~~v~~G~~--------~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
+.++.--++.|+. ....|++++++.++|++|.|.-=..+-=+. ..|.++..+-.+..||++.-
T Consensus 43 ~~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG~---------acg~va~aV~e~~~IP~vt~ 113 (431)
T TIGR01918 43 DAEVVHTVVCGDSFFGENLEEAVARVLEMLKDKEPDIFIAGPAFNAGRYGV---------ACGEICKVVQDKLNVPAVTS 113 (431)
T ss_pred CCEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHHH---------HHHHHHHHHHHhhCCCeEEE
Confidence 5666666777754 236899999999999999998643222223 56778888888899999876
Q ss_pred eCCCC------CCCceeeec
Q 037436 213 RRKSS------KLGGYLITT 226 (236)
Q Consensus 213 ~~~~~------~~~~~li~t 226 (236)
=.... +..-|++-|
T Consensus 114 My~ENpgvd~yk~~vyIv~t 133 (431)
T TIGR01918 114 MYVENPGVDMFKKDVYVMIT 133 (431)
T ss_pred ecccChHHHHHhhCcEEEEC
Confidence 43321 334556555
No 112
>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=48.17 E-value=1.6e+02 Score=24.30 Aligned_cols=84 Identities=17% Similarity=0.149 Sum_probs=49.0
Q ss_pred EEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe--
Q 037436 73 VVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE-- 150 (236)
Q Consensus 73 V~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~-- 150 (236)
++.-.++.+..++..+..++...++.++++.+-.. ...+..+.+.. .++.--+.+..
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~G~~---------------~~~~~~~~l~~------~G~d~V~~~~~~~ 87 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSMGPP---------------QAEEALREALA------MGADRAILVSDRA 87 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEECCH---------------HHHHHHHHHHH------cCCCEEEEEeccc
Confidence 44445667788888999988877777777666430 01111112211 13322222211
Q ss_pred -----cCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 151 -----GKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 151 -----G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+.....|.+.+++.++|+|++|+...
T Consensus 88 ~~~~~~e~~a~al~~~i~~~~p~lVL~~~t~~ 119 (202)
T cd01714 88 FAGADTLATAKALAAAIKKIGVDLILTGKQSI 119 (202)
T ss_pred ccCCChHHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 112245788888888999999998764
No 113
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=47.81 E-value=25 Score=33.76 Aligned_cols=57 Identities=18% Similarity=0.289 Sum_probs=42.2
Q ss_pred HHHHHHHHHHCCCCEEEEccC---CCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQR---RKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~---~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
.++|++.|++.++|||++|.. ...+.+..|.+ .++..-.||+..-||-+=++.+++.
T Consensus 41 FeEIl~iA~e~~VDmiLlGGDLFHeNkPSr~~L~~------~i~lLRryClgdkP~~le~lSD~s~ 100 (646)
T KOG2310|consen 41 FEEILEIAQENDVDMILLGGDLFHENKPSRKTLHR------CLELLRRYCLGDKPVQLEILSDQSV 100 (646)
T ss_pred HHHHHHHHHhcCCcEEEecCcccccCCccHHHHHH------HHHHHHHHccCCCceeeEEecccce
Confidence 789999999999999999974 22333333222 4566778999998998888876653
No 114
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=46.62 E-value=2e+02 Score=25.11 Aligned_cols=88 Identities=18% Similarity=0.196 Sum_probs=52.1
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
.+++|++.+.-+|.-.+..|.+. .+..+..+-|.. |... ....+ .+...++.- +++.++.-
T Consensus 18 ~kv~vAfSGGvDSslLa~la~~~---lG~~v~AvTv~s-P~~p--~~e~e-----------~A~~~A~~i--Gi~H~~i~ 78 (269)
T COG1606 18 KKVVVAFSGGVDSSLLAKLAKEA---LGDNVVAVTVDS-PYIP--RREIE-----------EAKNIAKEI--GIRHEFIK 78 (269)
T ss_pred CeEEEEecCCccHHHHHHHHHHH---hccceEEEEEec-CCCC--hhhhh-----------HHHHHHHHh--CCcceeee
Confidence 38999999988888655555443 357888888876 4322 11111 112221211 23222221
Q ss_pred Ee--c---------------CChHHHHHHHHHHCCCCEEEEccC
Q 037436 149 TE--G---------------KEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 149 ~~--G---------------~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.. + ......|++.|.++++|+|+=|+.
T Consensus 79 ~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 79 MNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred hhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 11 1 123679999999999999999986
No 115
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=46.45 E-value=1.6e+02 Score=25.05 Aligned_cols=52 Identities=10% Similarity=0.206 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 120 LYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 120 ~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.....-+.+.+++++.... +.++.+.+--|-. .+.|. .+.+-++|.+|+|+.
T Consensus 148 fi~~~l~KI~~lr~~~~~~--~~~~~IeVDGGI~-~~~i~-~~~~aGad~~V~Gss 199 (229)
T PRK09722 148 FIPEMLDKIAELKALRERN--GLEYLIEVDGSCN-QKTYE-KLMEAGADVFIVGTS 199 (229)
T ss_pred ccHHHHHHHHHHHHHHHhc--CCCeEEEEECCCC-HHHHH-HHHHcCCCEEEEChH
Confidence 3444455555666666543 5555555444555 55555 445679999999964
No 116
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=46.43 E-value=1.2e+02 Score=25.82 Aligned_cols=49 Identities=12% Similarity=0.143 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 123 RAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 123 ~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
..-+.+.++++....+ +.++.+.+--|-. .+.+. .+.+-++|.+|+|+.
T Consensus 161 ~~l~KI~~lr~~~~~~--~~~~~IeVDGGI~-~~ti~-~l~~aGaD~~V~GSa 209 (228)
T PRK08091 161 LILDRVIQVENRLGNR--RVEKLISIDGSMT-LELAS-YLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHHHHHHHhc--CCCceEEEECCCC-HHHHH-HHHHCCCCEEEEChh
Confidence 3444455566655543 5555544444444 44444 555689999999964
No 117
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=45.91 E-value=1.9e+02 Score=24.81 Aligned_cols=75 Identities=13% Similarity=0.104 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 124 AYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 124 ~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
..+.+..+.+.+... +..+-+.....++..+..++...++++|=||+.+...+ .. ....+.+
T Consensus 16 f~~ii~gIe~~a~~~--Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~~-~~---------------~l~~~~~ 77 (279)
T PF00532_consen 16 FAEIIRGIEQEAREH--GYQLLLCNTGDDEEKEEYIELLLQRRVDGIILASSEND-DE---------------ELRRLIK 77 (279)
T ss_dssp HHHHHHHHHHHHHHT--TCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEESSSCT-CH---------------HHHHHHH
T ss_pred HHHHHHHHHHHHHHc--CCEEEEecCCCchHHHHHHHHHHhcCCCEEEEecccCC-hH---------------HHHHHHH
Confidence 345556666666644 67665544444443347777888899999999865433 12 2244444
Q ss_pred hCCCeEEEEeCCCC
Q 037436 204 NSSRMTIAVRRKSS 217 (236)
Q Consensus 204 ~s~~PVlvV~~~~~ 217 (236)
. .+|++++-+...
T Consensus 78 ~-~iPvV~~~~~~~ 90 (279)
T PF00532_consen 78 S-GIPVVLIDRYID 90 (279)
T ss_dssp T-TSEEEEESS-SC
T ss_pred c-CCCEEEEEeccC
Confidence 4 899999987743
No 118
>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=45.70 E-value=1.3e+02 Score=24.64 Aligned_cols=33 Identities=27% Similarity=0.234 Sum_probs=26.5
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+++|++.+..+|.-++.++.+ .+.+++.|++..
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~ 33 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLT 33 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEe
Confidence 478999999999988888877 366788877765
No 119
>PRK14057 epimerase; Provisional
Probab=45.61 E-value=1.4e+02 Score=25.79 Aligned_cols=52 Identities=13% Similarity=-0.007 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 120 LYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 120 ~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.....-+.+.++++....+ +.++.+.+--|-. .+.|. .+.+-++|.+|+|+.
T Consensus 172 Fi~~~l~KI~~lr~~~~~~--~~~~~IeVDGGI~-~~ti~-~l~~aGad~~V~GSa 223 (254)
T PRK14057 172 RSSDLHERVAQLLCLLGDK--REGKIIVIDGSLT-QDQLP-SLIAQGIDRVVSGSA 223 (254)
T ss_pred ccHHHHHHHHHHHHHHHhc--CCCceEEEECCCC-HHHHH-HHHHCCCCEEEEChH
Confidence 3344445555666666543 4455555444444 45544 555689999999964
No 120
>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=45.52 E-value=53 Score=25.20 Aligned_cols=55 Identities=11% Similarity=-0.055 Sum_probs=36.3
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC-CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK-SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~-s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
...|.+.+++++++.||+|-.-+ .+...-.. +..-.+++.|-+..++||..+-..
T Consensus 37 ~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a------~~v~~f~~~L~~~~~~~v~~~DEr 92 (130)
T TIGR00250 37 WSRIEELLKEWTPDKIVVGLPLNMDGTEGPLT------ERAQKFANRLEGRFGVPVVLWDER 92 (130)
T ss_pred HHHHHHHHHHcCCCEEEEeccCCCCcCcCHHH------HHHHHHHHHHHHHhCCCEEEEcCC
Confidence 68899999999999999995432 11111000 022346677766778999998654
No 121
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=45.24 E-value=1.3e+02 Score=28.13 Aligned_cols=21 Identities=38% Similarity=0.518 Sum_probs=15.5
Q ss_pred HHHHHHHHHHCCCCEEEEccC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.+.|+++|++.++||+|+|..
T Consensus 52 ~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 52 HEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred HHHHHHHHHHcCCCEEEECCc
Confidence 467777777777777777765
No 122
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=44.99 E-value=2.5e+02 Score=25.79 Aligned_cols=37 Identities=11% Similarity=0.085 Sum_probs=29.2
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
....++|+.+.+.-+|--|+..+.. .+.+|..||+..
T Consensus 178 Gs~gkvlvllSGGiDSpVAa~ll~k----rG~~V~~v~f~~ 214 (381)
T PRK08384 178 GTQGKVVALLSGGIDSPVAAFLMMK----RGVEVIPVHIYM 214 (381)
T ss_pred CCCCcEEEEEeCChHHHHHHHHHHH----cCCeEEEEEEEe
Confidence 4678899999999999866644433 488999999965
No 123
>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=44.20 E-value=56 Score=28.31 Aligned_cols=24 Identities=21% Similarity=0.176 Sum_probs=17.9
Q ss_pred CCCCC---CCCCccccccccccccccC
Q 037436 1 MAKSH---SRSPRLSISRSISRVRVHS 24 (236)
Q Consensus 1 ~~~~~---~~~~~~~l~~~~~~~~~~~ 24 (236)
|||+| +++++..++..+++--.+.
T Consensus 10 MGrsGsGKsSmrsiiF~ny~a~D~~rl 36 (295)
T KOG3886|consen 10 MGRSGSGKSSMRSIIFANYIARDTRRL 36 (295)
T ss_pred eccCCCCccccchhhhhhhhhhhhhcc
Confidence 89996 7899988877666655544
No 124
>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=44.16 E-value=40 Score=26.06 Aligned_cols=56 Identities=13% Similarity=-0.010 Sum_probs=38.9
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC-CchhhhhhhccCCCcccCcHHHHHHHhC-CCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK-SIVWTLMNRWSSKKKAVGDIADYCIQNS-SRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~-s~~~~l~~~~~~~~~~~gs~~~~ll~~s-~~PVlvV~~~~ 216 (236)
.+.|.+.+++++++.||+|-..+ .+...-... ..-.+++.|-... ++||..+-...
T Consensus 40 ~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~------~v~~f~~~L~~~~~~ipV~~~DEr~ 97 (135)
T PF03652_consen 40 IEELKKLIEEYQIDGIVVGLPLNMDGSESEQAR------RVRKFAEELKKRFPGIPVILVDERL 97 (135)
T ss_dssp HHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHH------HHHHHHHHHHHHH-TSEEEEEECSC
T ss_pred HHHHHHHHHHhCCCEEEEeCCcccCCCccHHHH------HHHHHHHHHHHhcCCCcEEEECCCh
Confidence 79999999999999999998643 111111000 2244667777777 89999997654
No 125
>PRK09213 pur operon repressor; Provisional
Probab=43.62 E-value=1.9e+02 Score=25.26 Aligned_cols=49 Identities=22% Similarity=0.208 Sum_probs=28.9
Q ss_pred HHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCCCCCc
Q 037436 156 PIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSSKLGG 221 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~~~~~ 221 (236)
..+.+.....++|. |+|...++.. .+..+.....+|++++|+..+...|
T Consensus 120 ~~la~~~~~~~iD~-Vvtvet~GIp----------------lA~~vA~~L~vp~vivRK~~K~~~G 168 (271)
T PRK09213 120 RIIASAFADKKIDA-VMTVETKGIP----------------LAYAVANYLNVPFVIVRRDSKVTEG 168 (271)
T ss_pred HHHHHHhcccCCCE-EEEEccccHH----------------HHHHHHHHHCCCEEEEEECCCCCCC
Confidence 34444444557886 4554443332 3334555678999999998775333
No 126
>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=43.26 E-value=2.6e+02 Score=25.46 Aligned_cols=98 Identities=11% Similarity=0.056 Sum_probs=53.6
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
..++|-+..+.+++....++.....+++.+-.|.....++ ....... . .......+.+.+.. .+.++-+
T Consensus 171 ~w~~Vaii~~~d~yG~~~~~~f~~~~~~~GicIa~~e~~~--~~~~~~~----~---~~~~~~~~~~~ik~--~~a~vVv 239 (403)
T cd06361 171 GWNWVGIIITDDDYGRSALETFIIQAEANGVCIAFKEILP--ASLSDNT----K---LNRIIRTTEKIIEE--NKVNVIV 239 (403)
T ss_pred CCcEEEEEEecCchHHHHHHHHHHHHHHCCeEEEEEEEec--CccCcch----h---HHHHHHHHHHHHhc--CCCeEEE
Confidence 5678888888888888877777777776664433333332 1110000 0 00111122222221 2333333
Q ss_pred EEEecCChHHHHHHHHHHCCCCEEEEccCC
Q 037436 147 AITEGKEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 147 ~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
....... ...|++.+++.+.+.+.+|+.+
T Consensus 240 v~~~~~~-~~~l~~~a~~~g~~~~wigs~~ 268 (403)
T cd06361 240 VFARQFH-VFLLFNKAIERNINKVWIASDN 268 (403)
T ss_pred EEeChHH-HHHHHHHHHHhCCCeEEEEECc
Confidence 3333334 6788889999999999988765
No 127
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=43.23 E-value=2.5e+02 Score=25.34 Aligned_cols=133 Identities=9% Similarity=0.084 Sum_probs=76.7
Q ss_pred EEEEecC-----CH---hHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCc
Q 037436 71 VMVVADS-----SL---DAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGV 142 (236)
Q Consensus 71 ILV~vD~-----s~---~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v 142 (236)
+++.++. +. .....+.|.+..+++.++.-+-+++...+. ...+++....+.+.++.+.|+.. ++
T Consensus 86 Lil~~e~tg~d~t~~gr~~~~~~~~sve~a~~~GAdAVk~lv~~~~d------~~~~~~~~~~~~l~rv~~ec~~~--gi 157 (340)
T PRK12858 86 LLLSYEKTGYDATAPGRLPDLLDNWSVRRIKEAGADAVKLLLYYRPD------EDDAINDRKHAFVERVGAECRAN--DI 157 (340)
T ss_pred eEEEecccccccCCCCCCccccccccHHHHHHcCCCEEEEEEEeCCC------cchHHHHHHHHHHHHHHHHHHHc--CC
Confidence 7777762 21 234577788889999999998888887322 12233455666788888888854 66
Q ss_pred eEEEEEEe---cC----------ChHHHHHHHHH-----HCCCCEEEEccCCCC-chhhhhhhccCCCcc-cC----cHH
Q 037436 143 QVEIAITE---GK----------EKGPIIVEEAK-----RQNVSLLVLGQRRKS-IVWTLMNRWSSKKKA-VG----DIA 198 (236)
Q Consensus 143 ~v~~~v~~---G~----------~~~~~I~~~a~-----~~~~DLLVmG~~~~s-~~~~l~~~~~~~~~~-~g----s~~ 198 (236)
.+-..++. |. ...+.|.+.++ +.++|+|=+-..... ..++. ...... .. ..-
T Consensus 158 PlllE~l~y~~~~~~~~~~~~a~~~p~~V~~a~r~~~~~elGaDvlKve~p~~~~~veg~----~~~~~~~~~~~~~~~f 233 (340)
T PRK12858 158 PFFLEPLTYDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFVEGF----DGFEEAYTQEEAFKLF 233 (340)
T ss_pred ceEEEEeccCCCccccccccccccCHHHHHHHHHHHhhhccCCeEEEeeCCCCccccccc----ccccccccHHHHHHHH
Confidence 65554321 11 11133333333 588999988766532 11111 000000 00 234
Q ss_pred HHHHHhCCCeEEEEeCC
Q 037436 199 DYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 199 ~~ll~~s~~PVlvV~~~ 215 (236)
.++...+++|+++..-.
T Consensus 234 ~~~~~a~~~P~vvlsgG 250 (340)
T PRK12858 234 REQSDATDLPFIFLSAG 250 (340)
T ss_pred HHHHhhCCCCEEEECCC
Confidence 56777899999997654
No 128
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=42.99 E-value=2.1e+02 Score=24.43 Aligned_cols=68 Identities=9% Similarity=0.088 Sum_probs=40.4
Q ss_pred HHHHHHHHhhhhCCCceEEEEEEecC---ChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 127 KLHSMKSTCQLKKPGVQVEIAITEGK---EKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~v~~G~---~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
.++++.+.++..+ ++++.-. ..|. .-.+.|++.+.+.++|+|++|-.. +.+.. ...+..+
T Consensus 117 v~~~a~~~l~~~y-~l~i~g~-~~Gyf~~~e~~~i~~~I~~s~~dil~VglG~--PkQE~-------------~~~~~~~ 179 (243)
T PRK03692 117 VLAQTEAKLRTQW-NVNIVGS-QDGYFTPEQRQALFERIHASGAKIVTVAMGS--PKQEI-------------FMRDCRL 179 (243)
T ss_pred HHHHHHHHHHHHh-CCEEEEE-eCCCCCHHHHHHHHHHHHhcCCCEEEEECCC--cHHHH-------------HHHHHHH
Confidence 3444555554444 5554321 2232 114679999999999999999653 22333 3355666
Q ss_pred hCCCeEEE
Q 037436 204 NSSRMTIA 211 (236)
Q Consensus 204 ~s~~PVlv 211 (236)
..+++|++
T Consensus 180 ~~~~~v~~ 187 (243)
T PRK03692 180 VYPDALYM 187 (243)
T ss_pred hCCCCEEE
Confidence 77777755
No 129
>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=42.90 E-value=2.6e+02 Score=25.43 Aligned_cols=98 Identities=12% Similarity=0.086 Sum_probs=51.2
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
++|+|+..+.-+|.- |+-+.++.+-+|+.+|..-.+...... ..--..+.++.++..|+.. +|...+.=
T Consensus 1 ~kV~vamSGGVDSsv----aA~LLk~~G~~V~Gv~m~~~~~~~~~~-----~~c~~~~d~~~a~~va~~L--gIp~~v~d 69 (356)
T PF03054_consen 1 KKVLVAMSGGVDSSV----AAALLKEQGYDVIGVTMRNWDEEDESG-----KSCCSEEDIEDARRVAEKL--GIPHYVVD 69 (356)
T ss_dssp -EEEEE--SSHHHHH----HHHHHHHCT-EEEEEEEE-SS-SSSHH------HHHHHHHHHHHHHHHHHH--T--EEEEE
T ss_pred CeEEEEccCCHHHHH----HHHHHHhhcccceEEEEEEeccccccC-----CCCCchhhHHHHHHHHHhc--CCCEEEEC
Confidence 589999999888773 445566778899999987633221100 0111234445556666533 34332221
Q ss_pred Ee-----------------c-----------CChHHHHHHHHHH-CCCCEEEEccCCC
Q 037436 149 TE-----------------G-----------KEKGPIIVEEAKR-QNVSLLVLGQRRK 177 (236)
Q Consensus 149 ~~-----------------G-----------~~~~~~I~~~a~~-~~~DLLVmG~~~~ 177 (236)
.. | .-+...++++|++ .++|.|.-|+..+
T Consensus 70 ~~~~f~~~Vi~~f~~~Y~~G~TPNPcv~CN~~IKF~~l~~~a~~~~g~d~iATGHYAr 127 (356)
T PF03054_consen 70 LREEFWEEVIEPFLDEYRKGRTPNPCVLCNRFIKFGALLEYADEGLGADYIATGHYAR 127 (356)
T ss_dssp THHHHHHHTHHHHHHHHHTT----HHHHHHHHTTTTHHHHHHHTTTT-SEEE---SEE
T ss_pred hHHHHHHHHHHHHHHHHhcCCCCChHHhhchhhhHHHHHHHHHhhcCCCeeccceeEE
Confidence 11 1 1236689999999 9999999998643
No 130
>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=42.75 E-value=2e+02 Score=23.98 Aligned_cols=59 Identities=14% Similarity=-0.019 Sum_probs=33.7
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC----CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK----SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSSKL 219 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~----s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~~~ 219 (236)
.+.|++.++..++++||+-.-.. ...... ....+-....++.....|.|+++.+..|..
T Consensus 100 ~~~l~~~~~~~~~~lvviDpl~~~~~~~~~d~~------~~~~~~~~L~~~a~~~g~avl~v~H~~K~~ 162 (239)
T cd01125 100 FERIIEQLLIRRIDLVVIDPLVSFHGVSENDNG------AMDAVIKALRRIAAQTGAAILLVHHVRKGS 162 (239)
T ss_pred HHHHHHHHHhcCCCEEEECChHHhCCCCcCCHH------HHHHHHHHHHHHHHHhCCEEEEEeccCccc
Confidence 45677777778999999995321 001000 000011123445566789999999877643
No 131
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=42.29 E-value=2e+02 Score=23.97 Aligned_cols=126 Identities=14% Similarity=0.078 Sum_probs=66.9
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
.+|.|-+.++-....|+-.|+. ....+++|.+|-... +.. ..++.+++ .++..-+.-
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~~a~i~~Visd~-~~A---------------~~lerA~~------~gIpt~~~~ 57 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKLDAEIVAVISDK-ADA---------------YALERAAK------AGIPTVVLD 57 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCCCcEEEEEEeCC-CCC---------------HHHHHHHH------cCCCEEEec
Confidence 3678888887777777777776 344467777766554 211 11222222 144432221
Q ss_pred EecCC----hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccC---------CCcccCc-HHHHHH----HhCCCeEE
Q 037436 149 TEGKE----KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSS---------KKKAVGD-IADYCI----QNSSRMTI 210 (236)
Q Consensus 149 ~~G~~----~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~---------~~~~~gs-~~~~ll----~~s~~PVl 210 (236)
....+ -...|.+..+++++|+||+...=+=-...+|..|.. .+.|.|- +.++.+ ..+.|.|-
T Consensus 58 ~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGyMrIL~~~fl~~~~grIlNIHPSLLP~f~G~h~~~~A~~aG~k~sG~TVH 137 (200)
T COG0299 58 RKEFPSREAFDRALVEALDEYGPDLVVLAGYMRILGPEFLSRFEGRILNIHPSLLPAFPGLHAHEQALEAGVKVSGCTVH 137 (200)
T ss_pred cccCCCHHHHHHHHHHHHHhcCCCEEEEcchHHHcCHHHHHHhhcceEecCcccccCCCCchHHHHHHHcCCCccCcEEE
Confidence 11211 246899999999999999985422111223444432 1112232 222333 34668888
Q ss_pred EEeCCCC
Q 037436 211 AVRRKSS 217 (236)
Q Consensus 211 vV~~~~~ 217 (236)
+|-..-.
T Consensus 138 ~V~e~vD 144 (200)
T COG0299 138 FVTEGVD 144 (200)
T ss_pred EEccCCC
Confidence 8876543
No 132
>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=41.27 E-value=3e+02 Score=25.68 Aligned_cols=93 Identities=15% Similarity=0.040 Sum_probs=49.3
Q ss_pred EEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEec
Q 037436 72 MVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEG 151 (236)
Q Consensus 72 LV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G 151 (236)
++..-++--+..+...|..++.+.+..+.++-... + ...+ .++++..+. ..++.+.......
T Consensus 104 ~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~----~---------R~~a---~~QL~~~a~--~~gvp~~~~~~~~ 165 (428)
T TIGR00959 104 MVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDL----Y---------RPAA---IEQLKVLGQ--QVGVPVFALGKGQ 165 (428)
T ss_pred EECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccc----c---------chHH---HHHHHHHHH--hcCCceEecCCCC
Confidence 33444555666677777776545567777776643 0 0011 122333333 1244433221111
Q ss_pred CC--hHHHHHHHHHHCCCCEEEEccCCCCchhh
Q 037436 152 KE--KGPIIVEEAKRQNVSLLVLGQRRKSIVWT 182 (236)
Q Consensus 152 ~~--~~~~I~~~a~~~~~DLLVmG~~~~s~~~~ 182 (236)
+| .....++.++..++|+||+-+.++.....
T Consensus 166 ~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~ 198 (428)
T TIGR00959 166 SPVEIARRALEYAKENGFDVVIVDTAGRLQIDE 198 (428)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEeCCCccccCH
Confidence 22 11234556667889999999999765433
No 133
>PRK08576 hypothetical protein; Provisional
Probab=40.80 E-value=1.1e+02 Score=28.83 Aligned_cols=33 Identities=24% Similarity=0.187 Sum_probs=25.4
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+..+|..++..+.+... .+.++++..
T Consensus 236 rVvVafSGGKDStvLL~La~k~~~----~V~aV~iDT 268 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVDT 268 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeCC
Confidence 899999999999988877766532 377777754
No 134
>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=40.60 E-value=88 Score=21.28 Aligned_cols=35 Identities=17% Similarity=0.153 Sum_probs=27.8
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLL 102 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~ll 102 (236)
.++|+++.|.......+...........+-.+.++
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 58999999999999988888877777766655443
No 135
>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=40.29 E-value=2e+02 Score=23.33 Aligned_cols=33 Identities=9% Similarity=-0.028 Sum_probs=22.4
Q ss_pred EEEEEecCC-HhHHHHHHHHHHhhccCCCEEEEE
Q 037436 70 KVMVVADSS-LDAKGALEWALSHTVQCQDTIVLL 102 (236)
Q Consensus 70 ~ILV~vD~s-~~s~~al~~A~~la~~~~~~l~ll 102 (236)
+|++++-+| ......++....++++.+.+|.++
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g~eV~vv 34 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRYGDEIDVF 34 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhcCCEEEEE
Confidence 588888888 444557777777776667675544
No 136
>PRK08194 tartrate dehydrogenase; Provisional
Probab=40.21 E-value=1.2e+02 Score=27.61 Aligned_cols=28 Identities=7% Similarity=0.087 Sum_probs=22.7
Q ss_pred CHhHHHHHHHHHHhhccCCCEEEEEEEE
Q 037436 78 SLDAKGALEWALSHTVQCQDTIVLLYVI 105 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~~l~llhV~ 105 (236)
...++..+++|.++|.+....|+++|=.
T Consensus 160 r~~~eRI~r~Af~~A~~r~~~Vt~v~Ka 187 (352)
T PRK08194 160 RKGTERAMRYAFELAAKRRKHVTSATKS 187 (352)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEeCc
Confidence 4678899999999998876678888753
No 137
>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=40.11 E-value=1.2e+02 Score=27.50 Aligned_cols=77 Identities=9% Similarity=0.108 Sum_probs=43.4
Q ss_pred CHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHH
Q 037436 78 SLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPI 157 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~ 157 (236)
...++..+++|.++|.+.+..|+++|=.- ... ... -..+..+ +..+ .+|+|.++..++. . .
T Consensus 162 r~~~eRI~r~AF~~A~~r~~~Vt~v~KaN---vlk---t~g----lf~~~~~---eva~-~yP~I~~~~~~vD--a---~ 222 (349)
T TIGR00169 162 KPEIERIARVAFEMARKRRKKVTSVDKAN---VLE---SSR----LWRKTVE---EIAK-EYPDVELEHQYID--N---A 222 (349)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEECCc---ccc---hhH----HHHHHHH---HHHh-hCCCceEEeeeHH--H---H
Confidence 46778899999999988766777777533 110 111 1112222 2222 3678887776553 2 2
Q ss_pred HHHHHHH-CCCCEEEEc
Q 037436 158 IVEEAKR-QNVSLLVLG 173 (236)
Q Consensus 158 I~~~a~~-~~~DLLVmG 173 (236)
..+.++. ...|+||+.
T Consensus 223 ~~~Lv~~P~~fDViv~~ 239 (349)
T TIGR00169 223 AMQLVKSPTQFDVVVTG 239 (349)
T ss_pred HHHHHhCccCceEEEEc
Confidence 2333332 668877765
No 138
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=39.89 E-value=1.5e+02 Score=31.29 Aligned_cols=90 Identities=17% Similarity=0.175 Sum_probs=59.7
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
.|.+ |||=|-.-.-......|+..|+..+-.|.+|--. .--++|+.+.+++.+.. ..|+++.
T Consensus 615 pMDR-LiCGDVGFGKTEVAmRAAFkAV~~GKQVAvLVPT---------------TlLA~QHy~tFkeRF~~--fPV~I~~ 676 (1139)
T COG1197 615 PMDR-LICGDVGFGKTEVAMRAAFKAVMDGKQVAVLVPT---------------TLLAQQHYETFKERFAG--FPVRIEV 676 (1139)
T ss_pred cchh-eeecCcCCcHHHHHHHHHHHHhcCCCeEEEEccc---------------HHhHHHHHHHHHHHhcC--CCeeEEE
Confidence 3444 5666776666666667888888888777665321 12467788888887772 2455554
Q ss_pred EEEe--cCChHHHHHHHHHHCCCCEEEEccCC
Q 037436 147 AITE--GKEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 147 ~v~~--G~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
-... .+. ...|++..++..+|+|| |++.
T Consensus 677 LSRF~s~kE-~~~il~~la~G~vDIvI-GTHr 706 (1139)
T COG1197 677 LSRFRSAKE-QKEILKGLAEGKVDIVI-GTHR 706 (1139)
T ss_pred ecccCCHHH-HHHHHHHHhcCCccEEE-echH
Confidence 4433 344 68899999999999764 6664
No 139
>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=39.25 E-value=1.8e+02 Score=25.01 Aligned_cols=48 Identities=10% Similarity=-0.004 Sum_probs=33.5
Q ss_pred HHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCCCC
Q 037436 157 IIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSSKL 219 (236)
Q Consensus 157 ~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~~~ 219 (236)
.=....+++++|.||.=.+|..++... -.......+||++++++.-..
T Consensus 185 ~n~al~~~~~i~~lVtK~SG~~g~~eK---------------i~AA~~lgi~vivI~RP~~~~ 232 (249)
T PF02571_consen 185 LNRALFRQYGIDVLVTKESGGSGFDEK---------------IEAARELGIPVIVIKRPPEPY 232 (249)
T ss_pred HHHHHHHHcCCCEEEEcCCCchhhHHH---------------HHHHHHcCCeEEEEeCCCCCC
Confidence 334556789999999887776543332 234568899999999886543
No 140
>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=39.16 E-value=1.7e+02 Score=27.23 Aligned_cols=47 Identities=9% Similarity=-0.025 Sum_probs=32.7
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
...+.+.+++.++|.||+-...-+.- ...-..++..++|||++..+.
T Consensus 52 ~~~~~~~~~~~~~d~ii~~~~tf~~~---------------~~~~~~~~~~~~Pvll~a~~~ 98 (452)
T cd00578 52 ARKAAEEFNEANCDGLIVWMHTFGPA---------------KMWIAGLSELRKPVLLLATQF 98 (452)
T ss_pred HHHHHHHHhhcCCcEEEEcccccccH---------------HHHHHHHHhcCCCEEEEeCCC
Confidence 45666778888999999876643322 223445677899999998665
No 141
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=38.91 E-value=3.4e+02 Score=25.55 Aligned_cols=121 Identities=13% Similarity=0.166 Sum_probs=71.5
Q ss_pred CCCCCEEEEEecCCH-hHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCce
Q 037436 65 ERYGNKVMVVADSSL-DAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQ 143 (236)
Q Consensus 65 ~~~~~~ILV~vD~s~-~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~ 143 (236)
-....=||+.=|..- -|.-+|+.+.++|.+. .+|||.-+ ++..+. +-.++ +-++.
T Consensus 90 ~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~----~vLYVsGE-------ES~~Qi-----------klRA~--RL~~~ 145 (456)
T COG1066 90 LVPGSVILIGGDPGIGKSTLLLQVAARLAKRG----KVLYVSGE-------ESLQQI-----------KLRAD--RLGLP 145 (456)
T ss_pred cccccEEEEccCCCCCHHHHHHHHHHHHHhcC----cEEEEeCC-------cCHHHH-----------HHHHH--HhCCC
Confidence 456677888888753 4566888888888654 67888651 122222 21112 11332
Q ss_pred -EEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHH---------HHHHhCCCeEEEEe
Q 037436 144 -VEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIAD---------YCIQNSSRMTIAVR 213 (236)
Q Consensus 144 -v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~---------~ll~~s~~PVlvV~ 213 (236)
-++.+..-.. .+.|++.+++.++|++|+.+=..-....+ ....||++. ++.....+++++|-
T Consensus 146 ~~~l~l~aEt~-~e~I~~~l~~~~p~lvVIDSIQT~~s~~~-------~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVG 217 (456)
T COG1066 146 TNNLYLLAETN-LEDIIAELEQEKPDLVVIDSIQTLYSEEI-------TSAPGSVSQVREVAAELMRLAKTKNIAIFIVG 217 (456)
T ss_pred ccceEEehhcC-HHHHHHHHHhcCCCEEEEeccceeecccc-------cCCCCcHHHHHHHHHHHHHHHHHcCCeEEEEE
Confidence 2333333445 68999999999999999987542111111 002354433 34456679999997
Q ss_pred CCCC
Q 037436 214 RKSS 217 (236)
Q Consensus 214 ~~~~ 217 (236)
+-.|
T Consensus 218 HVTK 221 (456)
T COG1066 218 HVTK 221 (456)
T ss_pred EEcc
Confidence 7666
No 142
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=38.87 E-value=93 Score=23.08 Aligned_cols=62 Identities=16% Similarity=0.183 Sum_probs=37.8
Q ss_pred HHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeE
Q 037436 130 SMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMT 209 (236)
Q Consensus 130 ~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PV 209 (236)
.+++.++.+ +.++++.-... ..+-+++. ++|++.+|..-+-.+. ..+++.....+||
T Consensus 20 Km~~aA~~k--g~~~~I~A~s~----~e~~~~~~--~~DvvLlGPQv~y~~~---------------~~~~~~~~~giPV 76 (102)
T COG1440 20 KMKKAAESK--GKDVTIEAYSE----TELSEYID--NADVVLLGPQVRYMLK---------------QLKEAAEEKGIPV 76 (102)
T ss_pred HHHHHHHhC--CCceEEEEech----hHHHHhhh--cCCEEEEChHHHHHHH---------------HHHHHhcccCCCe
Confidence 445544444 56665554432 33444443 8999999976543333 3367777777899
Q ss_pred EEEeC
Q 037436 210 IAVRR 214 (236)
Q Consensus 210 lvV~~ 214 (236)
-+++.
T Consensus 77 ~vI~~ 81 (102)
T COG1440 77 EVIDM 81 (102)
T ss_pred EEeCH
Confidence 88874
No 143
>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=38.71 E-value=1.9e+02 Score=22.70 Aligned_cols=24 Identities=25% Similarity=0.369 Sum_probs=20.3
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKS 178 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s 178 (236)
...|.+.+++.++|+|++|....+
T Consensus 72 a~al~~~i~~~~p~~Vl~~~t~~g 95 (168)
T cd01715 72 APALVALAKKEKPSHILAGATSFG 95 (168)
T ss_pred HHHHHHHHHhcCCCEEEECCCccc
Confidence 577888889999999999998653
No 144
>TIGR02089 TTC tartrate dehydrogenase. Tartrate dehydrogenase catalyzes the oxidation of both meso- and (+)-tartrate as well as a D-malate. These enzymes are closely related to the 3-isopropylmalate and isohomocitrate dehydrogenases found in TIGR00169 and TIGR02088, respectively.
Probab=38.71 E-value=1.1e+02 Score=27.82 Aligned_cols=28 Identities=4% Similarity=0.014 Sum_probs=22.5
Q ss_pred CHhHHHHHHHHHHhhccCCCEEEEEEEE
Q 037436 78 SLDAKGALEWALSHTVQCQDTIVLLYVI 105 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~~l~llhV~ 105 (236)
...+++.+++|.++|++....|+++|=-
T Consensus 163 r~~~eRi~r~Af~~A~~rr~kVt~v~Ka 190 (352)
T TIGR02089 163 RKGVERIMRFAFELAQKRRKHLTSATKS 190 (352)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 4678889999999998876678888753
No 145
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=38.65 E-value=2.5e+02 Score=23.90 Aligned_cols=89 Identities=22% Similarity=0.228 Sum_probs=49.9
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCC--CchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSK--QVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIA 147 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~ 147 (236)
++++-+.+..+|..|+-+|+. .+-+|..+-.+..... +..-. ....+..+...+- ++.+...
T Consensus 2 k~~aL~SGGKDS~~Al~~a~~----~G~eV~~Ll~~~p~~~dS~m~H~--------~n~~~~~~~Ae~~----gi~l~~~ 65 (223)
T COG2102 2 KVIALYSGGKDSFYALYLALE----EGHEVVYLLTVKPENGDSYMFHT--------PNLELAELQAEAM----GIPLVTF 65 (223)
T ss_pred cEEEEEecCcHHHHHHHHHHH----cCCeeEEEEEEecCCCCeeeeec--------cchHHHHHHHHhc----CCceEEE
Confidence 467788888999877777754 3666655555441222 11100 0011111222111 4555555
Q ss_pred EEec---CChHHHHHHHHHHCCCCEEEEccC
Q 037436 148 ITEG---KEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 148 v~~G---~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
...| .. .+.+.+..+..++|-||.|.=
T Consensus 66 ~~~g~~e~e-ve~L~~~l~~l~~d~iv~GaI 95 (223)
T COG2102 66 DTSGEEERE-VEELKEALRRLKVDGIVAGAI 95 (223)
T ss_pred ecCccchhh-HHHHHHHHHhCcccEEEEchh
Confidence 5545 23 577778888889999999974
No 146
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=38.42 E-value=98 Score=30.09 Aligned_cols=93 Identities=16% Similarity=0.152 Sum_probs=54.4
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCc-hhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQV-KETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVE 145 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~ 145 (236)
...+|+|.-|..-+...+-..........+..-+..++ |.... +-... ...++++.+ .+++.-
T Consensus 68 ~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~I---P~R~~eGYGl~-------~~~i~~~~~------~~~~Li 131 (575)
T PRK11070 68 EGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLV---PNRFEDGYGLS-------PEVVDQAHA------RGAQLI 131 (575)
T ss_pred CCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEe---CCCCcCCCCCC-------HHHHHHHHh------cCCCEE
Confidence 56789999988655554444444555555652222333 22110 00011 112222222 156666
Q ss_pred EEEEecCChHHHHHHHHHHCCCCEEEEccCC
Q 037436 146 IAITEGKEKGPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 146 ~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
+.+-.|.. ...-+++|++.++|+||+.++.
T Consensus 132 ItvD~Gi~-~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 132 VTVDNGIS-SHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred EEEcCCcC-CHHHHHHHHHCCCCEEEECCCC
Confidence 66667887 6788999999999999999884
No 147
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=38.05 E-value=1.1e+02 Score=27.94 Aligned_cols=50 Identities=12% Similarity=0.112 Sum_probs=37.5
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
+..-++.+++..+|+|.|.-.-.. ..++ .+.+.+++..|+||+++..-..
T Consensus 36 g~~a~~~~~~~~PDVi~ld~emp~-mdgl------------~~l~~im~~~p~pVimvsslt~ 85 (350)
T COG2201 36 GREAIDKVKKLKPDVITLDVEMPV-MDGL------------EALRKIMRLRPLPVIMVSSLTE 85 (350)
T ss_pred HHHHHHHHHhcCCCEEEEeccccc-ccHH------------HHHHHHhcCCCCcEEEEecccc
Confidence 567788999999999999976432 2222 2558888999999999987544
No 148
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=37.94 E-value=1.8e+02 Score=24.62 Aligned_cols=48 Identities=13% Similarity=0.254 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 123 RAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 123 ~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
..-+.+.++++++..+ + ++.+.+--|-. ..-...+.+-++|.+|+|+-
T Consensus 152 ~~l~Ki~~lr~~~~~~--~-~~~IeVDGGI~--~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 152 EVLEKIRELRAMIDER--L-DILIEVDGGIN--LETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHHHHHHHhccc--C-CeEEEEeCCcC--HHHHHHHHHcCCCEEEEEEE
Confidence 3444455566666532 3 44555444444 44455566789999999984
No 149
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=37.76 E-value=68 Score=26.29 Aligned_cols=35 Identities=9% Similarity=-0.087 Sum_probs=27.1
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLL 102 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~ll 102 (236)
+++|++++-++..+-.+++.+-.+.+..+.+|.++
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv 35 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVGEIETHLV 35 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEE
Confidence 47899999999999999988877755456664444
No 150
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=37.42 E-value=1.6e+02 Score=23.09 Aligned_cols=34 Identities=21% Similarity=0.266 Sum_probs=26.5
Q ss_pred ceEEEEEEecCChHHHH-HHHHHHCCCCEEEEccCCC
Q 037436 142 VQVEIAITEGKEKGPII-VEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 142 v~v~~~v~~G~~~~~~I-~~~a~~~~~DLLVmG~~~~ 177 (236)
+.+--.++.|.+ . .+ .+..++.++|.+++|.-..
T Consensus 63 ~ryVD~vi~~~p-~-~~~~~~i~~~k~Div~lG~D~~ 97 (140)
T COG0615 63 LRYVDEVILGAP-W-DIKFEDIEEYKPDIVVLGDDQK 97 (140)
T ss_pred CcchheeeeCCc-c-ccChHHHHHhCCCEEEECCCCc
Confidence 445556677888 3 55 8999999999999998765
No 151
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=37.16 E-value=3.6e+02 Score=25.40 Aligned_cols=94 Identities=14% Similarity=0.051 Sum_probs=55.7
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
-.||.+-++--...+-..|..+.+ .+-.+.+|...- +...+ .++++..++. -+|.+--. .
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~-------------~RpAA---~eQL~~La~q--~~v~~f~~-~ 162 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADT-------------YRPAA---IEQLKQLAEQ--VGVPFFGS-G 162 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH-cCCceEEEeccc-------------CChHH---HHHHHHHHHH--cCCceecC-C
Confidence 345666777777777777766655 666666665533 11122 3334444441 13333222 1
Q ss_pred ec-CC--hHHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 150 EG-KE--KGPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 150 ~G-~~--~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
.+ +| ++..=++.+++..+|+||+-+.+|.....-
T Consensus 163 ~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~ 199 (451)
T COG0541 163 TEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEE 199 (451)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHH
Confidence 12 23 245567888999999999999999777665
No 152
>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=37.11 E-value=1e+02 Score=22.82 Aligned_cols=44 Identities=23% Similarity=0.151 Sum_probs=31.4
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC-CeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS-RMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~-~PVlvV~~~~ 216 (236)
.....+.|++.++..||+-+.. |.++..+.+.-| ||++++-+..
T Consensus 5 a~aa~~~A~~~~ak~Ivv~T~s------------------G~ta~~isk~RP~~pIiavt~~~ 49 (117)
T PF02887_consen 5 ARAAVELAEDLNAKAIVVFTES------------------GRTARLISKYRPKVPIIAVTPNE 49 (117)
T ss_dssp HHHHHHHHHHHTESEEEEE-SS------------------SHHHHHHHHT-TSSEEEEEESSH
T ss_pred HHHHHHHHHhcCCCEEEEECCC------------------chHHHHHHhhCCCCeEEEEcCcH
Confidence 4567888888999998887653 446666666654 9999997654
No 153
>PRK11914 diacylglycerol kinase; Reviewed
Probab=37.09 E-value=2e+02 Score=25.06 Aligned_cols=33 Identities=21% Similarity=0.222 Sum_probs=15.5
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEEc
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG 173 (236)
++++.+...+....+..+.+.+.+.++|+||+.
T Consensus 39 g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~ 71 (306)
T PRK11914 39 GVDVVEIVGTDAHDARHLVAAALAKGTDALVVV 71 (306)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEE
Confidence 444444433322114555555555666655543
No 154
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=36.71 E-value=2.8e+02 Score=24.23 Aligned_cols=45 Identities=18% Similarity=0.158 Sum_probs=27.5
Q ss_pred HHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCCC
Q 037436 157 IIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSSK 218 (236)
Q Consensus 157 ~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~~ 218 (236)
.+.+..+..++|. |+|...++.. .+..+.....+|++++|+..+.
T Consensus 119 ~la~~~~~~~iD~-VvgvetkGIp----------------LA~avA~~L~vp~vivRK~~K~ 163 (268)
T TIGR01743 119 ILASVFAEREIDA-VMTVATKGIP----------------LAYAVASVLNVPLVIVRKDSKV 163 (268)
T ss_pred HHHHHhcCCCCCE-EEEEccchHH----------------HHHHHHHHHCCCEEEEEECCCC
Confidence 3334444457895 4555443332 3344555678999999998774
No 155
>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=36.42 E-value=1.7e+02 Score=21.38 Aligned_cols=35 Identities=23% Similarity=0.198 Sum_probs=25.2
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
|.++. .+....+ .+.+++.+.+.++|+|++.....
T Consensus 27 G~~V~-~lg~~~~-~~~l~~~~~~~~pdvV~iS~~~~ 61 (119)
T cd02067 27 GFEVI-DLGVDVP-PEEIVEAAKEEDADAIGLSGLLT 61 (119)
T ss_pred CCEEE-ECCCCCC-HHHHHHHHHHcCCCEEEEecccc
Confidence 66651 2222345 68999999999999999988743
No 156
>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=35.86 E-value=2.2e+02 Score=22.42 Aligned_cols=82 Identities=13% Similarity=0.107 Sum_probs=52.8
Q ss_pred HHHHHHHHHHhhccCCCEEEEEEEE--ecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCC--hH-
Q 037436 81 AKGALEWALSHTVQCQDTIVLLYVI--AKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKE--KG- 155 (236)
Q Consensus 81 s~~al~~A~~la~~~~~~l~llhV~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~--~~- 155 (236)
+..-+..++++|+..+...+.+|.. .... ....++..+...+.+..+.+.++.. ++.+-++...+.. ..
T Consensus 69 ~~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~----~~~~~~~~~~~~~~l~~l~~~a~~~--gv~i~lE~~~~~~~~~~~ 142 (213)
T PF01261_consen 69 ALEYLKKAIDLAKRLGAKYIVVHSGRYPSGP----EDDTEENWERLAENLRELAEIAEEY--GVRIALENHPGPFSETPF 142 (213)
T ss_dssp HHHHHHHHHHHHHHHTBSEEEEECTTESSST----TSSHHHHHHHHHHHHHHHHHHHHHH--TSEEEEE-SSSSSSSEES
T ss_pred HHHHHHHHHHHHHHhCCCceeecCccccccc----CCCHHHHHHHHHHHHHHHHhhhhhh--cceEEEecccCccccchh
Confidence 3568888999999999999888865 2111 1122344455666777777777655 7777666555443 12
Q ss_pred --HHHHHHHHHCCCC
Q 037436 156 --PIIVEEAKRQNVS 168 (236)
Q Consensus 156 --~~I~~~a~~~~~D 168 (236)
+.+.+++++.+.+
T Consensus 143 ~~~~~~~~l~~~~~~ 157 (213)
T PF01261_consen 143 SVEEIYRLLEEVDSP 157 (213)
T ss_dssp SHHHHHHHHHHHTTT
T ss_pred hHHHHHHHHhhcCCC
Confidence 7888888876654
No 157
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=35.48 E-value=1.5e+02 Score=28.67 Aligned_cols=65 Identities=9% Similarity=0.050 Sum_probs=39.1
Q ss_pred HHHHHHhhhhCCCceEEEEEEecCC-hHHHHH-HHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCC
Q 037436 129 HSMKSTCQLKKPGVQVEIAITEGKE-KGPIIV-EEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSS 206 (236)
Q Consensus 129 ~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~-~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~ 206 (236)
+.+.+++... +..+++.++.+.- .+-.+. +.....++|+||-. |+++.+|-++.+
T Consensus 27 ~~~~~i~~~~--~~~~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr---------------------G~ta~~i~~~~~ 83 (538)
T PRK15424 27 ELFRDISLEF--DHLANITPIQLGFEKAVTYIRKRLATERCDAIIAA---------------------GSNGAYLKSRLS 83 (538)
T ss_pred HHHHHHHHhc--CCCceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC---------------------chHHHHHHhhCC
Confidence 3344555433 3445555555443 022222 22445688988744 678888888999
Q ss_pred CeEEEEeCCC
Q 037436 207 RMTIAVRRKS 216 (236)
Q Consensus 207 ~PVlvV~~~~ 216 (236)
+||+-++-..
T Consensus 84 iPVv~i~~s~ 93 (538)
T PRK15424 84 VPVILIKPSG 93 (538)
T ss_pred CCEEEecCCH
Confidence 9999997653
No 158
>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=35.34 E-value=2.1e+02 Score=24.28 Aligned_cols=37 Identities=11% Similarity=0.040 Sum_probs=30.7
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYV 104 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV 104 (236)
.++|.++.|+......|...++.++...+-.+.++..
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~l 190 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIEI 190 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEeC
Confidence 5789999999999999999999998877766555433
No 159
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=34.59 E-value=92 Score=23.56 Aligned_cols=40 Identities=10% Similarity=0.228 Sum_probs=31.1
Q ss_pred HCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 164 RQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 164 ~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
+.+++.||+|+-..+.+ -++.-+...+++-.|-|++.|-+
T Consensus 59 ee~~E~ivvGTG~~G~l------------~l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 59 EEGPEVIVVGTGQSGML------------ELSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred hcCCcEEEEecCceeEE------------EeCHHHHHHHHhcCCeEEEeCCH
Confidence 37899999998765554 45667888899999999988743
No 160
>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=34.50 E-value=1.8e+02 Score=23.73 Aligned_cols=38 Identities=21% Similarity=0.260 Sum_probs=27.0
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCch
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIV 180 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~ 180 (236)
|.++ +.+....+ .+.|++.+++.++|+|.+...-....
T Consensus 110 G~~v-i~lG~~~p-~~~l~~~~~~~~~d~v~lS~~~~~~~ 147 (201)
T cd02070 110 GFEV-IDLGRDVP-PEEFVEAVKEHKPDILGLSALMTTTM 147 (201)
T ss_pred CCEE-EECCCCCC-HHHHHHHHHHcCCCEEEEeccccccH
Confidence 6655 22233446 79999999999999999998544333
No 161
>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=34.26 E-value=1.1e+02 Score=27.25 Aligned_cols=50 Identities=26% Similarity=0.247 Sum_probs=36.0
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
.+..++.++ ++|+||+|...- |.+-.+ +...+.+.+ ++++||++.|.+-.
T Consensus 163 ~~~al~AI~--~ADlIvlgPGSlyTSIiPnL---------lv~gI~eAI-~~s~a~kV~v~N~~ 214 (310)
T TIGR01826 163 LREAVEAIR--EADLIILGPGSLYTSIIPNL---------LVPEIAEAL-RESKAPKVYVCNLM 214 (310)
T ss_pred CHHHHHHHH--hCCEEEECCCcCHHHhchhc---------CchhHHHHH-HhCCCCEEEEeCCC
Confidence 567777775 599999998753 444555 566666655 67899999998753
No 162
>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=34.18 E-value=1e+02 Score=26.62 Aligned_cols=56 Identities=11% Similarity=0.109 Sum_probs=34.2
Q ss_pred HHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC---------CCCCceeee
Q 037436 157 IIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS---------SKLGGYLIT 225 (236)
Q Consensus 157 ~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~---------~~~~~~li~ 225 (236)
...+..++.++|++|+.+.......- .-++.++....+|++|+.+.. ...-||+|-
T Consensus 50 ~~~~~~~~~~pdf~I~isPN~~~PGP-------------~~ARE~l~~~~iP~IvI~D~p~~k~kd~l~~~g~GYIiv 114 (276)
T PF01993_consen 50 VVTKMLKEWDPDFVIVISPNAAAPGP-------------TKAREMLSAKGIPCIVISDAPTKKAKDALEEEGFGYIIV 114 (276)
T ss_dssp HHHHHHHHH--SEEEEE-S-TTSHHH-------------HHHHHHHHHSSS-EEEEEEGGGGGGHHHHHHTT-EEEEE
T ss_pred HHHHHHHhhCCCEEEEECCCCCCCCc-------------HHHHHHHHhCCCCEEEEcCCCchhhHHHHHhcCCcEEEE
Confidence 44455678999999999775433222 257899999999999997643 145677653
No 163
>PRK00766 hypothetical protein; Provisional
Probab=34.15 E-value=1.2e+02 Score=25.18 Aligned_cols=59 Identities=14% Similarity=0.124 Sum_probs=34.3
Q ss_pred CceEEEEEEecCChHHHHHHHHHH----CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKR----QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~----~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
++-.....+.|.+..+.|++..+. .++.+|.+..-..+++--+ -.+.|-+.+..||++|
T Consensus 42 Gv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNvv-------------D~~~l~~~tg~PVI~V 104 (194)
T PRK00766 42 GVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNVV-------------DIEELYRETGLPVIVV 104 (194)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEEe-------------cHHHHHHHHCCCEEEE
Confidence 455556666666656777777664 3445666654444333222 3356666777777777
No 164
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=34.13 E-value=2e+02 Score=25.99 Aligned_cols=28 Identities=7% Similarity=0.024 Sum_probs=22.1
Q ss_pred CHhHHHHHHHHHHhhccCC-CEEEEEEEE
Q 037436 78 SLDAKGALEWALSHTVQCQ-DTIVLLYVI 105 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~-~~l~llhV~ 105 (236)
...+++.+++|.++|.+.+ .+|+++|=-
T Consensus 146 r~~~eRi~r~Af~~A~~r~~~~Vt~v~Ka 174 (334)
T PRK08997 146 RKGAERIVRFAYELARKEGRKKVTAVHKA 174 (334)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEeCC
Confidence 4677889999999998875 468888753
No 165
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=34.03 E-value=2.5e+02 Score=25.84 Aligned_cols=116 Identities=10% Similarity=0.144 Sum_probs=63.2
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHH--HHHHhhhhCCCceEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHS--MKSTCQLKKPGVQVE 145 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~v~v~ 145 (236)
.++|+|+|.++-.+-.++..+-.+ .+.++++.++-.-. +.+.+.. ++.... .+-+.
T Consensus 4 ~k~ill~v~gsiaayk~~~l~r~L-~~~ga~v~vvmt~~-----------------a~~fv~p~~~~~~s~--~~v~t-- 61 (392)
T COG0452 4 GKRILLGVTGSIAAYKSVELVRLL-RRSGAEVRVVMTES-----------------ARKFITPLTFQALSG--NPVYT-- 61 (392)
T ss_pred CceEEEEecCchhhhhHHHHHHHH-hhCCCeeEEEcchh-----------------hhhhcCcccHHHhhC--CCccc--
Confidence 458999999999999887766444 67788877765533 1111111 111111 11122
Q ss_pred EEEEecCChHHHH--HHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 146 IAITEGKEKGPII--VEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 146 ~~v~~G~~~~~~I--~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
... ......+ ++.+ ..+|++++....-+.+.++= .. +-.....-++-.+.+|++++|--.
T Consensus 62 --~~~-~~~~~~~~HI~l~--~~adl~lvaPaTan~i~Kla-----~g-~aD~~~t~~~~a~~~p~~~aPamn 123 (392)
T COG0452 62 --LLD-EELTGSVEHIELA--RWADLLLVAPATANTIAKLA-----VG-IADNLSTTTLLAAKAPLVLAPAMN 123 (392)
T ss_pred --ccc-ccccccccHhhhh--hccCEEEecCCChhHHHHHH-----Hh-hhccHHHHHHHHhcCcEEEecCcC
Confidence 111 1101111 2233 37999999988777666540 00 122233344556667999988654
No 166
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=33.38 E-value=1.7e+02 Score=26.92 Aligned_cols=79 Identities=14% Similarity=0.064 Sum_probs=43.6
Q ss_pred CCHhHHHHHHHHHHhhccCC-CEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChH
Q 037436 77 SSLDAKGALEWALSHTVQCQ-DTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKG 155 (236)
Q Consensus 77 ~s~~s~~al~~A~~la~~~~-~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~ 155 (236)
....++..+++|.++|++.+ ..|+++|=.- .. +....-..+..+++ .+ .+|+|+++..++. .
T Consensus 182 Tr~~~eRIar~AF~~A~~r~~k~Vt~v~KaN---vl------k~tdglf~e~~~ev---a~-eyPdI~~~~~~VD--a-- 244 (372)
T PLN00118 182 TRQASLRVAEYAFHYAKTHGRKRVSAIHKAN---IM------KKTDGLFLKCCREV---AE-KYPEIVYEEVIID--N-- 244 (372)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCeEEEEECCc---cc------hhhhHHHHHHHHHH---Hh-hCCCceEEeeeHH--H--
Confidence 35678889999999998875 4588877533 11 00111112222222 22 3678887777653 2
Q ss_pred HHHHHHHH-HCCCCEEEEc
Q 037436 156 PIIVEEAK-RQNVSLLVLG 173 (236)
Q Consensus 156 ~~I~~~a~-~~~~DLLVmG 173 (236)
.-.+.++ -.+.|+||..
T Consensus 245 -~a~~Lv~~P~~fDViVt~ 262 (372)
T PLN00118 245 -CCMMLVKNPALFDVLVMP 262 (372)
T ss_pred -HHHHhccCcccCcEEEEc
Confidence 1122232 2668877765
No 167
>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=33.16 E-value=4.1e+02 Score=24.86 Aligned_cols=92 Identities=13% Similarity=0.031 Sum_probs=48.1
Q ss_pred EEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecC
Q 037436 73 VVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGK 152 (236)
Q Consensus 73 V~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~ 152 (236)
|..-++--+..+...|..+. ..+..|.++-... + . ....++++..++ ..++.+.......+
T Consensus 106 vG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~----~---------R---~aA~eQLk~~a~--~~~vp~~~~~~~~d 166 (429)
T TIGR01425 106 VGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADT----F---------R---AGAFDQLKQNAT--KARIPFYGSYTESD 166 (429)
T ss_pred ECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcc----c---------c---hhHHHHHHHHhh--ccCCeEEeecCCCC
Confidence 34444555556666666554 4466777775533 0 0 122233344333 22454432222233
Q ss_pred Ch--HHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 153 EK--GPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 153 ~~--~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
+. ...-++.++..++|+|++-+.++.....-
T Consensus 167 p~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~ 199 (429)
T TIGR01425 167 PVKIASEGVEKFKKENFDIIIVDTSGRHKQEDS 199 (429)
T ss_pred HHHHHHHHHHHHHhCCCCEEEEECCCCCcchHH
Confidence 31 12234556667899999999998765443
No 168
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=33.12 E-value=1.7e+02 Score=26.67 Aligned_cols=77 Identities=6% Similarity=0.050 Sum_probs=44.0
Q ss_pred CHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHH
Q 037436 78 SLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPI 157 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~ 157 (236)
...++..+++|.++|.+.+..|+++|=...-. .. .-..+.++++. + .+|+|+++..++. ..
T Consensus 165 r~~~~Ri~r~Af~~A~~r~~~Vt~v~KaNvl~------~~----glf~~~~~eva---~-eyp~i~~~~~~vD-----a~ 225 (358)
T PRK00772 165 REEIERIARVAFELARKRRKKVTSVDKANVLE------SS----RLWREVVTEVA---K-EYPDVELSHMYVD-----NA 225 (358)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEECccccc------cc----hHHHHHHHHHH---h-HCCCceEEEEeHH-----HH
Confidence 46778899999999988767888887644111 01 11112222222 2 3678877766543 22
Q ss_pred HHHHHHH-CCCCEEEEc
Q 037436 158 IVEEAKR-QNVSLLVLG 173 (236)
Q Consensus 158 I~~~a~~-~~~DLLVmG 173 (236)
....++. .+.|+||+.
T Consensus 226 ~~~lv~~P~~fDViv~~ 242 (358)
T PRK00772 226 AMQLVRNPKQFDVIVTE 242 (358)
T ss_pred HHHHhhCcccCeEEeec
Confidence 3333333 668877765
No 169
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.94 E-value=3.3e+02 Score=26.20 Aligned_cols=102 Identities=12% Similarity=0.020 Sum_probs=57.1
Q ss_pred CCCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHH---HHHHHHhhhhCCC
Q 037436 65 ERYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKL---HSMKSTCQLKKPG 141 (236)
Q Consensus 65 ~~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~~ 141 (236)
.+.|--+.|.|.+---|.+....|..+. +.+-.|.+.-+.. -. ....+++..+.+.+- ..+-+.++. |
T Consensus 376 krPYVi~fvGVNGVGKSTNLAKIayWLl-qNkfrVLIAACDT-FR----sGAvEQLrtHv~rl~~l~~~~v~lfek---G 446 (587)
T KOG0781|consen 376 KRPYVISFVGVNGVGKSTNLAKIAYWLL-QNKFRVLIAACDT-FR----SGAVEQLRTHVERLSALHGTMVELFEK---G 446 (587)
T ss_pred CCCeEEEEEeecCccccchHHHHHHHHH-hCCceEEEEeccc-hh----hhHHHHHHHHHHHHHHhccchhHHHhh---h
Confidence 4677788889998666666666666664 3455555555543 11 122333333222221 111122221 1
Q ss_pred ceEEEEEEecCC---hHHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 142 VQVEIAITEGKE---KGPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 142 v~v~~~v~~G~~---~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
. |+. ++..-+++|+.++.|+|.|.+-+|..-...
T Consensus 447 Y--------gkd~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~ 483 (587)
T KOG0781|consen 447 Y--------GKDAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAP 483 (587)
T ss_pred c--------CCChHHHHHHHHHHHHhcCCCEEEEeccccccCChh
Confidence 1 222 246667889999999999999887554444
No 170
>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=32.65 E-value=1.2e+02 Score=27.09 Aligned_cols=50 Identities=16% Similarity=0.270 Sum_probs=35.7
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
.+..+++++ ++|+||+|.... |.+-.+ +...+.+ -+++++||++.|.+--
T Consensus 165 ~~~~l~AI~--~ADlIvlgPGSlyTSI~P~L---------lv~gi~e-Ai~~s~a~kV~V~ni~ 216 (309)
T cd07044 165 SREVLEAIE--KADNIVIGPGSLYTSILPNI---------SVPGIRE-ALKKTXAKKVYVSNIX 216 (309)
T ss_pred CHHHHHHHH--hCCEEEECCCcCHHHhhhhc---------CcHhHHH-HHHhcCCCeEEECCCC
Confidence 577888885 489999998764 444444 5555655 5567899999998763
No 171
>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=32.55 E-value=1.9e+02 Score=27.69 Aligned_cols=50 Identities=14% Similarity=0.147 Sum_probs=32.4
Q ss_pred EEEEEecCChHHHHH---HHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 145 EIAITEGKEKGPIIV---EEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 145 ~~~v~~G~~~~~~I~---~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
++.+..|.- .+++. +.....++|+||-. |+++..|-++.++||+-++-..
T Consensus 31 ~~~v~~~~~-~~~~~~a~~~~~~~~~dviIsr---------------------G~ta~~i~~~~~iPVv~i~~s~ 83 (526)
T TIGR02329 31 NITPIQLGF-EDAVREIRQRLGAERCDVVVAG---------------------GSNGAYLKSRLSLPVIVIKPTG 83 (526)
T ss_pred eEEEEeccH-HHHHHHHHHHHHhCCCcEEEEC---------------------chHHHHHHHhCCCCEEEecCCh
Confidence 344455553 23333 33445688888743 6688888888899999987653
No 172
>COG3867 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]
Probab=32.49 E-value=3.8e+02 Score=24.19 Aligned_cols=99 Identities=19% Similarity=0.245 Sum_probs=66.4
Q ss_pred HHHHHHHHHHHhhhhCCCceEEEEEEecCC--hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHH
Q 037436 124 AYEKLHSMKSTCQLKKPGVQVEIAITEGKE--KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYC 201 (236)
Q Consensus 124 ~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~--~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~l 201 (236)
..+++.+....++.-.|.+.+-.++.+|.. ..+-|.+.+-++++|.=|+|.+-...+.+-|+ -+...-.++
T Consensus 198 ~a~L~n~g~~avrev~p~ikv~lHla~g~~n~~y~~~fd~ltk~nvdfDVig~SyYpyWhgtl~-------nL~~nl~di 270 (403)
T COG3867 198 MAALLNAGIRAVREVSPTIKVALHLAEGENNSLYRWIFDELTKRNVDFDVIGSSYYPYWHGTLN-------NLTTNLNDI 270 (403)
T ss_pred HHHHHHHHhhhhhhcCCCceEEEEecCCCCCchhhHHHHHHHHcCCCceEEeeeccccccCcHH-------HHHhHHHHH
Confidence 344555545555555678999999998763 36789999999999999999886544433210 134455677
Q ss_pred HHhCCCeEEEEe-----------------CCCCCCCceeeecccc
Q 037436 202 IQNSSRMTIAVR-----------------RKSSKLGGYLITTKRH 229 (236)
Q Consensus 202 l~~s~~PVlvV~-----------------~~~~~~~~~li~t~~~ 229 (236)
.+.-...|+|+- +.+-+.+||+||--.|
T Consensus 271 a~rY~K~VmV~Etay~yTlEdgDg~~Nt~~~~~~t~~ypitVQGQ 315 (403)
T COG3867 271 ASRYHKDVMVVETAYTYTLEDGDGHENTFPSSEQTGGYPITVQGQ 315 (403)
T ss_pred HHHhcCeEEEEEecceeeeccCCCCCCcCCcccccCCCceEEech
Confidence 777788999983 1223567888875444
No 173
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=32.49 E-value=1.5e+02 Score=26.10 Aligned_cols=57 Identities=9% Similarity=0.039 Sum_probs=39.3
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
......++++.|++.+..+|+..+.+....-++ ..+......+..++++||.+==+.
T Consensus 27 n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~--------~~~~~~~~~~A~~~~VPValHLDH 83 (284)
T PRK12857 27 NMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGI--------EYISAMVRTAAEKASVPVALHLDH 83 (284)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEechhHhhhCCH--------HHHHHHHHHHHHHCCCCEEEECCC
Confidence 333378999999999999999988754211111 034556778888999998874443
No 174
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=32.40 E-value=73 Score=25.16 Aligned_cols=20 Identities=5% Similarity=0.197 Sum_probs=10.9
Q ss_pred HHHHHHHHHCCCCEEEEccC
Q 037436 156 PIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~ 175 (236)
+.|.++++++++|+|++|..
T Consensus 53 ~~l~~~i~~~kP~vI~v~g~ 72 (150)
T PF14639_consen 53 ERLKKFIEKHKPDVIAVGGN 72 (150)
T ss_dssp HHHHHHHHHH--SEEEE--S
T ss_pred HHHHHHHHHcCCeEEEEcCC
Confidence 45666777777777777543
No 175
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=32.39 E-value=1.5e+02 Score=26.03 Aligned_cols=50 Identities=16% Similarity=0.221 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhhhhCCCceEEEEEEecC-ChHHHHHHHHHHCCCCEEEEccC
Q 037436 123 RAYEKLHSMKSTCQLKKPGVQVEIAITEGK-EKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 123 ~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~-~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
...+.+.++.+.++.. +..+..+..+.. . +..+.+.+...++|+||.+.-
T Consensus 17 ~~~~~~~~~~~~l~~~--g~~~~~~~t~~~g~-a~~~a~~a~~~~~D~via~GG 67 (301)
T COG1597 17 KAKKLLREVEELLEEA--GHELSVRVTEEAGD-AIEIAREAAVEGYDTVIAAGG 67 (301)
T ss_pred chhhHHHHHHHHHHhc--CCeEEEEEeecCcc-HHHHHHHHHhcCCCEEEEecC
Confidence 3455666666666643 788888877766 5 688888888889999998843
No 176
>PRK00074 guaA GMP synthase; Reviewed
Probab=32.39 E-value=2.5e+02 Score=26.80 Aligned_cols=37 Identities=16% Similarity=0.123 Sum_probs=28.6
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
..++|+|++.+.-+|.-++..+.+. .+.++.++|+..
T Consensus 214 ~~~~vlva~SGGvDS~vll~ll~~~---lg~~v~av~vd~ 250 (511)
T PRK00074 214 GDKKVILGLSGGVDSSVAAVLLHKA---IGDQLTCVFVDH 250 (511)
T ss_pred CCCcEEEEeCCCccHHHHHHHHHHH---hCCceEEEEEeC
Confidence 3478999999999988777666543 257899999976
No 177
>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=32.21 E-value=2.1e+02 Score=25.65 Aligned_cols=28 Identities=4% Similarity=0.046 Sum_probs=22.0
Q ss_pred CCHhHHHHHHHHHHhhccCCCEEEEEEE
Q 037436 77 SSLDAKGALEWALSHTVQCQDTIVLLYV 104 (236)
Q Consensus 77 ~s~~s~~al~~A~~la~~~~~~l~llhV 104 (236)
....+++.+++|.++|.+.+.+|+++|=
T Consensus 139 tr~~~eRi~r~AF~~A~~r~~~Vt~v~K 166 (322)
T TIGR02088 139 TREGSERIARFAFNLAKERNRKVTCVHK 166 (322)
T ss_pred cHHHHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 3567889999999999887777666654
No 178
>PRK13054 lipid kinase; Reviewed
Probab=32.17 E-value=3.4e+02 Score=23.55 Aligned_cols=33 Identities=27% Similarity=0.335 Sum_probs=20.1
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEEc
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG 173 (236)
++++++...+....+..+.+.+...++|.||+.
T Consensus 31 g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~ 63 (300)
T PRK13054 31 GHTLHVRVTWEKGDAARYVEEALALGVATVIAG 63 (300)
T ss_pred CCEEEEEEecCCCcHHHHHHHHHHcCCCEEEEE
Confidence 666666554432225677776666677877655
No 179
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=31.94 E-value=1.8e+02 Score=25.91 Aligned_cols=46 Identities=24% Similarity=0.298 Sum_probs=33.2
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
.+..++.++ ++|+||+|.... |..-.+ ....+.+.| ++.||+.|.+
T Consensus 176 ~p~vl~AI~--~AD~IiiGPgnp~TSI~P~L---------~v~gi~eAL---~~a~vV~Vsp 223 (303)
T PRK13606 176 APGVLEAIE--EADAVIIGPSNPVTSIGPIL---------AVPGIREAL---TEAPVVAVSP 223 (303)
T ss_pred CHHHHHHHH--hCCEEEECCCccHHhhchhc---------cchhHHHHH---hCCCEEEEcC
Confidence 678888884 589999998864 444445 567787777 7788886643
No 180
>PRK08185 hypothetical protein; Provisional
Probab=31.86 E-value=1.3e+02 Score=26.50 Aligned_cols=51 Identities=12% Similarity=-0.075 Sum_probs=37.7
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
..+|++.|++.+.-+|+..+.+.-..... -+......+..++++||.+==+
T Consensus 26 ~~avi~AAee~~sPvIl~~~~~~~~~~~~---------~~~~~~~~~a~~~~vPV~lHLD 76 (283)
T PRK08185 26 LRAVVEEAEANNAPAIIAIHPNELDFLGD---------NFFAYVRERAKRSPVPFVIHLD 76 (283)
T ss_pred HHHHHHHHHHhCCCEEEEeCcchhhhccH---------HHHHHHHHHHHHCCCCEEEECC
Confidence 78999999999999999998765322222 3455677888899999776433
No 181
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=31.43 E-value=2.9e+02 Score=23.34 Aligned_cols=74 Identities=11% Similarity=0.077 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
.+.++.+.+.++.. ++++.+.....++ ....+++.+..+++|.||++........ ..-..++
T Consensus 42 ~~~~~~i~~~~~~~--G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~---------------~~l~~~~ 104 (295)
T PRK10653 42 VSLKDGAQKEADKL--GYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVG---------------NAVKMAN 104 (295)
T ss_pred HHHHHHHHHHHHHc--CCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH---------------HHHHHHH
Confidence 35555566666643 6666554333232 2345666667789998888753221111 1124556
Q ss_pred hCCCeEEEEeCC
Q 037436 204 NSSRMTIAVRRK 215 (236)
Q Consensus 204 ~s~~PVlvV~~~ 215 (236)
+.++|++++-..
T Consensus 105 ~~~ipvV~~~~~ 116 (295)
T PRK10653 105 QANIPVITLDRG 116 (295)
T ss_pred HCCCCEEEEccC
Confidence 778999988643
No 182
>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=31.42 E-value=2.7e+02 Score=25.14 Aligned_cols=48 Identities=23% Similarity=0.336 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEe-----------cCChHHHHHHHHHHCCCCEEEEccC
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITE-----------GKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~-----------G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
..++++.+.|+.. ++++--.+.. |.-+.+.|.+.++..++|+||....
T Consensus 17 ~~~~E~~~L~~~~--~~~v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~ 75 (351)
T TIGR03156 17 ESLEELAELAETA--GAEVVGTVTQKRSRPDPATYIGKGKVEEIAELVEELEADLVIFDHE 75 (351)
T ss_pred hhHHHHHHHHHHC--CCEEEEEEEEecCCCCCCeEecccHHHHHHHHHHhcCCCEEEECCC
Confidence 4566777777654 4444333222 3334689999999999999999853
No 183
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=31.36 E-value=83 Score=21.53 Aligned_cols=33 Identities=9% Similarity=0.051 Sum_probs=21.7
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIV 100 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~ 100 (236)
.++|++++|.+...+.+...........+-++.
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~ 78 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVT 78 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG-------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhccccc
Confidence 689999999999999888888886554444443
No 184
>cd07187 YvcK_like family of mostly uncharacterized proteins similar to B.subtilis YvcK. One member of this protein family, YvcK from Bacillus subtilis, has been proposed to play a role in carbon metabolism, since its function is essential for growth on intermediates of the Krebs cycle and the pentose phosphate pathway. In general, this family of mostly uncharacterized proteins is related to the CofD-like protein family. CofD has been characterized as a 2-phospho-L-lactate transferase involved in F420 biosynthesis. This family appears to have the same conserved phosphate binding site as the other family in this hierarchy, but a different substrate binding site.
Probab=31.18 E-value=1.4e+02 Score=26.68 Aligned_cols=51 Identities=24% Similarity=0.265 Sum_probs=36.5
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
.+..+++++ ++|+||+|...- |.+-.+ +...+.+.+ ++++||++.|.+-..
T Consensus 166 ~~~a~~AI~--~AD~Iv~gPGSlyTSI~P~L---------lv~gI~eAi-~~s~a~kV~v~N~~~ 218 (308)
T cd07187 166 NPEALEAIE--EADLIVYGPGSLYTSILPNL---------LVKGIAEAI-RASKAPKVYICNLMT 218 (308)
T ss_pred CHHHHHHHH--hCCEEEECCCccHHHhhhhc---------CchhHHHHH-HhCCCCEEEEecCCC
Confidence 577888884 599999998753 444555 556665555 788899999976543
No 185
>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=31.02 E-value=3.4e+02 Score=23.22 Aligned_cols=74 Identities=15% Similarity=0.168 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
....+.+++.+... ++++.+.-...+. ....+++.....++|-||+.......... ..+. +.
T Consensus 14 ~~~~~~i~~~a~~~--g~~v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~--------------~l~~-~~ 76 (302)
T TIGR02634 14 QKDRDIFVAAAESL--GAKVFVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVLSN--------------AVQE-AK 76 (302)
T ss_pred HHHHHHHHHHHHhc--CCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHH--------------HHHH-HH
Confidence 34444556655533 5555443333232 12356777777889988887543221111 2223 35
Q ss_pred hCCCeEEEEeCC
Q 037436 204 NSSRMTIAVRRK 215 (236)
Q Consensus 204 ~s~~PVlvV~~~ 215 (236)
...+||+++-..
T Consensus 77 ~~~iPvV~~d~~ 88 (302)
T TIGR02634 77 DEGIKVVAYDRL 88 (302)
T ss_pred HCCCeEEEecCc
Confidence 677888888544
No 186
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=30.88 E-value=1.7e+02 Score=25.76 Aligned_cols=55 Identities=13% Similarity=0.038 Sum_probs=38.5
Q ss_pred ChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 153 EKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 153 ~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
....++++.|++.+..+|+.-+.+.-..-.+ ..+......+.+++++||.+==+.
T Consensus 29 e~~~avi~AAee~~sPvIiq~~~~~~~~~g~--------~~~~~~~~~~a~~~~VPValHLDH 83 (284)
T PRK12737 29 ETLQVVVETAAELRSPVILAGTPGTFSYAGT--------DYIVAIAEVAARKYNIPLALHLDH 83 (284)
T ss_pred HHHHHHHHHHHHhCCCEEEEcCccHHhhCCH--------HHHHHHHHHHHHHCCCCEEEECCC
Confidence 3378999999999999999887653211110 034556788899999998874343
No 187
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=30.87 E-value=3e+02 Score=22.60 Aligned_cols=74 Identities=15% Similarity=0.106 Sum_probs=39.3
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHh
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQN 204 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~ 204 (236)
+..+.+.+.++. ..++++.+....+++ .....++.+...++|-||+.......... . -..+.+
T Consensus 16 ~~~~gi~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~--------------~-~~~l~~ 79 (272)
T cd06301 16 LLRNAMKEHAKV-LGGVELQFEDAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATAP--------------I-VKAANA 79 (272)
T ss_pred HHHHHHHHHHHH-cCCcEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHH--------------H-HHHHHH
Confidence 444445555553 125555554333332 12345556667799999986543221111 1 223567
Q ss_pred CCCeEEEEeCC
Q 037436 205 SSRMTIAVRRK 215 (236)
Q Consensus 205 s~~PVlvV~~~ 215 (236)
.++|++++-..
T Consensus 80 ~~iPvv~~~~~ 90 (272)
T cd06301 80 AGIPLVYVNRR 90 (272)
T ss_pred CCCeEEEecCC
Confidence 88999988653
No 188
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=30.80 E-value=4.6e+02 Score=24.72 Aligned_cols=91 Identities=14% Similarity=0.176 Sum_probs=46.1
Q ss_pred EEEEEecC---CHhHHHHHHHHHHhhcc-CCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEE
Q 037436 70 KVMVVADS---SLDAKGALEWALSHTVQ-CQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVE 145 (236)
Q Consensus 70 ~ILV~vD~---s~~s~~al~~A~~la~~-~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~ 145 (236)
++++|-.+ ..+...+++.=.+.+.. ....|.+++..- . -..++.++.+.+.+++ ...+++++
T Consensus 221 ~~i~p~HG~i~r~~~~~~l~~Y~~~~~~~~~~kv~IvY~S~-~---------GnTe~mA~~ia~gl~~----~g~gv~v~ 286 (479)
T PRK05452 221 DMIATSHGVVWRDNPTQIVELYLKWAADYQEDRITIFYDTM-S---------NNTRMMADAIAQGIAE----VDPRVAVK 286 (479)
T ss_pred CEEECCCCceEeCCHHHHHHHHHHHhhccCcCcEEEEEECC-c---------cHHHHHHHHHHHHHHh----hCCCceEE
Confidence 46666433 22344455554444444 455677766644 1 1122233333333332 11245555
Q ss_pred EEEEecCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 146 IAITEGKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 146 ~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
+.-+.... ...|+..+ .++|.||+|+...
T Consensus 287 ~~~v~~~~-~~~i~~~~--~~ad~vilGspT~ 315 (479)
T PRK05452 287 IFNVARSD-KNEILTNV--FRSKGVLVGSSTM 315 (479)
T ss_pred EEECCCCC-HHHHHhHH--hhCCEEEEECCcc
Confidence 55444444 35555444 5799999999875
No 189
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=30.77 E-value=2.3e+02 Score=25.81 Aligned_cols=36 Identities=17% Similarity=0.113 Sum_probs=27.3
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+..+|+|+..+.-+|.- ++-+.++.+-+|+.||..-
T Consensus 2 ~~~kV~v~mSGGVDSSV----aA~lLk~QGyeViGl~m~~ 37 (356)
T COG0482 2 KKKKVLVGMSGGVDSSV----AAYLLKEQGYEVIGLFMKN 37 (356)
T ss_pred CCcEEEEEccCCHHHHH----HHHHHHHcCCeEEEEEEEe
Confidence 56789999999777763 3455566688999998865
No 190
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=30.62 E-value=2.5e+02 Score=25.32 Aligned_cols=28 Identities=4% Similarity=0.036 Sum_probs=21.7
Q ss_pred CHhHHHHHHHHHHhhccC----C-CEEEEEEEE
Q 037436 78 SLDAKGALEWALSHTVQC----Q-DTIVLLYVI 105 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~----~-~~l~llhV~ 105 (236)
...++..+++|.++|.+. + ..|+++|=.
T Consensus 139 r~~~~Ri~r~Af~~A~~r~~~~~~k~Vt~v~Ka 171 (330)
T PRK14025 139 RKASERIFRFAFEMAKRRKKMGKEGKVTCAHKA 171 (330)
T ss_pred HHHHHHHHHHHHHHHHhccccCCCCeEEEEECC
Confidence 567788999999999887 3 368887753
No 191
>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=30.41 E-value=2.2e+02 Score=25.38 Aligned_cols=48 Identities=23% Similarity=0.358 Sum_probs=33.5
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
.+..++.++ ++|+||+|.... |..-.+ ....+. +-|++++.|++.|.+
T Consensus 174 ~p~vl~AI~--~AD~IVlGPgsp~TSI~P~L---------lVpgI~-eAL~~s~A~vV~Vsp 223 (303)
T cd07186 174 APEVLEAIE--DADLVIIGPSNPVTSIGPIL---------ALPGIR-EALRDKKAPVVAVSP 223 (303)
T ss_pred CHHHHHHHH--hCCEEEECCCccHHHhhhhc---------cchhHH-HHHHhCCCCEEEEcC
Confidence 678888885 489999998764 444444 455554 455778888888865
No 192
>COG1540 Uncharacterized proteins, homologs of lactam utilization protein B [General function prediction only]
Probab=30.41 E-value=2.7e+02 Score=23.95 Aligned_cols=101 Identities=10% Similarity=0.060 Sum_probs=58.0
Q ss_pred EecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCC----chhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 74 VADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQ----VKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 74 ~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+..+.-.....+..++.+|++.+-.| .-|.-...... ...-..++.....-..+-.+...|+.. +..+...--
T Consensus 35 ACGfHAGDp~~M~rtV~lA~e~gV~I-GAHPgyPDl~gFGRr~m~~~~~e~~a~~lYQiGAL~a~~~a~--G~~~~hVKp 111 (252)
T COG1540 35 ACGFHAGDPLTMRRTVRLAKENGVAI-GAHPGYPDLVGFGRREMALSPEELYAQVLYQIGALQAFARAQ--GGVVQHVKP 111 (252)
T ss_pred hhcccCCCHHHHHHHHHHHHHcCCee-ccCCCCccccccCccccCCCHHHHHHHHHHHHHHHHHHHHhc--CCeEEEecc
Confidence 33333344556777777777655332 23443311111 112223444444445556677777754 666655543
Q ss_pred ec---------CChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 150 EG---------KEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 150 ~G---------~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.| ...+..|.+.+...+++|++||..+.
T Consensus 112 HGALYN~~a~D~~la~av~~av~~~dp~L~l~~Lags 148 (252)
T COG1540 112 HGALYNQAAKDRALADAVAEAVAAFDPSLILMGLAGS 148 (252)
T ss_pred cHHHHHHhhcCHHHHHHHHHHHHHhCCCceEEecCcH
Confidence 33 22378999999999999999996653
No 193
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=30.36 E-value=2e+02 Score=25.17 Aligned_cols=56 Identities=7% Similarity=-0.086 Sum_probs=38.9
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCCch-hhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKSIV-WTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~-~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
......+|++.|++.+.-+|+..+.+.-.. ..- .++.......+++++||.+==+.
T Consensus 27 n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~---------~~~~~~~~~a~~~~vpv~lHlDH 83 (281)
T PRK06806 27 NMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLH---------LIGPLMVAAAKQAKVPVAVHFDH 83 (281)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcCcchhccCChH---------HHHHHHHHHHHHCCCCEEEECCC
Confidence 333378999999999999999988754211 111 34556778888999998764333
No 194
>PF05679 CHGN: Chondroitin N-acetylgalactosaminyltransferase; InterPro: IPR008428 This family represents Chondroitin N-acetylgalactosaminyltransferase. Proteins have a type II transmembrane topology. The enzyme is involved in the biosynthetic initiation and elongation of chondroitin sulphate and is the key enzyme responsible for the selective chain assembly of chondroitin/dermatan sulphate on the linkage region tetrasaccharide common to various proteoglycans containing chondroitin/dermatan sulphate or heparin/heparan sulphate chains. ; GO: 0016758 transferase activity, transferring hexosyl groups, 0032580 Golgi cisterna membrane
Probab=30.26 E-value=4.8e+02 Score=24.76 Aligned_cols=101 Identities=15% Similarity=0.079 Sum_probs=54.8
Q ss_pred CCCEEEEEecCC--HhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceE
Q 037436 67 YGNKVMVVADSS--LDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQV 144 (236)
Q Consensus 67 ~~~~ILV~vD~s--~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v 144 (236)
.-=+|+||+.+. +....-|+.-...+...++.+.++-|....... .+.....++.+++++. +++..++
T Consensus 247 ~~V~iIvPl~~r~~~~~~~Fl~~~~~~~l~~~~~~~L~vV~~~~~~~------~~~~~~ik~~l~~l~~----k~~~~~i 316 (499)
T PF05679_consen 247 TRVHIIVPLSGREADWFRRFLENFEKVCLETDDNVFLTVVLFYDPSD------SDSISQIKELLEELER----KYPFSRI 316 (499)
T ss_pred CEEEEEEEecCccHHHHHHHHHHHHHHhcccCCceEEEEEEecCccc------chhHHHHHHHHHHHHH----hCCccce
Confidence 444688898887 222334444444444556666666555411110 0011113445555544 3457788
Q ss_pred EEEEEe-cCC-hHHHHHHHHHHCCCCEEEEccCCC
Q 037436 145 EIAITE-GKE-KGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 145 ~~~v~~-G~~-~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+.-+. |.. .+.++-..++..+.|-|++=..-.
T Consensus 317 ~~i~~~~~~fsr~~~Ld~g~~~~~~d~L~f~~Dvd 351 (499)
T PF05679_consen 317 KWISVKTGEFSRGAALDVGAKKFPPDSLLFFCDVD 351 (499)
T ss_pred EEEEecCCCccHHHHHHhhcccCCCCcEEEEEeCC
Confidence 888887 653 245555566667777777766543
No 195
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=30.04 E-value=1.8e+02 Score=22.87 Aligned_cols=60 Identities=8% Similarity=0.088 Sum_probs=37.1
Q ss_pred CceEEEEEEecCChHHHHHHHHHH--CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKR--QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~--~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
+..+++.+.+... ..+|++.+.+ .++|-||+..-..+.. +-...+.+...++|++=|+-.
T Consensus 40 ~~g~~v~~~QSN~-EGelid~I~~a~~~~dgiIINpga~tht--------------S~Ai~DAl~~~~~P~vEVHiS 101 (140)
T PF01220_consen 40 ELGVEVEFFQSNH-EGELIDWIHEARDDVDGIIINPGAYTHT--------------SIAIRDALKAISIPVVEVHIS 101 (140)
T ss_dssp HTTEEEEEEE-SS-HHHHHHHHHHHTCTTSEEEEE-GGGGHT---------------HHHHHHHHCCTS-EEEEESS
T ss_pred HCCCeEEEEecCC-HHHHHHHHHHHHhhCCEEEEccchhccc--------------cHHHHHHHHcCCCCEEEEEcC
Confidence 3445666666555 5677777765 3599999986653322 113356788889999999744
No 196
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=29.97 E-value=2.6e+02 Score=21.96 Aligned_cols=58 Identities=7% Similarity=0.072 Sum_probs=36.3
Q ss_pred ceEEEEEEecCChHHHHHHHHHH--CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 142 VQVEIAITEGKEKGPIIVEEAKR--QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 142 v~v~~~v~~G~~~~~~I~~~a~~--~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
..+++.+.+... ..+|++.+++ .++|-||+..-..+... -...+.+....+|++=|+-
T Consensus 40 ~g~~v~~~QSN~-EGelId~i~~a~~~~dgiIINpga~THtS--------------iAl~DAl~~~~~P~vEVHi 99 (141)
T TIGR01088 40 LNVELEFFQSNS-EGQLIDKIHEAEGQYDGIIINPGALTHTS--------------VALRDALAAVSLPVVEVHL 99 (141)
T ss_pred cCCEEEEEeeCc-HHHHHHHHHhccccCCEEEEcChHHhhhH--------------HHHHHHHHcCCCCEEEEEc
Confidence 344555555544 4567776655 35799999876543221 1335677888999998864
No 197
>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=29.83 E-value=94 Score=23.40 Aligned_cols=114 Identities=7% Similarity=0.032 Sum_probs=60.4
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEE--E
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVE--I 146 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~--~ 146 (236)
+||++++-++..+..+.++.-.+.+. +.+|.++-.- .+.+.+..... . ...+..+ .
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g~~v~vv~S~-----------------~A~~~~~~~~~--~--~~~v~~~~~~ 58 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-GWEVRVVLSP-----------------SAERFVTPEGL--T--GEPVYTDWDT 58 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-TSEEEEEESH-----------------HHHHHSHHHGH--C--CSCEECTHCT
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-CCEEEEEECC-----------------cHHHHhhhhcc--c--cchhhhcccc
Confidence 58999999999998888888777655 6664433221 11222222111 1 0112211 1
Q ss_pred EEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhC---CCeEEEEeCC
Q 037436 147 AITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNS---SRMTIAVRRK 215 (236)
Q Consensus 147 ~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s---~~PVlvV~~~ 215 (236)
...+.. ... ++.. ..+|++|+..-..+.+-++ +.+ +..+....++..+ ..||+++|.-
T Consensus 59 -~~~~~~-~~~-~~~~--~~~D~~vVaPaT~NtlaKi----A~G--iaD~l~~~~~~~~l~~~~pvvi~P~m 119 (129)
T PF02441_consen 59 -WDRGDP-AEH-IELS--RWADAMVVAPATANTLAKI----ANG--IADNLLTRVALAALKEGKPVVIAPAM 119 (129)
T ss_dssp -CSTTTT-TCH-HHHH--HTESEEEEEEEEHHHHHHH----HTT----SSHHHHHHHHHHHTTCGEEEEEEE
T ss_pred -CCCCCC-cCc-cccc--ccCCEEEEcccCHHHHHHH----HhC--CcchHHHHHHHHHccCCCCeEEEEeC
Confidence 112222 222 3333 4499999998765444443 111 2345556667777 8999999864
No 198
>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=29.72 E-value=3.3e+02 Score=23.20 Aligned_cols=83 Identities=7% Similarity=-0.060 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHH
Q 037436 123 RAYEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYC 201 (236)
Q Consensus 123 ~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~l 201 (236)
+..+.++.+.+.+.. .+.+-+.+..... ....+.+.|++.++|-+++..........- -.-..-..+
T Consensus 51 Er~~l~~~~~~~~~~---~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~---------~~~~~~~~i 118 (281)
T cd00408 51 ERKEVIEAVVEAVAG---RVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQE---------GIVAHFKAV 118 (281)
T ss_pred HHHHHHHHHHHHhCC---CCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHH---------HHHHHHHHH
Confidence 344555555554431 3443333322121 134566677889999999987654322111 112234567
Q ss_pred HHhCCCeEEEEeCCCC
Q 037436 202 IQNSSRMTIAVRRKSS 217 (236)
Q Consensus 202 l~~s~~PVlvV~~~~~ 217 (236)
...+++|+++...+..
T Consensus 119 a~~~~~pi~iYn~P~~ 134 (281)
T cd00408 119 ADASDLPVILYNIPGR 134 (281)
T ss_pred HhcCCCCEEEEECccc
Confidence 7778999999877654
No 199
>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional
Probab=29.56 E-value=4.9e+02 Score=24.57 Aligned_cols=37 Identities=8% Similarity=0.066 Sum_probs=30.5
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
....++|+.+.+.-+|.-|+.++... +.+|..||+..
T Consensus 175 g~~gk~lvllSGGiDS~va~~~~~kr----G~~v~~l~f~~ 211 (482)
T PRK01269 175 GTQEDVLSLISGGFDSGVASYMLMRR----GSRVHYCFFNL 211 (482)
T ss_pred cccCeEEEEEcCCchHHHHHHHHHHc----CCEEEEEEEec
Confidence 46678999999999999888666554 77999999976
No 200
>PRK10852 thiosulfate transporter subunit; Provisional
Probab=29.49 E-value=3e+02 Score=24.70 Aligned_cols=81 Identities=15% Similarity=0.106 Sum_probs=45.6
Q ss_pred HHHHHHHhhccCC-CEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHH
Q 037436 84 ALEWALSHTVQCQ-DTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEA 162 (236)
Q Consensus 84 al~~A~~la~~~~-~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a 162 (236)
.|..|+++....+ ...+|++|...+. ++. .+++...+.+..+...+++++++....|.. +......+
T Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~sy~~~--------~e~---~~~i~~~F~~~~~~~~~g~~v~i~~s~ggS-g~~~~qi~ 77 (338)
T PRK10852 10 SLALAASLLLAGQAQATELLNSSYDVS--------REL---FAALNPPFEQQWAKDNPGDKLTIKQSHAGS-SKQALAIL 77 (338)
T ss_pred HHHHHHHHHhcccCCCceEEeeeccCC--------HHH---HHHHHHHHHHHHHhhCCCCceEEEEcCCCc-HHHHHHHh
Confidence 4445555554433 3567888876332 111 112222223322223568888888777776 55666666
Q ss_pred HHCCCCEEEEccCC
Q 037436 163 KRQNVSLLVLGQRR 176 (236)
Q Consensus 163 ~~~~~DLLVmG~~~ 176 (236)
.-..+|+++.+...
T Consensus 78 ~G~~ADV~~~A~~~ 91 (338)
T PRK10852 78 QGLKADVVTYNQVT 91 (338)
T ss_pred cCCCcCEEecCCHH
Confidence 66789999888753
No 201
>PHA02031 putative DnaG-like primase
Probab=29.39 E-value=1.5e+02 Score=25.88 Aligned_cols=37 Identities=8% Similarity=-0.022 Sum_probs=30.5
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYV 104 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV 104 (236)
-++|+++.|++.....|...|+.++...+-.+.++.+
T Consensus 206 ~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~l 242 (266)
T PHA02031 206 CPRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIIT 242 (266)
T ss_pred CCCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEEC
Confidence 4899999999999999999999998877666554444
No 202
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=29.36 E-value=2e+02 Score=26.49 Aligned_cols=105 Identities=10% Similarity=0.069 Sum_probs=58.7
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCC--C---------------chh--HHHHHHHHHHHHH
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSK--Q---------------VKE--TKGKKLYLRAYEK 127 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~--~---------------~~~--~~~~~~~~~~~~~ 127 (236)
.+++||+.+.-.++.....-....+-+.++-+..++|.-. .-. + ... ...+...+.....
T Consensus 2 ~~~Kv~~I~GTRPE~iKmapli~~~~~~~~~~~~vi~TGQ-H~d~em~~~~le~~~i~~pdy~L~i~~~~~tl~~~t~~~ 80 (383)
T COG0381 2 KMLKVLTIFGTRPEAIKMAPLVKALEKDPDFELIVIHTGQ-HRDYEMLDQVLELFGIRKPDYDLNIMKPGQTLGEITGNI 80 (383)
T ss_pred CceEEEEEEecCHHHHHHhHHHHHHHhCCCCceEEEEecc-cccHHHHHHHHHHhCCCCCCcchhccccCCCHHHHHHHH
Confidence 4678999999998887766555555455556777777632 110 0 000 0012233445566
Q ss_pred HHHHHHHhhhhCCCceEEEEEEecCCh---HHHHHHHHHHCCCCEEEEccCC
Q 037436 128 LHSMKSTCQLKKPGVQVEIAITEGKEK---GPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 128 l~~~~~~~~~~~~~v~v~~~v~~G~~~---~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
+..+.+.+....| +..++.|+.. +.++..+-.+..+-.|=-|-+.
T Consensus 81 i~~~~~vl~~~kP----D~VlVhGDT~t~lA~alaa~~~~IpV~HvEAGlRt 128 (383)
T COG0381 81 IEGLSKVLEEEKP----DLVLVHGDTNTTLAGALAAFYLKIPVGHVEAGLRT 128 (383)
T ss_pred HHHHHHHHHhhCC----CEEEEeCCcchHHHHHHHHHHhCCceEEEeccccc
Confidence 6667776665444 4677778762 1244444445555555556554
No 203
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1.
Probab=29.34 E-value=2.1e+02 Score=25.84 Aligned_cols=29 Identities=3% Similarity=-0.017 Sum_probs=22.2
Q ss_pred CHhHHHHHHHHHHhhccCCC-EEEEEEEEe
Q 037436 78 SLDAKGALEWALSHTVQCQD-TIVLLYVIA 106 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~-~l~llhV~~ 106 (236)
...++..+++|.++|.+.+. +|+++|=..
T Consensus 144 r~~~eRi~r~Af~~A~~r~~k~Vt~v~KaN 173 (333)
T TIGR00175 144 RDKSERIARYAFEYARKNGRKKVTAVHKAN 173 (333)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEECCc
Confidence 46778899999999988754 588887533
No 204
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=29.33 E-value=2.5e+02 Score=22.19 Aligned_cols=57 Identities=9% Similarity=0.050 Sum_probs=35.0
Q ss_pred eEEEEEEecCChHHHHHHHHHH--CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 143 QVEIAITEGKEKGPIIVEEAKR--QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 143 ~v~~~v~~G~~~~~~I~~~a~~--~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
.+++.+.+... ..+|++.+++ .++|-||+..-..+... -...+.+...++|++=|+-
T Consensus 43 g~~~~~~QSN~-EGelId~i~~a~~~~dgiIINpga~THtS--------------iAl~DAl~~~~~P~VEVHi 101 (146)
T PRK13015 43 GLEVEFRQSNH-EGELIDWIHEARGDVAGIVINPGAYTHTS--------------VAIRDALAALELPVIEVHI 101 (146)
T ss_pred CCEEEEEeeCc-HHHHHHHHHHhhhcCCEEEEcchHHhhhH--------------HHHHHHHHcCCCCEEEEEc
Confidence 34445555444 4466666544 35799999876543221 1335777888999998864
No 205
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=29.12 E-value=3.8e+02 Score=23.21 Aligned_cols=49 Identities=18% Similarity=0.227 Sum_probs=31.4
Q ss_pred HHHHHHHHhhhhCCCceEEEEE-Ee-cCChHHHHHHHHHHCCCCEEEEccC
Q 037436 127 KLHSMKSTCQLKKPGVQVEIAI-TE-GKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 127 ~l~~~~~~~~~~~~~v~v~~~v-~~-G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.++++...++.++|++++.... .. ...-.++|++.+...++|+|.+|--
T Consensus 120 V~~~a~~~l~~~~p~l~ivg~h~GYf~~~e~~~i~~~I~~s~pdil~VgmG 170 (253)
T COG1922 120 VAEQAAAKLRAKYPGLKIVGSHDGYFDPEEEEAIVERIAASGPDILLVGMG 170 (253)
T ss_pred HHHHHHHHHHHHCCCceEEEecCCCCChhhHHHHHHHHHhcCCCEEEEeCC
Confidence 3444455555556666665543 11 2221358999999999999999964
No 206
>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=28.88 E-value=4.4e+02 Score=23.81 Aligned_cols=33 Identities=15% Similarity=0.104 Sum_probs=26.3
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVI 105 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~ 105 (236)
++|+|++.+.-+|.-++.++.+ .+.+|+.+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEE
Confidence 4799999999999877766655 35689999985
No 207
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=28.77 E-value=4.1e+02 Score=23.47 Aligned_cols=76 Identities=17% Similarity=0.145 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHH
Q 037436 123 RAYEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYC 201 (236)
Q Consensus 123 ~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~l 201 (236)
...+.+..+.+.|+.. +..+-+.....++ ....+++.....++|-||+-..... ......
T Consensus 72 ~~~~i~~gi~~~~~~~--gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~~~~-----------------~~~~~~ 132 (333)
T COG1609 72 FFAEILKGIEEAAREA--GYSLLLANTDDDPEKEREYLETLLQKRVDGLILLGERPN-----------------DSLLEL 132 (333)
T ss_pred hHHHHHHHHHHHHHHc--CCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC-----------------HHHHHH
Confidence 3456667777777744 6666665555432 2467788888899999988862111 122345
Q ss_pred HHhCCCeEEEEeCCCC
Q 037436 202 IQNSSRMTIAVRRKSS 217 (236)
Q Consensus 202 l~~s~~PVlvV~~~~~ 217 (236)
+....+|++++-+...
T Consensus 133 l~~~~~P~V~i~~~~~ 148 (333)
T COG1609 133 LAAAGIPVVVIDRSPP 148 (333)
T ss_pred HHhcCCCEEEEeCCCc
Confidence 5666899998876533
No 208
>PRK09219 xanthine phosphoribosyltransferase; Validated
Probab=28.66 E-value=1.7e+02 Score=24.04 Aligned_cols=22 Identities=14% Similarity=-0.007 Sum_probs=15.5
Q ss_pred HHHHHHhCCCeEEEEeCCCCCC
Q 037436 198 ADYCIQNSSRMTIAVRRKSSKL 219 (236)
Q Consensus 198 ~~~ll~~s~~PVlvV~~~~~~~ 219 (236)
+..+..+...|++++|++.+.+
T Consensus 65 A~~lA~~Lg~p~v~vRK~~k~~ 86 (189)
T PRK09219 65 AVMAALALGVPVVFAKKKKSLT 86 (189)
T ss_pred HHHHHHHHCCCEEEEEECCCCC
Confidence 3445566789999999876643
No 209
>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=28.58 E-value=2.4e+02 Score=23.49 Aligned_cols=60 Identities=8% Similarity=0.047 Sum_probs=36.8
Q ss_pred HHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC----CCCCceeeec
Q 037436 156 PIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS----SKLGGYLITT 226 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~----~~~~~~li~t 226 (236)
..|...+.+.+.|.+.+|.+..-.... +..+...+-++.++||++.|-.. ..-+.|++++
T Consensus 14 ~~ia~~v~~~gtDaI~VGGS~gvt~~~-----------~~~~v~~ik~~~~lPvilfp~~~~~i~~~aD~~~~~s 77 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVGGSLGIVESN-----------LDQTVKKIKKITNLPVILFPGNVNGLSRYADAVFFMS 77 (205)
T ss_pred HHHHHHHHhcCCCEEEEcCcCCCCHHH-----------HHHHHHHHHhhcCCCEEEECCCccccCcCCCEEEEEE
Confidence 345566777889999998663211111 12244454445789999987543 3456666666
No 210
>PRK13337 putative lipid kinase; Reviewed
Probab=28.54 E-value=3.9e+02 Score=23.18 Aligned_cols=42 Identities=14% Similarity=0.244 Sum_probs=24.5
Q ss_pred HHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEc
Q 037436 130 SMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 130 ~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG 173 (236)
++...++.. ++++++...+....+..+.+.+.+.++|+||+.
T Consensus 23 ~~~~~l~~~--~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~ 64 (304)
T PRK13337 23 DVLQKLEQA--GYETSAHATTGPGDATLAAERAVERKFDLVIAA 64 (304)
T ss_pred HHHHHHHHc--CCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEE
Confidence 344444432 667666666533325677776666677876654
No 211
>cd06362 PBP1_mGluR Ligand binding domain of the metabotropic glutamate receptors (mGluR). Ligand binding domain of the metabotropic glutamate receptors (mGluR), which are members of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses. mGluRs bind to glutamate and function as an excitatory neurotransmitter; they are involved in learning, memory, anxiety, and the perception of pain. Eight subtypes of mGluRs have been cloned so far, and are classified into three groups according to their sequence similarities, transduction mechanisms, and pharmacological profiles. Group I is composed of mGlu1R and mGlu5R that both stimulate PLC hydrolysis. Group II includes mGlu2R and mGlu3R, which inhibit adenylyl cyclase, as do mGlu4R, mGlu6R, mGlu7R, and mGlu8R, which form group III.
Probab=28.31 E-value=4.6e+02 Score=23.89 Aligned_cols=30 Identities=13% Similarity=-0.083 Sum_probs=18.2
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCC
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQ 96 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~ 96 (236)
..++|-+..+.+......++.....++..+
T Consensus 171 ~w~~vaii~~~~~~G~~~~~~~~~~~~~~g 200 (452)
T cd06362 171 NWTYVSTVASEGNYGEKGIEAFEKLAAERG 200 (452)
T ss_pred CCcEEEEEEeCCHHHHHHHHHHHHHHHHCC
Confidence 456676666666666666555555555544
No 212
>PRK06801 hypothetical protein; Provisional
Probab=28.21 E-value=2.1e+02 Score=25.11 Aligned_cols=54 Identities=6% Similarity=-0.017 Sum_probs=39.5
Q ss_pred hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 154 KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 154 ~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
...+|++.|++.+.-+|+..+.+......+ ..+......+..++++||.+==+.
T Consensus 30 ~~~avi~AAe~~~~PvIl~~~~~~~~~~~~--------~~~~~~~~~~a~~~~vpV~lHlDH 83 (286)
T PRK06801 30 FLRALFAAAKQERSPFIINIAEVHFKYISL--------ESLVEAVKFEAARHDIPVVLNLDH 83 (286)
T ss_pred HHHHHHHHHHHHCCCEEEEeCcchhhcCCH--------HHHHHHHHHHHHHCCCCEEEECCC
Confidence 378999999999999999988765322111 035667888999999998774333
No 213
>PRK11058 GTPase HflX; Provisional
Probab=28.21 E-value=3.6e+02 Score=25.08 Aligned_cols=48 Identities=27% Similarity=0.357 Sum_probs=32.2
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEe-----------cCChHHHHHHHHHHCCCCEEEEccC
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITE-----------GKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~-----------G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
+.++++...++.. ++++.-.+.. |+-+.+.|-+.++..++|+||+...
T Consensus 25 ~~~~El~~L~~~~--g~~v~~~~~q~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~ 83 (426)
T PRK11058 25 EDLQEFESLVSSA--GVEALQVITGSRKAPHPKYFVGEGKAVEIAEAVKATGASVVLFDHA 83 (426)
T ss_pred hhHHHHHHHHHHC--CCEEEEEEEEecCCCCCCeeecccHHHHHHHHHHhcCCCEEEECCC
Confidence 4466777777754 4444333322 3434678999999999999999854
No 214
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=28.19 E-value=1.4e+02 Score=23.43 Aligned_cols=55 Identities=9% Similarity=-0.027 Sum_probs=37.6
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC-CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK-SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~-s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
...|.+.+++++++.||+|-... .+...... +..-.+++.|-...++||..+-+.
T Consensus 42 ~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~------~~~~~f~~~L~~r~~lpv~l~DER 97 (141)
T COG0816 42 FNALLKLVKEYQVDTVVVGLPLNMDGTEGPRA------ELARKFAERLKKRFNLPVVLWDER 97 (141)
T ss_pred HHHHHHHHHHhCCCEEEEecCcCCCCCcchhH------HHHHHHHHHHHHhcCCCEEEEcCc
Confidence 78999999999999999998752 21111100 023346677777788999988654
No 215
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=28.10 E-value=93 Score=27.90 Aligned_cols=28 Identities=11% Similarity=0.120 Sum_probs=21.7
Q ss_pred HhHHHHHHHHHHhhccCC-CEEEEEEEEe
Q 037436 79 LDAKGALEWALSHTVQCQ-DTIVLLYVIA 106 (236)
Q Consensus 79 ~~s~~al~~A~~la~~~~-~~l~llhV~~ 106 (236)
..+.+..++|..+|++.+ ..++++|-..
T Consensus 178 ~AS~Ria~~AF~yAr~~~R~~vtvvHKaN 206 (365)
T KOG0785|consen 178 AASRRIAEYAFEYARQNGRKRVTVVHKAN 206 (365)
T ss_pred HHHHHHHHHHHHHHHHcCCCceEEEehhh
Confidence 456788899999998866 5788888644
No 216
>cd03416 CbiX_SirB_N Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both are found in a wide range of bacteria. This subgroup also contains single domain proteins from archaea and bacteria which may represent the ancestral form of class II chelatases before domain duplication occurred.
Probab=28.00 E-value=2.2e+02 Score=20.09 Aligned_cols=48 Identities=23% Similarity=0.275 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEec-CChHHHHHHHHHHCCCCEEEEc
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEG-KEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G-~~~~~~I~~~a~~~~~DLLVmG 173 (236)
+.+..+.+.++...++..+.....++ .+..+..++...+.+++-|++-
T Consensus 16 ~~~~~l~~~l~~~~~~~~v~~afle~~~p~~~~~l~~l~~~g~~~v~vv 64 (101)
T cd03416 16 EALEALAERLRERLPGDEVELAFLELAEPSLAEALDELAAQGATRIVVV 64 (101)
T ss_pred HHHHHHHHHHHhhCCCCcEEEEEEEcCCCCHHHHHHHHHHcCCCEEEEE
Confidence 34444555554444456677777776 5545677777777777766654
No 217
>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=27.80 E-value=2e+02 Score=25.20 Aligned_cols=55 Identities=11% Similarity=-0.023 Sum_probs=39.6
Q ss_pred ChHHHHHHHHHHCCCCEEEEccCCCCc-hhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 153 EKGPIIVEEAKRQNVSLLVLGQRRKSI-VWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 153 ~~~~~I~~~a~~~~~DLLVmG~~~~s~-~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
....+|++.|++.+.-+|+..+.+.-. .... .+......+.+++.+||.+==+..
T Consensus 27 e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~---------~~~~~~~~~a~~~~VPValHLDHg 82 (282)
T TIGR01858 27 ETIQAVVETAAEMRSPVILAGTPGTFKHAGTE---------YIVALCSAASTTYNMPLALHLDHH 82 (282)
T ss_pred HHHHHHHHHHHHhCCCEEEEeCccHHhhCCHH---------HHHHHHHHHHHHCCCCEEEECCCC
Confidence 337899999999999999998875421 1111 345678889999999998744433
No 218
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=27.42 E-value=2.2e+02 Score=25.05 Aligned_cols=54 Identities=7% Similarity=-0.045 Sum_probs=38.6
Q ss_pred ChHHHHHHHHHHCCCCEEEEccCCCCc-hhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 153 EKGPIIVEEAKRQNVSLLVLGQRRKSI-VWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 153 ~~~~~I~~~a~~~~~DLLVmG~~~~s~-~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
....++++.|++.+..+|+..+.+.-. ...- .+......+.+++++||.+==+.
T Consensus 29 e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~---------~~~~~~~~~a~~~~VPValHLDH 83 (286)
T PRK12738 29 ETIQAILEVCSEMRSPVILAGTPGTFKHIALE---------EIYALCSAYSTTYNMPLALHLDH 83 (286)
T ss_pred HHHHHHHHHHHHHCCCEEEEcCcchhhhCCHH---------HHHHHHHHHHHHCCCCEEEECCC
Confidence 337899999999999999987765321 1111 23567788899999999874333
No 219
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=27.36 E-value=1e+02 Score=27.92 Aligned_cols=47 Identities=9% Similarity=0.072 Sum_probs=23.7
Q ss_pred EEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecC
Q 037436 101 LLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGK 152 (236)
Q Consensus 101 llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~ 152 (236)
++|+.+....+ .........+...+.+.++.+.|... ++++.++-|+
T Consensus 3 ilHtSD~HLG~-~~~~~~~r~~d~~~~f~~~l~~a~~~----~vD~vliAGD 49 (390)
T COG0420 3 ILHTSDWHLGS-KQLNLPSRLEDQKKAFDELLEIAKEE----KVDFVLIAGD 49 (390)
T ss_pred eEEecccccch-hhccCccchHHHHHHHHHHHHHHHHc----cCCEEEEccc
Confidence 56776633331 11222334445556666666666632 3366666664
No 220
>COG1810 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.33 E-value=3.9e+02 Score=22.72 Aligned_cols=96 Identities=13% Similarity=0.064 Sum_probs=52.9
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAI 148 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v 148 (236)
-+|+|.+|+ .+..++..-... +.+...++-++..+ ... ...++.-.+.+... ++.++-+..
T Consensus 2 mki~vlt~g-~yG~R~~~nl~~--~~f~~~~v~v~~~P--e~~-------------~~fie~P~~~Lp~~-~e~Di~va~ 62 (224)
T COG1810 2 MKILVLTDG-EYGKRAVNNLAC--KGFKNQFVAVKEYP--EEL-------------PDFIEEPEDLLPKL-PEADIVVAY 62 (224)
T ss_pred cEEEEEeec-cchHHHHHhHhh--hccccceEEEEecc--ccc-------------cchhhCHHHhcCCC-CCCCEEEEe
Confidence 468888884 344444443332 22456666666653 111 01111122222221 455555555
Q ss_pred EecCChHHHHHHHHHHCCCCEEEEccCCCCchhhh
Q 037436 149 TEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTL 183 (236)
Q Consensus 149 ~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l 183 (236)
..+.+..-++.+.|.+.++..||++.....+++.-
T Consensus 63 ~lHPDl~~~L~e~~~~~~~~alIvp~~~~~g~rkq 97 (224)
T COG1810 63 GLHPDLLLALPEKAAEGGVKALIVPAEPPEGLRKQ 97 (224)
T ss_pred ccCccHHHHHHHHHHhCCccEEEEecCCChhHHHH
Confidence 44554467888888889999999999876655443
No 221
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=27.28 E-value=3.1e+02 Score=21.67 Aligned_cols=57 Identities=9% Similarity=0.065 Sum_probs=35.6
Q ss_pred eEEEEEEecCChHHHHHHHHHH--CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 143 QVEIAITEGKEKGPIIVEEAKR--QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 143 ~v~~~v~~G~~~~~~I~~~a~~--~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
.+++.+.+... ..+|++.+++ .++|-||+..-..+... -...+.+...++|++=|+-
T Consensus 43 g~~v~~~QSN~-EGelId~I~~a~~~~dgiiINpga~THtS--------------iAl~DAl~~~~~P~VEVHi 101 (146)
T PRK05395 43 GVELEFFQSNH-EGELIDRIHEARDGADGIIINPGAYTHTS--------------VALRDALAAVSIPVIEVHL 101 (146)
T ss_pred CCEEEEEeeCc-HHHHHHHHHhcccCCcEEEECchHHHHHH--------------HHHHHHHHcCCCCEEEEec
Confidence 33444445444 4566666654 36899999876543221 1335777888999998864
No 222
>PRK09222 isocitrate dehydrogenase; Validated
Probab=27.25 E-value=1.9e+02 Score=27.60 Aligned_cols=28 Identities=7% Similarity=0.018 Sum_probs=22.6
Q ss_pred CHhHHHHHHHHHHhhccCCC-EEEEEEEE
Q 037436 78 SLDAKGALEWALSHTVQCQD-TIVLLYVI 105 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~-~l~llhV~ 105 (236)
.+.+++.+++|.++|++.+. .|+++|=.
T Consensus 148 r~~~eRI~r~AFe~A~~r~rkkVt~v~Ka 176 (482)
T PRK09222 148 RPGSEKIIRYAFEYARANGRKKVTCLTKD 176 (482)
T ss_pred HHHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence 46788999999999988764 68888753
No 223
>PRK14561 hypothetical protein; Provisional
Probab=26.84 E-value=3.5e+02 Score=22.01 Aligned_cols=32 Identities=19% Similarity=-0.023 Sum_probs=23.0
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+|+|++.+..+|.-++.++..+ ..+.++++..
T Consensus 2 kV~ValSGG~DSslll~~l~~~-----~~v~a~t~~~ 33 (194)
T PRK14561 2 KAGVLFSGGKDSSLAAILLERF-----YDVELVTVNF 33 (194)
T ss_pred EEEEEEechHHHHHHHHHHHhc-----CCeEEEEEec
Confidence 6999999999998777655332 3466777755
No 224
>PRK05920 aromatic acid decarboxylase; Validated
Probab=26.77 E-value=1.4e+02 Score=24.82 Aligned_cols=36 Identities=6% Similarity=-0.005 Sum_probs=26.8
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLY 103 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llh 103 (236)
+.++|++++-++..+..+++..-.+.+ .+.+|.++-
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~-~g~~V~vi~ 37 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLA-ADYEVHLVI 37 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHH-CCCEEEEEE
Confidence 568999999999999888877766644 466654443
No 225
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=26.60 E-value=4.4e+02 Score=25.27 Aligned_cols=114 Identities=13% Similarity=0.094 Sum_probs=64.2
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
.--++++.++.+.--...|..| .+.+-.+.++-|...|. -+.+..+..+.. .|+++.+
T Consensus 358 ~dgdviltyg~s~vV~~ill~A----~~~~k~frVvVVDSRP~------------~EG~~~lr~Lv~------~GinctY 415 (556)
T KOG1467|consen 358 QDGDVLLTYGSSSVVNMILLEA----KELGKKFRVVVVDSRPN------------LEGRKLLRRLVD------RGINCTY 415 (556)
T ss_pred hcCCEEEEecchHHHHHHHHHH----HHhCcceEEEEEeCCCC------------cchHHHHHHHHH------cCCCeEE
Confidence 3445788888877666666554 44455555555544221 123444444433 2899999
Q ss_pred EEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHH-HHHHhCCCeEEEEeCCCC
Q 037436 147 AITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIAD-YCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 147 ~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~-~ll~~s~~PVlvV~~~~~ 217 (236)
.++.+-. -|. ..++-|++|.+.--....+ +. ..|...- =|.++..+||||+=...|
T Consensus 416 v~I~a~s---yim-----~evtkvfLGahailsNG~v-ys------R~GTa~valvAna~nVPVlVCCE~yK 472 (556)
T KOG1467|consen 416 VLINAAS---YIM-----LEVTKVFLGAHAILSNGAV-YS------RVGTACVALVANAFNVPVLVCCEAYK 472 (556)
T ss_pred EEehhHH---HHH-----HhcceeeechhhhhcCcch-hh------hcchHHHHHHhcccCCCEEEEechhh
Confidence 9887543 333 4588999999853111111 00 1233333 344555799999966544
No 226
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=26.49 E-value=3.6e+02 Score=22.04 Aligned_cols=130 Identities=17% Similarity=-0.001 Sum_probs=61.0
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCc-hh---HHHHHHHHHHHHHHHHHHHHhhhhCCCceE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQV-KE---TKGKKLYLRAYEKLHSMKSTCQLKKPGVQV 144 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~-~~---~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v 144 (236)
..+.+-+-+++. ..+..++..+.+.+..-+=||+-- |.... .. .......+...+.++.+++.+. ..+.+
T Consensus 55 ~p~~~qi~g~~~--~~~~~aa~~~~~aG~d~ieln~g~-p~~~~~~~~~G~~l~~~~~~~~eii~~v~~~~~---~~v~v 128 (231)
T cd02801 55 RPLIVQLGGSDP--ETLAEAAKIVEELGADGIDLNMGC-PSPKVTKGGAGAALLKDPELVAEIVRAVREAVP---IPVTV 128 (231)
T ss_pred CCEEEEEcCCCH--HHHHHHHHHHHhcCCCEEEEeCCC-CHHHHhCCCeeehhcCCHHHHHHHHHHHHHhcC---CCEEE
Confidence 335555544322 234455566666566655566533 21100 00 0111122334555556655432 13444
Q ss_pred EEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCc-hhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 145 EIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSI-VWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 145 ~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~-~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
.+....... ....+++.+.+.++|.|.+-.+.... .... ..-.....+.+..++||++.-
T Consensus 129 k~r~~~~~~~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~---------~~~~~~~~i~~~~~ipvi~~G 190 (231)
T cd02801 129 KIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGP---------ADWDYIAEIKEAVSIPVIANG 190 (231)
T ss_pred EEeeccCCchHHHHHHHHHHHhCCCEEEECCCCHHHcCCCC---------CCHHHHHHHHhCCCCeEEEeC
Confidence 433322221 24567777778899999886553211 0000 001223456666678888864
No 227
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=26.46 E-value=4.2e+02 Score=22.78 Aligned_cols=61 Identities=8% Similarity=0.097 Sum_probs=43.1
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC----CCCCceeeec
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS----SKLGGYLITT 226 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~----~~~~~~li~t 226 (236)
...|.+.+.+.+.|.|.+|.+..-....+ -.+.+.|-.+.+.|+++.|-.. +.-+.|+++|
T Consensus 30 ~~ei~~~~~~~GTDaImIGGS~gvt~~~~-----------~~~v~~ik~~~~lPvilfP~~~~~is~~aDavff~s 94 (240)
T COG1646 30 ADEIAEAAAEAGTDAIMIGGSDGVTEENV-----------DNVVEAIKERTDLPVILFPGSPSGISPYADAVFFPS 94 (240)
T ss_pred cHHHHHHHHHcCCCEEEECCcccccHHHH-----------HHHHHHHHhhcCCCEEEecCChhccCccCCeEEEEE
Confidence 57899999999999999997753222221 2356677668899999998653 3455555554
No 228
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=26.34 E-value=2.4e+02 Score=25.81 Aligned_cols=78 Identities=9% Similarity=0.149 Sum_probs=43.0
Q ss_pred CHhHHHHHHHHHHhhccCC-CEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHH
Q 037436 78 SLDAKGALEWALSHTVQCQ-DTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGP 156 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~-~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~ 156 (236)
...++..+++|.++|.+.+ ..|+++|=.-.-.. .. .-+ .+..+++.+ .+|+|+++..++..
T Consensus 167 r~~~eRIar~AF~~A~~r~rkkVt~v~KaNvl~~--t~---glf----~~~~~eva~----eyPdV~~~~~~VDa----- 228 (360)
T PLN00123 167 KFCSERIAKYAFEYAYLNNRKKVTAVHKANIMKL--AD---GLF----LESCREVAK----KYPGIKYNEIIVDN----- 228 (360)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcEEEEECCccccc--hh---hHH----HHHHHHHHh----hCCCceEeeeeHHH-----
Confidence 5678899999999997754 46888875431110 01 111 112222221 36788877765542
Q ss_pred HHHHHHHH-CCCCEEEEc
Q 037436 157 IIVEEAKR-QNVSLLVLG 173 (236)
Q Consensus 157 ~I~~~a~~-~~~DLLVmG 173 (236)
...+.+++ .+.|+||..
T Consensus 229 ~~~~Lv~~P~~fDViVt~ 246 (360)
T PLN00123 229 CCMQLVSKPEQFDVMVTP 246 (360)
T ss_pred HHHHHhhCcccCcEEEEc
Confidence 23333333 678866654
No 229
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=26.34 E-value=3.3e+02 Score=23.31 Aligned_cols=44 Identities=5% Similarity=-0.043 Sum_probs=31.3
Q ss_pred HHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 159 VEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 159 ~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
....+++++|.||.=.+|..+...- -...+...+||+++.++.-
T Consensus 183 ~aL~~~~~i~~lVtK~SG~~g~~eK---------------i~AA~~lgi~vivI~RP~~ 226 (248)
T PRK08057 183 RALLRQHRIDVVVTKNSGGAGTEAK---------------LEAARELGIPVVMIARPAL 226 (248)
T ss_pred HHHHHHcCCCEEEEcCCCchhhHHH---------------HHHHHHcCCeEEEEeCCCC
Confidence 4555789999999877765433322 1455788999999998864
No 230
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=26.28 E-value=3.8e+02 Score=22.42 Aligned_cols=47 Identities=19% Similarity=0.325 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
-+.+.++++....+ +.++.+.+.-|-. .+.|-+ +.+.++|.+|+|+.
T Consensus 151 lekI~~l~~~~~~~--~~~~~I~vdGGI~-~eni~~-l~~aGAd~vVvGSa 197 (220)
T PRK08883 151 LDKLRAVRKMIDES--GRDIRLEIDGGVK-VDNIRE-IAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHHHHhc--CCCeeEEEECCCC-HHHHHH-HHHcCCCEEEEeHH
Confidence 33455566655533 4555555554555 455554 45689999999964
No 231
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=26.26 E-value=3.6e+02 Score=21.98 Aligned_cols=74 Identities=15% Similarity=0.136 Sum_probs=45.9
Q ss_pred CHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHH
Q 037436 78 SLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPI 157 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~ 157 (236)
..+....++.+++-++..++++.++++.+..... . .....|..+.+ -....+. .+.
T Consensus 13 ~G~t~~l~~~~~~g~~~~G~E~~~i~v~~~~i~~-c----------------~~c~~c~~~~~------c~~~dD~-~~~ 68 (207)
T COG0655 13 NGNTAKLAEAVLEGAEEAGAEVEIIRLPEKNIKP-C----------------TGCFACWKKKP------CVIKDDD-MNE 68 (207)
T ss_pred CCcHHHHHHHHHHHHHHcCCEEEEEEecCCCccc-c----------------hHHHhhhccCC------CCCCccc-HHH
Confidence 4566778888888888889999999997732111 0 01122222111 1222344 577
Q ss_pred HHHHHHHCCCCEEEEccCCC
Q 037436 158 IVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 158 I~~~a~~~~~DLLVmG~~~~ 177 (236)
|.+... ++|.||+|+..+
T Consensus 69 i~~~l~--~aD~iI~gsPvy 86 (207)
T COG0655 69 IYEKLL--EADGIIFGSPVY 86 (207)
T ss_pred HHHHHH--HCCEEEEeCCee
Confidence 777774 599999999865
No 232
>cd06374 PBP1_mGluR_groupI Ligand binding domain of the group I metabotropic glutamate receptor. Ligand binding domain of the group I metabotropic glutamate receptor, a family containing mGlu1R and mGlu5R, all of which stimulate phospholipase C (PLC) hydrolysis. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes.
Probab=26.21 E-value=5.3e+02 Score=23.86 Aligned_cols=95 Identities=14% Similarity=0.059 Sum_probs=50.0
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
..++|-+..+.+++....++...+.+...+ +.+++....+... ........+.++++. .++..+-+
T Consensus 185 ~W~~Vaii~~~~~yg~~~~~~~~~~~~~~g--i~i~~~~~i~~~~--------~~~d~~~~l~~lk~~----~~da~vvv 250 (472)
T cd06374 185 NWTYVSAVHTEGNYGESGMEAFKELAAHEG--LCIAHSDKIYSNA--------GEQSFDRLLRKLRSR----LPKARVVV 250 (472)
T ss_pred CCcEEEEEEecchHHHHHHHHHHHHHHHCC--eeEEEEEEecCCC--------chHHHHHHHHHHHhc----CCCcEEEE
Confidence 467888888877777777777777777666 3333333211111 011222333333331 22333322
Q ss_pred EEEecCChHHHHHHHHHHCCCC--EEEEccCC
Q 037436 147 AITEGKEKGPIIVEEAKRQNVS--LLVLGQRR 176 (236)
Q Consensus 147 ~v~~G~~~~~~I~~~a~~~~~D--LLVmG~~~ 176 (236)
....+.. ...+++.+++.+.. .+++|+.+
T Consensus 251 ~~~~~~~-~~~~l~~a~~~g~~~~~~wi~s~~ 281 (472)
T cd06374 251 CFCEGMT-VRGLLMAMRRLGVGGEFQLIGSDG 281 (472)
T ss_pred EEechHH-HHHHHHHHHHhcCCCceEEEEecc
Confidence 2222223 56788888877765 56777654
No 233
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=26.16 E-value=3.7e+02 Score=22.12 Aligned_cols=74 Identities=12% Similarity=0.096 Sum_probs=40.9
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEec--CC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHH
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEG--KE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYC 201 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G--~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~l 201 (236)
...++.+.+.++.. ++++.+....+ ++ ....+++.+..+++|-||+.......... ..+ .
T Consensus 15 ~~~~~gi~~~~~~~--g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~--------------~~~-~ 77 (275)
T cd06320 15 RSLKEGYENEAKKL--GVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNLVP--------------AVE-R 77 (275)
T ss_pred HHHHHHHHHHHHHh--CCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHH--------------HHH-H
Confidence 44555666666643 66666554332 22 12345666667789998887533221111 223 3
Q ss_pred HHhCCCeEEEEeCC
Q 037436 202 IQNSSRMTIAVRRK 215 (236)
Q Consensus 202 l~~s~~PVlvV~~~ 215 (236)
+.+..+||+.+-..
T Consensus 78 ~~~~~iPvV~~~~~ 91 (275)
T cd06320 78 AKKKGIPVVNVNDK 91 (275)
T ss_pred HHHCCCeEEEECCC
Confidence 45678999988653
No 234
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=26.15 E-value=1.4e+02 Score=22.96 Aligned_cols=46 Identities=7% Similarity=-0.057 Sum_probs=25.1
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
.+.+.+.++++++|.|++.-..... ..+ - -.-..+++.+|.|-++|
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~~~-~~i-----------~-~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWSEE-EQI-----------K-RIIEELENHGVRVRVVP 175 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS-H-HHH-----------H-HHHHHHHTTT-EEEE--
T ss_pred HHHHHHHHHhCCCCEEEEEcCccCH-HHH-----------H-HHHHHHHhCCCEEEEeC
Confidence 3789999999999999998664322 111 1 11234467789998886
No 235
>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=26.11 E-value=3.5e+02 Score=21.82 Aligned_cols=32 Identities=16% Similarity=0.037 Sum_probs=22.9
Q ss_pred EEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 71 VMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 71 ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
++|++.+.-+|.-++.++.. .+..|..+|+..
T Consensus 1 ~vv~lSGG~DSs~~~~~~~~----~g~~v~~~~~~~ 32 (201)
T TIGR00364 1 AVVVLSGGQDSTTCLAIAKD----EGYEVHAITFDY 32 (201)
T ss_pred CEEEeccHHHHHHHHHHHHH----cCCcEEEEEEEC
Confidence 36788888888877665544 256788899865
No 236
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=26.08 E-value=4.4e+02 Score=22.87 Aligned_cols=33 Identities=21% Similarity=0.321 Sum_probs=25.1
Q ss_pred CceEEEEEEecCChHHHHHHHHHH--CCCCEEEEcc
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKR--QNVSLLVLGQ 174 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~--~~~DLLVmG~ 174 (236)
|+++..+.+.|+. .+.|.+..+. .++|+||+..
T Consensus 34 G~~v~~~~~VgD~-~~~I~~~l~~a~~r~D~vI~tG 68 (255)
T COG1058 34 GVDLARITTVGDN-PDRIVEALREASERADVVITTG 68 (255)
T ss_pred CceEEEEEecCCC-HHHHHHHHHHHHhCCCEEEECC
Confidence 9999999999998 5666665542 3399999863
No 237
>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]
Probab=26.07 E-value=5.3e+02 Score=23.85 Aligned_cols=54 Identities=15% Similarity=0.177 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhhh----hCCCceEEEE-EEecCChHHHHHHHHHHCCCCEEEEccC
Q 037436 121 YLRAYEKLHSMKSTCQL----KKPGVQVEIA-ITEGKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 121 ~~~~~~~l~~~~~~~~~----~~~~v~v~~~-v~~G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
..-..++.+.+.+.+.. +..|.-+++- .+.|.- ...|+.+++..++|++|+-..
T Consensus 190 ~~~~s~La~v~~~~~~~n~~ar~sG~iInT~g~i~~eg-y~~llhai~~f~v~vviVLg~ 248 (415)
T KOG2749|consen 190 KALVSELAEVLKQRLSLNPEARVSGCIINTCGWIEGEG-YAALLHAIKAFEVDVVIVLGQ 248 (415)
T ss_pred HHHHHHHHHHHHHHhccCchhcccceEEeccceecccc-HHHHHHHHHHcCccEEEEecc
Confidence 33334444444444433 2234334433 234555 789999999999998765443
No 238
>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=25.92 E-value=1.4e+02 Score=23.49 Aligned_cols=94 Identities=9% Similarity=0.018 Sum_probs=44.3
Q ss_pred hHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEE--EEEEecCChHHH
Q 037436 80 DAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVE--IAITEGKEKGPI 157 (236)
Q Consensus 80 ~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~--~~v~~G~~~~~~ 157 (236)
.+..||+-|++....++.++.++.+.+...........+......+.. .-............... .... .....+.
T Consensus 3 ~aA~Al~eal~~~~~~~~~v~v~D~~~~~~p~~~~~~~~~Y~~~~~~~-~ly~~~y~~~~~~~~~~~~~~~~-~~~~~~~ 80 (169)
T PF06925_consen 3 SAARALAEALERRRGPDAEVEVVDFLEEASPWLRRLIRKAYLFMVRHA-PLYGWLYRWTDKRRPRSKFLSAL-SRLFARR 80 (169)
T ss_pred HHHHHHHHHHHhhcCCCCEEEEEehHHhhChHHHHHHHHHHHHHHHHH-HHHHHHHHhcCCCccchHHHHHH-HHHHHHH
Confidence 456788888777655678888888877322111111111111111111 11111111100000000 0001 1222568
Q ss_pred HHHHHHHCCCCEEEEccC
Q 037436 158 IVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 158 I~~~a~~~~~DLLVmG~~ 175 (236)
+.++.++.++|+||.-..
T Consensus 81 l~~~l~~~~PD~IIsThp 98 (169)
T PF06925_consen 81 LIRLLREFQPDLIISTHP 98 (169)
T ss_pred HHHHHhhcCCCEEEECCc
Confidence 999999999998887654
No 239
>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=25.67 E-value=2.1e+02 Score=19.06 Aligned_cols=32 Identities=19% Similarity=0.180 Sum_probs=24.1
Q ss_pred CCEEEEEecCCHhHHHHHHHHHHhhccCCCEE
Q 037436 68 GNKVMVVADSSLDAKGALEWALSHTVQCQDTI 99 (236)
Q Consensus 68 ~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l 99 (236)
.++|.++.|.......+...+...+...+..+
T Consensus 43 ~~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~ 74 (79)
T cd01029 43 ARTVILAFDNDEAGKKAAARALELLLALGGRV 74 (79)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHHCCCEE
Confidence 48999999999888777777777766554433
No 240
>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=25.42 E-value=3.6e+02 Score=23.41 Aligned_cols=76 Identities=11% Similarity=-0.015 Sum_probs=43.3
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCch--hhhhhhccCCCcccCcHHHHHH
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIV--WTLMNRWSSKKKAVGDIADYCI 202 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~--~~l~~~~~~~~~~~gs~~~~ll 202 (236)
.+.++.+.+.+.. .+.+-..+..+....-.+.+.|++.++|.+++-....... ..+ -..-..+.
T Consensus 56 ~~l~~~~~~~~~~---~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i-----------~~~f~~v~ 121 (289)
T cd00951 56 AQVVRAAVEETAG---RVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGL-----------YAHVEAVC 121 (289)
T ss_pred HHHHHHHHHHhCC---CCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHH-----------HHHHHHHH
Confidence 3444444444331 3544444432111134566788899999999977644221 222 12335677
Q ss_pred HhCCCeEEEEeC
Q 037436 203 QNSSRMTIAVRR 214 (236)
Q Consensus 203 ~~s~~PVlvV~~ 214 (236)
..+++|+++...
T Consensus 122 ~~~~~pi~lYn~ 133 (289)
T cd00951 122 KSTDLGVIVYNR 133 (289)
T ss_pred hcCCCCEEEEeC
Confidence 788999999873
No 241
>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=25.32 E-value=3.9e+02 Score=22.08 Aligned_cols=101 Identities=10% Similarity=0.009 Sum_probs=53.4
Q ss_pred HHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEe-cCC----h-HHH
Q 037436 84 ALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITE-GKE----K-GPI 157 (236)
Q Consensus 84 al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~-G~~----~-~~~ 157 (236)
.....+..|...++..+.+.+..... ......+.+.++.+.|... ++.+-+.... |.. . .+.
T Consensus 77 ~~~~~v~~a~~~Ga~~v~~~~~~~~~----------~~~~~~~~i~~v~~~~~~~--g~~~iie~~~~g~~~~~~~~~~~ 144 (235)
T cd00958 77 VLVASVEDAVRLGADAVGVTVYVGSE----------EEREMLEELARVAAEAHKY--GLPLIAWMYPRGPAVKNEKDPDL 144 (235)
T ss_pred hhhcCHHHHHHCCCCEEEEEEecCCc----------hHHHHHHHHHHHHHHHHHc--CCCEEEEEeccCCcccCccCHHH
Confidence 33344556666777766555554111 0233445555666666533 5554333221 110 0 122
Q ss_pred ---HHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 158 ---IVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 158 ---I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
..+.+.+.++|.|-....+ .+. ..+++....++||++.-
T Consensus 145 i~~~~~~a~~~GaD~Ik~~~~~--~~~---------------~~~~i~~~~~~pvv~~G 186 (235)
T cd00958 145 IAYAARIGAELGADIVKTKYTG--DAE---------------SFKEVVEGCPVPVVIAG 186 (235)
T ss_pred HHHHHHHHHHHCCCEEEecCCC--CHH---------------HHHHHHhcCCCCEEEeC
Confidence 2344777899999885321 222 34777888889986653
No 242
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=25.18 E-value=4.6e+02 Score=22.88 Aligned_cols=96 Identities=14% Similarity=0.168 Sum_probs=55.4
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEE
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEI 146 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~ 146 (236)
...||.|-+.++-..-.+|-.+... ...+++|.+|-... + . +...++. .++.+..
T Consensus 88 ~~~ri~vl~Sg~gsnl~al~~~~~~-~~~~~~i~~visn~-~--------------~-------~~~lA~~--~gIp~~~ 142 (286)
T PRK06027 88 ERKRVVILVSKEDHCLGDLLWRWRS-GELPVEIAAVISNH-D--------------D-------LRSLVER--FGIPFHH 142 (286)
T ss_pred cCcEEEEEEcCCCCCHHHHHHHHHc-CCCCcEEEEEEEcC-h--------------h-------HHHHHHH--hCCCEEE
Confidence 4467888888876666666666443 23456766665544 1 0 1111232 2555543
Q ss_pred EEEe---cCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhc
Q 037436 147 AITE---GKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRW 187 (236)
Q Consensus 147 ~v~~---G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~ 187 (236)
.-.. -......+.+..++.++|++|+....+-....+|..|
T Consensus 143 ~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~~il~~~~l~~~ 186 (286)
T PRK06027 143 VPVTKETKAEAEARLLELIDEYQPDLVVLARYMQILSPDFVARF 186 (286)
T ss_pred eccCccccchhHHHHHHHHHHhCCCEEEEecchhhcCHHHHhhc
Confidence 2111 1111357899999999999999987654444455555
No 243
>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=25.14 E-value=3.5e+02 Score=22.82 Aligned_cols=91 Identities=18% Similarity=0.142 Sum_probs=49.6
Q ss_pred EEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 70 KVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 70 ~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
++++.+.+..+|..|+.+|... ..-+.++++++.......- ..-..+.++...+.+ ++.....-.
T Consensus 2 k~~~l~SGGKDS~~al~~a~~~----~~v~~L~t~~~~~~~s~~~------H~~~~~~~~~qA~al-----gipl~~~~~ 66 (223)
T TIGR00290 2 KVAALISGGKDSCLALYHALKE----HEVISLVNIMPENEESYMF------HGVNAHLTDLQAESI-----GIPLIKLYT 66 (223)
T ss_pred cEEEEecCcHHHHHHHHHHHHh----CeeEEEEEEecCCCCcccc------cccCHHHHHHHHHHc-----CCCeEEeec
Confidence 4678899999999999888766 3455666766632211000 000112222222211 344322112
Q ss_pred ecC--ChHHHHHHHHHHCCCCEEEEccC
Q 037436 150 EGK--EKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 150 ~G~--~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.+. ...+.+.+..++.+++.||.|.-
T Consensus 67 ~~~~e~~~e~l~~~l~~~gv~~vv~GdI 94 (223)
T TIGR00290 67 EGTEEDEVEELKGILHTLDVEAVVFGAI 94 (223)
T ss_pred CCCccHHHHHHHHHHHHcCCCEEEECCc
Confidence 221 11467777777789999999975
No 244
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=25.01 E-value=3.7e+02 Score=22.38 Aligned_cols=72 Identities=14% Similarity=-0.013 Sum_probs=37.4
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhC
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNS 205 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s 205 (236)
..++.+.+.++.. ++++.+............++.+...++|-||+-........ ..-+.+...
T Consensus 16 ~~~~gi~~~~~~~--g~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~---------------~~~~~~~~~ 78 (289)
T cd01540 16 TEWKFAKKAAKEK--GFTVVKIDVPDGEKVLSAIDNLGAQGAKGFVICVPDVKLGP---------------AIVAKAKAY 78 (289)
T ss_pred HHHHHHHHHHHHc--CCEEEEccCCCHHHHHHHHHHHHHcCCCEEEEccCchhhhH---------------HHHHHHHhC
Confidence 4445555555533 55654432221111234555566788998888543211111 112345567
Q ss_pred CCeEEEEeC
Q 037436 206 SRMTIAVRR 214 (236)
Q Consensus 206 ~~PVlvV~~ 214 (236)
.+||+++-.
T Consensus 79 ~iPvV~~~~ 87 (289)
T cd01540 79 NMKVVAVDD 87 (289)
T ss_pred CCeEEEecC
Confidence 899998843
No 245
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=24.90 E-value=3.4e+02 Score=21.35 Aligned_cols=57 Identities=9% Similarity=0.033 Sum_probs=34.7
Q ss_pred eEEEEEEecCChHHHHHHHHHH--CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 143 QVEIAITEGKEKGPIIVEEAKR--QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 143 ~v~~~v~~G~~~~~~I~~~a~~--~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
.+++.+.+... ..+|++.+++ .++|-||+..-..+... -...+.+....+|++=|+-
T Consensus 41 g~~v~~~QSN~-Egelid~I~~a~~~~dgiIINpga~THtS--------------vAi~DAl~~~~~P~VEVHi 99 (140)
T cd00466 41 GVEVEFFQSNH-EGELIDWIHEARDGADGIIINPGAYTHTS--------------IALRDALAAVSIPVIEVHI 99 (140)
T ss_pred CCEEEEEeeCc-HHHHHHHHHHhhccCcEEEEcchHHHHHH--------------HHHHHHHHcCCCCEEEEec
Confidence 33444444444 4566666654 36899999876543221 1335777888999998864
No 246
>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=24.85 E-value=1e+02 Score=23.42 Aligned_cols=40 Identities=10% Similarity=0.036 Sum_probs=34.1
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
...+|+|+-|....+....+.++.-....+.+|..+...+
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~ 78 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVP 78 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccC
Confidence 5678999999999999999999999999999999888665
No 247
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=24.74 E-value=3.6e+02 Score=23.24 Aligned_cols=79 Identities=8% Similarity=-0.095 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCch--hhhhhhccCCCcccCcHHHH
Q 037436 124 AYEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIV--WTLMNRWSSKKKAVGDIADY 200 (236)
Q Consensus 124 ~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~--~~l~~~~~~~~~~~gs~~~~ 200 (236)
..+.++.+.+.+.. .+.+-+.+..... ..-...+.|++.++|-+++........ ..+ -..-..
T Consensus 56 r~~~~~~~~~~~~~---~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i-----------~~~~~~ 121 (292)
T PRK03170 56 HEELIRAVVEAVNG---RVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGL-----------YQHFKA 121 (292)
T ss_pred HHHHHHHHHHHhCC---CCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHH-----------HHHHHH
Confidence 34455555554431 3444333332121 145666778889999999877653222 222 124456
Q ss_pred HHHhCCCeEEEEeCCC
Q 037436 201 CIQNSSRMTIAVRRKS 216 (236)
Q Consensus 201 ll~~s~~PVlvV~~~~ 216 (236)
+...++.|+++...+.
T Consensus 122 ia~~~~~pv~lYn~P~ 137 (292)
T PRK03170 122 IAEATDLPIILYNVPG 137 (292)
T ss_pred HHhcCCCCEEEEECcc
Confidence 7778899999997654
No 248
>PF12877 DUF3827: Domain of unknown function (DUF3827); InterPro: IPR024606 The function of the proteins in this entry is not currently known, but one of the human proteins (Q9HCM3 from SWISSPROT) has been implicated in pilocytic astrocytomas [, , ]. In the majority of cases of pilocytic astrocytomas a tandem duplication produces an in-frame fusion of the gene encoding this protein and the BRAF oncogene. The resulting fusion protein has constitutive BRAF kinase activity and is capable of transforming cells.
Probab=24.67 E-value=2.9e+02 Score=27.32 Aligned_cols=98 Identities=8% Similarity=0.096 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcH
Q 037436 118 KKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDI 197 (236)
Q Consensus 118 ~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~ 197 (236)
+..++.....+.+..+..+ ...++.+.++.-.. ....-....+.-++++..-..+.+. +-|+.
T Consensus 32 q~~E~~L~~af~e~~~~~~---~~~n~tVqiln~t~-~~~~~~~~~~~~V~i~~aVr~~~~~-------------LnGt~ 94 (684)
T PF12877_consen 32 QRMEQGLEMAFAEVRKRSQ---ESSNLTVQILNITQ-SVSVSQAPRSGPVSITYAVRNGSGF-------------LNGTE 94 (684)
T ss_pred HHHHHHHHHHHHHHHHhhc---CCccEEEEEEeeec-cccccccccCCCeEEEEEEecCcee-------------eccHH
Confidence 3444444444444444333 24556666654211 0000112234556766666555433 56778
Q ss_pred HHHHHHhC---------CCeEEEEeCCCCCCCceeeeccccccccc
Q 037436 198 ADYCIQNS---------SRMTIAVRRKSSKLGGYLITTKRHKNFWL 234 (236)
Q Consensus 198 ~~~ll~~s---------~~PVlvV~~~~~~~~~~li~t~~~~~fwl 234 (236)
+..+|++. ..|++++-.+...+. |-++--.|+||+
T Consensus 95 ~S~lL~~Ls~~~~~fyl~~P~l~IAEp~~Yp~--Ln~S~~~r~~WV 138 (684)
T PF12877_consen 95 VSELLRQLSAVEFSFYLGYPPLQIAEPFHYPN--LNTSQLLRSSWV 138 (684)
T ss_pred HHHHHHhhhhhheeeeecCCceeeccccccCc--ccchhhhHHHHH
Confidence 88888765 478888888877554 666666789996
No 249
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=24.54 E-value=2e+02 Score=25.81 Aligned_cols=51 Identities=25% Similarity=0.257 Sum_probs=36.3
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
.+..++.++ ++|+||+|.... |.+-.+ ++..+.+.|.+ +.-|++.+.+...
T Consensus 180 ~~eaveAI~--~AD~IviGPgSl~TSIlP~L---------llp~I~eaLr~-~~ap~i~v~n~~~ 232 (323)
T COG0391 180 APEAVEAIK--EADLIVIGPGSLFTSILPIL---------LLPGIAEALRE-TVAPIVYVCNLMT 232 (323)
T ss_pred CHHHHHHHH--hCCEEEEcCCccHhhhchhh---------chhHHHHHHHh-CCCCEEEeccCCC
Confidence 456677774 599999998764 444555 66777776655 8888888876544
No 250
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=24.52 E-value=4.6e+02 Score=22.56 Aligned_cols=43 Identities=9% Similarity=0.088 Sum_probs=27.5
Q ss_pred HHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHH--HHHHhCCCeEEEEeCCCC
Q 037436 159 VEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIAD--YCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 159 ~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~--~ll~~s~~PVlvV~~~~~ 217 (236)
....+++++|.||.=-+|.. |.+.+ ...++..+||+++.++.-
T Consensus 190 ~al~~~~~i~~lVtK~SG~~----------------Gg~~eKi~AA~~lgi~vivI~RP~~ 234 (256)
T TIGR00715 190 KALLREYRIDAVVTKASGEQ----------------GGELEKVKAAEALGINVIRIARPQT 234 (256)
T ss_pred HHHHHHcCCCEEEEcCCCCc----------------cchHHHHHHHHHcCCcEEEEeCCCC
Confidence 34456677777776555542 22333 345677899999998864
No 251
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=24.30 E-value=5.5e+02 Score=23.46 Aligned_cols=37 Identities=14% Similarity=0.053 Sum_probs=29.6
Q ss_pred CCCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 66 RYGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
....+++|++.+.-+|.-++.++.. .+..+..+|+..
T Consensus 174 g~~gkvvvllSGGiDS~vaa~l~~k----~G~~v~av~~~~ 210 (394)
T PRK01565 174 GTSGKALLLLSGGIDSPVAGYLAMK----RGVEIEAVHFHS 210 (394)
T ss_pred CCCCCEEEEECCChhHHHHHHHHHH----CCCEEEEEEEeC
Confidence 3567899999999999988876644 377899999954
No 252
>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=24.27 E-value=5.1e+02 Score=23.03 Aligned_cols=44 Identities=11% Similarity=0.226 Sum_probs=23.8
Q ss_pred HHHHHHHhhhhCCCceEEEE-EEecCCh---HHHHHHHHHHCCCCEEE-Ec
Q 037436 128 LHSMKSTCQLKKPGVQVEIA-ITEGKEK---GPIIVEEAKRQNVSLLV-LG 173 (236)
Q Consensus 128 l~~~~~~~~~~~~~v~v~~~-v~~G~~~---~~~I~~~a~~~~~DLLV-mG 173 (236)
.+.+.+.++.. ++++... .+.+++. ...+.+.+++.++|.|| +|
T Consensus 38 ~~~v~~~l~~~--~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavG 86 (345)
T cd08171 38 KDKIKAALEQS--GIEITDFIWYGGESTYENVERLKKNPAVQEADMIFAVG 86 (345)
T ss_pred HHHHHHHHHHC--CCeEEEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeC
Confidence 33444444422 5555432 2345543 24556667788899888 55
No 253
>PF00180 Iso_dh: Isocitrate/isopropylmalate dehydrogenase; InterPro: IPR024084 Isocitrate dehydrogenase (IDH) [, ] is an important enzyme of carbohydrate metabolism which catalyses the oxidative decarboxylation of isocitrate into alpha-ketoglutarate. IDH is either dependent on NAD+ (1.1.1.41 from EC) or on NADP+ (1.1.1.42 from EC). In eukaryotes there are at least three isozymes of IDH: two are located in the mitochondrial matrix (one NAD+-dependent, the other NADP+-dependent), while the third one (also NADP+-dependent) is cytoplasmic. In Escherichia coli the activity of a NADP+-dependent form of the enzyme is controlled by the phosphorylation of a serine residue; the phosphorylated form of IDH is completely inactivated. 3-isopropylmalate dehydrogenase (1.1.1.85 from EC) (IMDH) [, ] catalyses the third step in the biosynthesis of leucine in bacteria and fungi, the oxidative decarboxylation of 3-isopropylmalate into 2-oxo-4-methylvalerate. Tartrate dehydrogenase (1.1.1.93 from EC) [] catalyses the reduction of tartrate to oxaloglycolate. These enzymes are evolutionary related. To this family also belongs the enzyme tartrate dehydrogenase, which shows strong homology to prokaryotic isopropylmalate dehydrogenases and, to a lesser extent, isocitrate dehydrogenase []. This entry represents a structural domain found in all types of isocitrate dehydrogenase, and in isopropylmalate dehydrogenase and tartrate dehydrogenase. The crystal structure of Escherichia coli isopropylmalate dehydrogenase has been described []. ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 1WAL_A 1CNZ_B 2D4V_C 1CM7_A 4AOY_D 3FMX_X 3FLK_C 1A05_A 1X0L_B 4F7I_D ....
Probab=24.21 E-value=1.5e+02 Score=26.82 Aligned_cols=78 Identities=8% Similarity=0.112 Sum_probs=46.3
Q ss_pred CHhHHHHHHHHHHhhccC-CCEEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHH
Q 037436 78 SLDAKGALEWALSHTVQC-QDTIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGP 156 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~-~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~ 156 (236)
....++.+++|.++|.+. ...|+++|=.. .. .. ..-..+.+++..+..+|+|.++...+..
T Consensus 159 ~~~~eRi~r~AF~~A~~r~~k~Vt~v~KaN---vl--~~--------~~lf~~~~~eva~~~yp~I~~~~~~vD~----- 220 (348)
T PF00180_consen 159 REGIERIARFAFEYARKRGRKKVTVVHKAN---VL--KS--------TDLFREVFQEVAKQEYPDIEVEHMLVDA----- 220 (348)
T ss_dssp HHHHHHHHHHHHHHHHHTTTSEEEEEESTT---TS--TT--------HHHHHHHHHHHHHHTHTTSEEEEEEHHH-----
T ss_pred cchhhHHHHHHHHHHHHhCCceEEEEeccc---hh--HH--------HHHHHHHHHHHHHhhcceeEeeeeechh-----
Confidence 466888999999999997 67898888533 22 00 1111122233333246789888887642
Q ss_pred HHHHHHH-HCCCCEEEEc
Q 037436 157 IIVEEAK-RQNVSLLVLG 173 (236)
Q Consensus 157 ~I~~~a~-~~~~DLLVmG 173 (236)
...+.++ -.+.|+||+.
T Consensus 221 ~~~~Lv~~P~~fdViv~~ 238 (348)
T PF00180_consen 221 AAMQLVKNPEQFDVIVTP 238 (348)
T ss_dssp HHHHHHHSGGGESEEEEE
T ss_pred hhheeecCCcceeEEeec
Confidence 2222222 2578877776
No 254
>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=23.92 E-value=1.8e+02 Score=25.80 Aligned_cols=50 Identities=24% Similarity=0.300 Sum_probs=31.8
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC--CchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK--SIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~--s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
.+..++.+++ +|+||+|.... |..-.+ ....+ .+-++.++||++.|.+--
T Consensus 174 ~p~~l~AI~~--AD~IiigPgs~~TSI~P~L---------~v~gi-~~Ai~~s~a~kV~V~ni~ 225 (300)
T PF01933_consen 174 NPEALEAIEE--ADLIIIGPGSLYTSIIPNL---------LVPGI-REAIRESKAPKVYVSNIM 225 (300)
T ss_dssp -HHHHHHHHH---SEEEE-SS-CCCCCHHHH---------TSHHH-HHHHHHSSSEEEEE-SSB
T ss_pred CHHHHHHHHh--CCEEEEcCCCchhhhcccc---------cchhH-HHHHHhCCCCEEEEcCCC
Confidence 5677777754 89999998764 455555 55555 455677779999998753
No 255
>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=23.90 E-value=2.5e+02 Score=19.37 Aligned_cols=49 Identities=18% Similarity=0.150 Sum_probs=34.2
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhC-CCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNS-SRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s-~~PVlvV~~~~ 216 (236)
....++.+++..+|++++...-...- .+ .+.+.+-+.. .+|++++-...
T Consensus 32 ~~~~~~~~~~~~~d~iiid~~~~~~~-~~------------~~~~~i~~~~~~~~ii~~t~~~ 81 (112)
T PF00072_consen 32 GEEALELLKKHPPDLIIIDLELPDGD-GL------------ELLEQIRQINPSIPIIVVTDED 81 (112)
T ss_dssp HHHHHHHHHHSTESEEEEESSSSSSB-HH------------HHHHHHHHHTTTSEEEEEESST
T ss_pred HHHHHHHhcccCceEEEEEeeecccc-cc------------ccccccccccccccEEEecCCC
Confidence 57888888999999999997643321 11 2456665555 59999887554
No 256
>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=23.87 E-value=4.1e+02 Score=21.84 Aligned_cols=45 Identities=7% Similarity=0.082 Sum_probs=25.9
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEc
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG 173 (236)
..++.+.+.++.. ++++.+....... ...+.+.+...++|-||+-
T Consensus 27 ~~~~gi~~~~~~~--g~~~~v~~~~~~~-~~~~~~~l~~~~~dgiii~ 71 (275)
T cd06295 27 SLLGGIADALAER--GYDLLLSFVSSPD-RDWLARYLASGRADGVILI 71 (275)
T ss_pred HHHHHHHHHHHHc--CCEEEEEeCCchh-HHHHHHHHHhCCCCEEEEe
Confidence 3444455555533 5666554433333 4567777777889977764
No 257
>COG2262 HflX GTPases [General function prediction only]
Probab=23.76 E-value=5.1e+02 Score=24.17 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=20.8
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~ 175 (236)
|+-+.+.|-+.++..++|+||....
T Consensus 54 G~GK~eEi~~~v~~~~ad~VIf~~~ 78 (411)
T COG2262 54 GSGKLEEIAEAVEETGADLVIFDHE 78 (411)
T ss_pred CcchHHHHHHHHHhcCCCEEEECCc
Confidence 3334689999999999999999965
No 258
>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=23.71 E-value=2.4e+02 Score=24.87 Aligned_cols=129 Identities=12% Similarity=-0.064 Sum_probs=60.6
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEE-ecCCC---CchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceE
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVI-AKSSK---QVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQV 144 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~-~~~~~---~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v 144 (236)
+.+.+=+-+++. ..+..|+.++...+...+=|..= +.+.. ..+....++. +...+++..+.+.+.. .|.+
T Consensus 54 ~p~~~Ql~g~~~--~~~~~aa~~~~~~~~~~IDlN~GCP~~~v~~~g~Ga~Ll~~p-~~~~~iv~~~~~~~~~---pvsv 127 (309)
T PF01207_consen 54 RPLIVQLFGNDP--EDLAEAAEIVAELGFDGIDLNMGCPAPKVTKGGAGAALLKDP-DLLAEIVKAVRKAVPI---PVSV 127 (309)
T ss_dssp -TEEEEEE-S-H--HHHHHHHHHHCCTT-SEEEEEE---SHHHHHCT-GGGGGC-H-HHHHHHHHHHHHH-SS---EEEE
T ss_pred cceeEEEeeccH--HHHHHHHHhhhccCCcEEeccCCCCHHHHhcCCcChhhhcCh-HHhhHHHHhhhccccc---ceEE
Confidence 446665655444 34556666666644332222221 21111 0223333332 4566777777665441 3555
Q ss_pred EEEEEecCC--hHHHHHHHHHHCCCCEEEEccCCCCc-hhhhhhhccCCCcccCcHHHHHHHhCCCeEEEE
Q 037436 145 EIAITEGKE--KGPIIVEEAKRQNVSLLVLGQRRKSI-VWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAV 212 (236)
Q Consensus 145 ~~~v~~G~~--~~~~I~~~a~~~~~DLLVmG~~~~s~-~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV 212 (236)
.+++...+. ....+++.+.+.+++.|.+=.|.+.. .... .--+....+.+..++||+.=
T Consensus 128 KiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~---------a~w~~i~~i~~~~~ipvi~N 189 (309)
T PF01207_consen 128 KIRLGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGP---------ADWEAIAEIKEALPIPVIAN 189 (309)
T ss_dssp EEESECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS------------HHHHHHCHHC-TSEEEEE
T ss_pred ecccccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcc---------cchHHHHHHhhcccceeEEc
Confidence 555544422 14677777888999999988775422 1111 22234467778888988875
No 259
>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=23.69 E-value=2.9e+02 Score=23.67 Aligned_cols=52 Identities=4% Similarity=-0.141 Sum_probs=34.7
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCch-hhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIV-WTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~-~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
.-.+.+.|++.++|.|++........ ..- .-...+.+...+++|+++...+.
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~----------l~~~~~~ia~~~~~pi~lYn~P~ 136 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPSQEG----------LYAHFKAIAEATDLPVILYNVPG 136 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCCHHH----------HHHHHHHHHhcCCCCEEEEEChh
Confidence 45666788899999888887643221 111 11344667777899999987654
No 260
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=23.27 E-value=4.2e+02 Score=21.66 Aligned_cols=74 Identities=18% Similarity=0.132 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
.+.++.+.+.++.. ++++.+....+++ ....+++.+..+++|-||+.......... ..+. +.
T Consensus 15 ~~~~~~i~~~~~~~--g~~~~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~--------------~~~~-~~ 77 (267)
T cd06322 15 IELANAMKEEAKKQ--KVNLIVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIRA--------------AIAK-AK 77 (267)
T ss_pred HHHHHHHHHHHHhc--CCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhHH--------------HHHH-HH
Confidence 44555566666543 6666554433332 13455666667899999996432211111 1233 45
Q ss_pred hCCCeEEEEeCC
Q 037436 204 NSSRMTIAVRRK 215 (236)
Q Consensus 204 ~s~~PVlvV~~~ 215 (236)
...+|++.+-..
T Consensus 78 ~~~ipvV~~~~~ 89 (267)
T cd06322 78 KAGIPVITVDIA 89 (267)
T ss_pred HCCCCEEEEccc
Confidence 678999998654
No 261
>PRK06395 phosphoribosylamine--glycine ligase; Provisional
Probab=23.12 E-value=4.1e+02 Score=24.65 Aligned_cols=23 Identities=26% Similarity=0.354 Sum_probs=16.0
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHh
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSH 91 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~l 91 (236)
|.+||||.=.+ ..+++|.|++.-
T Consensus 1 ~~~kVLvlG~G--~re~al~~~l~~ 23 (435)
T PRK06395 1 MTMKVMLVGSG--GREDAIARAIKR 23 (435)
T ss_pred CceEEEEECCc--HHHHHHHHHHHh
Confidence 45688884333 667889888755
No 262
>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=23.10 E-value=3.1e+02 Score=24.34 Aligned_cols=44 Identities=18% Similarity=0.178 Sum_probs=27.5
Q ss_pred HHHHHHHHHHCCCCEEE-EccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 155 GPIIVEEAKRQNVSLLV-LGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLV-mG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
...+.+.+++.++|.|| +|.-. ..+++..+.....+|++.||=.
T Consensus 67 v~~~~~~~~~~~~d~iIaiGGGs-----------------~~D~aK~~a~~~~~p~i~iPTT 111 (339)
T cd08173 67 VEKVESSARDIGADFVIGVGGGR-----------------VIDVAKVAAYKLGIPFISVPTA 111 (339)
T ss_pred HHHHHHHhhhcCCCEEEEeCCch-----------------HHHHHHHHHHhcCCCEEEecCc
Confidence 35666777788999888 66221 1234444444457898888854
No 263
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=23.06 E-value=2.5e+02 Score=24.69 Aligned_cols=56 Identities=7% Similarity=-0.072 Sum_probs=38.8
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCCch-hhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKSIV-WTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~-~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
......++++.|++.+.-+|+..+.+.-.. ..- .+......+..++.+||.+==+.
T Consensus 27 n~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~---------~~~~~~~~~A~~~~vPV~lHLDH 83 (283)
T PRK07998 27 NLETTISILNAIERSGLPNFIQIAPTNAQLSGYD---------YIYEIVKRHADKMDVPVSLHLDH 83 (283)
T ss_pred CHHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHH---------HHHHHHHHHHHHCCCCEEEECcC
Confidence 333368999999999999999987653111 111 34557778889999998774333
No 264
>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=23.05 E-value=3.9e+02 Score=21.32 Aligned_cols=73 Identities=14% Similarity=0.140 Sum_probs=39.3
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHh
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQN 204 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~ 204 (236)
.....++..++.. ++++.+.-..+++ .....++.+...++|.||+.....+.. ..-..+.+
T Consensus 16 ~~~~g~~~~~~~~--g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~----------------~~~~~l~~ 77 (264)
T cd01537 16 QVLKGIEEAAKAA--GYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAP----------------TIVKLARK 77 (264)
T ss_pred HHHHHHHHHHHHc--CCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcch----------------hHHHHhhh
Confidence 3444455544432 5655544333332 123444445556899998875432221 11344567
Q ss_pred CCCeEEEEeCCC
Q 037436 205 SSRMTIAVRRKS 216 (236)
Q Consensus 205 s~~PVlvV~~~~ 216 (236)
..+|++.+....
T Consensus 78 ~~ip~v~~~~~~ 89 (264)
T cd01537 78 AGIPVVLVDRDI 89 (264)
T ss_pred cCCCEEEeccCC
Confidence 889998886553
No 265
>PF13362 Toprim_3: Toprim domain
Probab=23.05 E-value=2.2e+02 Score=19.99 Aligned_cols=39 Identities=18% Similarity=0.185 Sum_probs=29.1
Q ss_pred CCCCEEEEEecCCHh--HHHHHHHHHHhhccCCCEEEEEEE
Q 037436 66 RYGNKVMVVADSSLD--AKGALEWALSHTVQCQDTIVLLYV 104 (236)
Q Consensus 66 ~~~~~ILV~vD~s~~--s~~al~~A~~la~~~~~~l~llhV 104 (236)
...++|+|+.|.... ...+...+...+...+-.+.++-.
T Consensus 39 ~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~p 79 (96)
T PF13362_consen 39 EPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVEP 79 (96)
T ss_pred CCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEECC
Confidence 378889999999877 777777777777766666555544
No 266
>PLN02329 3-isopropylmalate dehydrogenase
Probab=22.90 E-value=1.5e+02 Score=27.54 Aligned_cols=27 Identities=4% Similarity=-0.018 Sum_probs=21.5
Q ss_pred CHhHHHHHHHHHHhhccCCCEEEEEEE
Q 037436 78 SLDAKGALEWALSHTVQCQDTIVLLYV 104 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~~~l~llhV 104 (236)
...++..+++|.++|.+.+..|+++|=
T Consensus 210 r~~~eRI~r~AFe~A~~r~~kVT~v~K 236 (409)
T PLN02329 210 AHEIDRIARVAFETARKRRGKLCSVDK 236 (409)
T ss_pred HHHHHHHHHHHHHHHHHcCCeEEEEEC
Confidence 367888999999999887667777765
No 267
>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=22.87 E-value=4.6e+02 Score=22.31 Aligned_cols=74 Identities=11% Similarity=0.066 Sum_probs=38.1
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHh
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQN 204 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~ 204 (236)
..+..+.+.++....++.+.+.-..+++ ....+++.+...++|-||+.......... ... -+..
T Consensus 16 ~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~~~--------------~~~-~~~~ 80 (303)
T cd01539 16 LVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAAQT--------------VIN-KAKQ 80 (303)
T ss_pred HHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhHHH--------------HHH-HHHH
Confidence 3444455544431124454443332232 12356777778899988886432211111 222 3456
Q ss_pred CCCeEEEEeC
Q 037436 205 SSRMTIAVRR 214 (236)
Q Consensus 205 s~~PVlvV~~ 214 (236)
..+||+++-.
T Consensus 81 ~giPvV~~~~ 90 (303)
T cd01539 81 KNIPVIFFNR 90 (303)
T ss_pred CCCCEEEeCC
Confidence 7899988854
No 268
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=22.87 E-value=3e+02 Score=25.07 Aligned_cols=63 Identities=10% Similarity=-0.003 Sum_probs=39.8
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCCc------hhh-----hhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKSI------VWT-----LMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s~------~~~-----l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
.-....+|++.|++.+..+|+..+.+... +.. + ......+......+.+++++||.+==+...
T Consensus 30 n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~----~~~~~~~~~~v~~~A~~~~VPValHLDHg~ 103 (350)
T PRK09197 30 GTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAA----VLGAIAGAKHVHEVAEHYGVPVILHTDHCA 103 (350)
T ss_pred CHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhh----hhhHHHHHHHHHHHHHHCCCCEEEECCCCC
Confidence 33337899999999999999998775321 111 0 000000345677888999999876544443
No 269
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=22.76 E-value=4.4e+02 Score=21.71 Aligned_cols=74 Identities=15% Similarity=0.133 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHH
Q 037436 125 YEKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQ 203 (236)
Q Consensus 125 ~~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~ 203 (236)
...++.+.+.++.. ++++.+.-..++. ....+++.+...++|-||+.......... .. .-+.
T Consensus 15 ~~~~~~~~~~a~~~--g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~--------------~i-~~~~ 77 (273)
T cd06309 15 TAETKSIKDAAEKR--GFDLKFADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDP--------------VL-KEAK 77 (273)
T ss_pred HHHHHHHHHHHHhc--CCEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchH--------------HH-HHHH
Confidence 45556666666643 6666654333332 12355666677889999886533211111 11 2345
Q ss_pred hCCCeEEEEeCC
Q 037436 204 NSSRMTIAVRRK 215 (236)
Q Consensus 204 ~s~~PVlvV~~~ 215 (236)
+..+|++++-..
T Consensus 78 ~~~iPvV~~~~~ 89 (273)
T cd06309 78 AAGIPVILVDRG 89 (273)
T ss_pred HCCCCEEEEecC
Confidence 678999998653
No 270
>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=22.72 E-value=2.5e+02 Score=24.57 Aligned_cols=56 Identities=11% Similarity=-0.012 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCCC
Q 037436 154 KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKSS 217 (236)
Q Consensus 154 ~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~~ 217 (236)
...++++.|++.+..+|+.-+.+.-..-.+ ..+.....++.+++++||.+==+..+
T Consensus 25 ~~~avi~AAe~~~sPvIi~~~~~~~~~~~~--------~~~~~~~~~~a~~~~VPV~lHLDH~~ 80 (276)
T cd00947 25 TLKAILEAAEETRSPVILQISEGAIKYAGL--------ELLVAMVKAAAERASVPVALHLDHGS 80 (276)
T ss_pred HHHHHHHHHHHhCCCEEEEcCcchhhhCCH--------HHHHHHHHHHHHHCCCCEEEECCCCC
Confidence 378999999999999999887654211111 03456777888899999988544443
No 271
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=22.67 E-value=4.9e+02 Score=22.62 Aligned_cols=68 Identities=16% Similarity=0.028 Sum_probs=38.7
Q ss_pred eEEEEEEecCChHH-HHHHHHHHCCCCEEEEccCCCCchhhhhh-----hccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 143 QVEIAITEGKEKGP-IIVEEAKRQNVSLLVLGQRRKSIVWTLMN-----RWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 143 ~v~~~v~~G~~~~~-~I~~~a~~~~~DLLVmG~~~~s~~~~l~~-----~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
+.+-.++.|...+. .-++.|-+...+.||+-+.=.++++-+.. -|.....+ ..=+++.+|||||++-.
T Consensus 128 ~~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S~~rv~~~~~~~~~~~d~f~~-----i~kI~~i~~PVLiiHgt 201 (258)
T KOG1552|consen 128 SPERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTSGMRVAFPDTKTTYCFDAFPN-----IEKISKITCPVLIIHGT 201 (258)
T ss_pred CCceEEEEEecCCchhhhhHhhcCCcceEEEeccchhhhhhhccCcceEEeeccccc-----cCcceeccCCEEEEecc
Confidence 55666777654332 24677777779999998765454443311 01111101 22246778999999844
No 272
>PRK00861 putative lipid kinase; Reviewed
Probab=22.65 E-value=5e+02 Score=22.38 Aligned_cols=32 Identities=16% Similarity=0.292 Sum_probs=20.4
Q ss_pred ceEEEEEEecCChHHHHHHHHHHCCCCEEEEc
Q 037436 142 VQVEIAITEGKEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 142 v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG 173 (236)
+++++...+....+..+.+.+...++|+||+.
T Consensus 33 ~~~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~ 64 (300)
T PRK00861 33 MDLDIYLTTPEIGADQLAQEAIERGAELIIAS 64 (300)
T ss_pred CceEEEEccCCCCHHHHHHHHHhcCCCEEEEE
Confidence 45555555544335777777777788876654
No 273
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=22.52 E-value=2.1e+02 Score=25.95 Aligned_cols=29 Identities=7% Similarity=0.094 Sum_probs=22.6
Q ss_pred CHhHHHHHHHHHHhhccCC-CEEEEEEEEe
Q 037436 78 SLDAKGALEWALSHTVQCQ-DTIVLLYVIA 106 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~~-~~l~llhV~~ 106 (236)
...++..+++|.++|++.+ ..|+++|=.-
T Consensus 159 r~~~~RIa~~AF~~A~~r~~k~Vt~v~KaN 188 (344)
T PRK03437 159 AFGVERVVRDAFERAQKRPRKHLTLVHKTN 188 (344)
T ss_pred HHHHHHHHHHHHHHHHhCCCCeEEEEECCc
Confidence 4677889999999998874 4688887543
No 274
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=22.19 E-value=2.4e+02 Score=25.65 Aligned_cols=29 Identities=3% Similarity=0.021 Sum_probs=24.7
Q ss_pred CHhHHHHHHHHHHhhccC-CCEEEEEEEEe
Q 037436 78 SLDAKGALEWALSHTVQC-QDTIVLLYVIA 106 (236)
Q Consensus 78 s~~s~~al~~A~~la~~~-~~~l~llhV~~ 106 (236)
..++++.+++|.++|++. ..+|+.+|=.-
T Consensus 155 r~~~eRI~r~AFe~A~~R~~kkvTsv~KaN 184 (348)
T COG0473 155 RKGSERIARFAFELARKRGRKKVTSVHKAN 184 (348)
T ss_pred HHHHHHHHHHHHHHHHhhCCCceEEEehhh
Confidence 567889999999999998 68999998644
No 275
>COG0178 UvrA Excinuclease ATPase subunit [DNA replication, recombination, and repair]
Probab=22.17 E-value=4.9e+02 Score=26.78 Aligned_cols=68 Identities=18% Similarity=0.264 Sum_probs=37.4
Q ss_pred HHHhhccCCCEE-EEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCC
Q 037436 88 ALSHTVQCQDTI-VLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQN 166 (236)
Q Consensus 88 A~~la~~~~~~l-~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~ 166 (236)
=+++|.+-++.| -++||.++|+.. ..+...++.-+.|..+++ ..-.+.+++.++ ++|..
T Consensus 489 RIRLAtqiGS~LtGVlYVLDEPSIG----LHqrDn~rLi~tL~~LRD--------lGNTviVVEHDe--dti~~------ 548 (935)
T COG0178 489 RIRLATQIGSGLTGVLYVLDEPSIG----LHQRDNERLIETLKRLRD--------LGNTVIVVEHDE--DTIRA------ 548 (935)
T ss_pred HHHHHHHhcccceeeEEEecCCccC----CChhhHHHHHHHHHHHHh--------cCCeEEEEecCH--HHHhh------
Confidence 346667766654 578999988765 122222222333333333 333667777776 45543
Q ss_pred CCEEE-EccC
Q 037436 167 VSLLV-LGQR 175 (236)
Q Consensus 167 ~DLLV-mG~~ 175 (236)
+|.|| ||..
T Consensus 549 AD~iIDiGPg 558 (935)
T COG0178 549 ADHIIDIGPG 558 (935)
T ss_pred cCEEEeeCCC
Confidence 67666 5554
No 276
>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=22.10 E-value=3.1e+02 Score=20.31 Aligned_cols=23 Identities=26% Similarity=0.265 Sum_probs=20.6
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+.+++.+.+.++|+|++.....
T Consensus 39 ~e~~~~~a~~~~~d~V~iS~~~~ 61 (122)
T cd02071 39 PEEIVEAAIQEDVDVIGLSSLSG 61 (122)
T ss_pred HHHHHHHHHHcCCCEEEEcccch
Confidence 68999999999999999987754
No 277
>PRK11106 queuosine biosynthesis protein QueC; Provisional
Probab=21.98 E-value=4.1e+02 Score=22.50 Aligned_cols=34 Identities=21% Similarity=0.174 Sum_probs=28.4
Q ss_pred CEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 69 NKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 69 ~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
++++|++.+.-+|.-++.||.+. +.+++.|++..
T Consensus 2 ~kvvVl~SGG~DSt~~l~~a~~~----~~~v~alt~dy 35 (231)
T PRK11106 2 KRAVVVFSGGQDSTTCLIQALQQ----YDEVHCVTFDY 35 (231)
T ss_pred CcEEEEeeCcHHHHHHHHHHHhc----CCeEEEEEEEe
Confidence 57999999999999999888542 45799999987
No 278
>TIGR02924 ICDH_alpha isocitrate dehydrogenase. This family of mainly alphaproteobacterial enzymes is a member of the isocitrate/isopropylmalate dehydrogenase superfamily described by pfam00180. Every member of the seed of this model appears to have a TCA cycle lacking only a determined isocitrate dehydrogenase. The precise identity of the cofactor (NADH -- 1.1.1.41 vs. NADPH -- 1.1.1.42) is unclear.
Probab=21.69 E-value=2.3e+02 Score=26.94 Aligned_cols=29 Identities=7% Similarity=0.041 Sum_probs=23.1
Q ss_pred CCHhHHHHHHHHHHhhccCC-CEEEEEEEE
Q 037436 77 SSLDAKGALEWALSHTVQCQ-DTIVLLYVI 105 (236)
Q Consensus 77 ~s~~s~~al~~A~~la~~~~-~~l~llhV~ 105 (236)
....+++.+++|.++|++.+ ..|+++|=.
T Consensus 143 Tr~g~eRI~r~AFe~A~~r~rkkVT~v~Ka 172 (473)
T TIGR02924 143 TRSGSEKICRYAFEYARKHNRKKVTCLTKD 172 (473)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence 35678899999999998876 468888754
No 279
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=21.65 E-value=3.3e+02 Score=21.70 Aligned_cols=63 Identities=16% Similarity=0.066 Sum_probs=36.0
Q ss_pred HHHH-HHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcH--HHHHHHhCCCeEEEEeCCCCCCCceeeecccccc
Q 037436 156 PIIV-EEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDI--ADYCIQNSSRMTIAVRRKSSKLGGYLITTKRHKN 231 (236)
Q Consensus 156 ~~I~-~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~--~~~ll~~s~~PVlvV~~~~~~~~~~li~t~~~~~ 231 (236)
+..+ ++....+++.||+|..-+-+..+. |+. -..........|.+++... .++..|+|++-|.
T Consensus 88 ~~Fi~~il~~~~~~~ivvG~Df~FG~~~~-----------g~~~~L~~~~~~~g~~v~~v~~~~--~~~~~iSST~IR~ 153 (180)
T cd02064 88 EEFVEDLLVKLNAKHVVVGFDFRFGKGRS-----------GDAELLKELGKKYGFEVTVVPPVT--LDGERVSSTRIRE 153 (180)
T ss_pred HHHHHHHHhhcCCeEEEEccCCCCCCCCC-----------CCHHHHHHhhhhcCcEEEEeCcEe--cCCcEEcHHHHHH
Confidence 4444 345555899999998754332221 322 1234455567788888753 2455677765443
No 280
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=21.63 E-value=3e+02 Score=24.22 Aligned_cols=52 Identities=10% Similarity=-0.003 Sum_probs=37.2
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRR 214 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~ 214 (236)
..++++.|++.+.-+|+.-+.+.-..-.+ ..+......+.+++++||.+==+
T Consensus 31 ~~avi~AAee~~sPvIiq~~~~~~~~~g~--------~~~~~~~~~~A~~~~VPV~lHLD 82 (284)
T PRK09195 31 MQVVVETAAELHSPVIIAGTPGTFSYAGT--------EYLLAIVSAAAKQYHHPLALHLD 82 (284)
T ss_pred HHHHHHHHHHhCCCEEEEcChhHHhhCCH--------HHHHHHHHHHHHHCCCCEEEECC
Confidence 78999999999999999987753111110 02355778889999999876433
No 281
>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=21.61 E-value=3.3e+02 Score=24.75 Aligned_cols=64 Identities=5% Similarity=-0.040 Sum_probs=38.6
Q ss_pred ChHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhc-------cCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 153 EKGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRW-------SSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 153 ~~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~-------~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
....+|++.|++.+..+|+.-+.+....-....++ ......+......+..++++||.+==+..
T Consensus 27 e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~~~VPValHLDHg 97 (345)
T cd00946 27 STINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEHYGVPVVLHTDHC 97 (345)
T ss_pred HHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 33789999999999999999887632110000000 00000234566788889999977643433
No 282
>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=21.61 E-value=3.3e+02 Score=20.78 Aligned_cols=23 Identities=13% Similarity=0.096 Sum_probs=20.1
Q ss_pred HHHHHHHHHHCCCCEEEEccCCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.+.+++.|.+.++|.|++.+.-.
T Consensus 42 ~e~~v~aa~e~~adii~iSsl~~ 64 (132)
T TIGR00640 42 PEEIARQAVEADVHVVGVSSLAG 64 (132)
T ss_pred HHHHHHHHHHcCCCEEEEcCchh
Confidence 58999999999999999987643
No 283
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=21.30 E-value=6.2e+02 Score=22.95 Aligned_cols=34 Identities=15% Similarity=0.206 Sum_probs=22.0
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
++++++.-+.... ...|...+ .++|.||+|+...
T Consensus 278 g~~v~~~~~~~~~-~~~i~~~~--~~~d~ii~GspT~ 311 (394)
T PRK11921 278 DVTVKLYNSAKSD-KNDIITEV--FKSKAILVGSSTI 311 (394)
T ss_pred CCeEEEEECCCCC-HHHHHHHH--HhCCEEEEECCCc
Confidence 6666655444444 35555544 4699999999874
No 284
>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=21.25 E-value=4.6e+02 Score=21.88 Aligned_cols=72 Identities=13% Similarity=0.040 Sum_probs=40.4
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHh
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQN 204 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~ 204 (236)
++++.+.+.++.. +.++.+....+++ ....+++.+..+++|-||+-......... . -..+..
T Consensus 17 ~~~~gi~~~a~~~--gy~~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~--------------~-~~~~~~ 79 (280)
T cd06315 17 GVGEGVREAAKAI--GWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQA--------------E-LELAQK 79 (280)
T ss_pred HHHHHHHHHHHHc--CcEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHH--------------H-HHHHHH
Confidence 4555566655533 5544433222222 12467888888999999996432111111 1 133456
Q ss_pred CCCeEEEEeC
Q 037436 205 SSRMTIAVRR 214 (236)
Q Consensus 205 s~~PVlvV~~ 214 (236)
..+|++++-.
T Consensus 80 ~~iPvV~~d~ 89 (280)
T cd06315 80 AGIPVVGWHA 89 (280)
T ss_pred CCCCEEEecC
Confidence 7899999965
No 285
>COG0603 Predicted PP-loop superfamily ATPase [General function prediction only]
Probab=21.24 E-value=4.3e+02 Score=22.42 Aligned_cols=36 Identities=22% Similarity=0.259 Sum_probs=29.7
Q ss_pred CCCEEEEEecCCHhHHHHHHHHHHhhccCCCEEEEEEEEe
Q 037436 67 YGNKVMVVADSSLDAKGALEWALSHTVQCQDTIVLLYVIA 106 (236)
Q Consensus 67 ~~~~ILV~vD~s~~s~~al~~A~~la~~~~~~l~llhV~~ 106 (236)
+.++.+|...+..+|...+.||... ..+|+.|++..
T Consensus 1 ~~~kavvl~SGG~DStt~l~~a~~~----~~ev~alsfdY 36 (222)
T COG0603 1 MMKKAVVLLSGGLDSTTCLAWAKKE----GYEVHALTFDY 36 (222)
T ss_pred CCceEEEEccCChhHHHHHHHHHhc----CCEEEEEEeeC
Confidence 3567888999999999888888654 58899999877
No 286
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=21.14 E-value=5e+02 Score=22.54 Aligned_cols=121 Identities=8% Similarity=-0.120 Sum_probs=60.1
Q ss_pred EEEecC-CHhHHHHHHHHHHhhccCCC-EEEEEEEEecCCCCchhHHHHHHHHHHHHHHHHHHHHhhhhCCCceEEEEEE
Q 037436 72 MVVADS-SLDAKGALEWALSHTVQCQD-TIVLLYVIAKSSKQVKETKGKKLYLRAYEKLHSMKSTCQLKKPGVQVEIAIT 149 (236)
Q Consensus 72 LV~vD~-s~~s~~al~~A~~la~~~~~-~l~llhV~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~ 149 (236)
+-|.|. ..-...+++.-+++....+. -|.+.-..- .. ..- ..++..+.++.+.+.... .+.+-+.+.
T Consensus 14 vTPf~~dg~iD~~~l~~li~~l~~~Gv~gi~v~GstG---E~-~~L----t~eEr~~v~~~~~~~~~g---~~pvi~gv~ 82 (296)
T TIGR03249 14 VTPFDADGSFDEAAYRENIEWLLGYGLEALFAAGGTG---EF-FSL----TPAEYEQVVEIAVSTAKG---KVPVYTGVG 82 (296)
T ss_pred eCCcCCCCCcCHHHHHHHHHHHHhcCCCEEEECCCCc---Cc-ccC----CHHHHHHHHHHHHHHhCC---CCcEEEecC
Confidence 334433 23445567777777665553 333221111 11 001 122334444444444332 344444443
Q ss_pred ecCChHHHHHHHHHHCCCCEEEEccCCCCch-hhhhhhccCCCcccCcHHHHHHHhCCCeEEEEe
Q 037436 150 EGKEKGPIIVEEAKRQNVSLLVLGQRRKSIV-WTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVR 213 (236)
Q Consensus 150 ~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~-~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~ 213 (236)
......-.+.++|++.++|-+++-..-.... ..- +-..-..+...+++|+++..
T Consensus 83 ~~t~~ai~~a~~a~~~Gadav~~~pP~y~~~s~~~----------i~~~f~~v~~a~~~pvilYn 137 (296)
T TIGR03249 83 GNTSDAIEIARLAEKAGADGYLLLPPYLINGEQEG----------LYAHVEAVCESTDLGVIVYQ 137 (296)
T ss_pred ccHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHH----------HHHHHHHHHhccCCCEEEEe
Confidence 2111134567888889999998876543221 111 11234567777889999987
No 287
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=21.09 E-value=2.6e+02 Score=24.25 Aligned_cols=46 Identities=22% Similarity=0.197 Sum_probs=34.1
Q ss_pred hhhhhhccCCCCCCCCCCCEEEEEecCCHhHHHHHHHHHHhhccCC-CEE
Q 037436 51 AEEVEYVGNESSGSERYGNKVMVVADSSLDAKGALEWALSHTVQCQ-DTI 99 (236)
Q Consensus 51 ~~~~~~~~~~~~~~~~~~~~ILV~vD~s~~s~~al~~A~~la~~~~-~~l 99 (236)
+++.+.+|- +-.....-+++++|.|..+-...+....++...+ .+|
T Consensus 142 EAGiEHfgR---g~~~~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i 188 (255)
T COG3640 142 EAGIEHFGR---GTIEGVDLVIVVVDPSYKSLRTAERIKELAEELGIKRI 188 (255)
T ss_pred ccchhhhcc---ccccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceE
Confidence 344455552 2235677899999999999999999999999887 444
No 288
>PRK13856 two-component response regulator VirG; Provisional
Probab=21.09 E-value=3.9e+02 Score=21.67 Aligned_cols=22 Identities=9% Similarity=0.083 Sum_probs=17.0
Q ss_pred HHHHHHHHHHCCCCEEEEccCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
+...++.+....+|+|++...-
T Consensus 34 ~~~~~~~~~~~~~dlvi~d~~l 55 (241)
T PRK13856 34 SQQFNRVLASETVDVVVVDLNL 55 (241)
T ss_pred HHHHHHHHhhCCCCEEEEeCCC
Confidence 4566777788899999998653
No 289
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=21.07 E-value=6.7e+02 Score=23.21 Aligned_cols=35 Identities=34% Similarity=0.389 Sum_probs=28.6
Q ss_pred CCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCC
Q 037436 140 PGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRK 177 (236)
Q Consensus 140 ~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~ 177 (236)
.++.+++.-..... ...|++.+ .+++-||+|+...
T Consensus 274 ~gv~v~~~~~~~~~-~~eI~~~i--~~a~~~vvGsPT~ 308 (388)
T COG0426 274 EGVDVEVINLEDAD-PSEIVEEI--LDAKGLVVGSPTI 308 (388)
T ss_pred cCCceEEEEcccCC-HHHHHHHH--hhcceEEEecCcc
Confidence 48898888888776 57888888 5699999999863
No 290
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=21.00 E-value=5.6e+02 Score=22.34 Aligned_cols=79 Identities=11% Similarity=0.007 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEccCCCCch-hhhhhhccCCCcccCcHHHHHH
Q 037436 124 AYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQRRKSIV-WTLMNRWSSKKKAVGDIADYCI 202 (236)
Q Consensus 124 ~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~~~~s~~-~~l~~~~~~~~~~~gs~~~~ll 202 (236)
..+.++.+.+.+.. .+.+-..+..+....-.+.+.+++.++|-+++...-.... ..- +-..-..+.
T Consensus 62 r~~~~~~~~~~~~~---~~pvi~gv~~~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~----------i~~~f~~va 128 (303)
T PRK03620 62 YSQVVRAAVETTAG---RVPVIAGAGGGTAQAIEYAQAAERAGADGILLLPPYLTEAPQEG----------LAAHVEAVC 128 (303)
T ss_pred HHHHHHHHHHHhCC---CCcEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHH----------HHHHHHHHH
Confidence 34455555554432 3444444422111134556777889999999877643221 111 123445677
Q ss_pred HhCCCeEEEEeCC
Q 037436 203 QNSSRMTIAVRRK 215 (236)
Q Consensus 203 ~~s~~PVlvV~~~ 215 (236)
..++.|+++....
T Consensus 129 ~~~~lpi~lYn~~ 141 (303)
T PRK03620 129 KSTDLGVIVYNRD 141 (303)
T ss_pred HhCCCCEEEEcCC
Confidence 8889999998743
No 291
>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=20.98 E-value=2.9e+02 Score=21.25 Aligned_cols=22 Identities=5% Similarity=0.122 Sum_probs=19.4
Q ss_pred HHHHHHHHHHCCCCEEEEccCC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRR 176 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~ 176 (236)
.+.+++.|.+.++|+|.+.+--
T Consensus 39 ~e~~v~aa~~~~adiVglS~L~ 60 (128)
T cd02072 39 QEEFIDAAIETDADAILVSSLY 60 (128)
T ss_pred HHHHHHHHHHcCCCEEEEeccc
Confidence 6899999999999999998753
No 292
>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=20.84 E-value=5.5e+02 Score=22.12 Aligned_cols=33 Identities=30% Similarity=0.383 Sum_probs=19.9
Q ss_pred CceEEEEEEecCChHHHHHHHHHHCCCCEEEEc
Q 037436 141 GVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLG 173 (236)
Q Consensus 141 ~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG 173 (236)
++++++...+....+..+.+.+.+.++|+||+.
T Consensus 27 g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~ 59 (293)
T TIGR03702 27 GIQLHVRVTWEKGDAQRYVAEALALGVSTVIAG 59 (293)
T ss_pred CCeEEEEEecCCCCHHHHHHHHHHcCCCEEEEE
Confidence 667666654432225677776666677766544
No 293
>PF00834 Ribul_P_3_epim: Ribulose-phosphate 3 epimerase family; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Ralstonia eutropha (Alcaligenes eutrophus) two copies of the gene coding for PPE are known [], one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process; PDB: 3CTL_A 3CT7_D 3CU2_A 1RPX_A 3OVR_A 3OVP_A 3OVQ_B 3QC3_B 3INP_A 1TQJ_D ....
Probab=20.82 E-value=1.1e+02 Score=25.25 Aligned_cols=51 Identities=16% Similarity=0.326 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEcc
Q 037436 120 LYLRAYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQ 174 (236)
Q Consensus 120 ~~~~~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~ 174 (236)
.....-+.++++++..... +..+++.+--|-. .+. +..+.+-++|.+|+|+
T Consensus 145 f~~~~~~KI~~l~~~~~~~--~~~~~I~vDGGI~-~~~-~~~~~~aGad~~V~Gs 195 (201)
T PF00834_consen 145 FIPEVLEKIRELRKLIPEN--GLDFEIEVDGGIN-EEN-IKQLVEAGADIFVAGS 195 (201)
T ss_dssp -HGGHHHHHHHHHHHHHHH--TCGSEEEEESSES-TTT-HHHHHHHT--EEEESH
T ss_pred ccHHHHHHHHHHHHHHHhc--CCceEEEEECCCC-HHH-HHHHHHcCCCEEEECH
Confidence 3344455566667766655 3344444333333 344 4444467999999995
No 294
>cd03411 Ferrochelatase_N Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=20.80 E-value=3.6e+02 Score=21.05 Aligned_cols=51 Identities=18% Similarity=0.167 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhhhCCCceEEEEEEecCChHHHHHHHHHHCCCCEEEEcc
Q 037436 124 AYEKLHSMKSTCQLKKPGVQVEIAITEGKEKGPIIVEEAKRQNVSLLVLGQ 174 (236)
Q Consensus 124 ~~~~l~~~~~~~~~~~~~v~v~~~v~~G~~~~~~I~~~a~~~~~DLLVmG~ 174 (236)
.++..+.+++.+.....++.+.+....++|-.+..++...+.+++-||+=.
T Consensus 70 t~~q~~~l~~~L~~~~~~~~v~~amry~~P~i~~~l~~l~~~g~~~iivlP 120 (159)
T cd03411 70 TRAQAEALEKALDERGIDVKVYLAMRYGPPSIEEALEELKADGVDRIVVLP 120 (159)
T ss_pred HHHHHHHHHHHHhccCCCcEEEehHhcCCCCHHHHHHHHHHcCCCEEEEEE
Confidence 344444455554432224667777677887667777777777777766654
No 295
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=20.61 E-value=4.8e+02 Score=22.57 Aligned_cols=51 Identities=8% Similarity=-0.058 Sum_probs=33.8
Q ss_pred HHHHHHHHHCCCCEEEEccCCCCch-hhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC
Q 037436 156 PIIVEEAKRQNVSLLVLGQRRKSIV-WTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS 216 (236)
Q Consensus 156 ~~I~~~a~~~~~DLLVmG~~~~s~~-~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~ 216 (236)
....++|++.++|-|++-....... ..- +-..-+.+...++.||++...+.
T Consensus 89 i~~a~~a~~~Gad~v~v~~P~y~~~~~~~----------l~~~f~~va~a~~lPv~iYn~P~ 140 (293)
T PRK04147 89 QELAKYATELGYDAISAVTPFYYPFSFEE----------ICDYYREIIDSADNPMIVYNIPA 140 (293)
T ss_pred HHHHHHHHHcCCCEEEEeCCcCCCCCHHH----------HHHHHHHHHHhCCCCEEEEeCch
Confidence 4566778889999999987653221 111 11233567778899999997654
No 296
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.59 E-value=5e+02 Score=21.56 Aligned_cols=73 Identities=11% Similarity=0.009 Sum_probs=40.6
Q ss_pred HHHHHHHHHhhhhCCCceEEEEEEecCC-hHHHHHHHHHHCCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHh
Q 037436 126 EKLHSMKSTCQLKKPGVQVEIAITEGKE-KGPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQN 204 (236)
Q Consensus 126 ~~l~~~~~~~~~~~~~v~v~~~v~~G~~-~~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~ 204 (236)
+.++.+.+.++.. ++++.+.....++ ....+++.+..+++|-||+.......... ...+ +..
T Consensus 16 ~~~~gi~~~~~~~--G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~--------------~i~~-~~~ 78 (272)
T cd06313 16 QGKQAADEAGKLL--GVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTE--------------AVQK-AIA 78 (272)
T ss_pred HHHHHHHHHHHHc--CCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHH--------------HHHH-HHH
Confidence 4555566666543 6666665444333 13355666667899999996432111111 2233 345
Q ss_pred CCCeEEEEeCC
Q 037436 205 SSRMTIAVRRK 215 (236)
Q Consensus 205 s~~PVlvV~~~ 215 (236)
..+||+++-..
T Consensus 79 ~~iPvV~~~~~ 89 (272)
T cd06313 79 RGIPVIDMGTL 89 (272)
T ss_pred CCCcEEEeCCC
Confidence 68999998543
No 297
>PLN02285 methionyl-tRNA formyltransferase
Probab=20.59 E-value=3.2e+02 Score=24.47 Aligned_cols=33 Identities=3% Similarity=-0.034 Sum_probs=22.7
Q ss_pred HHHHHHHHHHCCCCEEEEccCCCCchhhhhhhc
Q 037436 155 GPIIVEEAKRQNVSLLVLGQRRKSIVWTLMNRW 187 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~~~s~~~~l~~~~ 187 (236)
.+.+++..++.++|++|+..-++-.-..+|..+
T Consensus 82 ~~~~~~~l~~~~~Dliv~~~~~~ilp~~~l~~~ 114 (334)
T PLN02285 82 EEDFLSALRELQPDLCITAAYGNILPQKFLDIP 114 (334)
T ss_pred CHHHHHHHHhhCCCEEEhhHhhhhcCHHHHhhc
Confidence 356788888999999999976653333444433
No 298
>KOG3123 consensus Diphthine synthase [Translation, ribosomal structure and biogenesis]
Probab=20.51 E-value=1.2e+02 Score=25.85 Aligned_cols=21 Identities=33% Similarity=0.659 Sum_probs=19.2
Q ss_pred HHHHHHHHHHCCCCEEEEccC
Q 037436 155 GPIIVEEAKRQNVSLLVLGQR 175 (236)
Q Consensus 155 ~~~I~~~a~~~~~DLLVmG~~ 175 (236)
.+.|++.|.+.++.+||+|..
T Consensus 66 sd~il~~ad~~dVa~LVVGdP 86 (272)
T KOG3123|consen 66 SDKILDEADKEDVAFLVVGDP 86 (272)
T ss_pred HHHHhhhhhhcceEEEEecCc
Confidence 579999999999999999975
No 299
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=20.44 E-value=2.5e+02 Score=26.32 Aligned_cols=60 Identities=17% Similarity=0.160 Sum_probs=43.0
Q ss_pred HHHHHHHHHH--CCCCEEEEccCCCCchhhhhhhccCCCcccCcHHHHHHHhCCCeEEEEeCCC---CCCCceeeec
Q 037436 155 GPIIVEEAKR--QNVSLLVLGQRRKSIVWTLMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRKS---SKLGGYLITT 226 (236)
Q Consensus 155 ~~~I~~~a~~--~~~DLLVmG~~~~s~~~~l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~~---~~~~~~li~t 226 (236)
...|++..+. .++|.||+...+++.+... ...-++.++..+||||=|+.. +..+-+|||.
T Consensus 130 ~~~ll~~~~~~l~~~~~vVLSDY~KG~L~~~------------q~~I~~ar~~~~pVLvDPKg~Df~~Y~GAtLiTP 194 (467)
T COG2870 130 ENKLLEKIKNALKSFDALVLSDYAKGVLTNV------------QKMIDLAREAGIPVLVDPKGKDFEKYRGATLITP 194 (467)
T ss_pred HHHHHHHHHHHhhcCCEEEEeccccccchhH------------HHHHHHHHHcCCcEEECCCCcchhhhCCCeecCC
Confidence 4677777766 8899999999988766432 234567788899999977654 3455567765
No 300
>PRK13059 putative lipid kinase; Reviewed
Probab=20.26 E-value=5.7e+02 Score=22.10 Aligned_cols=19 Identities=0% Similarity=-0.265 Sum_probs=11.0
Q ss_pred HHHHHHHh-CCCeEEEEeCC
Q 037436 197 IADYCIQN-SSRMTIAVRRK 215 (236)
Q Consensus 197 ~~~~ll~~-s~~PVlvV~~~ 215 (236)
++..+++. .++|+-++|-.
T Consensus 72 vv~gl~~~~~~~~lgviP~G 91 (295)
T PRK13059 72 VVNAMKKLNIDLPIGILPVG 91 (295)
T ss_pred HHHHHHhcCCCCcEEEECCC
Confidence 34444443 35788888754
No 301
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=20.18 E-value=3e+02 Score=24.32 Aligned_cols=56 Identities=7% Similarity=-0.018 Sum_probs=39.1
Q ss_pred cCChHHHHHHHHHHCCCCEEEEccCCCC-chhh-hhhhccCCCcccCcHHHHHHHhCCCeEEEEeCC
Q 037436 151 GKEKGPIIVEEAKRQNVSLLVLGQRRKS-IVWT-LMNRWSSKKKAVGDIADYCIQNSSRMTIAVRRK 215 (236)
Q Consensus 151 G~~~~~~I~~~a~~~~~DLLVmG~~~~s-~~~~-l~~~~~~~~~~~gs~~~~ll~~s~~PVlvV~~~ 215 (236)
+-.-..+|++.|++.+..+||-.+.+.- ...+ . .+-..+..++.+.++||.+==+.
T Consensus 27 nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~---------~~~~~v~~~a~~~~vPV~lHlDH 84 (286)
T COG0191 27 NLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGAD---------SLAHMVKALAEKYGVPVALHLDH 84 (286)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEecccHHHHhchHH---------HHHHHHHHHHHHCCCCEEEECCC
Confidence 4443789999999999999999988642 1221 1 22345667788889999885433
Done!