Query 031713
Match_columns 154
No_of_seqs 144 out of 1039
Neff 10.6
Searched_HMMs 46136
Date Fri Mar 29 04:19:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031713.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031713hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK15456 universal stress prot 100.0 1.2E-29 2.6E-34 161.6 15.7 140 2-150 1-142 (142)
2 PRK15005 universal stress prot 100.0 2.4E-29 5.3E-34 160.4 15.3 142 2-150 1-144 (144)
3 PRK09982 universal stress prot 100.0 3.2E-29 6.8E-34 159.5 14.2 141 1-153 1-141 (142)
4 cd01989 STK_N The N-terminal d 100.0 2.7E-28 5.9E-33 155.9 17.2 142 5-152 1-146 (146)
5 PRK15118 universal stress glob 100.0 3.8E-28 8.3E-33 154.9 14.6 140 1-153 1-141 (144)
6 PRK10116 universal stress prot 100.0 6.5E-27 1.4E-31 148.9 15.6 140 1-153 1-141 (142)
7 PF00582 Usp: Universal stress 100.0 8.5E-27 1.8E-31 147.0 15.8 140 2-150 1-140 (140)
8 PRK11175 universal stress prot 99.9 1.6E-26 3.4E-31 164.0 15.8 146 1-152 1-147 (305)
9 cd01988 Na_H_Antiporter_C The 99.9 1.5E-25 3.2E-30 140.8 15.1 131 5-150 1-132 (132)
10 cd01987 USP_OKCHK USP domain i 99.9 4.3E-25 9.3E-30 137.4 12.7 123 5-150 1-124 (124)
11 cd00293 USP_Like Usp: Universa 99.9 1E-22 2.3E-27 126.9 15.2 130 5-149 1-130 (130)
12 PRK11175 universal stress prot 99.9 1.2E-22 2.5E-27 144.2 14.0 142 2-152 151-301 (305)
13 COG0589 UspA Universal stress 99.9 1.2E-20 2.6E-25 121.0 16.9 148 1-152 3-153 (154)
14 PRK12652 putative monovalent c 99.8 1.9E-17 4.1E-22 118.6 14.9 107 1-122 3-123 (357)
15 PRK10490 sensor protein KdpD; 99.6 5.7E-14 1.2E-18 112.0 14.8 124 4-152 251-375 (895)
16 COG2205 KdpD Osmosensitive K+ 99.5 3.2E-13 6.9E-18 103.6 13.0 126 4-152 249-375 (890)
17 cd01984 AANH_like Adenine nucl 98.7 7.5E-08 1.6E-12 55.8 7.2 84 6-148 1-85 (86)
18 PLN03159 cation/H(+) antiporte 98.3 1.5E-05 3.3E-10 64.0 11.3 144 5-150 460-614 (832)
19 TIGR02432 lysidine_TilS_N tRNA 97.8 0.00082 1.8E-08 44.6 11.0 93 5-123 1-110 (189)
20 PF01171 ATP_bind_3: PP-loop f 97.6 0.003 6.5E-08 41.8 11.6 92 5-122 1-106 (182)
21 cd01992 PP-ATPase N-terminal d 97.4 0.0053 1.1E-07 40.5 10.7 93 5-123 1-107 (185)
22 PLN03159 cation/H(+) antiporte 97.4 0.003 6.5E-08 51.2 10.7 115 4-122 631-752 (832)
23 PRK12342 hypothetical protein; 96.8 0.024 5.1E-07 39.6 9.2 101 11-147 32-140 (254)
24 cd01993 Alpha_ANH_like_II This 96.7 0.053 1.2E-06 35.6 10.4 94 5-122 1-116 (185)
25 PRK10696 tRNA 2-thiocytidine b 96.5 0.13 2.8E-06 36.1 11.5 93 3-122 29-141 (258)
26 COG0037 MesJ tRNA(Ile)-lysidin 96.3 0.13 2.9E-06 36.6 10.7 93 4-124 22-132 (298)
27 PRK03359 putative electron tra 96.2 0.08 1.7E-06 37.1 8.9 106 11-146 33-142 (256)
28 TIGR00591 phr2 photolyase PhrI 95.9 0.22 4.8E-06 37.8 10.8 91 11-121 32-122 (454)
29 PF01012 ETF: Electron transfe 95.5 0.19 4.1E-06 32.5 8.2 87 5-122 1-100 (164)
30 COG0041 PurE Phosphoribosylcar 95.3 0.31 6.7E-06 31.2 8.1 69 76-152 17-89 (162)
31 COG2086 FixA Electron transfer 95.3 0.31 6.7E-06 34.2 8.9 102 9-147 32-142 (260)
32 PRK10660 tilS tRNA(Ile)-lysidi 95.3 0.41 8.9E-06 36.3 10.2 66 3-94 15-81 (436)
33 TIGR01162 purE phosphoribosyla 95.1 0.43 9.3E-06 30.8 8.4 69 76-152 13-85 (156)
34 PF00448 SRP54: SRP54-type pro 95.0 0.68 1.5E-05 31.1 9.8 112 6-149 5-120 (196)
35 PF00875 DNA_photolyase: DNA p 94.9 0.35 7.5E-06 31.4 7.8 115 13-150 10-124 (165)
36 COG0299 PurN Folate-dependent 94.8 0.5 1.1E-05 31.6 8.3 82 4-120 1-87 (200)
37 PF00731 AIRC: AIR carboxylase 94.7 0.52 1.1E-05 30.2 8.0 70 75-152 14-87 (150)
38 PRK05253 sulfate adenylyltrans 94.5 1.1 2.3E-05 32.4 10.1 93 3-123 27-138 (301)
39 PRK13820 argininosuccinate syn 94.4 1.5 3.3E-05 32.8 11.0 38 2-44 1-39 (394)
40 PRK10867 signal recognition pa 93.5 2.6 5.7E-05 32.0 10.9 91 9-129 107-200 (433)
41 TIGR00268 conserved hypothetic 93.4 1.9 4E-05 30.2 10.2 89 2-122 11-117 (252)
42 TIGR02765 crypto_DASH cryptoch 93.0 2.8 6.1E-05 31.7 10.6 97 11-122 10-106 (429)
43 TIGR00930 2a30 K-Cl cotranspor 92.6 5.4 0.00012 33.6 12.3 95 5-122 577-677 (953)
44 TIGR03556 photolyase_8HDF deox 92.5 1.4 3E-05 33.8 8.4 90 11-121 10-99 (471)
45 PRK07313 phosphopantothenoylcy 92.0 1.4 3E-05 29.3 7.0 35 3-40 1-35 (182)
46 PF02601 Exonuc_VII_L: Exonucl 91.5 0.79 1.7E-05 33.1 5.9 54 94-148 49-112 (319)
47 PRK14665 mnmA tRNA-specific 2- 91.0 5.1 0.00011 29.7 12.2 35 3-43 5-39 (360)
48 COG0541 Ffh Signal recognition 91.0 5.7 0.00012 30.2 10.6 96 6-133 104-203 (451)
49 COG1597 LCB5 Sphingosine kinas 90.1 3.8 8.3E-05 29.5 8.3 75 72-152 17-92 (301)
50 cd01985 ETF The electron trans 89.5 4.3 9.4E-05 26.7 11.8 85 5-123 1-102 (181)
51 PRK05579 bifunctional phosphop 89.3 4.7 0.0001 30.4 8.4 36 2-40 5-40 (399)
52 PRK08091 ribulose-phosphate 3- 89.2 5.6 0.00012 27.5 9.0 46 75-121 164-209 (228)
53 COG1646 Predicted phosphate-bi 88.6 5.2 0.00011 27.7 7.5 53 99-153 28-80 (240)
54 cd01995 ExsB ExsB is a transcr 88.4 5 0.00011 26.0 9.6 85 5-122 1-86 (169)
55 TIGR00959 ffh signal recogniti 88.4 9.5 0.00021 29.1 10.9 92 7-128 104-198 (428)
56 PRK10674 deoxyribodipyrimidine 88.3 8.9 0.00019 29.5 9.6 93 11-121 11-105 (472)
57 PF04459 DUF512: Protein of un 88.3 6.2 0.00013 26.8 7.8 82 73-154 108-204 (204)
58 COG1184 GCD2 Translation initi 88.2 7.9 0.00017 28.0 10.3 65 79-151 161-229 (301)
59 PRK00286 xseA exodeoxyribonucl 88.1 2.1 4.6E-05 32.5 6.1 52 96-148 172-229 (438)
60 PRK13982 bifunctional SbtC-lik 88.1 7.5 0.00016 30.0 8.9 35 3-40 70-104 (475)
61 TIGR02039 CysD sulfate adenyly 88.0 8.2 0.00018 27.8 10.3 41 3-45 19-59 (294)
62 PRK11914 diacylglycerol kinase 87.9 5.6 0.00012 28.6 7.9 71 75-152 26-97 (306)
63 KOG1650 Predicted K+/H+-antipo 87.4 6.3 0.00014 32.4 8.6 41 5-47 616-656 (769)
64 PLN02948 phosphoribosylaminoim 87.3 5.5 0.00012 31.6 8.0 70 75-152 424-497 (577)
65 TIGR01425 SRP54_euk signal rec 87.0 12 0.00025 28.6 10.7 54 79-132 146-202 (429)
66 COG0655 WrbA Multimeric flavod 86.9 7.4 0.00016 26.3 7.9 43 1-45 1-43 (207)
67 cd01714 ETF_beta The electron 86.9 7.4 0.00016 26.3 9.2 83 8-123 29-119 (202)
68 TIGR02113 coaC_strep phosphopa 86.9 5.1 0.00011 26.5 6.6 33 4-39 1-33 (177)
69 cd01994 Alpha_ANH_like_IV This 86.7 6.7 0.00014 26.3 7.3 115 5-147 1-122 (194)
70 PRK08745 ribulose-phosphate 3- 86.7 8.3 0.00018 26.6 9.0 45 76-121 157-201 (223)
71 PF03652 UPF0081: Uncharacteri 86.4 3.9 8.4E-05 25.8 5.7 61 91-151 28-95 (135)
72 PRK00109 Holliday junction res 86.4 2 4.4E-05 27.1 4.4 52 100-151 42-97 (138)
73 cd01990 Alpha_ANH_like_I This 86.3 7.8 0.00017 25.9 9.7 86 6-122 1-105 (202)
74 cd05565 PTS_IIB_lactose PTS_II 86.1 2.6 5.7E-05 25.0 4.5 65 76-151 16-80 (99)
75 PRK14057 epimerase; Provisiona 86.0 9.9 0.00021 26.8 9.0 46 75-121 178-223 (254)
76 PRK11889 flhF flagellar biosyn 85.9 13 0.00029 28.2 9.5 56 79-134 287-342 (436)
77 TIGR00237 xseA exodeoxyribonuc 85.7 4.2 9.1E-05 30.9 6.5 53 96-149 166-225 (432)
78 PRK09722 allulose-6-phosphate 85.7 9.7 0.00021 26.4 9.3 47 74-121 153-199 (229)
79 PRK06027 purU formyltetrahydro 85.5 11 0.00024 27.0 9.9 83 3-122 89-175 (286)
80 PLN00200 argininosuccinate syn 85.3 14 0.00031 27.9 11.4 37 3-44 5-41 (404)
81 cd01713 PAPS_reductase This do 85.0 7.7 0.00017 24.7 10.5 38 5-45 1-38 (173)
82 cd01986 Alpha_ANH_like Adenine 84.8 6.1 0.00013 23.3 8.2 34 6-45 1-34 (103)
83 PF02844 GARS_N: Phosphoribosy 84.5 1.1 2.3E-05 26.7 2.3 24 98-121 48-71 (100)
84 PF05582 Peptidase_U57: YabG p 84.3 11 0.00023 27.0 7.4 48 74-121 115-163 (287)
85 cd08550 GlyDH-like Glycerol_de 84.2 13 0.00028 27.4 8.4 68 77-152 38-110 (349)
86 TIGR02855 spore_yabG sporulati 84.1 11 0.00024 26.8 7.4 49 74-122 114-163 (283)
87 TIGR00655 PurU formyltetrahydr 84.1 13 0.00029 26.6 9.4 82 3-121 84-169 (280)
88 PRK13010 purU formyltetrahydro 83.9 14 0.0003 26.6 9.4 83 3-122 93-179 (289)
89 TIGR00853 pts-lac PTS system, 83.7 3.4 7.5E-05 24.2 4.3 66 76-152 19-84 (95)
90 PF10087 DUF2325: Uncharacteri 83.3 7 0.00015 22.8 5.9 71 75-151 10-83 (97)
91 PRK08185 hypothetical protein; 82.6 7 0.00015 28.0 6.2 66 84-149 8-74 (283)
92 PF01261 AP_endonuc_2: Xylose 82.4 12 0.00025 24.7 8.3 79 17-114 70-157 (213)
93 COG1570 XseA Exonuclease VII, 82.2 7.1 0.00015 29.7 6.3 52 96-148 172-230 (440)
94 TIGR00521 coaBC_dfp phosphopan 82.2 19 0.00042 27.1 9.0 36 2-40 2-37 (390)
95 PRK13337 putative lipid kinase 82.1 16 0.00035 26.2 9.3 71 76-152 20-92 (304)
96 PRK13054 lipid kinase; Reviewe 82.0 16 0.00035 26.2 8.6 70 77-152 20-93 (300)
97 PF04244 DPRP: Deoxyribodipyri 81.7 6 0.00013 27.3 5.4 76 72-152 46-126 (224)
98 TIGR00032 argG argininosuccina 81.3 21 0.00045 27.0 10.1 34 5-44 1-34 (394)
99 TIGR00250 RNAse_H_YqgF RNAse H 81.3 4 8.6E-05 25.5 4.1 53 99-151 35-91 (130)
100 PF00834 Ribul_P_3_epim: Ribul 81.2 4.7 0.0001 27.3 4.7 47 73-120 149-195 (201)
101 TIGR02699 archaeo_AfpA archaeo 80.9 8.4 0.00018 25.5 5.7 33 5-39 1-34 (174)
102 COG0415 PhrB Deoxyribodipyrimi 80.8 24 0.00051 27.3 9.4 89 11-121 11-99 (461)
103 COG1927 Mtd Coenzyme F420-depe 80.8 9.5 0.00021 26.1 5.9 48 101-152 49-96 (277)
104 cd02067 B12-binding B12 bindin 80.7 10 0.00022 22.9 6.7 43 79-122 18-60 (119)
105 PRK13059 putative lipid kinase 80.6 18 0.0004 25.9 8.8 71 76-152 20-91 (295)
106 PRK11070 ssDNA exonuclease Rec 80.5 24 0.00052 28.1 8.9 36 87-122 126-161 (575)
107 PRK12857 fructose-1,6-bisphosp 80.4 12 0.00025 26.9 6.7 70 80-149 9-80 (284)
108 COG0036 Rpe Pentose-5-phosphat 80.2 14 0.0003 25.4 6.6 63 75-139 96-158 (220)
109 PRK13055 putative lipid kinase 79.9 21 0.00045 26.1 9.0 73 74-152 19-94 (334)
110 PRK06801 hypothetical protein; 79.8 14 0.00031 26.5 6.9 70 80-149 9-80 (286)
111 PF01596 Methyltransf_3: O-met 79.7 8 0.00017 26.2 5.5 45 78-122 84-131 (205)
112 TIGR01769 GGGP geranylgeranylg 79.6 6 0.00013 26.9 4.8 49 103-153 15-63 (205)
113 TIGR02852 spore_dpaB dipicolin 79.6 16 0.00034 24.5 7.8 34 4-40 1-35 (187)
114 cd06361 PBP1_GPC6A_like Ligand 79.3 24 0.00053 26.5 11.6 98 2-122 171-268 (403)
115 COG0191 Fba Fructose/tagatose 79.3 10 0.00022 27.2 6.0 71 79-149 8-81 (286)
116 TIGR02766 crypt_chrom_pln cryp 79.0 27 0.00059 26.9 11.2 89 12-121 8-96 (475)
117 cd05564 PTS_IIB_chitobiose_lic 78.8 5.9 0.00013 23.2 4.1 66 76-152 15-80 (96)
118 PRK09590 celB cellobiose phosp 78.8 5.5 0.00012 23.9 4.0 67 76-151 17-83 (104)
119 PRK06029 3-octaprenyl-4-hydrox 78.7 5.2 0.00011 26.7 4.2 36 3-40 1-36 (185)
120 PRK12737 gatY tagatose-bisphos 78.7 14 0.00029 26.6 6.6 70 80-149 9-80 (284)
121 PRK06806 fructose-bisphosphate 78.7 17 0.00038 26.0 7.1 70 80-149 9-80 (281)
122 PRK09195 gatY tagatose-bisphos 78.5 13 0.00028 26.7 6.4 52 98-149 28-80 (284)
123 smart00851 MGS MGS-like domain 78.4 10 0.00022 21.7 5.2 62 85-147 27-89 (90)
124 cd00532 MGS-like MGS-like doma 78.1 12 0.00027 22.4 6.4 63 86-148 40-104 (112)
125 PF02887 PK_C: Pyruvate kinase 78.0 8 0.00017 23.5 4.7 43 101-152 5-48 (117)
126 PRK00143 mnmA tRNA-specific 2- 77.9 25 0.00055 25.9 10.6 34 4-43 1-34 (346)
127 KOG0780 Signal recognition par 77.1 30 0.00065 26.3 9.9 55 77-131 145-202 (483)
128 KOG1467 Translation initiation 76.5 34 0.00073 26.6 10.7 107 5-152 361-470 (556)
129 TIGR02069 cyanophycinase cyano 76.5 24 0.00051 24.8 8.4 103 7-140 1-110 (250)
130 PRK12563 sulfate adenylyltrans 76.2 28 0.0006 25.5 9.7 41 3-45 37-77 (312)
131 COG0036 Rpe Pentose-5-phosphat 75.8 23 0.0005 24.4 8.6 43 77-121 157-199 (220)
132 TIGR01858 tag_bisphos_ald clas 75.8 19 0.00042 25.8 6.6 67 83-149 10-78 (282)
133 PF07279 DUF1442: Protein of u 75.5 24 0.00051 24.3 8.0 24 97-122 102-125 (218)
134 cd00946 FBP_aldolase_IIA Class 75.4 20 0.00044 26.5 6.8 71 79-149 6-93 (345)
135 PLN02828 formyltetrahydrofolat 75.4 27 0.00058 24.9 9.8 86 3-122 70-157 (268)
136 COG1066 Sms Predicted ATP-depe 75.0 35 0.00076 26.1 8.3 70 16-121 107-177 (456)
137 cd02070 corrinoid_protein_B12- 74.9 23 0.00049 23.8 6.7 66 80-148 102-170 (201)
138 PRK12858 tagatose 1,6-diphosph 74.5 32 0.0007 25.4 10.0 114 18-151 106-249 (340)
139 PLN02589 caffeoyl-CoA O-methyl 74.3 26 0.00056 24.6 6.9 45 78-122 118-166 (247)
140 TIGR00147 lipid kinase, YegS/R 74.2 29 0.00062 24.7 9.1 73 74-152 18-92 (293)
141 PRK09261 phospho-2-dehydro-3-d 74.0 31 0.00067 25.6 7.4 128 4-148 52-185 (349)
142 PLN02958 diacylglycerol kinase 73.8 38 0.00083 26.3 8.3 70 78-153 133-209 (481)
143 PF03575 Peptidase_S51: Peptid 73.6 4.2 9E-05 26.0 2.7 62 77-140 2-63 (154)
144 PF01008 IF-2B: Initiation fac 73.0 30 0.00066 24.5 10.0 61 84-151 154-218 (282)
145 PF13167 GTP-bdg_N: GTP-bindin 72.9 17 0.00036 21.5 7.6 49 73-121 6-66 (95)
146 cd00947 TBP_aldolase_IIB Tagat 72.8 20 0.00043 25.6 6.1 67 83-149 7-75 (276)
147 cd07044 CofD_YvcK Family of Co 72.6 6.5 0.00014 28.5 3.7 50 99-151 163-214 (309)
148 TIGR00273 iron-sulfur cluster- 72.6 27 0.00058 26.8 7.1 61 60-120 36-96 (432)
149 TIGR03702 lip_kinase_YegS lipi 72.3 33 0.00071 24.5 8.6 68 79-152 18-89 (293)
150 PRK12738 kbaY tagatose-bisphos 72.1 28 0.0006 25.1 6.7 52 98-149 28-80 (286)
151 cd01712 ThiI ThiI is required 72.0 25 0.00053 23.0 11.1 35 5-45 1-35 (177)
152 PF02142 MGS: MGS-like domain 71.9 4 8.6E-05 23.8 2.2 65 82-147 24-94 (95)
153 PRK14664 tRNA-specific 2-thiou 71.8 39 0.00085 25.2 11.2 35 2-42 4-38 (362)
154 PF01884 PcrB: PcrB family; I 71.8 11 0.00024 26.1 4.5 50 100-153 20-69 (230)
155 TIGR00715 precor6x_red precorr 71.7 32 0.0007 24.3 6.9 64 84-153 167-233 (256)
156 PRK13057 putative lipid kinase 71.7 29 0.00063 24.7 6.9 68 77-152 15-83 (287)
157 TIGR00884 guaA_Cterm GMP synth 71.1 37 0.00081 24.7 10.2 37 4-45 17-53 (311)
158 PRK09197 fructose-bisphosphate 71.1 32 0.00069 25.6 6.9 71 79-149 11-98 (350)
159 cd03364 TOPRIM_DnaG_primases T 71.1 16 0.00034 20.3 4.5 34 3-38 43-76 (79)
160 cd00578 L-fuc_L-ara-isomerases 70.9 44 0.00096 25.6 8.1 75 71-151 19-96 (452)
161 PRK13011 formyltetrahydrofolat 70.8 36 0.00079 24.4 9.4 82 3-121 89-174 (286)
162 TIGR00342 thiazole biosynthesi 70.7 42 0.0009 25.1 11.4 35 4-44 173-207 (371)
163 cd07187 YvcK_like family of mo 70.6 8.4 0.00018 28.0 3.9 50 99-151 164-215 (308)
164 COG1504 Uncharacterized conser 70.4 9.4 0.0002 23.2 3.4 40 110-152 59-98 (121)
165 PRK15411 rcsA colanic acid cap 70.1 31 0.00066 23.3 7.7 65 79-150 15-84 (207)
166 cd03557 L-arabinose_isomerase 70.1 50 0.0011 25.8 9.2 72 74-151 22-99 (484)
167 COG0452 Dfp Phosphopantothenoy 70.0 38 0.00082 25.6 7.3 114 2-151 3-121 (392)
168 cd00951 KDGDH 5-dehydro-4-deox 69.9 38 0.00082 24.3 7.7 77 72-150 54-132 (289)
169 PRK06372 translation initiatio 69.8 33 0.00072 24.2 6.6 64 80-151 126-193 (253)
170 PRK00919 GMP synthase subunit 69.8 40 0.00087 24.5 10.0 37 4-45 22-58 (307)
171 TIGR01826 CofD_related conserv 69.7 9.6 0.00021 27.7 4.0 51 99-152 161-213 (310)
172 TIGR00524 eIF-2B_rel eIF-2B al 69.7 25 0.00055 25.5 6.2 64 82-151 172-239 (303)
173 COG1058 CinA Predicted nucleot 69.7 37 0.0008 24.0 7.2 67 77-147 23-91 (255)
174 COG0552 FtsY Signal recognitio 69.6 43 0.00093 24.8 10.4 55 76-131 182-240 (340)
175 COG0816 Predicted endonuclease 69.5 16 0.00035 23.3 4.6 52 100-151 41-96 (141)
176 PF12683 DUF3798: Protein of u 69.5 24 0.00053 25.1 5.8 91 5-122 4-96 (275)
177 COG0391 Uncharacterized conser 69.2 11 0.00023 27.6 4.2 50 99-151 178-229 (323)
178 PRK00861 putative lipid kinase 68.9 40 0.00087 24.1 7.5 66 79-152 24-90 (300)
179 cd01997 GMP_synthase_C The C-t 68.5 42 0.00091 24.3 9.7 35 5-44 1-35 (295)
180 PF01791 DeoC: DeoC/LacD famil 68.5 36 0.00078 23.5 7.2 79 70-149 107-199 (236)
181 TIGR00420 trmU tRNA (5-methyla 68.4 46 0.001 24.7 10.4 33 4-42 1-33 (352)
182 PRK07998 gatY putative fructos 68.1 29 0.00063 24.9 6.1 69 81-149 10-80 (283)
183 PRK00771 signal recognition pa 67.8 54 0.0012 25.2 10.5 47 80-128 142-191 (437)
184 PRK00994 F420-dependent methyl 67.6 27 0.00058 24.5 5.5 46 103-152 51-96 (277)
185 PLN02476 O-methyltransferase 67.4 25 0.00054 25.2 5.7 47 76-122 155-204 (278)
186 PF03162 Y_phosphatase2: Tyros 67.3 16 0.00034 23.8 4.4 68 84-151 28-99 (164)
187 PF02441 Flavoprotein: Flavopr 67.1 15 0.00032 22.7 4.1 33 4-39 1-33 (129)
188 PF14639 YqgF: Holliday-juncti 67.0 7.5 0.00016 25.0 2.8 19 102-120 53-71 (150)
189 cd00950 DHDPS Dihydrodipicolin 66.9 43 0.00093 23.8 8.0 80 71-151 53-134 (284)
190 cd00408 DHDPS-like Dihydrodipi 66.8 43 0.00092 23.7 8.1 81 71-152 50-132 (281)
191 TIGR03249 KdgD 5-dehydro-4-deo 66.7 45 0.00098 23.9 7.7 77 72-150 59-137 (296)
192 cd02812 PcrB_like PcrB_like pr 66.4 19 0.00042 24.7 4.8 50 101-153 14-64 (219)
193 cd06375 PBP1_mGluR_groupII Lig 66.1 58 0.0013 25.0 11.1 24 99-122 243-266 (458)
194 PF01933 UPF0052: Uncharacteri 66.0 11 0.00025 27.2 3.8 50 99-151 172-223 (300)
195 PRK13398 3-deoxy-7-phosphohept 66.0 45 0.00098 23.7 10.5 104 14-150 38-141 (266)
196 PLN02331 phosphoribosylglycina 65.5 41 0.00088 23.0 9.7 82 5-121 1-87 (207)
197 PF13662 Toprim_4: Toprim doma 65.4 12 0.00026 20.9 3.2 29 3-31 46-74 (81)
198 COG1184 GCD2 Translation initi 65.3 50 0.0011 24.0 9.6 52 97-152 128-179 (301)
199 cd03145 GAT1_cyanophycinase Ty 65.1 41 0.0009 22.9 9.5 102 8-140 3-111 (217)
200 PRK08535 translation initiatio 65.1 51 0.0011 24.0 9.8 62 82-151 165-230 (310)
201 cd01424 MGS_CPS_II Methylglyox 65.1 27 0.00058 20.8 6.3 61 85-148 40-100 (110)
202 PRK08335 translation initiatio 64.7 49 0.0011 23.7 9.8 63 81-151 153-219 (275)
203 PRK13399 fructose-1,6-bisphosp 64.7 46 0.001 24.7 6.7 70 80-149 9-81 (347)
204 PRK05703 flhF flagellar biosyn 64.6 62 0.0013 24.8 9.3 48 78-128 268-315 (424)
205 PRK11921 metallo-beta-lactamas 64.6 58 0.0013 24.5 10.8 48 74-123 262-311 (394)
206 COG2876 AroA 3-deoxy-D-arabino 64.5 20 0.00042 25.6 4.5 87 13-124 54-140 (286)
207 TIGR00064 ftsY signal recognit 64.2 49 0.0011 23.5 10.5 51 78-128 117-170 (272)
208 PRK12361 hypothetical protein; 64.2 70 0.0015 25.3 8.3 71 74-152 259-330 (547)
209 TIGR01521 FruBisAldo_II_B fruc 64.1 49 0.0011 24.6 6.7 68 82-149 9-79 (347)
210 TIGR01768 GGGP-family geranylg 64.0 22 0.00047 24.6 4.7 50 101-153 16-65 (223)
211 PRK08883 ribulose-phosphate 3- 63.9 45 0.00098 22.9 9.0 45 76-121 153-197 (220)
212 PF07476 MAAL_C: Methylasparta 63.8 47 0.001 23.1 7.6 57 71-127 119-176 (248)
213 cd07186 CofD_like LPPG:FO 2-ph 63.8 34 0.00073 24.9 5.8 50 99-151 172-223 (303)
214 COG0420 SbcD DNA repair exonuc 63.6 14 0.00029 27.7 4.0 20 70-89 22-41 (390)
215 KOG3180 Electron transfer flav 63.6 44 0.00096 22.8 8.0 23 99-121 101-123 (254)
216 COG1606 ATP-utilizing enzymes 63.5 51 0.0011 23.4 10.4 88 3-121 17-122 (269)
217 PRK08745 ribulose-phosphate 3- 63.4 47 0.001 23.0 6.7 60 77-138 99-158 (223)
218 COG3969 Predicted phosphoadeno 63.3 18 0.00038 26.8 4.3 45 2-47 26-70 (407)
219 COG0426 FpaA Uncharacterized f 63.1 64 0.0014 24.4 11.5 64 74-139 261-324 (388)
220 COG4122 Predicted O-methyltran 63.1 47 0.001 22.9 7.0 47 75-122 95-142 (219)
221 cd00958 DhnA Class I fructose- 62.9 47 0.001 22.8 8.4 71 71-149 105-185 (235)
222 PRK07315 fructose-bisphosphate 62.9 48 0.001 23.9 6.5 68 82-149 11-83 (293)
223 TIGR01859 fruc_bis_ald_ fructo 62.9 51 0.0011 23.6 6.6 68 82-149 9-80 (282)
224 cd05403 NT_KNTase_like Nucleot 62.8 9.9 0.00021 21.4 2.6 34 90-125 17-50 (93)
225 PRK06371 translation initiatio 62.7 47 0.001 24.5 6.4 64 82-151 190-257 (329)
226 TIGR00511 ribulose_e2b2 ribose 62.7 57 0.0012 23.7 9.7 63 81-151 159-225 (301)
227 cd00954 NAL N-Acetylneuraminic 62.6 54 0.0012 23.4 8.5 79 72-151 55-136 (288)
228 PF11965 DUF3479: Domain of un 62.6 41 0.00089 22.1 8.7 38 5-42 2-39 (164)
229 KOG1466 Translation initiation 62.5 54 0.0012 23.4 10.5 65 79-151 172-240 (313)
230 PRK02929 L-arabinose isomerase 61.8 77 0.0017 24.9 8.7 73 72-151 26-105 (499)
231 cd08173 Gro1PDH Sn-glycerol-1- 61.6 62 0.0013 23.7 7.9 68 76-152 40-111 (339)
232 TIGR02088 LEU3_arch isopropylm 61.6 62 0.0014 23.8 8.1 27 13-41 140-166 (322)
233 TIGR01501 MthylAspMutase methy 61.3 37 0.0008 21.4 5.1 42 80-122 21-62 (134)
234 PRK04527 argininosuccinate syn 61.3 71 0.0015 24.3 10.9 36 3-44 2-37 (400)
235 PLN02858 fructose-bisphosphate 61.2 45 0.00097 29.7 7.0 92 58-149 1083-1175(1378)
236 PHA02031 putative DnaG-like pr 61.1 51 0.0011 23.5 6.1 36 4-41 207-242 (266)
237 PRK04169 geranylgeranylglycery 61.1 25 0.00055 24.4 4.7 47 104-153 24-70 (232)
238 PF00781 DAGK_cat: Diacylglyce 61.1 36 0.00078 20.9 6.4 69 78-152 18-91 (130)
239 PRK04147 N-acetylneuraminate l 60.9 59 0.0013 23.3 8.3 80 71-151 57-138 (293)
240 TIGR00167 cbbA ketose-bisphosp 60.8 61 0.0013 23.4 6.8 70 80-149 9-83 (288)
241 PRK03170 dihydrodipicolinate s 60.7 59 0.0013 23.2 8.2 79 72-151 55-135 (292)
242 TIGR00177 molyb_syn molybdenum 60.7 40 0.00087 21.3 5.6 41 79-119 31-73 (144)
243 COG2870 RfaE ADP-heptose synth 60.5 26 0.00057 26.6 4.8 52 99-153 128-181 (467)
244 TIGR01520 FruBisAldo_II_A fruc 60.1 70 0.0015 23.9 7.2 71 79-149 17-105 (357)
245 COG1139 Uncharacterized conser 60.1 72 0.0016 24.6 7.0 60 62-121 52-111 (459)
246 PRK05920 aromatic acid decarbo 59.9 25 0.00055 23.9 4.4 36 2-40 2-37 (204)
247 PRK08610 fructose-bisphosphate 59.9 62 0.0013 23.4 6.5 68 82-149 11-83 (286)
248 cd00952 CHBPH_aldolase Trans-o 59.8 65 0.0014 23.4 8.6 80 71-151 61-143 (309)
249 TIGR00683 nanA N-acetylneurami 59.7 62 0.0014 23.2 8.6 80 72-152 55-137 (290)
250 cd02072 Glm_B12_BD B12 binding 59.5 41 0.00089 21.0 5.4 41 81-122 20-60 (128)
251 PRK06731 flhF flagellar biosyn 59.5 62 0.0013 23.1 10.3 56 79-134 121-176 (270)
252 PRK15424 propionate catabolism 59.5 78 0.0017 25.1 7.5 64 76-151 25-91 (538)
253 PRK03620 5-dehydro-4-deoxygluc 59.3 65 0.0014 23.3 7.6 77 72-150 61-139 (303)
254 PF02568 ThiI: Thiamine biosyn 59.3 53 0.0011 22.2 8.1 35 4-44 4-38 (197)
255 cd05569 PTS_IIB_fructose PTS_I 59.1 33 0.00072 20.1 4.4 45 77-123 18-64 (96)
256 KOG1116 Sphingosine kinase, in 59.0 50 0.0011 26.3 6.3 79 74-153 197-277 (579)
257 PRK08005 epimerase; Validated 58.9 56 0.0012 22.4 6.7 61 77-139 95-155 (210)
258 COG0788 PurU Formyltetrahydrof 58.9 26 0.00057 24.9 4.4 43 79-121 129-175 (287)
259 PRK05835 fructose-bisphosphate 58.8 65 0.0014 23.5 6.5 68 82-149 10-80 (307)
260 cd02069 methionine_synthase_B1 58.8 53 0.0012 22.4 5.9 66 80-148 108-174 (213)
261 PLN02781 Probable caffeoyl-CoA 58.6 47 0.001 22.9 5.7 45 77-121 106-153 (234)
262 TIGR00674 dapA dihydrodipicoli 58.4 65 0.0014 23.0 8.2 79 72-151 52-132 (285)
263 TIGR00347 bioD dethiobiotin sy 58.2 36 0.00078 21.7 4.9 16 106-121 123-138 (166)
264 PRK06850 hypothetical protein; 57.9 92 0.002 24.6 9.0 73 5-96 36-111 (507)
265 PF00072 Response_reg: Respons 57.9 35 0.00075 19.7 7.8 67 78-152 12-80 (112)
266 PF03746 LamB_YcsF: LamB/YcsF 57.8 64 0.0014 22.7 11.0 105 6-121 30-144 (242)
267 cd06389 PBP1_iGluR_AMPA_GluR2 57.8 76 0.0016 23.5 10.0 38 2-42 117-154 (370)
268 TIGR01304 IMP_DH_rel_2 IMP deh 57.7 79 0.0017 23.8 8.0 65 79-148 123-193 (369)
269 PRK13606 LPPG:FO 2-phospho-L-l 57.6 23 0.0005 25.7 4.1 47 99-150 174-222 (303)
270 TIGR02313 HpaI-NOT-DapA 2,4-di 56.9 71 0.0015 23.0 8.1 78 72-150 54-134 (294)
271 PRK12726 flagellar biosynthesi 56.8 86 0.0019 23.9 9.4 50 79-128 252-301 (407)
272 COG0669 CoaD Phosphopantethein 56.7 53 0.0011 21.4 9.0 26 103-128 73-98 (159)
273 COG2102 Predicted ATPases of P 56.7 64 0.0014 22.4 8.2 91 5-121 2-95 (223)
274 cd08170 GlyDH Glycerol dehydro 56.5 78 0.0017 23.3 8.2 71 75-152 36-110 (351)
275 PRK09196 fructose-1,6-bisphosp 56.4 72 0.0016 23.8 6.5 68 82-149 11-81 (347)
276 TIGR00640 acid_CoA_mut_C methy 56.3 47 0.001 20.8 5.1 57 80-140 22-79 (132)
277 PF02310 B12-binding: B12 bind 56.1 42 0.0009 20.0 7.2 42 78-121 18-60 (121)
278 cd00453 FTBP_aldolase_II Fruct 56.0 59 0.0013 24.1 5.9 66 84-149 8-91 (340)
279 cd01998 tRNA_Me_trans tRNA met 55.9 81 0.0018 23.4 10.4 23 101-123 102-124 (349)
280 cd01715 ETF_alpha The electron 55.7 54 0.0012 21.2 10.7 24 100-123 71-94 (168)
281 TIGR00034 aroFGH phospho-2-deh 55.5 84 0.0018 23.4 8.7 124 4-148 47-180 (344)
282 PF02571 CbiJ: Precorrin-6x re 55.5 48 0.001 23.3 5.4 56 92-153 173-229 (249)
283 PF02878 PGM_PMM_I: Phosphoglu 55.2 25 0.00053 21.9 3.6 42 3-46 40-81 (137)
284 PRK10653 D-ribose transporter 55.2 71 0.0015 22.5 7.1 71 74-150 42-114 (295)
285 COG1197 Mfd Transcription-repa 55.0 1.4E+02 0.0031 26.1 8.6 49 73-122 656-706 (1139)
286 PF07355 GRDB: Glycine/sarcosi 55.0 24 0.00053 26.1 3.9 50 100-149 68-117 (349)
287 PRK10550 tRNA-dihydrouridine s 54.8 81 0.0018 23.0 8.6 73 73-149 119-200 (312)
288 PRK08392 hypothetical protein; 54.6 65 0.0014 21.8 6.5 69 75-145 137-205 (215)
289 PF07302 AroM: AroM protein; 54.4 70 0.0015 22.1 7.0 64 79-149 140-208 (221)
290 PRK09423 gldA glycerol dehydro 54.4 88 0.0019 23.3 8.6 69 76-152 44-117 (366)
291 PRK07084 fructose-bisphosphate 54.4 73 0.0016 23.5 6.2 68 82-149 17-91 (321)
292 PRK08057 cobalt-precorrin-6x r 54.2 54 0.0012 23.0 5.5 53 95-153 172-225 (248)
293 PRK14561 hypothetical protein; 54.1 64 0.0014 21.6 9.1 32 4-42 1-32 (194)
294 PF00885 DMRL_synthase: 6,7-di 54.1 56 0.0012 20.9 6.7 78 70-147 15-103 (144)
295 COG1911 RPL30 Ribosomal protei 53.9 39 0.00084 20.0 3.9 47 101-152 24-70 (100)
296 TIGR00696 wecB_tagA_cpsF bacte 53.7 63 0.0014 21.4 6.3 32 88-121 74-109 (177)
297 PF01116 F_bP_aldolase: Fructo 53.7 19 0.00041 25.9 3.2 66 84-149 12-79 (287)
298 PF10808 DUF2542: Protein of u 53.5 7 0.00015 21.8 0.8 28 124-152 22-49 (79)
299 PRK09875 putative hydrolase; P 53.2 84 0.0018 22.7 6.5 48 75-122 139-188 (292)
300 COG3340 PepE Peptidase E [Amin 53.0 74 0.0016 22.0 10.2 46 74-121 48-93 (224)
301 TIGR00829 FRU PTS system, fruc 53.0 42 0.00092 19.2 4.1 43 78-122 18-62 (85)
302 cd04724 Tryptophan_synthase_al 52.9 76 0.0016 22.1 9.0 73 76-148 117-192 (242)
303 TIGR03573 WbuX N-acetyl sugar 52.8 92 0.002 23.0 9.4 23 100-122 148-170 (343)
304 PRK13602 putative ribosomal pr 52.7 16 0.00034 20.8 2.2 44 102-150 17-60 (82)
305 PRK08091 ribulose-phosphate 3- 52.6 76 0.0017 22.1 6.8 60 77-138 105-166 (228)
306 PRK14974 cell division protein 52.3 94 0.002 23.0 10.6 52 79-130 186-240 (336)
307 smart00852 MoCF_biosynth Proba 52.2 55 0.0012 20.3 5.7 41 79-119 22-64 (135)
308 PRK00211 sulfur relay protein 52.2 53 0.0012 20.1 4.9 39 3-44 1-43 (119)
309 COG1036 Archaeal flavoproteins 52.0 22 0.00048 23.3 3.0 45 108-152 84-134 (187)
310 PRK05595 replicative DNA helic 51.8 99 0.0021 23.7 6.9 44 106-149 305-357 (444)
311 TIGR02329 propionate_PrpR prop 51.5 1.2E+02 0.0026 24.0 8.0 60 80-151 19-81 (526)
312 TIGR00619 sbcd exonuclease Sbc 51.4 30 0.00064 24.3 3.9 24 74-99 25-48 (253)
313 COG1162 Predicted GTPases [Gen 51.4 93 0.002 22.7 8.2 89 6-122 85-174 (301)
314 PRK09271 flavodoxin; Provision 51.3 45 0.00098 21.4 4.5 47 74-122 15-61 (160)
315 PRK12723 flagellar biosynthesi 51.3 1.1E+02 0.0023 23.3 9.1 44 79-126 224-268 (388)
316 COG1440 CelA Phosphotransferas 51.2 52 0.0011 19.7 5.5 63 78-151 19-81 (102)
317 PRK05772 translation initiatio 50.9 1E+02 0.0023 23.1 9.7 62 84-151 223-288 (363)
318 cd06282 PBP1_GntR_like_2 Ligan 50.6 78 0.0017 21.5 8.7 68 75-149 16-85 (266)
319 cd01539 PBP1_GGBP Periplasmic 50.6 88 0.0019 22.2 7.2 71 74-150 15-89 (303)
320 PRK00074 guaA GMP synthase; Re 50.6 1.2E+02 0.0027 23.8 10.6 36 4-44 216-251 (511)
321 PRK10415 tRNA-dihydrouridine s 50.5 97 0.0021 22.6 8.6 62 88-149 133-200 (321)
322 cd06533 Glyco_transf_WecG_TagA 49.7 48 0.001 21.7 4.5 44 100-149 87-130 (171)
323 PLN02925 4-hydroxy-3-methylbut 49.5 1.5E+02 0.0033 24.5 7.7 83 66-148 201-303 (733)
324 PF09043 Lys-AminoMut_A: D-Lys 49.5 1.2E+02 0.0026 23.4 8.9 44 91-134 149-195 (509)
325 PF04007 DUF354: Protein of un 49.5 92 0.002 23.1 6.2 51 74-127 13-63 (335)
326 KOG3111 D-ribulose-5-phosphate 49.2 83 0.0018 21.5 7.9 56 77-134 101-156 (224)
327 PRK09722 allulose-6-phosphate 48.9 89 0.0019 21.7 6.4 60 77-138 97-156 (229)
328 PF13362 Toprim_3: Toprim doma 48.8 51 0.0011 18.9 4.7 38 2-41 40-79 (96)
329 cd01537 PBP1_Repressors_Sugar_ 48.5 82 0.0018 21.2 9.1 70 75-151 16-87 (264)
330 TIGR00583 mre11 DNA repair pro 48.4 59 0.0013 24.7 5.2 10 142-151 109-118 (405)
331 cd06295 PBP1_CelR Ligand bindi 48.4 88 0.0019 21.5 8.8 68 75-150 27-94 (275)
332 PF03358 FMN_red: NADPH-depend 48.4 66 0.0014 20.1 7.5 47 74-122 17-80 (152)
333 PRK08227 autoinducer 2 aldolas 47.9 1E+02 0.0022 22.0 10.5 68 72-149 124-198 (264)
334 PRK08576 hypothetical protein; 47.8 1.3E+02 0.0028 23.3 9.6 34 5-44 236-269 (438)
335 PRK05234 mgsA methylglyoxal sy 47.8 71 0.0015 20.3 6.5 60 86-148 47-111 (142)
336 PRK00843 egsA NAD(P)-dependent 47.7 1.1E+02 0.0024 22.6 7.5 66 78-152 51-120 (350)
337 cd01996 Alpha_ANH_like_III Thi 47.7 69 0.0015 20.1 10.1 35 5-44 3-37 (154)
338 TIGR03151 enACPred_II putative 47.3 1.1E+02 0.0024 22.3 7.2 66 80-149 101-167 (307)
339 PHA02546 47 endonuclease subun 47.3 37 0.00081 24.9 4.0 27 71-99 22-48 (340)
340 PRK10416 signal recognition pa 47.3 1.1E+02 0.0024 22.4 11.4 51 79-129 160-213 (318)
341 TIGR02826 RNR_activ_nrdG3 anae 47.0 69 0.0015 20.5 4.7 42 76-121 76-118 (147)
342 PRK00090 bioD dithiobiotin syn 46.8 64 0.0014 21.8 4.9 13 137-149 127-139 (222)
343 cd01971 Nitrogenase_VnfN_like 46.7 41 0.00088 25.6 4.2 27 98-124 102-128 (427)
344 KOG1643 Triosephosphate isomer 46.4 95 0.0021 21.4 5.9 72 78-149 21-92 (247)
345 TIGR03297 Ppyr-DeCO2ase phosph 46.3 27 0.00059 26.0 3.1 55 98-152 63-124 (361)
346 PF00834 Ribul_P_3_epim: Ribul 46.2 71 0.0015 21.6 4.9 60 77-138 94-153 (201)
347 COG1445 FrwB Phosphotransferas 45.9 48 0.001 20.6 3.6 47 80-128 24-72 (122)
348 PRK03670 competence damage-ind 45.7 1E+02 0.0022 21.8 5.7 42 78-119 23-67 (252)
349 TIGR00169 leuB 3-isopropylmala 45.3 1.3E+02 0.0028 22.5 8.6 26 14-41 163-188 (349)
350 cd06277 PBP1_LacI_like_1 Ligan 45.2 98 0.0021 21.2 8.3 68 74-150 18-87 (268)
351 cd06315 PBP1_ABC_sugar_binding 45.1 1E+02 0.0023 21.4 6.8 71 74-150 16-88 (280)
352 cd05008 SIS_GlmS_GlmD_1 SIS (S 45.1 50 0.0011 19.9 3.8 40 3-45 46-85 (126)
353 PF01990 ATP-synt_F: ATP synth 45.0 51 0.0011 19.1 3.7 62 83-149 12-74 (95)
354 TIGR02089 TTC tartrate dehydro 44.9 1.3E+02 0.0028 22.5 7.6 27 14-42 164-190 (352)
355 PF11215 DUF3010: Protein of u 44.8 81 0.0018 20.1 5.0 15 106-120 55-69 (138)
356 cd06322 PBP1_ABC_sugar_binding 44.6 1E+02 0.0022 21.1 7.9 71 74-150 15-87 (267)
357 TIGR00736 nifR3_rel_arch TIM-b 44.4 1.1E+02 0.0023 21.4 7.5 37 84-120 130-169 (231)
358 TIGR02370 pyl_corrinoid methyl 44.3 96 0.0021 20.8 6.5 59 80-141 104-162 (197)
359 COG1737 RpiR Transcriptional r 44.3 40 0.00088 24.0 3.7 40 2-44 176-215 (281)
360 TIGR00646 MG010 DNA primase-re 44.2 1.1E+02 0.0023 21.2 7.5 37 3-41 154-190 (218)
361 PF03129 HGTP_anticodon: Antic 44.1 60 0.0013 18.4 5.9 48 74-121 15-62 (94)
362 PRK12569 hypothetical protein; 44.1 1E+02 0.0022 21.7 5.4 101 11-122 40-150 (245)
363 PRK06683 hypothetical protein; 44.1 27 0.00059 19.9 2.3 44 102-150 17-60 (82)
364 COG0042 tRNA-dihydrouridine sy 44.0 1.2E+02 0.0026 22.3 6.1 47 74-122 124-175 (323)
365 cd00885 cinA Competence-damage 44.0 91 0.002 20.4 6.8 41 79-119 23-65 (170)
366 TIGR01859 fruc_bis_ald_ fructo 43.9 1.2E+02 0.0026 21.8 8.7 74 76-149 116-206 (282)
367 PRK07709 fructose-bisphosphate 43.9 1.2E+02 0.0026 21.9 6.8 68 82-149 11-83 (285)
368 cd06334 PBP1_ABC_ligand_bindin 43.7 1.3E+02 0.0028 22.1 9.6 11 34-44 141-151 (351)
369 PRK05406 LamB/YcsF family prot 43.6 1.1E+02 0.0025 21.5 5.6 101 11-122 37-147 (246)
370 KOG1552 Predicted alpha/beta h 43.4 76 0.0017 22.5 4.7 65 87-153 126-202 (258)
371 smart00493 TOPRIM topoisomeras 43.1 49 0.0011 17.8 3.3 26 4-29 48-73 (76)
372 COG0371 GldA Glycerol dehydrog 43.1 1.4E+02 0.0031 22.4 6.5 69 76-152 45-117 (360)
373 PRK11104 hemG protoporphyrinog 43.1 95 0.0021 20.4 6.0 42 74-122 15-56 (177)
374 COG5017 Uncharacterized conser 42.8 66 0.0014 20.6 3.9 42 99-153 54-95 (161)
375 cd01422 MGS Methylglyoxal synt 42.7 77 0.0017 19.2 6.3 59 87-148 44-106 (115)
376 PLN00096 isocitrate dehydrogen 42.6 1.5E+02 0.0033 22.6 9.8 32 9-42 171-202 (393)
377 TIGR01819 F420_cofD LPPG:FO 2- 42.5 51 0.0011 23.9 3.9 47 99-150 171-219 (297)
378 PF01729 QRPTase_C: Quinolinat 42.1 90 0.0019 20.5 4.8 43 78-121 115-157 (169)
379 cd06318 PBP1_ABC_sugar_binding 42.1 1.1E+02 0.0025 21.0 8.7 71 74-150 15-87 (282)
380 smart00732 YqgFc Likely ribonu 42.0 67 0.0014 18.3 4.6 52 100-151 39-92 (99)
381 PF13727 CoA_binding_3: CoA-bi 41.9 38 0.00082 21.5 3.1 46 101-150 130-175 (175)
382 PTZ00222 60S ribosomal protein 41.7 94 0.002 22.1 4.9 52 95-152 133-184 (263)
383 cd07388 MPP_Tt1561 Thermus the 41.5 1.1E+02 0.0023 21.2 5.3 7 144-150 63-69 (224)
384 PRK06247 pyruvate kinase; Prov 41.4 84 0.0018 24.6 5.1 44 100-152 357-401 (476)
385 cd06271 PBP1_AglR_RafR_like Li 41.4 1.1E+02 0.0024 20.8 8.1 68 74-149 19-88 (268)
386 PF00994 MoCF_biosynth: Probab 41.3 89 0.0019 19.5 5.1 43 78-120 20-64 (144)
387 cd01029 TOPRIM_primases TOPRIM 41.2 61 0.0013 17.7 4.5 28 4-31 44-71 (79)
388 PTZ00365 60S ribosomal protein 41.2 48 0.001 23.5 3.5 48 101-152 137-184 (266)
389 cd07766 DHQ_Fe-ADH Dehydroquin 41.1 1.4E+02 0.003 21.7 6.9 67 77-152 39-113 (332)
390 PRK05265 pyridoxine 5'-phospha 41.1 1.3E+02 0.0027 21.2 5.7 45 74-121 112-156 (239)
391 PRK08305 spoVFB dipicolinate s 41.1 86 0.0019 21.2 4.6 36 2-40 4-40 (196)
392 PRK08883 ribulose-phosphate 3- 41.1 1.2E+02 0.0026 20.9 6.7 54 77-132 95-148 (220)
393 TIGR01917 gly_red_sel_B glycin 40.7 56 0.0012 25.0 4.0 48 102-149 66-113 (431)
394 TIGR01918 various_sel_PB selen 40.6 56 0.0012 25.0 4.0 48 102-149 66-113 (431)
395 COG0151 PurD Phosphoribosylami 40.6 30 0.00065 26.4 2.6 23 99-121 50-72 (428)
396 TIGR01361 DAHP_synth_Bsub phos 40.5 1.3E+02 0.0028 21.3 5.6 44 74-122 75-118 (260)
397 PRK00509 argininosuccinate syn 40.4 1.7E+02 0.0036 22.4 12.0 38 2-44 1-38 (399)
398 PRK09222 isocitrate dehydrogen 40.3 1.8E+02 0.0039 22.8 8.1 27 14-41 149-175 (482)
399 COG0482 TrmU Predicted tRNA(5- 40.3 1.6E+02 0.0034 22.1 8.8 111 1-122 1-126 (356)
400 cd06319 PBP1_ABC_sugar_binding 40.1 1.2E+02 0.0026 20.8 7.7 71 74-150 15-87 (277)
401 TIGR03183 DNA_S_dndC putative 39.9 1.8E+02 0.0039 22.6 8.5 72 5-95 15-89 (447)
402 KOG2310 DNA repair exonuclease 39.9 28 0.00061 27.5 2.4 21 100-120 40-60 (646)
403 TIGR02667 moaB_proteo molybden 39.8 1.1E+02 0.0023 20.0 6.8 40 80-119 27-70 (163)
404 cd06274 PBP1_FruR Ligand bindi 39.7 1.2E+02 0.0026 20.7 8.6 67 75-149 16-84 (264)
405 cd05710 SIS_1 A subgroup of th 39.5 87 0.0019 18.9 4.4 39 3-44 47-85 (120)
406 PRK00772 3-isopropylmalate deh 39.4 1.6E+02 0.0035 22.1 8.5 27 14-42 166-192 (358)
407 PRK06806 fructose-bisphosphate 39.3 1.4E+02 0.0031 21.4 9.6 76 75-150 115-207 (281)
408 PRK05452 anaerobic nitric oxid 39.2 1.9E+02 0.004 22.6 10.9 49 74-124 266-316 (479)
409 cd06323 PBP1_ribose_binding Pe 39.1 1.2E+02 0.0027 20.6 6.5 71 74-150 15-87 (268)
410 PF10649 DUF2478: Protein of u 39.1 65 0.0014 21.0 3.7 45 104-149 85-129 (159)
411 cd00019 AP2Ec AP endonuclease 39.1 1.4E+02 0.0029 21.0 8.2 78 16-112 83-166 (279)
412 PF00701 DHDPS: Dihydrodipicol 39.1 1.4E+02 0.0031 21.2 9.3 79 72-151 55-135 (289)
413 cd00758 MoCF_BD MoCF_BD: molyb 39.1 94 0.002 19.2 5.6 41 79-119 23-65 (133)
414 CHL00073 chlN photochlorophyll 39.0 69 0.0015 24.8 4.4 27 98-124 113-140 (457)
415 PF02302 PTS_IIB: PTS system, 38.9 73 0.0016 17.9 5.2 39 78-121 18-56 (90)
416 COG0069 GltB Glutamate synthas 38.9 1.8E+02 0.0038 22.9 6.4 32 90-121 305-336 (485)
417 PF00070 Pyr_redox: Pyridine n 38.8 69 0.0015 17.6 6.1 26 18-46 10-35 (80)
418 PRK02551 flavoprotein NrdI; Pr 38.6 18 0.00039 23.4 1.1 46 101-148 80-128 (154)
419 cd06346 PBP1_ABC_ligand_bindin 38.6 1.4E+02 0.0031 21.2 10.3 45 77-121 154-201 (312)
420 cd08183 Fe-ADH2 Iron-containin 38.5 1.2E+02 0.0026 22.7 5.5 43 76-118 35-81 (374)
421 CHL00076 chlB photochlorophyll 38.1 65 0.0014 25.3 4.2 25 98-122 101-126 (513)
422 PF13500 AAA_26: AAA domain; P 38.0 51 0.0011 21.9 3.3 26 103-128 120-145 (199)
423 PLN00118 isocitrate dehydrogen 37.8 1.8E+02 0.0039 22.0 8.1 29 13-42 183-211 (372)
424 PF01207 Dus: Dihydrouridine s 37.8 1.6E+02 0.0034 21.4 8.3 72 73-148 110-188 (309)
425 cd06313 PBP1_ABC_sugar_binding 37.7 1.4E+02 0.003 20.7 7.1 70 75-150 16-87 (272)
426 TIGR03127 RuMP_HxlB 6-phospho 37.7 90 0.0019 20.3 4.4 40 3-45 72-111 (179)
427 PRK15454 ethanol dehydrogenase 37.6 1E+02 0.0022 23.3 5.0 43 76-118 65-112 (395)
428 PRK10481 hypothetical protein; 37.4 1.4E+02 0.003 20.7 7.1 59 83-148 148-211 (224)
429 cd05006 SIS_GmhA Phosphoheptos 37.2 69 0.0015 20.8 3.8 40 3-45 101-140 (177)
430 cd06296 PBP1_CatR_like Ligand- 37.0 1.4E+02 0.0029 20.4 8.4 68 74-149 15-84 (270)
431 cd04795 SIS SIS domain. SIS (S 37.0 75 0.0016 17.4 3.6 35 3-40 47-81 (87)
432 cd06365 PBP1_Pheromone_recepto 36.9 2E+02 0.0042 22.2 11.2 19 104-122 248-266 (469)
433 COG2129 Predicted phosphoester 36.9 1.2E+02 0.0026 21.1 4.8 52 100-153 18-74 (226)
434 TIGR00045 glycerate kinase. Th 36.7 54 0.0012 24.7 3.4 55 94-150 263-322 (375)
435 PRK08649 inosine 5-monophospha 36.7 1.8E+02 0.004 21.9 7.4 67 79-148 122-192 (368)
436 cd02801 DUS_like_FMN Dihydrour 36.6 1.4E+02 0.0029 20.3 8.4 60 89-149 124-189 (231)
437 PF02610 Arabinose_Isome: L-ar 36.2 1.4E+02 0.0031 22.4 5.4 44 102-151 61-105 (359)
438 cd01981 Pchlide_reductase_B Pc 36.2 89 0.0019 23.8 4.6 26 98-123 101-127 (430)
439 TIGR00364 exsB protein. This p 36.1 1.3E+02 0.0029 20.0 11.7 21 102-122 101-121 (201)
440 KOG1288 Amino acid transporter 36.1 2.6E+02 0.0057 23.4 8.9 104 5-131 562-671 (945)
441 PRK08997 isocitrate dehydrogen 36.1 1.8E+02 0.0039 21.6 8.5 28 13-41 146-173 (334)
442 TIGR00737 nifR3_yhdG putative 36.1 1.7E+02 0.0037 21.3 8.3 62 88-149 131-198 (319)
443 PF03054 tRNA_Me_trans: tRNA m 36.1 1.9E+02 0.004 21.7 7.0 36 4-45 1-36 (356)
444 cd05017 SIS_PGI_PMI_1 The memb 35.9 85 0.0018 18.9 3.8 35 3-40 43-77 (119)
445 cd08199 EEVS 2-epi-5-epi-valio 35.8 1.8E+02 0.004 21.6 7.7 67 78-152 43-123 (354)
446 PRK03767 NAD(P)H:quinone oxido 35.8 1.3E+02 0.0029 20.0 7.9 48 74-123 16-80 (200)
447 TIGR01064 pyruv_kin pyruvate k 35.7 1.1E+02 0.0023 24.0 5.0 45 99-152 360-405 (473)
448 PF07972 Flavodoxin_NdrI: NrdI 35.7 21 0.00046 22.1 1.1 47 100-148 57-106 (122)
449 COG0745 OmpR Response regulato 35.4 1.5E+02 0.0033 20.5 7.6 67 77-152 13-81 (229)
450 cd00840 MPP_Mre11_N Mre11 nucl 35.4 1.1E+02 0.0024 20.4 4.6 26 72-99 25-50 (223)
451 PRK13396 3-deoxy-7-phosphohept 35.4 1.9E+02 0.0041 21.7 8.4 84 14-123 112-195 (352)
452 PRK00766 hypothetical protein; 35.3 1.4E+02 0.0031 20.2 5.1 58 88-149 42-104 (194)
453 cd06320 PBP1_allose_binding Pe 35.3 1.5E+02 0.0032 20.4 6.8 71 74-150 15-89 (275)
454 cd01538 PBP1_ABC_xylose_bindin 35.1 1.6E+02 0.0034 20.6 7.9 71 74-150 15-87 (288)
455 cd06350 PBP1_GPCR_family_C_lik 35.1 1.7E+02 0.0037 21.0 10.7 9 34-42 161-169 (348)
456 cd08186 Fe-ADH8 Iron-containin 35.1 1.5E+02 0.0033 22.2 5.6 44 77-120 44-93 (383)
457 cd06267 PBP1_LacI_sugar_bindin 35.0 1.4E+02 0.0031 20.0 8.7 68 75-150 16-85 (264)
458 PHA03368 DNA packaging termina 34.9 2.7E+02 0.0058 23.2 9.9 101 3-120 577-693 (738)
459 PTZ00300 pyruvate kinase; Prov 34.8 1.2E+02 0.0027 23.5 5.1 44 100-152 336-380 (454)
460 PTZ00408 NAD-dependent deacety 34.8 1.6E+02 0.0035 20.6 5.7 50 96-152 155-208 (242)
461 cd04731 HisF The cyclase subun 34.4 1.6E+02 0.0034 20.3 8.2 49 101-149 151-199 (243)
462 COG0075 Serine-pyruvate aminot 34.3 2.1E+02 0.0045 21.8 7.5 15 99-113 148-162 (383)
463 TIGR00289 conserved hypothetic 34.2 1.6E+02 0.0035 20.4 9.3 90 5-121 2-94 (222)
464 cd03146 GAT1_Peptidase_E Type 34.2 93 0.002 21.1 4.1 60 77-140 48-108 (212)
465 COG1830 FbaB DhnA-type fructos 34.0 1.8E+02 0.0038 20.9 8.2 71 72-150 127-209 (265)
466 PRK08005 epimerase; Validated 33.9 1.6E+02 0.0034 20.2 7.8 27 95-121 167-193 (210)
467 cd05014 SIS_Kpsf KpsF-like pro 33.8 94 0.002 18.7 3.8 39 4-45 48-86 (128)
468 PF13521 AAA_28: AAA domain; P 33.8 69 0.0015 20.4 3.3 55 98-152 94-158 (163)
469 PRK01372 ddl D-alanine--D-alan 33.7 1.8E+02 0.0038 20.7 5.8 41 78-122 26-66 (304)
470 PRK10886 DnaA initiator-associ 33.5 1.2E+02 0.0025 20.5 4.4 41 3-46 109-149 (196)
471 PF12048 DUF3530: Protein of u 33.3 1.9E+02 0.0042 21.0 9.4 81 64-148 167-251 (310)
472 PF00496 SBP_bac_5: Bacterial 33.2 1.7E+02 0.0036 21.3 5.6 48 74-123 308-355 (374)
473 TIGR03572 WbuZ glycosyl amidat 33.1 1.6E+02 0.0035 20.1 7.9 47 102-149 156-203 (232)
474 PF01993 MTD: methylene-5,6,7, 32.9 61 0.0013 22.9 2.9 46 102-151 49-94 (276)
475 PRK10624 L-1,2-propanediol oxi 32.8 1.4E+02 0.0031 22.3 5.2 45 76-120 46-96 (382)
476 cd01967 Nitrogenase_MoFe_alpha 32.8 1E+02 0.0023 23.1 4.5 26 98-123 103-129 (406)
477 TIGR02260 benz_CoA_red_B benzo 32.8 1.2E+02 0.0027 23.1 4.8 50 100-149 338-387 (413)
478 PF06925 MGDG_synth: Monogalac 32.7 1.4E+02 0.003 19.3 5.4 22 99-120 76-97 (169)
479 cd06275 PBP1_PurR Ligand-bindi 32.7 1.6E+02 0.0035 20.0 8.9 71 74-151 15-87 (269)
480 cd01968 Nitrogenase_NifE_I Nit 32.7 1E+02 0.0022 23.3 4.4 25 98-122 102-127 (410)
481 TIGR00381 cdhD CO dehydrogenas 32.7 1.4E+02 0.0031 22.6 5.0 54 85-143 150-214 (389)
482 PLN02461 Probable pyruvate kin 32.6 1.4E+02 0.003 23.7 5.1 42 100-150 383-425 (511)
483 PF08915 tRNA-Thr_ED: Archaea- 32.6 1.4E+02 0.0029 19.1 6.7 56 16-91 56-111 (138)
484 cd01972 Nitrogenase_VnfE_like 32.6 81 0.0018 24.0 3.9 26 98-123 105-131 (426)
485 COG0615 TagD Cytidylyltransfer 32.6 48 0.001 21.2 2.2 36 88-123 62-97 (140)
486 cd06342 PBP1_ABC_LIVBP_like Ty 32.5 1.8E+02 0.004 20.6 9.9 44 78-121 153-199 (334)
487 PF02514 CobN-Mg_chel: CobN/Ma 32.5 3.5E+02 0.0077 23.9 8.1 72 75-149 89-165 (1098)
488 PTZ00106 60S ribosomal protein 32.4 69 0.0015 19.3 2.9 19 103-121 32-50 (108)
489 PRK01215 competence damage-ind 32.4 1.9E+02 0.004 20.6 5.6 41 79-119 27-69 (264)
490 cd06309 PBP1_YtfQ_like Peripla 32.3 1.7E+02 0.0037 20.1 8.3 71 74-150 15-87 (273)
491 COG2379 GckA Putative glycerat 32.3 2.3E+02 0.005 21.7 9.1 61 91-151 248-315 (422)
492 cd00288 Pyruvate_Kinase Pyruva 32.2 1.4E+02 0.0031 23.4 5.1 44 100-152 363-407 (480)
493 COG2201 CheB Chemotaxis respon 32.1 2.2E+02 0.0048 21.4 7.6 50 97-150 32-81 (350)
494 TIGR02634 xylF D-xylose ABC tr 32.1 1.9E+02 0.0041 20.6 8.1 69 75-149 15-85 (302)
495 PRK06354 pyruvate kinase; Prov 32.1 1.3E+02 0.0028 24.3 5.0 44 100-152 365-409 (590)
496 TIGR01743 purR_Bsub pur operon 32.0 1.9E+02 0.0042 20.7 7.3 74 70-152 75-160 (268)
497 cd08172 GlyDH-like1 Glycerol d 32.0 2.1E+02 0.0045 21.1 6.1 67 76-152 38-109 (347)
498 COG2262 HflX GTPases [General 32.0 2.3E+02 0.005 21.7 6.0 48 74-121 19-78 (411)
499 PTZ00066 pyruvate kinase; Prov 32.0 1.4E+02 0.0031 23.6 5.1 45 99-152 398-443 (513)
500 PF01012 ETF: Electron transfe 32.0 1.4E+02 0.003 19.1 7.5 82 71-152 15-99 (164)
No 1
>PRK15456 universal stress protein UspG; Provisional
Probab=99.97 E-value=1.2e-29 Score=161.55 Aligned_cols=140 Identities=19% Similarity=0.203 Sum_probs=113.5
Q ss_pred CCcEEEEEecCCc--hHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESE--CRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGR 79 (154)
Q Consensus 2 ~~~~iLv~vd~~~--~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 79 (154)
||++||||+|+|+ .+..++++|..+|+. + ++++++||++...... .... ....+.+.+..++..++.+++
T Consensus 1 m~~~ILv~vD~S~~~~s~~al~~A~~la~~-~--~~l~llhv~~~~~~~~----~~~~-~~~~~~~~~~~~~~~~~~l~~ 72 (142)
T PRK15456 1 MYKTIIMPVDVFEMELSDKAVRHAEFLAQD-D--GVIHLLHVLPGSASLS----LHRF-AADVRRFEEHLQHEAEERLQT 72 (142)
T ss_pred CCccEEEeccCCchhHHHHHHHHHHHHHhc-C--CeEEEEEEecCccccc----cccc-ccchhhHHHHHHHHHHHHHHH
Confidence 5899999999995 899999999999986 3 5999999998753211 0000 011133445566667777777
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
+.+.+...+.++++.+..|++.+.|.+++++.++||||||+++++ +.++++||++++++++++||||+||
T Consensus 73 ~~~~~~~~~~~v~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~g~~-~~~~llGS~a~~v~~~a~~pVLvV~ 142 (142)
T PRK15456 73 MVSHFTIDPSRIKQHVRFGSVRDEVNELAEELGADVVVIGSRNPS-ISTHLLGSNASSVIRHANLPVLVVR 142 (142)
T ss_pred HHHHhCCCCcceEEEEcCCChHHHHHHHHhhcCCCEEEEcCCCCC-ccceecCccHHHHHHcCCCCEEEeC
Confidence 777666567888999999999999999999999999999999976 7888999999999999999999996
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.97 E-value=2.4e-29 Score=160.40 Aligned_cols=142 Identities=25% Similarity=0.295 Sum_probs=110.6
Q ss_pred CCcEEEEEecCCch--HHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESEC--RHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGR 79 (154)
Q Consensus 2 ~~~~iLv~vd~~~~--~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 79 (154)
||++||||+|+|+. +..++++|.++|+..+ ++++++||++....... ..+... ... . ..+..++..++.+++
T Consensus 1 m~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~--~~l~ll~v~~~~~~~~~-~~~~~~-~~~-~-~~~~~~~~~~~~l~~ 74 (144)
T PRK15005 1 MNRTILVPIDISDSELTQRVISHVEAEAKIDD--AEVHFLTVIPSLPYYAS-LGLAYS-AEL-P-AMDDLKAEAKSQLEE 74 (144)
T ss_pred CCccEEEecCCCchhHHHHHHHHHHHHHhccC--CeEEEEEEEccCccccc-cccccc-ccc-h-HHHHHHHHHHHHHHH
Confidence 58999999999998 5799999999999977 99999999986432210 001000 000 0 112334445566666
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
+.+.+...+++++..+..|++.+.|.+++++.++||||||++ ++.+.++++||++++|+++++||||+||
T Consensus 75 ~~~~~~~~~~~~~~~v~~G~p~~~I~~~a~~~~~DLIV~Gs~-~~~~~~~llGS~a~~vl~~a~cpVlvVr 144 (144)
T PRK15005 75 IIKKFKLPTDRVHVHVEEGSPKDRILELAKKIPADMIIIASH-RPDITTYLLGSNAAAVVRHAECSVLVVR 144 (144)
T ss_pred HHHHhCCCCCceEEEEeCCCHHHHHHHHHHHcCCCEEEEeCC-CCCchheeecchHHHHHHhCCCCEEEeC
Confidence 666666667788899999999999999999999999999998 4568899999999999999999999996
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.97 E-value=3.2e-29 Score=159.53 Aligned_cols=141 Identities=18% Similarity=0.106 Sum_probs=109.7
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRA 80 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 80 (154)
|+|++||||+|+|+.+..++++|+.+|+..+ ++++++||.+.......+ .+. ...+...+..++..++.++++
T Consensus 1 ~~~k~ILvavD~S~~s~~al~~A~~lA~~~~--a~l~llhV~~~~~~~~~~-~~~----~~~~~~~~~~~~~~~~~l~~~ 73 (142)
T PRK09982 1 MAYKHIGVAISGNEEDALLVNKALELARHND--AHLTLIHIDDGLSELYPG-IYF----PATEDILQLLKNKSDNKLYKL 73 (142)
T ss_pred CCceEEEEEecCCcchHHHHHHHHHHHHHhC--CeEEEEEEccCcchhchh-hhc----cchHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999977 999999998764322100 000 011223344455555666666
Q ss_pred HHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 81 KEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 81 ~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
.+.+. ...++..+..|+|.+.|+++|++.++||||||++ ++.+.+++ | ++++++++++||||+||..+
T Consensus 74 ~~~~~--~~~~~~~v~~G~p~~~I~~~A~~~~aDLIVmG~~-~~~~~~~~-~-va~~V~~~s~~pVLvv~~~~ 141 (142)
T PRK09982 74 TKNIQ--WPKTKLRIERGEMPETLLEIMQKEQCDLLVCGHH-HSFINRLM-P-AYRGMINKMSADLLIVPFID 141 (142)
T ss_pred HHhcC--CCcceEEEEecCHHHHHHHHHHHcCCCEEEEeCC-hhHHHHHH-H-HHHHHHhcCCCCEEEecCCC
Confidence 65553 2347788888999999999999999999999986 77788777 5 99999999999999998754
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=99.97 E-value=2.7e-28 Score=155.90 Aligned_cols=142 Identities=25% Similarity=0.384 Sum_probs=118.4
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+||||+|+|+.+..+++||+++|+..+ ++++++||.+...... . ...............++..++.++++.+.+
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~--~~l~ll~v~~~~~~~~---~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 74 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKG--QTIVLVHVHPPITSIP---S-SSGKLEVASAYKQEEDKEAKELLLPYRCFC 74 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCC--CcEEEEEeccCcccCC---C-CccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999999999999999877 8999999987643221 0 011112234455566677888888888888
Q ss_pred HhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccccccc-chhHHHhhcCC--CcEEEEcCC
Q 031713 85 AKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLG-SVSNYCVHNAK--CPVLVVRKP 152 (154)
Q Consensus 85 ~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~g-s~~~~l~~~~~--~pvliv~~~ 152 (154)
...++.++..+..| ++.+.|++++++.++|+||||+++++.+.++++| |++.+++++++ |||++|++.
T Consensus 75 ~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a~~~c~Vlvv~~~ 146 (146)
T cd01989 75 SRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVVSKG 146 (146)
T ss_pred hhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcCCCCceEEEEeCc
Confidence 88899999888886 8999999999999999999999999999999887 69999999999 999999863
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.96 E-value=3.8e-28 Score=154.92 Aligned_cols=140 Identities=18% Similarity=0.171 Sum_probs=100.6
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRA 80 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 80 (154)
|+|++||||+|+|+.+..++++|..+|+..+ ++++++||..+...... ++. ....+...+...+...+.+
T Consensus 1 ~~~~~ILvavD~S~~s~~al~~a~~la~~~~--a~l~ll~v~~~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~l--- 70 (144)
T PRK15118 1 MAYKHILIAVDLSPESKVLVEKAVSMARPYN--AKVSLIHVDVNYSDLYT--GLI---DVNLGDMQKRISEETHHAL--- 70 (144)
T ss_pred CCceEEEEEccCChhHHHHHHHHHHHHHhhC--CEEEEEEEccChhhhhh--hhh---hcchHHHHHHHHHHHHHHH---
Confidence 8999999999999999999999999999877 89999999543221110 000 0011122222222233333
Q ss_pred HHHHHhcCCeE-EEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 81 KEICAKHGVVA-ETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 81 ~~~~~~~~~~~-~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
.......|+.+ ...+..|++.++|++++++.++||||||+++ +.+. . +||++++++++++||||+||.+.
T Consensus 71 ~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~-~~~~-~-lgSva~~v~~~a~~pVLvv~~~~ 141 (144)
T PRK15118 71 TELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQ-DFWS-K-LMSSARQLINTVHVDMLIVPLRD 141 (144)
T ss_pred HHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCcc-cHHH-H-HHHHHHHHHhhCCCCEEEecCCc
Confidence 33334557775 3455679999999999999999999999995 3333 3 58999999999999999998653
No 6
>PRK10116 universal stress protein UspC; Provisional
Probab=99.95 E-value=6.5e-27 Score=148.88 Aligned_cols=140 Identities=17% Similarity=0.225 Sum_probs=107.9
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRA 80 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 80 (154)
|+|++|||++|+++.+..++++|..+|+.++ ++++++|+.+...... .......+...+...++.++.++++
T Consensus 1 ~~~~~ILv~~D~s~~s~~al~~A~~lA~~~~--a~l~ll~v~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~l~~~ 72 (142)
T PRK10116 1 MSYSNILVAVAVTPESQQLLAKAVSIARPVN--GKISLITLASDPEMYN------QFAAPMLEDLRSVMQEETQSFLDKL 72 (142)
T ss_pred CCCceEEEEccCCcchHHHHHHHHHHHHHhC--CEEEEEEEccCcccch------hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999977 8999999987643211 1111222333334444444444443
Q ss_pred HHHHHhcCCeE-EEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 81 KEICAKHGVVA-ETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 81 ~~~~~~~~~~~-~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
. ...|+.. ...+..|++.+.|.+++++.++||||+|+++++.+.+++ +++++++++++||||+||..-
T Consensus 73 ~---~~~~~~~~~~~~~~G~~~~~I~~~a~~~~~DLiV~g~~~~~~~~~~~--s~a~~v~~~~~~pVLvv~~~~ 141 (142)
T PRK10116 73 I---QDADYPIEKTFIAYGELSEHILEVCRKHHFDLVICGNHNHSFFSRAS--CSAKRVIASSEVDVLLVPLTG 141 (142)
T ss_pred H---HhcCCCeEEEEEecCCHHHHHHHHHHHhCCCEEEEcCCcchHHHHHH--HHHHHHHhcCCCCEEEEeCCC
Confidence 3 3457664 356677999999999999999999999999988888754 789999999999999999754
No 7
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.95 E-value=8.5e-27 Score=146.97 Aligned_cols=140 Identities=32% Similarity=0.439 Sum_probs=106.6
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
|+++||||+|+++.+..++++|..+|+..+ ++++++||.+....... ........................
T Consensus 1 M~~~Ilv~~d~~~~~~~al~~a~~la~~~~--~~i~~l~v~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~ 71 (140)
T PF00582_consen 1 MYKRILVAIDGSEESRRALRFALELAKRSG--AEITLLHVIPPPPQYSF-------SAAEDEESEEEAEEEEQARQAEAE 71 (140)
T ss_dssp -TSEEEEEESSSHHHHHHHHHHHHHHHHHT--CEEEEEEEEESCHCHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEECCCHHHHHHHHHHHHHHHhhC--CeEEEEEeecccccccc-------ccccccccccccchhhhhhhHHHH
Confidence 689999999999999999999999999987 99999999998765430 111111111111111111111112
Q ss_pred HHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 82 EICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
......+......+..|++.+.|++++++.++|+||+|+++++.+.++++|+++++++++++|||+|||
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv~ 140 (140)
T PF00582_consen 72 EAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVVP 140 (140)
T ss_dssp HHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEEE
T ss_pred HHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEeC
Confidence 233344666777888899999999999999999999999999999999999999999999999999997
No 8
>PRK11175 universal stress protein UspE; Provisional
Probab=99.95 E-value=1.6e-26 Score=163.99 Aligned_cols=146 Identities=14% Similarity=0.159 Sum_probs=117.5
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRA 80 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 80 (154)
|+|++||||+|+|+.+..++++|+.+|+..+ ++++++|+.+....... . .......+...+...+..++.++++
T Consensus 1 ~~~~~ILv~~D~s~~~~~al~~a~~lA~~~~--a~l~ll~v~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~l~~~ 74 (305)
T PRK11175 1 AKYQNILVVIDPNQDDQPALRRAVYLAQRNG--GKITAFLPIYDFSYEMT--T--LLSPDEREAMRQGVISQRTAWIREQ 74 (305)
T ss_pred CCcceEEEEcCCCccccHHHHHHHHHHHhcC--CCEEEEEeccCchhhhh--c--ccchhHHHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999987 89999999865432210 0 0111112222233334456667777
Q ss_pred HHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 81 KEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 81 ~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
...+...|++++..+.. |++.+.|.+++++.++||||+|+++++.+.+.++|+++++|+++++||||+||+.
T Consensus 75 ~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~~ 147 (305)
T PRK11175 75 AKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKDQ 147 (305)
T ss_pred HHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEeccc
Confidence 77777778888887764 8999999999999999999999999999999999999999999999999999874
No 9
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.94 E-value=1.5e-25 Score=140.78 Aligned_cols=131 Identities=22% Similarity=0.311 Sum_probs=111.5
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+||||+|+++++..++++|..+|+..+ ++++++|+.+...... .. ......+..++.++.+.+.+
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~--~~v~ll~v~~~~~~~~---------~~----~~~~~~~~~~~~~~~~~~~~ 65 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQN--GEIIPLNVIEVPNHSS---------PS----QLEVNVQRARKLLRQAERIA 65 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCC--CeEEEEEEEecCCCCC---------cc----hhHHHHHHHHHHHHHHHHHh
Confidence 699999999999999999999999866 8999999998653221 00 11123455677888888888
Q ss_pred HhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 85 AKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 85 ~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+.|++++..+.. |++.+.|.+++++.++|+||||+++++.+.++++|+++.+++++++|||++++
T Consensus 66 ~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~~~pvlvv~ 132 (132)
T cd01988 66 ASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESAPCDVAVVK 132 (132)
T ss_pred hhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcCCCCEEEeC
Confidence 8889998888765 79999999999999999999999999998899999999999999999999985
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.93 E-value=4.3e-25 Score=137.44 Aligned_cols=123 Identities=17% Similarity=0.201 Sum_probs=103.1
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+||||+|+++.+..++++|+.+|+..+ ++|+++||.+..... ..+..++.++.+.+.+
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~--~~l~ll~v~~~~~~~--------------------~~~~~~~~l~~~~~~~ 58 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLK--APWYVVYVETPRLNR--------------------LSEAERRRLAEALRLA 58 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhC--CCEEEEEEecCcccc--------------------CCHHHHHHHHHHHHHH
Confidence 699999999999999999999999977 899999998764321 1122345566666666
Q ss_pred HhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcC-CCcEEEEc
Q 031713 85 AKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA-KCPVLVVR 150 (154)
Q Consensus 85 ~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~-~~pvliv~ 150 (154)
++.++++. .+..|++.+.|.+++++.++|+||||+++++.+.++++||++++|++++ +|||||++
T Consensus 59 ~~~~~~~~-~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs~~~~v~~~a~~~~v~v~~ 124 (124)
T cd01987 59 EELGAEVV-TLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRELFRGSLVDRLLRRAGNIDVHIVA 124 (124)
T ss_pred HHcCCEEE-EEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHHHhcccHHHHHHHhCCCCeEEEeC
Confidence 66676543 2345689999999999999999999999999999999999999999999 89999985
No 11
>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=99.91 E-value=1e-22 Score=126.86 Aligned_cols=130 Identities=35% Similarity=0.495 Sum_probs=112.2
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+||||+|+++.+..++++|..+|+..+ ++++++|+.+...... . ...+....+.++.++++...+
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~--~~i~~l~v~~~~~~~~---------~----~~~~~~~~~~~~~l~~~~~~~ 65 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLG--AELVLLHVVDPPPSSA---------A----ELAELLEEEARALLEALREAL 65 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcC--CEEEEEEEecCCCCcc---------h----hHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999999999999999977 9999999987754332 0 223344555667778887777
Q ss_pred HhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 85 AKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 85 ~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
...+++++..+..|++.++|.+++++.++|++|+|+++++.+.+.++|+++.+++++++|||+++
T Consensus 66 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 66 AEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred hcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEEeC
Confidence 67789999999899889999999999999999999999999989999999999999999999985
No 12
>PRK11175 universal stress protein UspE; Provisional
Probab=99.90 E-value=1.2e-22 Score=144.19 Aligned_cols=142 Identities=20% Similarity=0.288 Sum_probs=104.3
Q ss_pred CCcEEEEEecCCchH-------HHHHHHHHHHcccC-CCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESECR-------HYALQWALENLGDA-ISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAA 73 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~-------~~~l~~a~~la~~~-~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 (154)
.+++||+|+|+++.+ ..++++|..+|+.. + ++++++||.+........ ... ........+..++..
T Consensus 151 ~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~--a~l~ll~v~~~~~~~~~~-~~~---~~~~~~~~~~~~~~~ 224 (305)
T PRK11175 151 EGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNH--AEVHLVNAYPVTPINIAI-ELP---EFDPSVYNDAIRGQH 224 (305)
T ss_pred CCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcC--CceEEEEEecCcchhccc-ccc---ccchhhHHHHHHHHH
Confidence 368999999998753 67999999999987 6 899999998754322100 000 001112222222233
Q ss_pred HHHHHHHHHHHHhcCCeE-EEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 74 LALLGRAKEICAKHGVVA-ETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~-~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
.+.++++ .+..+++. ...+..|++.+.|.+++++.++||||||+++++.+.++++||++++|+++++||||+||+.
T Consensus 225 ~~~l~~~---~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pVLvv~~~ 301 (305)
T PRK11175 225 LLAMKAL---RQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDLLAIKPD 301 (305)
T ss_pred HHHHHHH---HHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCEEEEcCC
Confidence 3333333 33446653 4566789999999999999999999999999999999999999999999999999999764
No 13
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.88 E-value=1.2e-20 Score=121.00 Aligned_cols=148 Identities=32% Similarity=0.370 Sum_probs=120.7
Q ss_pred CCCcEEEEEec-CCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHH
Q 031713 1 MDKKKVMVAID-ESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGR 79 (154)
Q Consensus 1 m~~~~iLv~vd-~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 79 (154)
+++++||+++| +++.+..+++.+..++...+ +.+.+++|.+........... .................++.++.
T Consensus 3 ~~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~--~~~~~~~v~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 78 (154)
T COG0589 3 AMYKKILVAVDVGSEAAEKALEEAVALAKRLG--APLILLVVIDPLEPTALVSVA--LADAPIPLSEEELEEEAEELLAE 78 (154)
T ss_pred cccceEEEEeCCCCHHHHHHHHHHHHHHHhcC--CeEEEEEEecccccccccccc--cccchhhhhHHHHHHHHHHHHHH
Confidence 46899999999 99999999999999999977 899999998776543210000 00000233344455666778888
Q ss_pred HHHHHHhcCCe-EEEEEecCCh-hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 80 AKEICAKHGVV-AETMTEMGDP-KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 80 ~~~~~~~~~~~-~~~~v~~g~~-~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+.+.....++. +...+..|++ .+.|..++++.++|+||||+++++.+.++++||++++++++++|||+++|..
T Consensus 79 ~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~~llGsvs~~v~~~~~~pVlvv~~~ 153 (154)
T COG0589 79 AKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSRLLLGSVAEKVLRHAPCPVLVVRSE 153 (154)
T ss_pred HHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccceeeehhHHHHHhcCCCCEEEEccC
Confidence 88888888888 5889999988 7999999999999999999999999999999999999999999999999875
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.78 E-value=1.9e-17 Score=118.61 Aligned_cols=107 Identities=21% Similarity=0.263 Sum_probs=81.0
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRA 80 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 80 (154)
|+|+|||||+|+|+.+.+|+++|+++|+..+.+++|+++||.+...... .. .......++.++++
T Consensus 3 ~~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~--------~~-------~~~~~~~eelle~~ 67 (357)
T PRK12652 3 MAANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDP--------EG-------QDELAAAEELLERV 67 (357)
T ss_pred cccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCccccc--------ch-------hHHHHHHHHHHHHH
Confidence 6899999999999999999999999998842128999999988643221 01 11222333444444
Q ss_pred HHHHHh------cCCeEEEEEec--------CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 81 KEICAK------HGVVAETMTEM--------GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 81 ~~~~~~------~~~~~~~~v~~--------g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.+.+++ .|++++..+.. |+++++|+++|++.++|+||||..-
T Consensus 68 ~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~ 123 (357)
T PRK12652 68 EVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEY 123 (357)
T ss_pred HHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCC
Confidence 444443 58988888865 8999999999999999999999864
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.59 E-value=5.7e-14 Score=112.05 Aligned_cols=124 Identities=11% Similarity=0.078 Sum_probs=97.4
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEI 83 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 83 (154)
.+||||+++++.+..++++|.++|..++ ++++++||..+..... ..+..+...+. .+.
T Consensus 251 eriLV~v~~~~~~~~lIr~~~rlA~~~~--a~~~~l~V~~~~~~~~-------------------~~~~~~~l~~~-~~l 308 (895)
T PRK10490 251 DAILLCIGHNTGSEKLVRTAARLAARLG--SVWHAVYVETPRLHRL-------------------PEKKRRAILSA-LRL 308 (895)
T ss_pred CeEEEEECCCcchHHHHHHHHHHHHhcC--CCEEEEEEecCCcCcC-------------------CHHHHHHHHHH-HHH
Confidence 5799999999999999999999999987 9999999987643221 01112222333 356
Q ss_pred HHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 84 CAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
+++.|.++.. +..++++++|+++|++.+++.||||.++++.+ ++.||+++++++.++ ..|.||+..
T Consensus 309 A~~lGa~~~~-~~~~dva~~i~~~A~~~~vt~IViG~s~~~~~--~~~~s~~~~l~r~~~~idi~iv~~~ 375 (895)
T PRK10490 309 AQELGAETAT-LSDPAEEKAVLRYAREHNLGKIIIGRRASRRW--WRRESFADRLARLGPDLDLVIVALD 375 (895)
T ss_pred HHHcCCEEEE-EeCCCHHHHHHHHHHHhCCCEEEECCCCCCCC--ccCCCHHHHHHHhCCCCCEEEEeCC
Confidence 6777877432 33458999999999999999999999887765 557899999999998 999999743
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.53 E-value=3.2e-13 Score=103.60 Aligned_cols=126 Identities=17% Similarity=0.213 Sum_probs=107.8
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEI 83 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 83 (154)
.+||||++.++.+...+++|.++|..++ ++++++||..+..... .+...+.+....+.
T Consensus 249 e~ilvcI~~~~~~e~liR~a~RlA~~~~--a~~~av~v~~~~~~~~--------------------~~~~~~~l~~~~~L 306 (890)
T COG2205 249 ERILVCISGSPGSEKLIRRAARLASRLH--AKWTAVYVETPELHRL--------------------SEKEARRLHENLRL 306 (890)
T ss_pred ceEEEEECCCCchHHHHHHHHHHHHHhC--CCeEEEEEeccccccc--------------------cHHHHHHHHHHHHH
Confidence 5899999999999999999999999977 9999999988765432 23345667777777
Q ss_pred HHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 84 CAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
+++.|.++.+.. .++.+++|.+||+++++.-||+|.+.++.|.+.|.|++++++++..+ ..|.+|+.+
T Consensus 307 ae~lGae~~~l~-~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 307 AEELGAEIVTLY-GGDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred HHHhCCeEEEEe-CCcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 777787665432 46999999999999999999999999999999999999999999998 999999864
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=98.75 E-value=7.5e-08 Score=55.81 Aligned_cols=84 Identities=14% Similarity=0.160 Sum_probs=71.5
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICA 85 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 85 (154)
|||+++++..|..++.++.+++.. + .++..+|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~~~-~--~~~~~~~~~------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLKSG-G--PEVVALVVV------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHHhc-C--CCEEEEEeH-------------------------------------------
Confidence 689999999999999999998743 3 688888883
Q ss_pred hcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCccccccc-chhHHHhhcCCCcEEE
Q 031713 86 KHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLG-SVSNYCVHNAKCPVLV 148 (154)
Q Consensus 86 ~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~g-s~~~~l~~~~~~pvli 148 (154)
...+.+.+.+++.++|+|+.|++.....+..+.| ++...+++.++|||+.
T Consensus 35 -------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 -------------AFVRILKRLAAEEGADVIILGHNADDVAGRRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred -------------HHHHHHHHHHHHcCCCEEEEcCCchhhhhhccCchhhhhhcccccCCceeC
Confidence 5666777888889999999999988878877777 8999999999999873
No 18
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=98.29 E-value=1.5e-05 Score=64.00 Aligned_cols=144 Identities=11% Similarity=0.127 Sum_probs=84.9
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHH-HHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDL-LMSIQENQKKAALALLGRAKEI 83 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~ 83 (154)
|||+|+...++....++.+-........+-.++++|+++...-..+ .+....... .....+......++.++.+...
T Consensus 460 riL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~~--~l~~h~~~~~~~~~~~~~~~~~~~i~~af~~~ 537 (832)
T PLN03159 460 RMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRASA--MLIVHNTRKSGRPALNRTQAQSDHIINAFENY 537 (832)
T ss_pred eEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCcc--ceeeeecccccccccccccccccHHHHHHHHH
Confidence 7999999988888888665432222223368999999885432110 000000000 0000000011123444444333
Q ss_pred HHh-cCCeEEEEEec---CChhhHHHHHHHhcCCCEEEEecCCCCCccc------ccccchhHHHhhcCCCcEEEEc
Q 031713 84 CAK-HGVVAETMTEM---GDPKNVICEAAEKHKIQLLIVGSHSRGPIQR------AFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 84 ~~~-~~~~~~~~v~~---g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~------~~~gs~~~~l~~~~~~pvliv~ 150 (154)
-+. .++.++..... .+..+.|++.|++.++++||++.|++....+ ..++.+..++++++||+|-|.=
T Consensus 538 ~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVgIlV 614 (832)
T PLN03159 538 EQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPCSVGILV 614 (832)
T ss_pred HhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCCCEEEEE
Confidence 322 25665543322 3789999999999999999999986433222 2566788999999999998763
No 19
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=97.81 E-value=0.00082 Score=44.62 Aligned_cols=93 Identities=15% Similarity=0.090 Sum_probs=66.3
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+|+|++++...|..++..+.+++...+ .++.++|+....... ..+..+.+...+
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~--~~v~~v~vd~g~~~~------------------------~~~~~~~~~~~~ 54 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLK--IRLIAAHVDHGLRPE------------------------SDEEAEFVQQFC 54 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcC--CCEEEEEeCCCCChh------------------------HHHHHHHHHHHH
Confidence 589999999999999998888877766 689999997653211 122345566666
Q ss_pred HhcCCeEEEEEecC---------Chh--------hHHHHHHHhcCCCEEEEecCCC
Q 031713 85 AKHGVVAETMTEMG---------DPK--------NVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 85 ~~~~~~~~~~v~~g---------~~~--------~~i~~~a~~~~~dlivlg~~~~ 123 (154)
+..|+++...-... +.. ..+.+.+++.+++.|+.|++..
T Consensus 55 ~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~ 110 (189)
T TIGR02432 55 KKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHAD 110 (189)
T ss_pred HHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccH
Confidence 77788755433321 122 5677889999999999998753
No 20
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=97.64 E-value=0.003 Score=41.77 Aligned_cols=92 Identities=17% Similarity=0.111 Sum_probs=60.9
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+|+|++.+...|..++..+..+....+ .++.++||...-.... ....+.+.+.+
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~--~~~~~~~vdh~~~~~s------------------------~~~~~~v~~~~ 54 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNG--IKLIAVHVDHGLREES------------------------DEEAEFVEEIC 54 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTT--TEEEEEEEE-STSCCH------------------------HHHHHHHHHHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcC--CCeEEEEEecCCCccc------------------------chhHHHHHHHH
Confidence 699999999999999999999999876 6999999987654221 23345667777
Q ss_pred HhcCCeEEEEEec-----C-Chh--------hHHHHHHHhcCCCEEEEecCC
Q 031713 85 AKHGVVAETMTEM-----G-DPK--------NVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 85 ~~~~~~~~~~v~~-----g-~~~--------~~i~~~a~~~~~dlivlg~~~ 122 (154)
+..|+++...... + +.. +.+.+.|++.+++.|++|++.
T Consensus 55 ~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~ 106 (182)
T PF01171_consen 55 EQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHL 106 (182)
T ss_dssp HHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BH
T ss_pred HhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcC
Confidence 7888886554433 1 111 355578899999999999874
No 21
>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=97.43 E-value=0.0053 Score=40.53 Aligned_cols=93 Identities=16% Similarity=0.125 Sum_probs=65.2
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+|+|++++...|..++..+.+.....+ .++.++|+....... ..+..+.+.+.+
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~--~~v~~v~id~~~~~~------------------------~~~~~~~~~~~~ 54 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLG--LRLVAVHVDHGLRPE------------------------SDEEAAFVADLC 54 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcC--CcEEEEEecCCCCch------------------------HHHHHHHHHHHH
Confidence 589999999999999998888776655 689999996653211 133445566666
Q ss_pred HhcCCeEEEE--E-ecCChh-----------hHHHHHHHhcCCCEEEEecCCC
Q 031713 85 AKHGVVAETM--T-EMGDPK-----------NVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 85 ~~~~~~~~~~--v-~~g~~~-----------~~i~~~a~~~~~dlivlg~~~~ 123 (154)
...|++.... . ..+... ..+.+++++.+++.|+.|++..
T Consensus 55 ~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~d 107 (185)
T cd01992 55 AKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHAD 107 (185)
T ss_pred HHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcH
Confidence 6678876554 1 111111 4577789999999999998753
No 22
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=97.40 E-value=0.003 Score=51.20 Aligned_cols=115 Identities=16% Similarity=0.082 Sum_probs=64.4
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCC-CCch---HHHHHHHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFG-AAPP---DLLMSIQENQKKAALALLGR 79 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~-~~~~---~~~~~~~~~~~~~~~~~l~~ 79 (154)
.+|.++.-+.+.+..|+.+|.++|++.+ -.++++|..+............ .... .......+..++.-++.+++
T Consensus 631 ~~v~~~F~GG~DDREALa~a~rma~~p~--v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~D~~~~~e 708 (832)
T PLN03159 631 HHVAVLFFGGPDDREALAYAWRMSEHPG--ITLTVMRFIPGEDAAPTASQPASSPSDPRIPTVETDGKKERQLDEEYINE 708 (832)
T ss_pred eeEEEEecCCcchHHHHHHHHHHhcCCC--eEEEEEEEEcccccccccccccccccccccccccccchhHHHHHHHHHHH
Confidence 4899999999999999999999999965 8999999987533221000000 0000 00000011122233555666
Q ss_pred HHHHHHh-cCCeEEEEEe-cC-ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 80 AKEICAK-HGVVAETMTE-MG-DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 80 ~~~~~~~-~~~~~~~~v~-~g-~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+...... ..+.+.-+++ .| +....|....+ ++||+|+|+++
T Consensus 709 f~~~~~~~~~v~y~E~~V~~~~e~~~~l~~~~~--~ydL~iVGr~~ 752 (832)
T PLN03159 709 FRARNAGNESIVYTEKVVSNGEETVAAIRSMDS--AHDLFIVGRGQ 752 (832)
T ss_pred HHHhcCCCCceEEEEEecCCHHHHHHHHHHhhc--cCcEEEEecCC
Confidence 6655532 2344433333 34 23344444433 69999999753
No 23
>PRK12342 hypothetical protein; Provisional
Probab=96.79 E-value=0.024 Score=39.61 Aligned_cols=101 Identities=16% Similarity=0.106 Sum_probs=64.7
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
..++++..|++.|+++. ..| .+++++++=+..... ...+.++. ..|..
T Consensus 32 ~iNp~D~~AlE~AlrLk-~~g--~~Vtvls~Gp~~a~~-------------------------~~l~r~al----amGaD 79 (254)
T PRK12342 32 KISQFDLNAIEAASQLA-TDG--DEIAALTVGGSLLQN-------------------------SKVRKDVL----SRGPH 79 (254)
T ss_pred cCChhhHHHHHHHHHHh-hcC--CEEEEEEeCCChHhH-------------------------HHHHHHHH----HcCCC
Confidence 45788999999999999 566 899999997663211 11112222 23554
Q ss_pred EEEEE----ecC-Ch---hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 91 AETMT----EMG-DP---KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 91 ~~~~v----~~g-~~---~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
--+.+ ..| ++ +..|..+++..++|||+.|...-. . -.|.+.-.+......|.+
T Consensus 80 ~avli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D-~---~tgqvg~~lA~~Lg~P~v 140 (254)
T PRK12342 80 SLYLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGD-L---YAQQVGLLLGELLQLPVI 140 (254)
T ss_pred EEEEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCccc-C---CCCCHHHHHHHHhCCCcE
Confidence 32333 234 55 788888999889999999975422 2 234555666666666643
No 24
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=96.74 E-value=0.053 Score=35.64 Aligned_cols=94 Identities=14% Similarity=0.069 Sum_probs=59.4
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+|+|++.+...|..++..+.++......+.++.++|+........ ....+.+.+.+
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~~~~~~~------------------------~~~~~~~~~~~ 56 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDEGIPGYR------------------------DESLEVVERLA 56 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEECCCCCCc------------------------HHHHHHHHHHH
Confidence 589999999999988888777665441125889999876532211 11223334445
Q ss_pred HhcCCeEEEEEec-------------C---------ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 85 AKHGVVAETMTEM-------------G---------DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 85 ~~~~~~~~~~v~~-------------g---------~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
...|+++...-.. + -....+.+.+++.+++.|+.|++.
T Consensus 57 ~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~r~~~l~~~a~~~g~~~l~~Gh~~ 116 (185)
T cd01993 57 EELGIELEIVSFKEEYTDDIEVKKRGGKSPCSLCGVLRRGLLNKIAKELGADKLATGHNL 116 (185)
T ss_pred HHcCCceEEEehhhhcchhhhhhccCCCCCCCccHHHHHHHHHHHHHHcCCCEEEEcCCh
Confidence 5556664433221 0 012456678999999999999874
No 25
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=96.52 E-value=0.13 Score=36.09 Aligned_cols=93 Identities=15% Similarity=0.128 Sum_probs=59.7
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
-.+|+|++.+...|..++..+..+.+..+..-++..+|+........ ++ .+.+
T Consensus 29 ~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~~~~------------------------~~---~~~~ 81 (258)
T PRK10696 29 GDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQPGFP------------------------EH---VLPE 81 (258)
T ss_pred CCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCCCCC------------------------HH---HHHH
Confidence 35899999999999988888777665432224788888765421110 01 1345
Q ss_pred HHHhcCCeEEEEEec-----------CC---------hhhHHHHHHHhcCCCEEEEecCC
Q 031713 83 ICAKHGVVAETMTEM-----------GD---------PKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~-----------g~---------~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.|++.|+++...-.. +. ....+.+++++.++|.|++|++.
T Consensus 82 ~~~~lgI~~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~ 141 (258)
T PRK10696 82 YLESLGVPYHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHR 141 (258)
T ss_pred HHHHhCCCEEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCch
Confidence 566678775443211 11 12455678999999999999875
No 26
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=96.28 E-value=0.13 Score=36.56 Aligned_cols=93 Identities=14% Similarity=0.139 Sum_probs=59.6
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEI 83 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 83 (154)
.+|+|++.+...|..++..+..+... .++.++||........ ....+.+...
T Consensus 22 ~~ilVavSGGkDS~~ll~~L~~l~~~----~~~~a~~Vd~~~~~~~------------------------~~~~~~~~~~ 73 (298)
T COG0037 22 YKILVAVSGGKDSLALLHLLKELGRR----IEVEAVHVDHGLRGYS------------------------DQEAELVEKL 73 (298)
T ss_pred CeEEEEeCCChHHHHHHHHHHHhccC----ceEEEEEecCCCCCcc------------------------chHHHHHHHH
Confidence 68999999999999888777666554 3899999987754321 2223344444
Q ss_pred HHhcCCeEEE---EEecCC---------------hhhHHHHHHHhcCCCEEEEecCCCC
Q 031713 84 CAKHGVVAET---MTEMGD---------------PKNVICEAAEKHKIQLLIVGSHSRG 124 (154)
Q Consensus 84 ~~~~~~~~~~---~v~~g~---------------~~~~i~~~a~~~~~dlivlg~~~~~ 124 (154)
+...+++... ....+. ....+.+.+++.++|.|+.|++...
T Consensus 74 ~~~~~~~~~v~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~i~tgH~~dD 132 (298)
T COG0037 74 CEKLGIPLIVERVTDDLGRETLDGKSICAACRRLRRGLLYKIAKELGADKIATGHHLDD 132 (298)
T ss_pred HHHhCCceEEEEEEeeccccccCCCChhHHHHHHHHHHHHHHHHHcCCCeEEeccCcHH
Confidence 4444543211 111111 1234667799999999999987633
No 27
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=96.20 E-value=0.08 Score=37.08 Aligned_cols=106 Identities=12% Similarity=0.027 Sum_probs=63.9
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
-.++++..|++.|+++..+.+. .+++++++=+..... ...+.++..+-.+.++-
T Consensus 33 ~iN~~D~~AlE~Alrlke~~~g-~~Vtvvs~Gp~~a~~-------------------------~~~lr~aLAmGaD~avl 86 (256)
T PRK03359 33 KISQYDLNAIEAACQLKQQAAE-AQVTALSVGGKALTN-------------------------AKGRKDVLSRGPDELIV 86 (256)
T ss_pred ccChhhHHHHHHHHHHhhhcCC-CEEEEEEECCcchhh-------------------------HHHHHHHHHcCCCEEEE
Confidence 3578899999999999997521 699999997764221 12223222222222222
Q ss_pred EEEEEecC-C---hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcE
Q 031713 91 AETMTEMG-D---PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPV 146 (154)
Q Consensus 91 ~~~~v~~g-~---~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pv 146 (154)
+.-....| + .+..|..++++.++|||+.|...... -.|.+.-.+......|.
T Consensus 87 i~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~----~tgqvg~~lAe~Lg~P~ 142 (256)
T PRK03359 87 VIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDL----YAQQVGLLVGEILNIPA 142 (256)
T ss_pred EecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccC----CCCcHHHHHHHHhCCCc
Confidence 32222223 3 47778888998899999999764222 23445555666666553
No 28
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.91 E-value=0.22 Score=37.84 Aligned_cols=91 Identities=14% Similarity=0.046 Sum_probs=66.5
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
|..-....+|..|++.|...+ .+|..+++.++..... .........+-|..+.+.+++.|+.
T Consensus 32 DLRl~DN~aL~~A~~~a~~~~--~~vl~vyi~dp~~~~~----------------~~~r~~Fl~esL~~L~~~L~~~g~~ 93 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKKK--LPLHVCFCLVDFFLAA----------------TRRHYFFMLGGLDEVANECERLIIP 93 (454)
T ss_pred chhccCCHHHHHHHHHHHHcC--CCEEEEEEeCCCcccc----------------cHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 344456778888888766544 5899999987643211 1244555666777788888777766
Q ss_pred EEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 91 AETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 91 ~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
. .+..|++.+.|.+++++.+++.|+....
T Consensus 94 L--~v~~g~~~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 94 F--HLLDGPPKELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred e--EEeecChHHHHHHHHHHcCCCEEEEecc
Confidence 5 4568999999999999999999999875
No 29
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=95.55 E-value=0.19 Score=32.55 Aligned_cols=87 Identities=16% Similarity=0.106 Sum_probs=58.0
Q ss_pred EEEEEecCC-----chHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDES-----ECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGR 79 (154)
Q Consensus 5 ~iLv~vd~~-----~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 79 (154)
+|||-++.. +.+..++..|.++++..| .+++++.+=+.... .+.
T Consensus 1 ~ilv~~e~~~~~l~~~~~e~l~~A~~La~~~g--~~v~av~~G~~~~~-----------------------------~~~ 49 (164)
T PF01012_consen 1 NILVFAEHRDGRLNPVSLEALEAARRLAEALG--GEVTAVVLGPAEEA-----------------------------AEA 49 (164)
T ss_dssp EEEEEE-EETCEE-HHHHHHHHHHHHHHHCTT--SEEEEEEEETCCCH-----------------------------HHH
T ss_pred CEEEEEECCCCccCHHHHHHHHHHHHHHhhcC--CeEEEEEEecchhh-----------------------------HHH
Confidence 456666544 789999999999999987 89999987632211 234
Q ss_pred HHHHHHhcCCeEEEEEecC--------ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 80 AKEICAKHGVVAETMTEMG--------DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g--------~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+.+.+..+|.+--+.+... ...+.|.+.+++.++|+|++|+..
T Consensus 50 l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~ 100 (164)
T PF01012_consen 50 LRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTS 100 (164)
T ss_dssp HHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSH
T ss_pred HhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcC
Confidence 4445555777633433221 145678888999999999999753
No 30
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=95.33 E-value=0.31 Score=31.19 Aligned_cols=69 Identities=20% Similarity=0.270 Sum_probs=49.8
Q ss_pred HHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHH---HHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMG-DPKNVICEA---AEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~---a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.++++.+.+++.|++++.++..- ..-+.+.+| +++.+++.||-|+.+...+.+ -+...++.||+=||-
T Consensus 17 ~mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgAAHLPG--------mvAa~T~lPViGVPv 88 (162)
T COG0041 17 TMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGAAHLPG--------MVAAKTPLPVIGVPV 88 (162)
T ss_pred HHHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcchhhcch--------hhhhcCCCCeEeccC
Confidence 34566677778899999999885 445555554 567888899999887554443 355677899999886
Q ss_pred C
Q 031713 152 P 152 (154)
Q Consensus 152 ~ 152 (154)
+
T Consensus 89 ~ 89 (162)
T COG0041 89 Q 89 (162)
T ss_pred c
Confidence 5
No 31
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=95.33 E-value=0.31 Score=34.24 Aligned_cols=102 Identities=16% Similarity=0.142 Sum_probs=66.4
Q ss_pred EecCCchHHHHHHHHHHHcc-cCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 031713 9 AIDESECRHYALQWALENLG-DAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKH 87 (154)
Q Consensus 9 ~vd~~~~~~~~l~~a~~la~-~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 87 (154)
+...++.+..|++.|+++.. ..+ .+++++++=++... ..+.. +-..
T Consensus 32 ~~~in~~D~~AvEeAlrLke~~~~--~eV~vlt~Gp~~a~---------------------------~~lr~----aLAm 78 (260)
T COG2086 32 PLSINPFDLNAVEEALRLKEKGYG--GEVTVLTMGPPQAE---------------------------EALRE----ALAM 78 (260)
T ss_pred CcccChhhHHHHHHHHHhhccCCC--ceEEEEEecchhhH---------------------------HHHHH----HHhc
Confidence 44557889999999999999 566 89999999665321 11222 3334
Q ss_pred CCeEEEEEe----cC-C---hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 88 GVVAETMTE----MG-D---PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 88 ~~~~~~~v~----~g-~---~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
|.+--..+. .+ + .+..|...++..+.|||++|...- .. -.|.+...+......|.+
T Consensus 79 GaDraili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa~-D~---~t~qvg~~lAe~Lg~P~~ 142 (260)
T COG2086 79 GADRAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQAI-DG---DTGQVGPLLAELLGWPQV 142 (260)
T ss_pred CCCeEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEecccc-cC---CccchHHHHHHHhCCcee
Confidence 666333333 23 2 577888889999999999997642 22 234555556666666644
No 32
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=95.31 E-value=0.41 Score=36.29 Aligned_cols=66 Identities=11% Similarity=0.053 Sum_probs=46.9
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHc-ccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENL-GDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la-~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
-++|+|++.+...|..++.....+. ...+ -+++++||....... .++..+.+.
T Consensus 15 ~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~--~~l~a~hvnhglr~~------------------------s~~~~~~~~ 68 (436)
T PRK10660 15 SRQILVAFSGGLDSTVLLHLLVQWRTENPG--VTLRAIHVHHGLSPN------------------------ADSWVKHCE 68 (436)
T ss_pred CCeEEEEecCCHHHHHHHHHHHHHHHhcCC--CeEEEEEEeCCCCcc------------------------hHHHHHHHH
Confidence 3789999999999998888776654 2234 689999997664321 233445667
Q ss_pred HHHHhcCCeEEEE
Q 031713 82 EICAKHGVVAETM 94 (154)
Q Consensus 82 ~~~~~~~~~~~~~ 94 (154)
+.|++.|+++...
T Consensus 69 ~~~~~l~i~~~~~ 81 (436)
T PRK10660 69 QVCQQWQVPLVVE 81 (436)
T ss_pred HHHHHcCCcEEEE
Confidence 7788888886553
No 33
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=95.09 E-value=0.43 Score=30.78 Aligned_cols=69 Identities=20% Similarity=0.302 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHH---HhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMG-DPKNVICEAA---EKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a---~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+++...+++.|++++..+..- ...+.+.+++ ++.+++.+|.++...+.+. .-+...++.||+-||.
T Consensus 13 ~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa~Lp--------gvva~~t~~PVIgvP~ 84 (156)
T TIGR01162 13 TMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAAHLP--------GMVAALTPLPVIGVPV 84 (156)
T ss_pred HHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccchhH--------HHHHhccCCCEEEecC
Confidence 45667777788899999998775 4445555554 5567899888886544333 4466778899999886
Q ss_pred C
Q 031713 152 P 152 (154)
Q Consensus 152 ~ 152 (154)
+
T Consensus 85 ~ 85 (156)
T TIGR01162 85 P 85 (156)
T ss_pred C
Confidence 4
No 34
>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=94.97 E-value=0.68 Score=31.10 Aligned_cols=112 Identities=14% Similarity=0.109 Sum_probs=63.4
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICA 85 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 85 (154)
++|.-.+.-=...+...|.++... + .++.++......... .++++..++
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~~~-~--~~v~lis~D~~R~ga----------------------------~eQL~~~a~ 53 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLKLK-G--KKVALISADTYRIGA----------------------------VEQLKTYAE 53 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT-T----EEEEEESTSSTHH----------------------------HHHHHHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHhhc-c--ccceeecCCCCCccH----------------------------HHHHHHHHH
Confidence 344455555566677788877776 5 788888864443222 345555555
Q ss_pred hcCCeEEEEEecCChhhHH---HHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc-CCCcEEEE
Q 031713 86 KHGVVAETMTEMGDPKNVI---CEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN-AKCPVLVV 149 (154)
Q Consensus 86 ~~~~~~~~~v~~g~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~-~~~pvliv 149 (154)
..|+++...-...++.+.+ ++..+..++|+|++.+.|++........... .++.. .+..+++|
T Consensus 54 ~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~vlIDT~Gr~~~d~~~~~el~-~~~~~~~~~~~~LV 120 (196)
T PF00448_consen 54 ILGVPFYVARTESDPAEIAREALEKFRKKGYDLVLIDTAGRSPRDEELLEELK-KLLEALNPDEVHLV 120 (196)
T ss_dssp HHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEEEEEE-SSSSTHHHHHHHHH-HHHHHHSSSEEEEE
T ss_pred HhccccchhhcchhhHHHHHHHHHHHhhcCCCEEEEecCCcchhhHHHHHHHH-HHhhhcCCccceEE
Confidence 5576654422223455544 3445567899999999998877654444443 33333 34445444
No 35
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=94.87 E-value=0.35 Score=31.36 Aligned_cols=115 Identities=17% Similarity=0.102 Sum_probs=68.2
Q ss_pred CchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEE
Q 031713 13 SECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAE 92 (154)
Q Consensus 13 ~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 92 (154)
.-....+|..|+ ..+ .++..+++.++..... . ...........+-+..+.+.+++.|+.
T Consensus 10 Rl~DN~aL~~A~----~~~--~~v~~vfv~d~~~~~~--------~-----~~~~~r~~Fl~~sL~~L~~~L~~~g~~-- 68 (165)
T PF00875_consen 10 RLHDNPALHAAA----QNG--DPVLPVFVFDPEEFHP--------Y-----RIGPRRRRFLLESLADLQESLRKLGIP-- 68 (165)
T ss_dssp SSTT-HHHHHHH----HTT--SEEEEEEEE-HHGGTT--------C-----SSCHHHHHHHHHHHHHHHHHHHHTTS---
T ss_pred chhhhHHHHHHH----HcC--CCeEEEEEeccccccc--------c-----cCcchHHHHHHHHHHHHHHHHHhcCcc--
Confidence 334556777663 223 5899999988862110 0 001234445566677777777777755
Q ss_pred EEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 93 TMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 93 ~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
..+..|++.+.+.+++++.+++.|+....- +...... .....+.+...++++..+.
T Consensus 69 L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~-~~~~~~r-d~~v~~~l~~~~i~~~~~~ 124 (165)
T PF00875_consen 69 LLVLRGDPEEVLPELAKEYGATAVYFNEEY-TPYERRR-DERVRKALKKHGIKVHTFD 124 (165)
T ss_dssp EEEEESSHHHHHHHHHHHHTESEEEEE----SHHHHHH-HHHHHHHHHHTTSEEEEE-
T ss_pred eEEEecchHHHHHHHHHhcCcCeeEecccc-CHHHHHH-HHHHHHHHHhcceEEEEEC
Confidence 567789999999999999999999988653 3333222 2233445555567766554
No 36
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=94.79 E-value=0.5 Score=31.60 Aligned_cols=82 Identities=17% Similarity=0.172 Sum_probs=56.9
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEI 83 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 83 (154)
++|.|-+.++-+...++--|+. ....+ +++.++-...... ...++
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~-~~~~~--a~i~~Visd~~~A--------------------------------~~ler 45 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIK-GGKLD--AEIVAVISDKADA--------------------------------YALER 45 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHh-cCCCC--cEEEEEEeCCCCC--------------------------------HHHHH
Confidence 4788999999998888888886 33323 6777665544432 22344
Q ss_pred HHhcCCeEEEEEecCC-----hhhHHHHHHHhcCCCEEEEec
Q 031713 84 CAKHGVVAETMTEMGD-----PKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g~-----~~~~i~~~a~~~~~dlivlg~ 120 (154)
+++.|++....-..+- ..++|.+..++.++|+||+.-
T Consensus 46 A~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAG 87 (200)
T COG0299 46 AAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAG 87 (200)
T ss_pred HHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcc
Confidence 4567888654443332 678899999999999999964
No 37
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=94.68 E-value=0.52 Score=30.25 Aligned_cols=70 Identities=11% Similarity=0.121 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhc---CCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKH---KIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~---~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+++...+++.|+.++..+..- ...+.+.+++++. +++.+|.++...+.+ ..-+...++.||+-||
T Consensus 14 ~~~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a~L--------pgvva~~t~~PVIgvP 85 (150)
T PF00731_consen 14 PIAEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSAAL--------PGVVASLTTLPVIGVP 85 (150)
T ss_dssp HHHHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS--H--------HHHHHHHSSS-EEEEE
T ss_pred HHHHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcccc--------hhhheeccCCCEEEee
Confidence 345677777888899999988775 4566777776654 578888887644333 3446667789999998
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
..
T Consensus 86 ~~ 87 (150)
T PF00731_consen 86 VS 87 (150)
T ss_dssp E-
T ss_pred cC
Confidence 54
No 38
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=94.50 E-value=1.1 Score=32.37 Aligned_cols=93 Identities=10% Similarity=0.039 Sum_probs=59.2
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
+.+++|++.+...|..++..+.......+ .++.++|+....... +.++-..+
T Consensus 27 f~~~vv~~SGGKDS~VLL~La~ka~~~~~--~~~~vl~iDTG~~Fp--------------------------Et~ef~d~ 78 (301)
T PRK05253 27 FENPVMLYSIGKDSSVMLHLARKAFYPGK--LPFPLLHVDTGWKFP--------------------------EMIEFRDR 78 (301)
T ss_pred CCCEEEEecCCHHHHHHHHHHHHhhcccC--CCeeEEEEeCCCCCH--------------------------HHHHHHHH
Confidence 57899999999999988888876554323 478899997654211 11112223
Q ss_pred HHHhcCCeEEEEEe-----cC-Ch-------------hhHHHHHHHhcCCCEEEEecCCC
Q 031713 83 ICAKHGVVAETMTE-----MG-DP-------------KNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 83 ~~~~~~~~~~~~v~-----~g-~~-------------~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
.++..|+++.+... .| .+ ...+.++++++++|.++.|.+..
T Consensus 79 ~a~~~gl~l~v~~~~~~i~~g~~~~~~~~~~cC~~lK~~pL~~al~e~g~da~~~G~RrD 138 (301)
T PRK05253 79 RAKELGLELIVHSNPEGIARGINPFRHGSAKHTNAMKTEGLKQALEKYGFDAAFGGARRD 138 (301)
T ss_pred HHHHhCCCEEEEeChHHHhcCCCCCCCChHHHHHHHHHHHHHHHHHHcCCCEEEeccccc
Confidence 34455776544321 12 11 14566788889999999999753
No 39
>PRK13820 argininosuccinate synthase; Provisional
Probab=94.39 E-value=1.5 Score=32.81 Aligned_cols=38 Identities=18% Similarity=0.038 Sum_probs=29.1
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCC-eEEEEEeccC
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKS-DLIIFTARPT 44 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~-~l~~l~v~~~ 44 (154)
++++|+|++.+.-.|..++.++.+ .+| . +++.+|+...
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e---~~g--~~~Viav~vd~g 39 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKE---KYG--YDEVITVTVDVG 39 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHH---hcC--CCEEEEEEEECC
Confidence 468999999999888888877643 234 4 8999999654
No 40
>PRK10867 signal recognition particle protein; Provisional
Probab=93.47 E-value=2.6 Score=32.04 Aligned_cols=91 Identities=15% Similarity=0.112 Sum_probs=52.0
Q ss_pred EecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 031713 9 AIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHG 88 (154)
Q Consensus 9 ~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 88 (154)
...++-=+..+...|..+++..| .++.++........ ..+++....+..|
T Consensus 107 G~~GsGKTTtaakLA~~l~~~~G--~kV~lV~~D~~R~a----------------------------a~eQL~~~a~~~g 156 (433)
T PRK10867 107 GLQGAGKTTTAGKLAKYLKKKKK--KKVLLVAADVYRPA----------------------------AIEQLKTLGEQIG 156 (433)
T ss_pred CCCCCcHHHHHHHHHHHHHHhcC--CcEEEEEccccchH----------------------------HHHHHHHHHhhcC
Confidence 33444446667777777766534 57777765443211 1233344445567
Q ss_pred CeEEEEEecCChhh---HHHHHHHhcCCCEEEEecCCCCCcccc
Q 031713 89 VVAETMTEMGDPKN---VICEAAEKHKIQLLIVGSHSRGPIQRA 129 (154)
Q Consensus 89 ~~~~~~v~~g~~~~---~i~~~a~~~~~dlivlg~~~~~~~~~~ 129 (154)
+++...-...+|.. ..++.++..++|+||+.+.|+......
T Consensus 157 v~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~ 200 (433)
T PRK10867 157 VPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEE 200 (433)
T ss_pred CeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHH
Confidence 77544322234433 334566777899999999987765443
No 41
>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=93.44 E-value=1.9 Score=30.19 Aligned_cols=89 Identities=17% Similarity=0.142 Sum_probs=54.4
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
.+++++|++++.-.|..++..+.+. | .++..+|+...... ....+.+.
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~----g--~~v~av~~~~~~~~--------------------------~~e~~~a~ 58 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA----G--TEVLAITVVSPSIS--------------------------PRELEDAI 58 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh----C--CCEEEEEecCCCCC--------------------------HHHHHHHH
Confidence 3578999999998888777766553 5 57888988643211 01122334
Q ss_pred HHHHhcCCeEEEEEec------------------CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 82 EICAKHGVVAETMTEM------------------GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~------------------g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+.++..|++....-.. ......+.+.|++.+++.|+.|++.
T Consensus 59 ~~a~~lgi~~~ii~~~~~~~~~~~n~~~~c~~ck~~~~~~l~~~A~~~g~~~I~~G~n~ 117 (252)
T TIGR00268 59 IIAKEIGVNHEFVKIDKMINPFRANVEERCYFCKKMVLSILVKEAEKRGYDVVVDGTNA 117 (252)
T ss_pred HHHHHcCCCEEEEEcHHHHHHHHhCCCcccchhhHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 4444556554332211 0123345678889999999999753
No 42
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=93.02 E-value=2.8 Score=31.71 Aligned_cols=97 Identities=16% Similarity=0.091 Sum_probs=61.7
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
|..-....+|..|++. + .+|..++|.++...... ... .. ............+-++++.+.+++.|++
T Consensus 10 DLRl~DN~aL~~A~~~----~--~~vl~vfi~dp~~~~~~--~~~-~~----~~~~~~r~~Fl~esL~~L~~~L~~~g~~ 76 (429)
T TIGR02765 10 DLRVHDNPALYKASSS----S--DTLIPLYCFDPRQFKLT--HFF-GF----PKTGPARGKFLLESLKDLRTSLRKLGSD 76 (429)
T ss_pred CCccccHHHHHHHHhc----C--CeEEEEEEECchHhccc--ccc-cc----CCCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 4444566778777642 2 37888999886432200 000 00 0011233444556677777778777766
Q ss_pred EEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 91 AETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 91 ~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
. .+..|++.+.|.+.+++.+++.|+.....
T Consensus 77 L--~v~~G~~~~vl~~L~~~~~~~~V~~~~~~ 106 (429)
T TIGR02765 77 L--LVRSGKPEDVLPELIKELGVRTVFLHQEV 106 (429)
T ss_pred e--EEEeCCHHHHHHHHHHHhCCCEEEEeccC
Confidence 5 45679999999999999999999998753
No 43
>TIGR00930 2a30 K-Cl cotransporter.
Probab=92.58 E-value=5.4 Score=33.61 Aligned_cols=95 Identities=17% Similarity=0.082 Sum_probs=65.3
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
++||.+........+++++-.+.+..| -..+.||...+... ..++.+...+++.+.+
T Consensus 577 qiLvl~~~p~~~~~Ll~f~~~l~~~~g---l~i~~~v~~~~~~~--------------------~~~~~~~~~~~~~~~~ 633 (953)
T TIGR00930 577 QCLVLTGPPVCRPALLDFASQFTKGKG---LMICGSVIQGPRLE--------------------CVKEAQAAEAKIQTWL 633 (953)
T ss_pred eEEEEeCCCcCcHHHHHHHHHhccCCc---EEEEEEEecCchhh--------------------hHHHHHHHHHHHHHHH
Confidence 689999988889999999999997654 78888998764221 1222233344455556
Q ss_pred HhcCCeEEEEEecC-ChhhHHHHHHHh-----cCCCEEEEecCC
Q 031713 85 AKHGVVAETMTEMG-DPKNVICEAAEK-----HKIQLLIVGSHS 122 (154)
Q Consensus 85 ~~~~~~~~~~v~~g-~~~~~i~~~a~~-----~~~dlivlg~~~ 122 (154)
+..+++.-..+..+ +..+.+....+. .+++.+++|.+.
T Consensus 634 ~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~~ 677 (953)
T TIGR00930 634 EKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYKK 677 (953)
T ss_pred HHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCcc
Confidence 66777744444444 777777777664 468899999864
No 44
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=92.47 E-value=1.4 Score=33.84 Aligned_cols=90 Identities=11% Similarity=0.101 Sum_probs=59.8
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
|..-....||..|+. .+ .+|.++++.++...... . .........-+-+.++.+.+++.|++
T Consensus 10 DLRl~DN~AL~~A~~----~~--~~vl~vfi~dp~~~~~~-------~------~~~~r~~Fl~esL~~L~~~L~~~G~~ 70 (471)
T TIGR03556 10 DLRLSDNIGLAAARQ----QS--AKVVGLFCLDPNILQAD-------D------MAPARVAYLIGCLQELQQRYQQAGSQ 70 (471)
T ss_pred CCCcchHHHHHHHHh----cC--CCEEEEEEEchhhhccc-------c------CCHHHHHHHHHHHHHHHHHHHHCCCC
Confidence 334456677877764 23 47999999876432110 0 00122344455666777777777766
Q ss_pred EEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 91 AETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 91 ~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
. .+..|++.+.|.+.+++.+++.|+....
T Consensus 71 L--~v~~G~p~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 71 L--LILQGDPVQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred e--EEEECCHHHHHHHHHHHcCCCEEEEecc
Confidence 5 5668999999999999999999998765
No 45
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=92.00 E-value=1.4 Score=29.32 Aligned_cols=35 Identities=11% Similarity=0.066 Sum_probs=27.8
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
+++|++++.++..+-++.++.-.+.+. | .++.++-
T Consensus 1 ~k~Ill~vtGsiaa~~~~~li~~L~~~-g--~~V~vv~ 35 (182)
T PRK07313 1 MKNILLAVSGSIAAYKAADLTSQLTKR-G--YQVTVLM 35 (182)
T ss_pred CCEEEEEEeChHHHHHHHHHHHHHHHC-C--CEEEEEE
Confidence 589999999999999999888877653 5 5766553
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=91.46 E-value=0.79 Score=33.14 Aligned_cols=54 Identities=17% Similarity=0.257 Sum_probs=33.2
Q ss_pred EEecC-ChhhHHHHHHHhc-------CCCEEEEecCCCCCcccc-cccc-hhHHHhhcCCCcEEE
Q 031713 94 MTEMG-DPKNVICEAAEKH-------KIQLLIVGSHSRGPIQRA-FLGS-VSNYCVHNAKCPVLV 148 (154)
Q Consensus 94 ~v~~g-~~~~~i~~~a~~~-------~~dlivlg~~~~~~~~~~-~~gs-~~~~l~~~~~~pvli 148 (154)
..+.| .....|++..+.. .+|+||+++.| +..+.+ .|.+ ..-+-+..+++||+.
T Consensus 49 ~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGG-Gs~eDL~~FN~e~varai~~~~~Pvis 112 (319)
T PF02601_consen 49 ASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGG-GSIEDLWAFNDEEVARAIAASPIPVIS 112 (319)
T ss_pred ccccccchHHHHHHHHHHHHhccccccccEEEEecCC-CChHHhcccChHHHHHHHHhCCCCEEE
Confidence 33446 5677777654432 48999999765 445552 2222 334566788999875
No 47
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=90.97 E-value=5.1 Score=29.72 Aligned_cols=35 Identities=20% Similarity=0.141 Sum_probs=25.5
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEecc
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARP 43 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~ 43 (154)
-++|+|++++.-.|..++..+. ..| .++..+|+..
T Consensus 5 ~~kVlValSGGVDSsvaa~LL~----~~G--~~V~~v~~~~ 39 (360)
T PRK14665 5 NKRVLLGMSGGTDSSVAAMLLL----EAG--YEVTGVTFRF 39 (360)
T ss_pred CCEEEEEEcCCHHHHHHHHHHH----HcC--CeEEEEEEec
Confidence 4689999999988876665443 335 5888888853
No 48
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=90.96 E-value=5.7 Score=30.21 Aligned_cols=96 Identities=19% Similarity=0.165 Sum_probs=63.9
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICA 85 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 85 (154)
.+|.+.++--...+-..|.++-+ .| .++-++...--.+ ...+++.....
T Consensus 104 mmvGLQGsGKTTt~~KLA~~lkk-~~--~kvllVaaD~~Rp----------------------------AA~eQL~~La~ 152 (451)
T COG0541 104 LMVGLQGSGKTTTAGKLAKYLKK-KG--KKVLLVAADTYRP----------------------------AAIEQLKQLAE 152 (451)
T ss_pred EEEeccCCChHhHHHHHHHHHHH-cC--CceEEEecccCCh----------------------------HHHHHHHHHHH
Confidence 45667777666667777777777 55 4666665533322 22456667777
Q ss_pred hcCCeEEEEEecC-Chh---hHHHHHHHhcCCCEEEEecCCCCCcccccccc
Q 031713 86 KHGVVAETMTEMG-DPK---NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGS 133 (154)
Q Consensus 86 ~~~~~~~~~v~~g-~~~---~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs 133 (154)
+.++++-.. ..+ +|. +.=++.+++..+|++|+.+-||-....-+...
T Consensus 153 q~~v~~f~~-~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~E 203 (451)
T COG0541 153 QVGVPFFGS-GTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDE 203 (451)
T ss_pred HcCCceecC-CCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHH
Confidence 778887665 333 444 55567889999999999999988777655443
No 49
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=90.09 E-value=3.8 Score=29.52 Aligned_cols=75 Identities=16% Similarity=0.126 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCC-hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGD-PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~-~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+.+.++.+.++++|......+.+.. .+..+++.+...++|.||.+.. .+. ++.+++-+...-..|+-++|
T Consensus 17 ~~~~~~~~~~~~l~~~g~~~~~~~t~~~g~a~~~a~~a~~~~~D~via~GG-DGT-----v~evingl~~~~~~~LgilP 90 (301)
T COG1597 17 KAKKLLREVEELLEEAGHELSVRVTEEAGDAIEIAREAAVEGYDTVIAAGG-DGT-----VNEVANGLAGTDDPPLGILP 90 (301)
T ss_pred chhhHHHHHHHHHHhcCCeEEEEEeecCccHHHHHHHHHhcCCCEEEEecC-cch-----HHHHHHHHhcCCCCceEEec
Confidence 4567778888888889999888887765 7777888777779999999853 332 23354544443333377777
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
..
T Consensus 91 ~G 92 (301)
T COG1597 91 GG 92 (301)
T ss_pred CC
Confidence 54
No 50
>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=89.54 E-value=4.3 Score=26.66 Aligned_cols=85 Identities=19% Similarity=0.185 Sum_probs=51.4
Q ss_pred EEEEEec---------CCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAID---------ESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALA 75 (154)
Q Consensus 5 ~iLv~vd---------~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (154)
+|||.++ .++.+..++..|.+++. .+ .++.++.+=+...
T Consensus 1 ~ilV~~e~~~~~~~~~l~~~~~e~l~~A~~l~~-~~--~~v~~v~~G~~~~----------------------------- 48 (181)
T cd01985 1 KILVLVEHVPDTAELVLNPLDLEAVEAALRLKE-YG--GEVTALVIGPPAA----------------------------- 48 (181)
T ss_pred CEEEEEEEEcCCCccccCHhhHHHHHHHHHHhh-cC--CeEEEEEECChHH-----------------------------
Confidence 4666666 56777889999999877 44 5776666532210
Q ss_pred HHHHHHHHHHhcCCeEEEEEec----C-C---hhhHHHHHHHhcCCCEEEEecCCC
Q 031713 76 LLGRAKEICAKHGVVAETMTEM----G-D---PKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~----g-~---~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
+.....+..+|..--..+.. + + ..+.|.+.+++.++|+|++|+...
T Consensus 49 --~~~~~~~~~~Gad~v~~~~~~~~~~~~~~~~a~~l~~~i~~~~p~~Vl~g~t~~ 102 (181)
T cd01985 49 --EVALREALAMGADKVLLVEDPALAGYDPEATAKALAALIKKEKPDLILAGATSI 102 (181)
T ss_pred --HHHHHHHHHhCCCEEEEEecCcccCCChHHHHHHHHHHHHHhCCCEEEECCccc
Confidence 01111222356653333321 1 1 257788888888999999998754
No 51
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=89.28 E-value=4.7 Score=30.36 Aligned_cols=36 Identities=14% Similarity=0.120 Sum_probs=28.3
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
..++|++++.++..+-.+.+..-.+-+ .| .++.++-
T Consensus 5 ~~k~IllgvTGsiaa~k~~~lv~~L~~-~g--~~V~vv~ 40 (399)
T PRK05579 5 AGKRIVLGVSGGIAAYKALELVRRLRK-AG--ADVRVVM 40 (399)
T ss_pred CCCeEEEEEeCHHHHHHHHHHHHHHHh-CC--CEEEEEE
Confidence 568999999999999999988877755 45 6766553
No 52
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=89.20 E-value=5.6 Score=27.50 Aligned_cols=46 Identities=13% Similarity=0.107 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+...++.+...+.+.++...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 164 ~KI~~lr~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 164 DRVIQVENRLGNRRVEKLISI-DGSMTLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHHHHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChh
Confidence 334455555556677666555 4555555666777789999999964
No 53
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=88.58 E-value=5.2 Score=27.69 Aligned_cols=53 Identities=15% Similarity=0.263 Sum_probs=38.3
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
+....|.+.+.+.+.|.|++|-.. ....--.-.+.+.+-.+...||++.|...
T Consensus 28 ~~~~ei~~~~~~~GTDaImIGGS~--gvt~~~~~~~v~~ik~~~~lPvilfP~~~ 80 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIGGSD--GVTEENVDNVVEAIKERTDLPVILFPGSP 80 (240)
T ss_pred cccHHHHHHHHHcCCCEEEECCcc--cccHHHHHHHHHHHHhhcCCCEEEecCCh
Confidence 456788899999999999999653 22222233455666668889999998764
No 54
>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=88.45 E-value=5 Score=25.96 Aligned_cols=85 Identities=14% Similarity=0.076 Sum_probs=47.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+++|.+.+...|..++..+.+ .+ .++..+|+....... ... +..+.+.+
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~----~~--~~v~~~~~~~~~~~~-------------------~~~----~~~~~~~~-- 49 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKK----EG--YEVHALSFDYGQRHA-------------------KEE----EAAKLIAE-- 49 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHH----cC--CcEEEEEEECCCCCh-------------------hHH----HHHHHHHH--
Confidence 588999998888877766543 24 478888886532110 000 11122222
Q ss_pred HhcCCeEEEEEecCC-hhhHHHHHHHhcCCCEEEEecCC
Q 031713 85 AKHGVVAETMTEMGD-PKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 85 ~~~~~~~~~~v~~g~-~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
..|...... .... ....+..++++.+++.|++|.+.
T Consensus 50 -~~g~~~~~~-~~~~~~~~~l~~~a~~~g~~~i~~G~~~ 86 (169)
T cd01995 50 -KLGPSTYVP-ARNLIFLSIAAAYAEALGAEAIIIGVNA 86 (169)
T ss_pred -HHCCCEEEe-CcCHHHHHHHHHHHHHCCCCEEEEeecc
Confidence 222111111 1111 23456677899999999999875
No 55
>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=88.38 E-value=9.5 Score=29.08 Aligned_cols=92 Identities=15% Similarity=0.106 Sum_probs=50.8
Q ss_pred EEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031713 7 MVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAK 86 (154)
Q Consensus 7 Lv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 86 (154)
++...++-=+..+...|..+....| .++.++........ ..+++......
T Consensus 104 ~vG~~GsGKTTtaakLA~~l~~~~g--~kV~lV~~D~~R~~----------------------------a~~QL~~~a~~ 153 (428)
T TIGR00959 104 MVGLQGSGKTTTCGKLAYYLKKKQG--KKVLLVACDLYRPA----------------------------AIEQLKVLGQQ 153 (428)
T ss_pred EECCCCCcHHHHHHHHHHHHHHhCC--CeEEEEeccccchH----------------------------HHHHHHHHHHh
Confidence 3333444445666777776654444 46777755443211 12234444455
Q ss_pred cCCeEEEEEecCChhh---HHHHHHHhcCCCEEEEecCCCCCccc
Q 031713 87 HGVVAETMTEMGDPKN---VICEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 87 ~~~~~~~~v~~g~~~~---~i~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
.++++.......+|.+ ..++.+...++|+||+.+.|+.....
T Consensus 154 ~gvp~~~~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~ 198 (428)
T TIGR00959 154 VGVPVFALGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQIDE 198 (428)
T ss_pred cCCceEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccCH
Confidence 5776544322224433 33445666789999999998766543
No 56
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=88.35 E-value=8.9 Score=29.55 Aligned_cols=93 Identities=12% Similarity=0.059 Sum_probs=60.9
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
|..-....+|..|++.+. .+|..++|.++...... ..........-+-+.++.+.+++.|++
T Consensus 11 DLRl~DN~aL~~A~~~~~-----~~vlpvyv~dp~~~~~~-------------~~~~~r~~Fl~esL~~L~~~L~~~g~~ 72 (472)
T PRK10674 11 DLRLHDNLALAAACRDPS-----ARVLALFIATPAQWAAH-------------DMAPRQAAFINAQLNALQIALAEKGIP 72 (472)
T ss_pred CCCcchHHHHHHHHhCCC-----CCEEEEEEECchhhccC-------------CCCHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 444556778877764332 26899999887432110 011233445556677777888887877
Q ss_pred EEEEEe--cCChhhHHHHHHHhcCCCEEEEecC
Q 031713 91 AETMTE--MGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 91 ~~~~v~--~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
...... .|++.+.+.+.+++.+++-|+....
T Consensus 73 L~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 73 LLFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred eEEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 644332 3689999999999999999998764
No 57
>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=88.26 E-value=6.2 Score=26.80 Aligned_cols=82 Identities=20% Similarity=0.097 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHH-hcCCeEEEEEecCC------------hhhHHHHHHHh-cCCCEEEEecCCCCCccc-ccccchhHH
Q 031713 73 ALALLGRAKEICA-KHGVVAETMTEMGD------------PKNVICEAAEK-HKIQLLIVGSHSRGPIQR-AFLGSVSNY 137 (154)
Q Consensus 73 ~~~~l~~~~~~~~-~~~~~~~~~v~~g~------------~~~~i~~~a~~-~~~dlivlg~~~~~~~~~-~~~gs~~~~ 137 (154)
+...++.+.+.++ ..|.++++..+..+ ..+-|++..+. ..-|.|++...-...-.. ++-+-+.+.
T Consensus 108 a~~~l~~~~~~l~~~~~~~v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~~~~~~fLDD~t~~e 187 (204)
T PF04459_consen 108 AYPFLKPLVEKLNRIPGLEVEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLRHGEGVFLDDMTLEE 187 (204)
T ss_pred HHHHHHHHHHHHhccCCCeEEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhcCCCCccCCCCcHHH
Confidence 4556666666662 23666655544332 35556555554 334899998754433333 344778889
Q ss_pred HhhcCCCcEEEEcCCCC
Q 031713 138 CVHNAKCPVLVVRKPVE 154 (154)
Q Consensus 138 l~~~~~~pvliv~~~~~ 154 (154)
+.+..++||.+|+.+.|
T Consensus 188 l~~~lg~~v~vv~~~~~ 204 (204)
T PF04459_consen 188 LEERLGVPVIVVRGPGE 204 (204)
T ss_pred HHHHhCCcEEEeCCCCC
Confidence 99999999999987654
No 58
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=88.18 E-value=7.9 Score=27.95 Aligned_cols=65 Identities=12% Similarity=0.309 Sum_probs=41.9
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccc-hhHHHhhcCCCcEEEEcC
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGS-VSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs-~~~~l~~~~~~pvliv~~ 151 (154)
.+.+.+.+.|+++...+ ..++..+.+ ++|.+++|+.. .+.+-+. .|. ...-..++...|++++-.
T Consensus 161 ~~ak~L~~~gI~~~~I~-----Dsa~~~~~~--~vd~VivGad~I~~nG~lvnk-iGT~~lA~~A~e~~~Pf~v~ae 229 (301)
T COG1184 161 IMAKELRQSGIPVTVIV-----DSAVGAFMS--RVDKVLVGADAILANGALVNK-IGTSPLALAARELRVPFYVVAE 229 (301)
T ss_pred HHHHHHHHcCCceEEEe-----chHHHHHHH--hCCEEEECccceecCCcEEec-cchHHHHHHHHHhCCCEEEEee
Confidence 44556667887776654 345566677 89999999975 2223222 333 334456888899999843
No 59
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=88.14 E-value=2.1 Score=32.46 Aligned_cols=52 Identities=19% Similarity=0.326 Sum_probs=32.8
Q ss_pred ecC-ChhhHHHHHHHhcC---CCEEEEecCCCCCcccc-cccc-hhHHHhhcCCCcEEE
Q 031713 96 EMG-DPKNVICEAAEKHK---IQLLIVGSHSRGPIQRA-FLGS-VSNYCVHNAKCPVLV 148 (154)
Q Consensus 96 ~~g-~~~~~i~~~a~~~~---~dlivlg~~~~~~~~~~-~~gs-~~~~l~~~~~~pvli 148 (154)
+.| .....|++..+..+ +|+||+++.| +..+.+ .|.. ..-+-+..|++||+.
T Consensus 172 vQG~~A~~~i~~al~~~~~~~~Dviii~RGG-GS~eDL~~Fn~e~v~~ai~~~~~Pvis 229 (438)
T PRK00286 172 VQGEGAAASIVAAIERANARGEDVLIVARGG-GSLEDLWAFNDEAVARAIAASRIPVIS 229 (438)
T ss_pred CcCccHHHHHHHHHHHhcCCCCCEEEEecCC-CCHHHhhccCcHHHHHHHHcCCCCEEE
Confidence 446 57777777554433 5999999765 445553 2222 334566788999875
No 60
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=88.05 E-value=7.5 Score=30.02 Aligned_cols=35 Identities=14% Similarity=-0.016 Sum_probs=28.5
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
-++|++.+.++-.+-++.+..-.+.+ .| .+++++-
T Consensus 70 ~k~IllgVtGsIAayka~~lvr~L~k-~G--~~V~Vvm 104 (475)
T PRK13982 70 SKRVTLIIGGGIAAYKALDLIRRLKE-RG--AHVRCVL 104 (475)
T ss_pred CCEEEEEEccHHHHHHHHHHHHHHHh-Cc--CEEEEEE
Confidence 58999999999999999998888765 35 6766654
No 61
>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=87.95 E-value=8.2 Score=27.83 Aligned_cols=41 Identities=5% Similarity=-0.078 Sum_probs=31.0
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
+.+.++++.+...|..++..+.+.....+ .++.++|+....
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~--~p~~vl~IDTG~ 59 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGP--LPFPLLHVDTGW 59 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccC--CCeEEEEEecCC
Confidence 45678889999999989988876655433 578999996654
No 62
>PRK11914 diacylglycerol kinase; Reviewed
Probab=87.86 E-value=5.6 Score=28.56 Aligned_cols=71 Identities=15% Similarity=0.129 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+..+++.+.+++.+.++....... .-+..+.+.+.+.++|+||+.- |.+.+. .+++.+. ..+.|+-++|..
T Consensus 26 ~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~~~~~~d~vvv~G-GDGTi~-----evv~~l~-~~~~~lgiiP~G 97 (306)
T PRK11914 26 HAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAALAKGTDALVVVG-GDGVIS-----NALQVLA-GTDIPLGIIPAG 97 (306)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHhcCCCEEEEEC-CchHHH-----HHhHHhc-cCCCcEEEEeCC
Confidence 334455566667787766555443 4566666666667889877653 334333 2344443 456889998864
No 63
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=87.43 E-value=6.3 Score=32.40 Aligned_cols=41 Identities=22% Similarity=0.098 Sum_probs=33.3
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCch
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFI 47 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~ 47 (154)
+|-+..-+.+.+..|+.++.+++++.. ..+++++..+....
T Consensus 616 ~v~~lF~GG~DDrEALa~~~rm~~~~~--v~lTVirf~~~~~~ 656 (769)
T KOG1650|consen 616 KVVVLFLGGKDDREALALAKRMAENPR--VTLTVIRFFPDESK 656 (769)
T ss_pred EEEEEecCChhhHHHHHHHHHHhhCCc--eEEEEEEeeccchh
Confidence 566667777778889999999999865 89999999887643
No 64
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=87.26 E-value=5.5 Score=31.57 Aligned_cols=70 Identities=19% Similarity=0.231 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecC-ChhhHH---HHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMG-DPKNVI---CEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
..++++...+++.|++++..+..- ...+.+ ++.+++.+++.||.++...+.+. .-+...+.+||+-||
T Consensus 424 ~~~~~~~~~l~~~g~~~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ag~~~~l~--------~~~a~~t~~pvi~vp 495 (577)
T PLN02948 424 PTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAHSRGLQVIIAGAGGAAHLP--------GMVASMTPLPVIGVP 495 (577)
T ss_pred HHHHHHHHHHHHcCCCeEEEEECCccCHHHHHHHHHHHHHCCCCEEEEEcCccccch--------HHHhhccCCCEEEcC
Confidence 456777888888999999888774 333333 44556678999888886544443 445667789999988
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
.+
T Consensus 496 ~~ 497 (577)
T PLN02948 496 VK 497 (577)
T ss_pred CC
Confidence 64
No 65
>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=87.05 E-value=12 Score=28.63 Aligned_cols=54 Identities=17% Similarity=0.186 Sum_probs=31.9
Q ss_pred HHHHHHHhcCCeEEEEEecCChhh---HHHHHHHhcCCCEEEEecCCCCCccccccc
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKN---VICEAAEKHKIQLLIVGSHSRGPIQRAFLG 132 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~---~i~~~a~~~~~dlivlg~~~~~~~~~~~~g 132 (154)
++....+..++++.......+|.. .-++.++..++|+|++.+.|+......+..
T Consensus 146 QLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~ 202 (429)
T TIGR01425 146 QLKQNATKARIPFYGSYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFE 202 (429)
T ss_pred HHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHH
Confidence 333444445666644333335543 234455667899999999988766554443
No 66
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=86.93 E-value=7.4 Score=26.26 Aligned_cols=43 Identities=12% Similarity=-0.004 Sum_probs=33.3
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
|++-.|++......+....++.+++-++..| +++.++++.+..
T Consensus 1 mki~~I~gs~r~~G~t~~l~~~~~~g~~~~G--~E~~~i~v~~~~ 43 (207)
T COG0655 1 MKILGINGSPRSNGNTAKLAEAVLEGAEEAG--AEVEIIRLPEKN 43 (207)
T ss_pred CeeeEEEecCCCCCcHHHHHHHHHHHHHHcC--CEEEEEEecCCC
Confidence 4555566666556778888999999999877 899999998764
No 67
>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=86.91 E-value=7.4 Score=26.25 Aligned_cols=83 Identities=16% Similarity=0.174 Sum_probs=49.5
Q ss_pred EEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 031713 8 VAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKH 87 (154)
Q Consensus 8 v~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 87 (154)
++.-.++++..++..+..+++..+ .++.++.+-.... +.....+..+
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g--~~v~av~~G~~~~-------------------------------~~~~~~l~~~ 75 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYG--GEVTVVSMGPPQA-------------------------------EEALREALAM 75 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcC--CEEEEEEECCHHH-------------------------------HHHHHHHHHc
Confidence 344456778888999999988765 6777766532200 1111112345
Q ss_pred CCeEEEEEecC--------ChhhHHHHHHHhcCCCEEEEecCCC
Q 031713 88 GVVAETMTEMG--------DPKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 88 ~~~~~~~v~~g--------~~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
|..--+.+... ...+.|.+.+++.++|+|++|+...
T Consensus 76 G~d~V~~~~~~~~~~~~~e~~a~al~~~i~~~~p~lVL~~~t~~ 119 (202)
T cd01714 76 GADRAILVSDRAFAGADTLATAKALAAAIKKIGVDLILTGKQSI 119 (202)
T ss_pred CCCEEEEEecccccCCChHHHHHHHHHHHHHhCCCEEEEcCCcc
Confidence 66422322211 1245677778888899999998754
No 68
>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=86.85 E-value=5.1 Score=26.50 Aligned_cols=33 Identities=18% Similarity=0.138 Sum_probs=25.1
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEE
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIF 39 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l 39 (154)
++|+|++.++..+..+.+..-.+-+ .| .+++++
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~L~~-~g--~~V~vi 33 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQLTK-LG--YDVTVL 33 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHHHHH-CC--CEEEEE
Confidence 6899999999999988876666654 35 576654
No 69
>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=86.74 E-value=6.7 Score=26.33 Aligned_cols=115 Identities=17% Similarity=0.096 Sum_probs=58.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+++|++.+...|.-++..+.+ .| -++..+++..+..... . . .....++.+...+
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G--~~v~~l~~~~~~~~~~------------------~-~-~h~~~~e~~~~~A 54 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EG--HEVVALLNLTPEEGSS------------------M-M-YHTVNHELLELQA 54 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cC--CEEEEEEEEecCCCCc------------------c-c-ccccCHHHHHHHH
Confidence 478899998888877766665 34 4666666654322110 0 0 0001233445555
Q ss_pred HhcCCeEEEEEecC---ChhhHHH----HHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 85 AKHGVVAETMTEMG---DPKNVIC----EAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 85 ~~~~~~~~~~v~~g---~~~~~i~----~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
+..|++....-..+ +..+.+. +..++ +++.++-|.-- ....+.+..++++++=-.+-.|+|
T Consensus 55 ~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~-sd~~~~~~e~~~~~~gl~~~~PLW 122 (194)
T cd01994 55 EAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFGAIL-SEYQRTRVERVCERLGLEPLAPLW 122 (194)
T ss_pred HHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEECccc-cHHHHHHHHHHHHHcCCEEEeccc
Confidence 66788765443222 2233333 33333 69999999863 223333333344433333335554
No 70
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=86.72 E-value=8.3 Score=26.58 Aligned_cols=45 Identities=16% Similarity=0.039 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+.++++...+.+.++...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 157 KI~~l~~~~~~~~~~~~IeV-DGGI~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 157 KLRAIRKKIDALGKPIRLEI-DGGVKADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred HHHHHHHHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEChh
Confidence 34455555555566665555 4555555666677779999999964
No 71
>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=86.43 E-value=3.9 Score=25.76 Aligned_cols=61 Identities=16% Similarity=0.126 Sum_probs=42.0
Q ss_pred EEEEEec--CChhhHHHHHHHhcCCCEEEEecCCCC----CcccccccchhHHHhhcC-CCcEEEEcC
Q 031713 91 AETMTEM--GDPKNVICEAAEKHKIQLLIVGSHSRG----PIQRAFLGSVSNYCVHNA-KCPVLVVRK 151 (154)
Q Consensus 91 ~~~~v~~--g~~~~~i~~~a~~~~~dlivlg~~~~~----~~~~~~~gs~~~~l~~~~-~~pvliv~~ 151 (154)
..+.... +...+.|.+.+++.+++.||+|-.-.. .-.....-.+++.|-... ++||..+-+
T Consensus 28 l~~i~~~~~~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DE 95 (135)
T PF03652_consen 28 LETIPRRNREKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDE 95 (135)
T ss_dssp EEEEEECCCCCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEEC
T ss_pred eEEEECCCCchHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECC
Confidence 3444444 368999999999999999999985321 112223445667777776 799988854
No 72
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=86.37 E-value=2 Score=27.15 Aligned_cols=52 Identities=13% Similarity=0.052 Sum_probs=35.7
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCC----CCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSR----GPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~----~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+.|.+++++.+++.||+|-.-. ..........+++.|-...++||..+-+
T Consensus 42 ~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DE 97 (138)
T PRK00109 42 DWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDE 97 (138)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 478899999999999999995422 1111123345667777777899888754
No 73
>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=86.33 E-value=7.8 Score=25.90 Aligned_cols=86 Identities=20% Similarity=0.200 Sum_probs=51.9
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICA 85 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 85 (154)
|+|++.+...|..++..+.+. .+ .++..+|+...... ....+.+...++
T Consensus 1 vvva~SGG~DS~~ll~ll~~~---~~--~~v~~v~vd~g~~~--------------------------~~~~~~~~~~a~ 49 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDA---LG--DRVLAVTATSPLFP--------------------------RRELEEAKRLAK 49 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHH---hC--CcEEEEEeCCCCCC--------------------------HHHHHHHHHHHH
Confidence 578898888888777655443 22 37888888655311 122334445555
Q ss_pred hcCCeEEEEEec-----------------C--ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 86 KHGVVAETMTEM-----------------G--DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 86 ~~~~~~~~~v~~-----------------g--~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
..|++....-.. . -....+.+++++.+++.|+.|++.
T Consensus 50 ~lgi~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~a~~~g~~~I~~G~~~ 105 (202)
T cd01990 50 EIGIRHEVIETDELDDPEFAKNPPDRCYLCKKALYEALKEIAEELGLDVVLDGTNA 105 (202)
T ss_pred HcCCcEEEEeCCccccHHHhcCCCCccchhHHHHHHHHHHHHHHCCCCEEEEcCcc
Confidence 566664432221 0 122355578899999999999864
No 74
>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=86.09 E-value=2.6 Score=25.03 Aligned_cols=65 Identities=9% Similarity=0.039 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+++++.+++.|++++.... ....+..... ++|++++|..-+..+. ...........||.+++.
T Consensus 16 la~km~~~a~~~gi~~~i~a~---~~~e~~~~~~--~~Dvill~PQv~~~~~------~i~~~~~~~~ipv~~I~~ 80 (99)
T cd05565 16 LANALNKGAKERGVPLEAAAG---AYGSHYDMIP--DYDLVILAPQMASYYD------ELKKDTDRLGIKLVTTTG 80 (99)
T ss_pred HHHHHHHHHHHCCCcEEEEEe---eHHHHHHhcc--CCCEEEEcChHHHHHH------HHHHHhhhcCCCEEEeCH
Confidence 345667777788988765432 3334555566 8899999976332222 235566667789988863
No 75
>PRK14057 epimerase; Provisional
Probab=85.99 E-value=9.9 Score=26.79 Aligned_cols=46 Identities=9% Similarity=-0.022 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+.+.++.+...+.+..+...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 178 ~KI~~lr~~~~~~~~~~~IeV-DGGI~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 178 ERVAQLLCLLGDKREGKIIVI-DGSLTQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred HHHHHHHHHHHhcCCCceEEE-ECCCCHHHHHHHHHCCCCEEEEChH
Confidence 344455555556676666655 5555555666667779999999964
No 76
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=85.89 E-value=13 Score=28.22 Aligned_cols=56 Identities=4% Similarity=0.120 Sum_probs=31.1
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccch
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSV 134 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~ 134 (154)
++....+..|+++.......+..+.|..+.+..++|+|++.+.|++......+...
T Consensus 287 QLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL 342 (436)
T PRK11889 287 QLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEM 342 (436)
T ss_pred HHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHH
Confidence 34444445576654332222344444444444579999999998876554444444
No 77
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=85.72 E-value=4.2 Score=30.93 Aligned_cols=53 Identities=23% Similarity=0.374 Sum_probs=32.2
Q ss_pred ecC-ChhhHHHHHHH----hcCCCEEEEecCCCCCcccc-cccc-hhHHHhhcCCCcEEEE
Q 031713 96 EMG-DPKNVICEAAE----KHKIQLLIVGSHSRGPIQRA-FLGS-VSNYCVHNAKCPVLVV 149 (154)
Q Consensus 96 ~~g-~~~~~i~~~a~----~~~~dlivlg~~~~~~~~~~-~~gs-~~~~l~~~~~~pvliv 149 (154)
+.| .....|+...+ ..++|+||+++.| +..+.+ .|.. ..-+-+..|++||+.-
T Consensus 166 vQG~~a~~~i~~al~~~~~~~~~dviii~RGG-Gs~eDL~~Fn~e~~~rai~~~~~Pvis~ 225 (432)
T TIGR00237 166 VQGEGAVQSIVESIELANTKNECDVLIVGRGG-GSLEDLWSFNDEKVARAIFLSKIPIISA 225 (432)
T ss_pred ccCccHHHHHHHHHHHhhcCCCCCEEEEecCC-CCHHHhhhcCcHHHHHHHHcCCCCEEEe
Confidence 446 56677766543 2347999999765 445552 2322 3335567889998753
No 78
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=85.66 E-value=9.7 Score=26.38 Aligned_cols=47 Identities=17% Similarity=0.207 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
-+...++++...+.+.++...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 153 l~KI~~lr~~~~~~~~~~~IeV-DGGI~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 153 LDKIAELKALRERNGLEYLIEV-DGSCNQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHHHHHHhcCCCeEEEE-ECCCCHHHHHHHHHcCCCEEEEChH
Confidence 3444555566666677766666 4444455555666679999999964
No 79
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=85.54 E-value=11 Score=26.99 Aligned_cols=83 Identities=10% Similarity=0.260 Sum_probs=51.0
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
.+||.|.+.++.++..++-.+..- ...+ +++.++-.... .+..
T Consensus 89 ~~ri~vl~Sg~gsnl~al~~~~~~-~~~~--~~i~~visn~~----------------------------------~~~~ 131 (286)
T PRK06027 89 RKRVVILVSKEDHCLGDLLWRWRS-GELP--VEIAAVISNHD----------------------------------DLRS 131 (286)
T ss_pred CcEEEEEEcCCCCCHHHHHHHHHc-CCCC--cEEEEEEEcCh----------------------------------hHHH
Confidence 457888888887777777655432 2222 56555544221 1122
Q ss_pred HHHhcCCeEEEEEec----CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 83 ICAKHGVVAETMTEM----GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~----g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.+++.|+++...-.. .+....+.+..++.++|++|+....
T Consensus 132 lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy~ 175 (286)
T PRK06027 132 LVERFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARYM 175 (286)
T ss_pred HHHHhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecch
Confidence 256678886552211 2356678888999999999998753
No 80
>PLN00200 argininosuccinate synthase; Provisional
Probab=85.25 E-value=14 Score=27.94 Aligned_cols=37 Identities=24% Similarity=0.298 Sum_probs=28.7
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
+++|+|++.+.-.|..++.++.+ ..| .+++.+|+...
T Consensus 5 ~~kVvva~SGGlDSsvla~~L~e---~~G--~eViav~id~G 41 (404)
T PLN00200 5 LNKVVLAYSGGLDTSVILKWLRE---NYG--CEVVCFTADVG 41 (404)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHH---hhC--CeEEEEEEECC
Confidence 57999999999888877776654 235 68999998655
No 81
>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=84.98 E-value=7.7 Score=24.66 Aligned_cols=38 Identities=16% Similarity=0.156 Sum_probs=27.5
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
+|+|++.+...|..++..+.+..... .++.++|+....
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~---~~~~~v~~dtg~ 38 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL---KPVPVIFLDTGY 38 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc---cCceEEEeCCCC
Confidence 57899999999988887776654431 268888886543
No 82
>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=84.75 E-value=6.1 Score=23.27 Aligned_cols=34 Identities=18% Similarity=0.020 Sum_probs=24.9
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
|+|++.+...|..++..+.++ + .++.++|+....
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~----~--~~~~~~~~~~~~ 34 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKL----G--YQVIAVTVDHGI 34 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHh----C--CCEEEEEEcCCC
Confidence 578999988888777666543 3 378889887664
No 83
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=84.48 E-value=1.1 Score=26.72 Aligned_cols=24 Identities=25% Similarity=0.427 Sum_probs=20.7
Q ss_pred CChhhHHHHHHHhcCCCEEEEecC
Q 031713 98 GDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 98 g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
-.-.+.|.+++++.++|++|+|..
T Consensus 48 ~~d~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 48 ITDPEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp TT-HHHHHHHHHHTTESEEEESSH
T ss_pred CCCHHHHHHHHHHcCCCEEEECCh
Confidence 367889999999999999999975
No 84
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=84.32 E-value=11 Score=27.01 Aligned_cols=48 Identities=15% Similarity=0.240 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
...|+...+.+++.|+++...... ..-.+.|.++.++.++|.+|+.-|
T Consensus 115 ~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 163 (287)
T PF05582_consen 115 EEYLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGH 163 (287)
T ss_pred HHHHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCc
Confidence 456788888999999997766655 478899999999999999999755
No 85
>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=84.23 E-value=13 Score=27.36 Aligned_cols=68 Identities=18% Similarity=0.167 Sum_probs=40.9
Q ss_pred HHHHHHHHHhcCCeEEEEEecCCh----hhHHHHHHHhcCCCEEE-EecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDP----KNVICEAAEKHKIQLLI-VGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~----~~~i~~~a~~~~~dliv-lg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+++.+.++..++.+.+.+..|++ ...+.+.+++.++|.|| +|-. +. ..++..+......|++.||-
T Consensus 38 ~~~v~~~l~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavGGG--s~------~D~aK~ia~~~~~p~i~VPT 109 (349)
T cd08550 38 RPRFEAALAKSIIVVDVIVFGGECSTEEVVKALCGAEEQEADVIIGVGGG--KT------LDTAKAVADRLDKPIVIVPT 109 (349)
T ss_pred HHHHHHHHHhcCCeeEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEecCc--HH------HHHHHHHHHHcCCCEEEeCC
Confidence 466667777778776665555542 34456677888999877 5532 11 12333333334689999885
Q ss_pred C
Q 031713 152 P 152 (154)
Q Consensus 152 ~ 152 (154)
.
T Consensus 110 t 110 (349)
T cd08550 110 I 110 (349)
T ss_pred c
Confidence 3
No 86
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=84.13 E-value=11 Score=26.81 Aligned_cols=49 Identities=14% Similarity=0.217 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
...|+...+.+++.++++...... ..-.+.|.++.++.++|++|+.-|.
T Consensus 114 ~~YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGHD 163 (283)
T TIGR02855 114 PEYLRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGHD 163 (283)
T ss_pred HHHHHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCch
Confidence 355778888888899997665555 5788999999999999999997653
No 87
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=84.05 E-value=13 Score=26.57 Aligned_cols=82 Identities=10% Similarity=0.246 Sum_probs=51.8
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
.+||.|.+.++.++..++-.+..- .. .++++.++-...+ .+..
T Consensus 84 ~~ki~vl~Sg~g~nl~~l~~~~~~-g~--l~~~i~~visn~~----------------------------------~~~~ 126 (280)
T TIGR00655 84 LKRVAILVSKEDHCLGDLLWRWYS-GE--LDAEIALVISNHE----------------------------------DLRS 126 (280)
T ss_pred CcEEEEEEcCCChhHHHHHHHHHc-CC--CCcEEEEEEEcCh----------------------------------hHHH
Confidence 468999999999988888776532 22 2255555533222 1111
Q ss_pred HHHhcCCeEEEEEec----CChhhHHHHHHHhcCCCEEEEecC
Q 031713 83 ICAKHGVVAETMTEM----GDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~----g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+++.|+++...-.. ......+.+..++.++|++|+...
T Consensus 127 ~A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 127 LVERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred HHHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 255678886543321 123567888899999999999865
No 88
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=83.90 E-value=14 Score=26.64 Aligned_cols=83 Identities=10% Similarity=0.132 Sum_probs=52.3
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
.+||.|.+.++.++..++-.+.+-- ..+ +++.++ +.... .+.+
T Consensus 93 ~~kiavl~Sg~g~nl~al~~~~~~~-~l~--~~i~~v--isn~~--------------------------------~~~~ 135 (289)
T PRK13010 93 RPKVVIMVSKFDHCLNDLLYRWRMG-ELD--MDIVGI--ISNHP--------------------------------DLQP 135 (289)
T ss_pred CeEEEEEEeCCCccHHHHHHHHHCC-CCC--cEEEEE--EECCh--------------------------------hHHH
Confidence 3578888888888888887775322 222 455544 33310 1124
Q ss_pred HHHhcCCeEEEEEec----CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 83 ICAKHGVVAETMTEM----GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~----g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.+++.|+++...-.. ......+.+..++.++|++|+....
T Consensus 136 ~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagym 179 (289)
T PRK13010 136 LAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARYM 179 (289)
T ss_pred HHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehhh
Confidence 556778886542211 2345678899999999999998653
No 89
>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=83.65 E-value=3.4 Score=24.24 Aligned_cols=66 Identities=11% Similarity=0.125 Sum_probs=40.0
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+.+++.+.+++.|++++..... . ..+..... ++|+|+++..=+..+ ..........++||.++++.
T Consensus 19 l~~k~~~~~~~~gi~~~v~a~~--~-~~~~~~~~--~~Dvill~pqi~~~~------~~i~~~~~~~~ipv~~I~~~ 84 (95)
T TIGR00853 19 LVNKMNKAAEEYGVPVKIAAGS--Y-GAAGEKLD--DADVVLLAPQVAYML------PDLKKETDKKGIPVEVINGA 84 (95)
T ss_pred HHHHHHHHHHHCCCcEEEEEec--H-HHHHhhcC--CCCEEEECchHHHHH------HHHHHHhhhcCCCEEEeChh
Confidence 3456667777788876554322 2 22334444 789999997532211 12355677778999998753
No 90
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=83.26 E-value=7 Score=22.85 Aligned_cols=71 Identities=20% Similarity=0.096 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecC-Chhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMG-DPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g-~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.....+.+.+++.|.....+-+.+ .... .|-.... ++|+||+-+.-- +.- .-..+.+..++..+|++.++.
T Consensus 10 ~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~v---sH~-~~~~vk~~akk~~ip~~~~~~ 83 (97)
T PF10087_consen 10 DRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYV---SHN-AMWKVKKAAKKYGIPIIYSRS 83 (97)
T ss_pred ccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCc---ChH-HHHHHHHHHHHcCCcEEEECC
Confidence 345667777778898876662222 2333 3666677 999999987532 211 112456677888899999874
No 91
>PRK08185 hypothetical protein; Provisional
Probab=82.58 E-value=7 Score=28.01 Aligned_cols=66 Identities=9% Similarity=0.028 Sum_probs=45.7
Q ss_pred HHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 84 CAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
.++.+.-+----... ...+++++.|++.+..+|+..+.+.-......+......+.+++.+||.+-
T Consensus 8 A~~~~yaV~AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~a~~~~vPV~lH 74 (283)
T PRK08185 8 AKEHQFAVGAFNVADSCFLRAVVEEAEANNAPAIIAIHPNELDFLGDNFFAYVRERAKRSPVPFVIH 74 (283)
T ss_pred HHHcCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCcchhhhccHHHHHHHHHHHHHCCCCEEEE
Confidence 333443333333334 789999999999999999998876433333336677788889999998764
No 92
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=82.40 E-value=12 Score=24.74 Aligned_cols=79 Identities=15% Similarity=0.003 Sum_probs=54.6
Q ss_pred HHHHHHHHHHcccCCCCCeEEEEEec---cCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEE
Q 031713 17 HYALQWALENLGDAISKSDLIIFTAR---PTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAET 93 (154)
Q Consensus 17 ~~~l~~a~~la~~~~~~~~l~~l~v~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 93 (154)
..-+..++++|+..| ++...+|.- ....... +...+...+.++++.+.+++.|+.+..
T Consensus 70 ~~~~~~~i~~a~~lg--~~~i~~~~g~~~~~~~~~~-----------------~~~~~~~~~~l~~l~~~a~~~gv~i~l 130 (213)
T PF01261_consen 70 LEYLKKAIDLAKRLG--AKYIVVHSGRYPSGPEDDT-----------------EENWERLAENLRELAEIAEEYGVRIAL 130 (213)
T ss_dssp HHHHHHHHHHHHHHT--BSEEEEECTTESSSTTSSH-----------------HHHHHHHHHHHHHHHHHHHHHTSEEEE
T ss_pred HHHHHHHHHHHHHhC--CCceeecCcccccccCCCH-----------------HHHHHHHHHHHHHHHhhhhhhcceEEE
Confidence 567788899999988 898888865 1111111 245666677888888888888988777
Q ss_pred EEecCCh---h---hHHHHHHHhcCCC
Q 031713 94 MTEMGDP---K---NVICEAAEKHKIQ 114 (154)
Q Consensus 94 ~v~~g~~---~---~~i~~~a~~~~~d 114 (154)
+...+.. . +.+.++.++.+.+
T Consensus 131 E~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (213)
T PF01261_consen 131 ENHPGPFSETPFSVEEIYRLLEEVDSP 157 (213)
T ss_dssp E-SSSSSSSEESSHHHHHHHHHHHTTT
T ss_pred ecccCccccchhhHHHHHHHHhhcCCC
Confidence 6655433 2 7888888876654
No 93
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=82.20 E-value=7.1 Score=29.72 Aligned_cols=52 Identities=21% Similarity=0.433 Sum_probs=32.1
Q ss_pred ecC-ChhhHHHHHH---Hhc-CCCEEEEecCCCCCccccc-cc-chhHHHhhcCCCcEEE
Q 031713 96 EMG-DPKNVICEAA---EKH-KIQLLIVGSHSRGPIQRAF-LG-SVSNYCVHNAKCPVLV 148 (154)
Q Consensus 96 ~~g-~~~~~i~~~a---~~~-~~dlivlg~~~~~~~~~~~-~g-s~~~~l~~~~~~pvli 148 (154)
+.| +....|++.+ ++. .+|+||+|+.| +.++.++ |+ -..-+-+..|++||+-
T Consensus 172 VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGG-GSiEDLW~FNdE~vaRAi~~s~iPvIS 230 (440)
T COG1570 172 VQGEGAAEEIVEAIERANQRGDVDVLIVARGG-GSIEDLWAFNDEIVARAIAASRIPVIS 230 (440)
T ss_pred ccCCCcHHHHHHHHHHhhccCCCCEEEEecCc-chHHHHhccChHHHHHHHHhCCCCeEe
Confidence 346 5777777653 333 49999999654 5566632 22 2333556778899864
No 94
>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=82.17 E-value=19 Score=27.10 Aligned_cols=36 Identities=8% Similarity=0.175 Sum_probs=28.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
.-++|++++.++..+..+++..-.+.+ .| .++.++-
T Consensus 2 ~~k~IllgiTGSiaa~~~~~ll~~L~~-~g--~~V~vv~ 37 (390)
T TIGR00521 2 ENKKILLGVTGGIAAYKTVELVRELVR-QG--AEVKVIM 37 (390)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHh-CC--CEEEEEE
Confidence 468999999999999999988877755 35 6766553
No 95
>PRK13337 putative lipid kinase; Reviewed
Probab=82.06 E-value=16 Score=26.21 Aligned_cols=71 Identities=14% Similarity=0.148 Sum_probs=41.8
Q ss_pred HHHHHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc-CCCcEEEEcCC
Q 031713 76 LLGRAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN-AKCPVLVVRKP 152 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~-~~~pvliv~~~ 152 (154)
...++...+.+.+.+++..... ...+..+.+.+.+.++|+||+.- |.+.+. .+++.++.. ...|+-++|..
T Consensus 20 ~~~~~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vvv~G-GDGTl~-----~vv~gl~~~~~~~~lgiiP~G 92 (304)
T PRK13337 20 NLPDVLQKLEQAGYETSAHATTGPGDATLAAERAVERKFDLVIAAG-GDGTLN-----EVVNGIAEKENRPKLGIIPVG 92 (304)
T ss_pred HHHHHHHHHHHcCCEEEEEEecCCCCHHHHHHHHHhcCCCEEEEEc-CCCHHH-----HHHHHHhhCCCCCcEEEECCc
Confidence 3445666677788887665554 34555556555566788777653 344333 344444432 34688888864
No 96
>PRK13054 lipid kinase; Reviewed
Probab=82.04 E-value=16 Score=26.17 Aligned_cols=70 Identities=16% Similarity=0.131 Sum_probs=41.7
Q ss_pred HHHHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc---CCCcEEEEcCC
Q 031713 77 LGRAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN---AKCPVLVVRKP 152 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~---~~~pvliv~~~ 152 (154)
..++...+.+.+.+++..... ..-+..+.+.+...++|.||+.- |.+.+. .+++.++.. ..+|+-++|-.
T Consensus 20 ~~~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vvv~G-GDGTl~-----evv~~l~~~~~~~~~~lgiiP~G 93 (300)
T PRK13054 20 LREAVGLLREEGHTLHVRVTWEKGDAARYVEEALALGVATVIAGG-GDGTIN-----EVATALAQLEGDARPALGILPLG 93 (300)
T ss_pred HHHHHHHHHHcCCEEEEEEecCCCcHHHHHHHHHHcCCCEEEEEC-CccHHH-----HHHHHHHhhccCCCCcEEEEeCC
Confidence 334455567778877664443 23456666665556788877663 344333 355656543 34789999864
No 97
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=81.70 E-value=6 Score=27.27 Aligned_cols=76 Identities=12% Similarity=0.111 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEec-----CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEM-----GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPV 146 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~-----g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pv 146 (154)
.....+..+.+.+++.|.++...-.. ++..+.|.+..++++++-|.+-..+.-.+.+ ....+.....+|+
T Consensus 46 l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~s~~~~L~~~~~~~~~~~~~~~~P~d~~l~~-----~l~~~~~~~~i~~ 120 (224)
T PF04244_consen 46 LFFSAMRHFADELRAKGFRVHYIELDDPENTQSFEDALARALKQHGIDRLHVMEPGDYRLEQ-----RLESLAQQLGIPL 120 (224)
T ss_dssp HHHHHHHHHHHHHHHTT--EEEE-TT-TT--SSHHHHHHHHHHHH----EEEE--S-HHHHH-----HHHH----SSS-E
T ss_pred HHHHHHHHHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHHHcCCCEEEEECCCCHHHHH-----HHHhhhcccCCce
Confidence 34556677778888889998876655 2567899999999999999998765433333 3466777788999
Q ss_pred EEEcCC
Q 031713 147 LVVRKP 152 (154)
Q Consensus 147 liv~~~ 152 (154)
-+++.+
T Consensus 121 ~~~~~~ 126 (224)
T PF04244_consen 121 EVLEDP 126 (224)
T ss_dssp EEE--T
T ss_pred EEeCCC
Confidence 888754
No 98
>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=81.30 E-value=21 Score=26.96 Aligned_cols=34 Identities=26% Similarity=0.331 Sum_probs=26.3
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
+|+|++.+.-.|..++.++.+. | .+++.+|+...
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g--~~V~av~id~G 34 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----G--YEVIAYTADVG 34 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----C--CEEEEEEEecC
Confidence 5889999988888777766542 5 68999999654
No 99
>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=81.29 E-value=4 Score=25.53 Aligned_cols=53 Identities=13% Similarity=0.010 Sum_probs=36.4
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCCC----CCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHSR----GPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~~----~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
...+.|.+.+++.+++.||+|-.-. ..-.....-.+++.|-...+.||..+-+
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DE 91 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDE 91 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 4578899999999999999995321 1111123335667777777899988754
No 100
>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=81.23 E-value=4.7 Score=27.29 Aligned_cols=47 Identities=13% Similarity=0.191 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEec
Q 031713 73 ALALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 73 ~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~ 120 (154)
.-+.++++.+...+.|..+...+ .|.....-+..+.+.++|.+|.|+
T Consensus 149 ~~~KI~~l~~~~~~~~~~~~I~v-DGGI~~~~~~~~~~aGad~~V~Gs 195 (201)
T PF00834_consen 149 VLEKIRELRKLIPENGLDFEIEV-DGGINEENIKQLVEAGADIFVAGS 195 (201)
T ss_dssp HHHHHHHHHHHHHHHTCGSEEEE-ESSESTTTHHHHHHHT--EEEESH
T ss_pred HHHHHHHHHHHHHhcCCceEEEE-ECCCCHHHHHHHHHcCCCEEEECH
Confidence 34445666777777777777766 454555555556667999999996
No 101
>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA. The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.
Probab=80.87 E-value=8.4 Score=25.47 Aligned_cols=33 Identities=9% Similarity=0.029 Sum_probs=23.9
Q ss_pred EEEEEecCC-chHHHHHHHHHHHcccCCCCCeEEEE
Q 031713 5 KVMVAIDES-ECRHYALQWALENLGDAISKSDLIIF 39 (154)
Q Consensus 5 ~iLv~vd~~-~~~~~~l~~a~~la~~~~~~~~l~~l 39 (154)
||++++-++ ......++....++++.| .+++++
T Consensus 1 ~i~~gitGsg~~l~e~v~~l~~L~~~~g--~eV~vv 34 (174)
T TIGR02699 1 RIAWGITGSGDKLPETYSIMKDVKNRYG--DEIDVF 34 (174)
T ss_pred CEEEEEEccHHHHHHHHHHHHHHHHhcC--CEEEEE
Confidence 588999998 444557788888887666 676655
No 102
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=80.84 E-value=24 Score=27.28 Aligned_cols=89 Identities=18% Similarity=0.114 Sum_probs=59.7
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
|..-+...+|.+|++-... -+.++++.++..... .......-..+-|+.+.+.+.+.|+
T Consensus 11 DLR~~DN~aL~~A~~~~~~-----~~~~vfi~~~~~~~~---------------~~~~~~~Fl~~sL~~L~~~L~~~gi- 69 (461)
T COG0415 11 DLRLTDNAALAAACQSGQP-----VIIAVFILDPEQLGH---------------ASPRHAAFLLQSLQALQQSLAELGI- 69 (461)
T ss_pred ccccCChHHHHHHHhcCCC-----ceEEEEEechhhccc---------------cCHHHHHHHHHHHHHHHHHHHHcCC-
Confidence 4455677788888875553 235666666543311 1123344455667777777777774
Q ss_pred EEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 91 AETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 91 ~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
...+..|++.+.+.+++++.+++-|+-...
T Consensus 70 -~L~v~~~~~~~~l~~~~~~~~~~~v~~n~~ 99 (461)
T COG0415 70 -PLLVREGDPEQVLPELAKQLAATTVFWNRD 99 (461)
T ss_pred -ceEEEeCCHHHHHHHHHHHhCcceEEeeee
Confidence 456778999999999999999888887765
No 103
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=80.82 E-value=9.5 Score=26.07 Aligned_cols=48 Identities=10% Similarity=0.158 Sum_probs=36.4
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
.....+..++.++|++|+++...... -.+-+..++..+..|.+|+-+.
T Consensus 49 eaav~~~~e~~~pDfvi~isPNpaaP----GP~kARE~l~~s~~PaiiigDa 96 (277)
T COG1927 49 EAAVTEMLEEFNPDFVIYISPNPAAP----GPKKAREILSDSDVPAIIIGDA 96 (277)
T ss_pred HHHHHHHHHhcCCCEEEEeCCCCCCC----CchHHHHHHhhcCCCEEEecCC
Confidence 34555678999999999998654322 2456789999999999999654
No 104
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=80.68 E-value=10 Score=22.93 Aligned_cols=43 Identities=14% Similarity=0.064 Sum_probs=30.7
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
-+...++..|.++. ......+.+.+.+.+.+.++|+|.++...
T Consensus 18 ~~~~~l~~~G~~V~-~lg~~~~~~~l~~~~~~~~pdvV~iS~~~ 60 (119)
T cd02067 18 IVARALRDAGFEVI-DLGVDVPPEEIVEAAKEEDADAIGLSGLL 60 (119)
T ss_pred HHHHHHHHCCCEEE-ECCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 34455666786661 12233578899999999999999998763
No 105
>PRK13059 putative lipid kinase; Reviewed
Probab=80.56 E-value=18 Score=25.85 Aligned_cols=71 Identities=10% Similarity=0.071 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc-CCCcEEEEcCC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN-AKCPVLVVRKP 152 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~-~~~pvliv~~~ 152 (154)
..+++...+.+.|.++...........+....+.+.++|.||+. .|.+.+. .+++.++.. .++|+-++|-.
T Consensus 20 ~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~~-GGDGTv~-----evv~gl~~~~~~~~lgviP~G 91 (295)
T PRK13059 20 ELDKVIRIHQEKGYLVVPYRISLEYDLKNAFKDIDESYKYILIA-GGDGTVD-----NVVNAMKKLNIDLPIGILPVG 91 (295)
T ss_pred HHHHHHHHHHHCCcEEEEEEccCcchHHHHHHHhhcCCCEEEEE-CCccHHH-----HHHHHHHhcCCCCcEEEECCC
Confidence 34556667777787755433332112233334445577877665 3444333 355666543 45899999854
No 106
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=80.52 E-value=24 Score=28.13 Aligned_cols=36 Identities=17% Similarity=0.160 Sum_probs=29.5
Q ss_pred cCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 87 HGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 87 ~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.|.+.-..+--|.....-++++++.++|+||+.+|.
T Consensus 126 ~~~~LiItvD~Gi~~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 126 RGAQLIVTVDNGISSHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred cCCCEEEEEcCCcCCHHHHHHHHHCCCCEEEECCCC
Confidence 466666666668888888899999999999999884
No 107
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=80.42 E-value=12 Score=26.90 Aligned_cols=70 Identities=17% Similarity=0.191 Sum_probs=46.0
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
+.+.+++.+.-+----..+ ...+++++.|++.+..+|+..+.+.-...+ -.+......+.+++++||.+-
T Consensus 9 iL~~A~~~~yaV~AfNv~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~~~~~~~~~~A~~~~VPValH 80 (284)
T PRK12857 9 LLKKAEKGGYAVGAFNCNNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIEYISAMVRTAAEKASVPVALH 80 (284)
T ss_pred HHHHHHHcCCeEEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 3333444443333333334 789999999999999999988765332222 235566777888999998764
No 108
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=80.20 E-value=14 Score=25.45 Aligned_cols=63 Identities=16% Similarity=0.191 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHh
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCV 139 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~ 139 (154)
....+..+..++.|++.-..+..+.|.+.+..+.. ..|+|.+=+-..++..+.|..++.++|-
T Consensus 96 ~~~~r~i~~Ik~~G~kaGv~lnP~Tp~~~i~~~l~--~vD~VllMsVnPGfgGQ~Fi~~~l~Ki~ 158 (220)
T COG0036 96 EHIHRTIQLIKELGVKAGLVLNPATPLEALEPVLD--DVDLVLLMSVNPGFGGQKFIPEVLEKIR 158 (220)
T ss_pred cCHHHHHHHHHHcCCeEEEEECCCCCHHHHHHHHh--hCCEEEEEeECCCCcccccCHHHHHHHH
Confidence 34556667777789888887777899999999999 8898888777677777777777666553
No 109
>PRK13055 putative lipid kinase; Reviewed
Probab=79.94 E-value=21 Score=26.12 Aligned_cols=73 Identities=12% Similarity=0.137 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecC--ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc-CCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMG--DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN-AKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g--~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~-~~~pvliv~ 150 (154)
.+...++...+.+.++.++...... ..+..+.+.+.+.++|.||+.. |.+.+. .+++.++.. ...|+-++|
T Consensus 19 ~~~~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~~~~~d~vvv~G-GDGTl~-----evvngl~~~~~~~~LgiiP 92 (334)
T PRK13055 19 KKNVADILDILEQAGYETSAFQTTPEPNSAKNEAKRAAEAGFDLIIAAG-GDGTIN-----EVVNGIAPLEKRPKMAIIP 92 (334)
T ss_pred HHHHHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHhhcCCCEEEEEC-CCCHHH-----HHHHHHhhcCCCCcEEEEC
Confidence 3455677777888888877655442 3456667666667788888763 334333 344555532 346788888
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
-.
T Consensus 93 ~G 94 (334)
T PRK13055 93 AG 94 (334)
T ss_pred CC
Confidence 54
No 110
>PRK06801 hypothetical protein; Provisional
Probab=79.75 E-value=14 Score=26.51 Aligned_cols=70 Identities=13% Similarity=0.114 Sum_probs=48.2
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
+.+..++.+.-+----... ....++++.|++.+..+|+..+.+.....+ ..+......+.+++++||.+-
T Consensus 9 ~l~~A~~~~yaV~Afn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~a~~~~vpV~lH 80 (286)
T PRK06801 9 GLAHARKHGYALGAFNVLDSHFLRALFAAAKQERSPFIINIAEVHFKYISLESLVEAVKFEAARHDIPVVLN 80 (286)
T ss_pred HHHHHHHCCceEEEEeeCCHHHHHHHHHHHHHHCCCEEEEeCcchhhcCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 3333444444433333334 789999999999999999998876544333 346677888999999998764
No 111
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=79.66 E-value=8 Score=26.24 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=32.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhc---CCCEEEEecCC
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKH---KIQLLIVGSHS 122 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~---~~dlivlg~~~ 122 (154)
+.+.+.++..|..-.+.+..|+..+.+-+...+. .+|+|++.+..
T Consensus 84 ~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K 131 (205)
T PF01596_consen 84 EIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFDFVFIDADK 131 (205)
T ss_dssp HHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTG
T ss_pred HHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCceeEEEEcccc
Confidence 3444555566766566777899998888887755 69999999864
No 112
>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=79.62 E-value=6 Score=26.88 Aligned_cols=49 Identities=18% Similarity=0.211 Sum_probs=30.3
Q ss_pred HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 103 VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 103 ~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
.+...+.+.+.|.|++|.+. .....-+..+...+-+..++||++.|...
T Consensus 15 ~ia~~v~~~gtDaI~VGGS~--gvt~~~~~~~v~~ik~~~~lPvilfp~~~ 63 (205)
T TIGR01769 15 KIAKNAKDAGTDAIMVGGSL--GIVESNLDQTVKKIKKITNLPVILFPGNV 63 (205)
T ss_pred HHHHHHHhcCCCEEEEcCcC--CCCHHHHHHHHHHHHhhcCCCEEEECCCc
Confidence 35556777889999998552 12222233344544444789999988653
No 113
>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=79.61 E-value=16 Score=24.50 Aligned_cols=34 Identities=12% Similarity=0.136 Sum_probs=25.4
Q ss_pred cEEEEEecCCchHHHHH-HHHHHHcccCCCCCeEEEEE
Q 031713 4 KKVMVAIDESECRHYAL-QWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l-~~a~~la~~~~~~~~l~~l~ 40 (154)
++|++++.++..+-.+. +..-.+.+ .| .+++++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll~~L~~-~g--~~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQLEKLVD-EG--AEVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHHHHHHh-Cc--CEEEEEE
Confidence 58999999999999996 66666644 45 6766553
No 114
>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=79.33 E-value=24 Score=26.49 Aligned_cols=98 Identities=10% Similarity=0.012 Sum_probs=50.1
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
++++|-+..+.+++....++...+.++..| ..+.....++...... .........+.
T Consensus 171 ~w~~Vaii~~~d~yG~~~~~~f~~~~~~~G--icIa~~e~~~~~~~~~---------------------~~~~~~~~~~~ 227 (403)
T cd06361 171 GWNWVGIIITDDDYGRSALETFIIQAEANG--VCIAFKEILPASLSDN---------------------TKLNRIIRTTE 227 (403)
T ss_pred CCcEEEEEEecCchHHHHHHHHHHHHHHCC--eEEEEEEEecCccCcc---------------------hhHHHHHHHHH
Confidence 455666666666666666666666666544 3443333332211100 00011222233
Q ss_pred HHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 82 EICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+.++..+.++-......+....+++.+++.+.+.+.+|+.+
T Consensus 228 ~~ik~~~a~vVvv~~~~~~~~~l~~~a~~~g~~~~wigs~~ 268 (403)
T cd06361 228 KIIEENKVNVIVVFARQFHVFLLFNKAIERNINKVWIASDN 268 (403)
T ss_pred HHHhcCCCeEEEEEeChHHHHHHHHHHHHhCCCeEEEEECc
Confidence 33334454443333333466777788888888888888764
No 115
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=79.32 E-value=10 Score=27.16 Aligned_cols=71 Identities=17% Similarity=0.149 Sum_probs=48.0
Q ss_pred HHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc--ccccchhHHHhhcCCCcEEEE
Q 031713 79 RAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR--AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~--~~~gs~~~~l~~~~~~pvliv 149 (154)
++.+.+++.+.-+--.-..+ +..++|++.|++.+..+||=.+.+...+.. ..+-.....+..+.++||.+-
T Consensus 8 ~ll~~Ake~~yAvpAfN~~nlE~~~AileaA~e~~sPvIiq~S~g~~~y~gg~~~~~~~v~~~a~~~~vPV~lH 81 (286)
T COG0191 8 ELLDKAKENGYAVPAFNINNLETLQAILEAAEEEKSPVIIQFSEGAAKYAGGADSLAHMVKALAEKYGVPVALH 81 (286)
T ss_pred HHHHHHHHcCCceeeeeecCHHHHHHHHHHHHHhCCCEEEEecccHHHHhchHHHHHHHHHHHHHHCCCCEEEE
Confidence 33344444554444434455 789999999999999999998876443333 233356677888888998764
No 116
>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=79.02 E-value=27 Score=26.92 Aligned_cols=89 Identities=12% Similarity=-0.069 Sum_probs=57.3
Q ss_pred CCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeE
Q 031713 12 ESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVA 91 (154)
Q Consensus 12 ~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 91 (154)
..-....+|..|++ . .++..|+|.++...... . ..........+-+..+.+.+++.|++.
T Consensus 8 LRl~DN~aL~~A~~----~---~~vlpvyi~dp~~~~~~-------~------~~~~~~~fl~~sL~~L~~~L~~~G~~L 67 (475)
T TIGR02766 8 LRVEDNPALAAAAR----A---GPVIPVFVWAPEEEGQY-------Y------PGRVSRWWLKQSLAHLDQSLRSLGTCL 67 (475)
T ss_pred CCcchHHHHHHHHh----C---CCEEEEEEechHHhccc-------c------ccHHHHHHHHHHHHHHHHHHHHcCCce
Confidence 33445667766652 2 26888898876432110 0 001222245566777778888778775
Q ss_pred EEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 92 ETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 92 ~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+.. .|++.+.|.+.+++.+++-|.....
T Consensus 68 ~v~~-~g~~~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 68 VTIR-STDTVAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred EEEe-CCCHHHHHHHHHHHcCCCEEEEecc
Confidence 4422 5899999999999999999988875
No 117
>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=78.80 E-value=5.9 Score=23.23 Aligned_cols=66 Identities=18% Similarity=0.222 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+.+++.+.+++.|++++..... ..+ +..... ++|+|+++..=+..+. ..........+||.++++.
T Consensus 15 ~~~ki~~~~~~~~~~~~v~~~~--~~~-~~~~~~--~~Diil~~Pqv~~~~~------~i~~~~~~~~~pv~~I~~~ 80 (96)
T cd05564 15 LVKKMKKAAEKRGIDAEIEAVP--ESE-LEEYID--DADVVLLGPQVRYMLD------EVKKKAAEYGIPVAVIDMM 80 (96)
T ss_pred HHHHHHHHHHHCCCceEEEEec--HHH-HHHhcC--CCCEEEEChhHHHHHH------HHHHHhccCCCcEEEcChH
Confidence 3456777778888875544322 222 323444 8999999865322221 2233445667999998754
No 118
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=78.75 E-value=5.5 Score=23.88 Aligned_cols=67 Identities=12% Similarity=0.098 Sum_probs=39.7
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
+.+++.+.+++.|++++..- .+ ...+.++....++|+|++|..=+. .. .....+....++||.++++
T Consensus 17 la~k~k~~~~e~gi~~~i~a--~~-~~e~~~~~~~~~~DvIll~PQi~~-----~~-~~i~~~~~~~~ipv~~I~~ 83 (104)
T PRK09590 17 MAKKTTEYLKEQGKDIEVDA--IT-ATEGEKAIAAAEYDLYLVSPQTKM-----YF-KQFEEAGAKVGKPVVQIPP 83 (104)
T ss_pred HHHHHHHHHHHCCCceEEEE--ec-HHHHHHhhccCCCCEEEEChHHHH-----HH-HHHHHHhhhcCCCEEEeCH
Confidence 34555666677888765433 22 223445555567999999965221 11 1234566666789998864
No 119
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=78.73 E-value=5.2 Score=26.71 Aligned_cols=36 Identities=11% Similarity=0.082 Sum_probs=28.9
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
+++|++++.++-.+-++.+..-.+.+..| .+++++-
T Consensus 1 ~k~IllgVTGsiaa~ka~~l~~~L~k~~g--~~V~vv~ 36 (185)
T PRK06029 1 MKRLIVGISGASGAIYGVRLLQVLRDVGE--IETHLVI 36 (185)
T ss_pred CCEEEEEEECHHHHHHHHHHHHHHHhhcC--CeEEEEE
Confidence 57999999999999999998888876445 5766553
No 120
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=78.71 E-value=14 Score=26.59 Aligned_cols=70 Identities=9% Similarity=0.194 Sum_probs=46.1
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
+.+.+++.+.-+----..+ ...+++++.|++.+..+|+.-+.+.-.... -++......+.+++++||.+-
T Consensus 9 ~l~~A~~~~yaV~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~a~~~~VPValH 80 (284)
T PRK12737 9 MLKKAQAEGYAVPAFNIHNLETLQVVVETAAELRSPVILAGTPGTFSYAGTDYIVAIAEVAARKYNIPLALH 80 (284)
T ss_pred HHHHHHHcCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCccHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 3334444444433333334 789999999999999999987765332222 235566778889999998764
No 121
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=78.70 E-value=17 Score=25.99 Aligned_cols=70 Identities=14% Similarity=0.091 Sum_probs=47.3
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
+.+..++.+.-+----..+ ...+++++.|++.+..+|+..+.+.-.... .+++.......+++++||.+-
T Consensus 9 ~l~~A~~~~yaV~Afn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~~~~~~~~~~~~~~~~a~~~~vpv~lH 80 (281)
T PRK06806 9 LLKKANQENYGVGAFSVANMEMVMGAIKAAEELNSPIILQIAEVRLNHSPLHLIGPLMVAAAKQAKVPVAVH 80 (281)
T ss_pred HHHHHHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhccCChHHHHHHHHHHHHHCCCCEEEE
Confidence 3344444454443333344 789999999999999999988765433222 245667778889999998764
No 122
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=78.46 E-value=13 Score=26.68 Aligned_cols=52 Identities=13% Similarity=0.208 Sum_probs=40.0
Q ss_pred CChhhHHHHHHHhcCCCEEEEecCCCCCcccc-cccchhHHHhhcCCCcEEEE
Q 031713 98 GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRA-FLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 98 g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~-~~gs~~~~l~~~~~~pvliv 149 (154)
-...+++++.|++.+..+|+.-+.+.-..... .+......+.+++++||.+-
T Consensus 28 ~e~~~avi~AAee~~sPvIiq~~~~~~~~~g~~~~~~~~~~~A~~~~VPV~lH 80 (284)
T PRK09195 28 LETMQVVVETAAELHSPVIIAGTPGTFSYAGTEYLLAIVSAAAKQYHHPLALH 80 (284)
T ss_pred HHHHHHHHHHHHHhCCCEEEEcChhHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 47899999999999999999887654332222 45667788899999998764
No 123
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=78.39 E-value=10 Score=21.71 Aligned_cols=62 Identities=16% Similarity=0.112 Sum_probs=35.9
Q ss_pred HhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 85 AKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 85 ~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
++.|+++++.+.. +.-...+.+..++.++|++|--..+.+.... --|....+..-...+|++
T Consensus 27 ~~~Gi~~~~~~~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~-~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 27 REAGLPVKTLHPKVHGGILAILDLIKNGEIDLVINTLYPLGAQPH-EDGKALRRAAENIDIPGA 89 (90)
T ss_pred HHCCCcceeccCCCCCCCHHHHHHhcCCCeEEEEECCCcCcceec-cCcHHHHHHHHHcCCCee
Confidence 4568877543322 2222468999999999999986643121111 134455566666666653
No 124
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=78.06 E-value=12 Score=22.45 Aligned_cols=63 Identities=14% Similarity=0.088 Sum_probs=38.6
Q ss_pred hcCCeEEEEEecCC-hhhHHHHHHHh-cCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 86 KHGVVAETMTEMGD-PKNVICEAAEK-HKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 86 ~~~~~~~~~v~~g~-~~~~i~~~a~~-~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
+.|++++....... -...+.+..++ .++|++|--..+.......--|....+..-...+|++.
T Consensus 40 ~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T 104 (112)
T cd00532 40 DAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTT 104 (112)
T ss_pred HcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEE
Confidence 46888766443211 24668899999 99999988654333111122355556666666788765
No 125
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=77.98 E-value=8 Score=23.45 Aligned_cols=43 Identities=19% Similarity=0.263 Sum_probs=30.9
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
.....+.+++.++..||+-+.. |.++..+.+.-| |||+++-+.
T Consensus 5 a~aa~~~A~~~~ak~Ivv~T~s---------G~ta~~isk~RP~~pIiavt~~ 48 (117)
T PF02887_consen 5 ARAAVELAEDLNAKAIVVFTES---------GRTARLISKYRPKVPIIAVTPN 48 (117)
T ss_dssp HHHHHHHHHHHTESEEEEE-SS---------SHHHHHHHHT-TSSEEEEEESS
T ss_pred HHHHHHHHHhcCCCEEEEECCC---------chHHHHHHhhCCCCeEEEEcCc
Confidence 4566778888999999988763 556777777765 999988554
No 126
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=77.90 E-value=25 Score=25.93 Aligned_cols=34 Identities=15% Similarity=0.056 Sum_probs=24.6
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEecc
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARP 43 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~ 43 (154)
++|+|++.+.-.|..++..+. ..| .++..+|+..
T Consensus 1 ~kVlValSGGvDSsvla~lL~----~~G--~~V~~v~~~~ 34 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLK----EQG--YEVIGVFMKL 34 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHH----HcC--CcEEEEEEeC
Confidence 489999999988876664443 235 5788888864
No 127
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.09 E-value=30 Score=26.31 Aligned_cols=55 Identities=16% Similarity=0.241 Sum_probs=38.5
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHH---HHHHHhcCCCEEEEecCCCCCcccccc
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVI---CEAAEKHKIQLLIVGSHSRGPIQRAFL 131 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~~~ 131 (154)
++++.+.....++++-....+-+|++.. ++..++.++|+||+.+.||..-+.-++
T Consensus 145 fDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLf 202 (483)
T KOG0780|consen 145 FDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLF 202 (483)
T ss_pred HHHHHHHhHhhCCeeEecccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHH
Confidence 4566666666788876655555555444 456778999999999999877665444
No 128
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=76.49 E-value=34 Score=26.63 Aligned_cols=107 Identities=12% Similarity=0.108 Sum_probs=59.9
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
.+|+-++.+.--...+..|. ..+ ..+.++-|...+.... + ...+.+
T Consensus 361 dviltyg~s~vV~~ill~A~----~~~--k~frVvVVDSRP~~EG------------------------~----~~lr~L 406 (556)
T KOG1467|consen 361 DVLLTYGSSSVVNMILLEAK----ELG--KKFRVVVVDSRPNLEG------------------------R----KLLRRL 406 (556)
T ss_pred CEEEEecchHHHHHHHHHHH----HhC--cceEEEEEeCCCCcch------------------------H----HHHHHH
Confidence 35666666665555555544 444 4555555555443332 3 334445
Q ss_pred HhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHH-hhcCCCcEEEEcCC
Q 031713 85 AKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYC-VHNAKCPVLVVRKP 152 (154)
Q Consensus 85 ~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l-~~~~~~pvliv~~~ 152 (154)
...|+++.+..+.+ ...|. ...+-+++|.+. .++.---..|.-.-.+ .+..++||+++.+.
T Consensus 407 v~~GinctYv~I~a--~syim-----~evtkvfLGahailsNG~vysR~GTa~valvAna~nVPVlVCCE~ 470 (556)
T KOG1467|consen 407 VDRGINCTYVLINA--ASYIM-----LEVTKVFLGAHAILSNGAVYSRVGTACVALVANAFNVPVLVCCEA 470 (556)
T ss_pred HHcCCCeEEEEehh--HHHHH-----HhcceeeechhhhhcCcchhhhcchHHHHHHhcccCCCEEEEech
Confidence 55799988877654 22232 367789999974 1111111244433334 45567999999753
No 129
>TIGR02069 cyanophycinase cyanophycinase. This model describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.
Probab=76.47 E-value=24 Score=24.81 Aligned_cols=103 Identities=12% Similarity=0.025 Sum_probs=56.7
Q ss_pred EEEecCCc---hHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 7 MVAIDESE---CRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEI 83 (154)
Q Consensus 7 Lv~vd~~~---~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 83 (154)
|+++.+.. .+..+.++.++++...+ ++|.++-.... .. +...+.+.+.
T Consensus 1 l~~iGG~~~~~~~~~i~~~~~~lag~~~--~rI~~iptAS~---~~------------------------~~~~~~~~~~ 51 (250)
T TIGR02069 1 LVIIGGAEDKVGDREILREFVSRAGGED--AIIVIITSASE---EP------------------------REVGERYITI 51 (250)
T ss_pred CeEEeCccccCChHHHHHHHHHHhCCCC--ceEEEEeCCCC---Ch------------------------HHHHHHHHHH
Confidence 35555542 24558888899998754 67765532211 11 1223345555
Q ss_pred HHhcCCe-EEEEEecC---ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhh
Q 031713 84 CAKHGVV-AETMTEMG---DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVH 140 (154)
Q Consensus 84 ~~~~~~~-~~~~v~~g---~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~ 140 (154)
+++.|.. +....... .....+.+..+ ++|.|+++-.....+.+.+.++-..++++
T Consensus 52 ~~~lG~~~v~~l~i~~r~~a~~~~~~~~l~--~ad~I~~~GGnq~~l~~~l~~t~l~~~l~ 110 (250)
T TIGR02069 52 FSRLGVKEVKILDVREREDASDENAIALLS--NATGIFFTGGDQLRITSLLGDTPLLDRLR 110 (250)
T ss_pred HHHcCCceeEEEecCChHHccCHHHHHHHh--hCCEEEEeCCCHHHHHHHHcCCcHHHHHH
Confidence 5667774 44444322 12345666677 89999998665444444455555445443
No 130
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=76.20 E-value=28 Score=25.45 Aligned_cols=41 Identities=10% Similarity=0.027 Sum_probs=31.9
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
+.++.++..+...|..++..+.+.+...+ .++-++||....
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~--~~~pvl~VDTG~ 77 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTR--PPFPLLHVDTTW 77 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhcccC--CCeeEEEeCCCC
Confidence 56788899999999999988887765433 578999986553
No 131
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=75.85 E-value=23 Score=24.40 Aligned_cols=43 Identities=7% Similarity=0.010 Sum_probs=28.4
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
++++++...+.+ ++...+ .|.....-+..+.+-++|.+|.|+.
T Consensus 157 i~~lr~~~~~~~-~~~IeV-DGGI~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 157 IRELRAMIDERL-DILIEV-DGGINLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred HHHHHHHhcccC-CeEEEE-eCCcCHHHHHHHHHcCCCEEEEEEE
Confidence 344444444434 555544 5667677777777789999999983
No 132
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=75.80 E-value=19 Score=25.81 Aligned_cols=67 Identities=7% Similarity=0.141 Sum_probs=45.4
Q ss_pred HHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 83 ICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
...+.+.-+----..+ ...+++++.|++.+..+|+..+.+.-.... ..+......+.+++++||.+-
T Consensus 10 ~A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValH 78 (282)
T TIGR01858 10 DAQAGGYAVPAFNIHNLETIQAVVETAAEMRSPVILAGTPGTFKHAGTEYIVALCSAASTTYNMPLALH 78 (282)
T ss_pred HHHHcCCeEEEEEeCCHHHHHHHHHHHHHhCCCEEEEeCccHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 3333444333323334 789999999999999999988765432222 235567788899999998764
No 133
>PF07279 DUF1442: Protein of unknown function (DUF1442); InterPro: IPR009902 This family consists of several hypothetical Arabidopsis thaliana proteins of around 225 residues in length. The function of this family is unknown.
Probab=75.46 E-value=24 Score=24.30 Aligned_cols=24 Identities=13% Similarity=0.369 Sum_probs=12.4
Q ss_pred cCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 97 MGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 97 ~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.|+..+.++...+ ++|++++..+.
T Consensus 102 vg~~~e~~~~~~~--~iDF~vVDc~~ 125 (218)
T PF07279_consen 102 VGEAPEEVMPGLK--GIDFVVVDCKR 125 (218)
T ss_pred ecCCHHHHHhhcc--CCCEEEEeCCc
Confidence 3554444443334 66666666553
No 134
>cd00946 FBP_aldolase_IIA Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is homodimeric and used in gluconeogenesis and glycolysis. The type A and type B Class II FBPA's differ in the presence and absence of distinct indels in the sequence that result in differing loop lengths in the structures.
Probab=75.44 E-value=20 Score=26.50 Aligned_cols=71 Identities=14% Similarity=0.141 Sum_probs=46.7
Q ss_pred HHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-ccc---------------cccchhHHHhhc
Q 031713 79 RAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-QRA---------------FLGSVSNYCVHN 141 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~~~---------------~~gs~~~~l~~~ 141 (154)
++...+++.+.-+----... ...+++++.|++.+..+|+.-+.+.... ... .+......+.++
T Consensus 6 ~iL~~A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~A~~ 85 (345)
T cd00946 6 KLFDYAKENGFAIPAVNCTSSSTINAVLEAARDAKSPIIIQFSNGGAAFYAGKGLKNEKQKASIAGAIAAAHHVRSMAEH 85 (345)
T ss_pred HHHHHHHHCCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCCccccccchhhhhhhHHHHHHHHHHHHHH
Confidence 33344444454433333344 7899999999999999999987653221 111 356677788889
Q ss_pred CCCcEEEE
Q 031713 142 AKCPVLVV 149 (154)
Q Consensus 142 ~~~pvliv 149 (154)
+++||.+-
T Consensus 86 ~~VPValH 93 (345)
T cd00946 86 YGVPVVLH 93 (345)
T ss_pred CCCCEEEE
Confidence 99998764
No 135
>PLN02828 formyltetrahydrofolate deformylase
Probab=75.38 E-value=27 Score=24.90 Aligned_cols=86 Identities=12% Similarity=0.098 Sum_probs=53.5
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
.+||.|.+.++.++..++-.+.+--. .+ +++.++-..++.... ..+.+
T Consensus 70 ~~riavlvSg~g~nl~~ll~~~~~g~-l~--~eI~~ViSn~~~~~~-----------------------------a~~~~ 117 (268)
T PLN02828 70 KYKIAVLASKQDHCLIDLLHRWQDGR-LP--VDITCVISNHERGPN-----------------------------THVMR 117 (268)
T ss_pred CcEEEEEEcCCChhHHHHHHhhhcCC-CC--ceEEEEEeCCCCCCC-----------------------------chHHH
Confidence 46899999999999988877764332 22 666666554432111 13344
Q ss_pred HHHhcCCeEEEEEec--CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 83 ICAKHGVVAETMTEM--GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~--g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.+++.|+++...-.. ....+.+.+..+ ++|++|+....
T Consensus 118 ~A~~~gIP~~~~~~~~~~~~e~~~~~~l~--~~DliVLAgym 157 (268)
T PLN02828 118 FLERHGIPYHYLPTTKENKREDEILELVK--GTDFLVLARYM 157 (268)
T ss_pred HHHHcCCCEEEeCCCCCCCHHHHHHHHHh--cCCEEEEeeeh
Confidence 456678887643322 223456677666 69999998653
No 136
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=75.00 E-value=35 Score=26.10 Aligned_cols=70 Identities=17% Similarity=0.088 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEE-EE
Q 031713 16 RHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAE-TM 94 (154)
Q Consensus 16 ~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~ 94 (154)
|.-+++.+.++|++ . .+|||.-... .++++-++++.|+... ..
T Consensus 107 STLLLQva~~lA~~-----~-~vLYVsGEES------------------------------~~QiklRA~RL~~~~~~l~ 150 (456)
T COG1066 107 STLLLQVAARLAKR-----G-KVLYVSGEES------------------------------LQQIKLRADRLGLPTNNLY 150 (456)
T ss_pred HHHHHHHHHHHHhc-----C-cEEEEeCCcC------------------------------HHHHHHHHHHhCCCccceE
Confidence 66788888888885 2 6777754432 3455555566665533 33
Q ss_pred EecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 95 TEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 95 v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+....-.+.|.+.+++.++|++|+.+=
T Consensus 151 l~aEt~~e~I~~~l~~~~p~lvVIDSI 177 (456)
T COG1066 151 LLAETNLEDIIAELEQEKPDLVVIDSI 177 (456)
T ss_pred EehhcCHHHHHHHHHhcCCCEEEEecc
Confidence 444567888999999999999999874
No 137
>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=74.93 E-value=23 Score=23.85 Aligned_cols=66 Identities=15% Similarity=0.139 Sum_probs=40.5
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC---CcEEE
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK---CPVLV 148 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~---~pvli 148 (154)
+...++..|.++ .....+-+.+.+++.+++.++|+|.+.......... .....+.+-...+ ++|++
T Consensus 102 v~~~l~~~G~~v-i~lG~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~~~--~~~~i~~lr~~~~~~~~~i~v 170 (201)
T cd02070 102 VATMLEANGFEV-IDLGRDVPPEEFVEAVKEHKPDILGLSALMTTTMGG--MKEVIEALKEAGLRDKVKVMV 170 (201)
T ss_pred HHHHHHHCCCEE-EECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHH--HHHHHHHHHHCCCCcCCeEEE
Confidence 345566678555 112233589999999999999999999854333332 3444454544433 45554
No 138
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=74.47 E-value=32 Score=25.43 Aligned_cols=114 Identities=8% Similarity=0.077 Sum_probs=63.1
Q ss_pred HHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEE-e
Q 031713 18 YALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAETMT-E 96 (154)
Q Consensus 18 ~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v-~ 96 (154)
....+..+-+...| +.-.-+++...+... ...+.+..+.+.++...|+..|+++-..+ .
T Consensus 106 ~~~~~sve~a~~~G--AdAVk~lv~~~~d~~------------------~~~~~~~~~~l~rv~~ec~~~giPlllE~l~ 165 (340)
T PRK12858 106 LLDNWSVRRIKEAG--ADAVKLLLYYRPDED------------------DAINDRKHAFVERVGAECRANDIPFFLEPLT 165 (340)
T ss_pred ccccccHHHHHHcC--CCEEEEEEEeCCCcc------------------hHHHHHHHHHHHHHHHHHHHcCCceEEEEec
Confidence 34555556666666 555555554432211 12345566778999999999999964442 1
Q ss_pred c--C-C----------hhhHHHHH----HH-hcCCCEEEEecCCCC-Ccccc------ccc----chhHHHhhcCCCcEE
Q 031713 97 M--G-D----------PKNVICEA----AE-KHKIQLLIVGSHSRG-PIQRA------FLG----SVSNYCVHNAKCPVL 147 (154)
Q Consensus 97 ~--g-~----------~~~~i~~~----a~-~~~~dlivlg~~~~~-~~~~~------~~g----s~~~~l~~~~~~pvl 147 (154)
+ | . ..+.|.+. ++ +.++|++=+...+.. ..+++ ... ....++...+++|++
T Consensus 166 y~~~~~~~~~~~~a~~~p~~V~~a~r~~~~~elGaDvlKve~p~~~~~veg~~~~~~~~~~~~~~~~f~~~~~a~~~P~v 245 (340)
T PRK12858 166 YDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFVEGFDGFEEAYTQEEAFKLFREQSDATDLPFI 245 (340)
T ss_pred cCCCccccccccccccCHHHHHHHHHHHhhhccCCeEEEeeCCCCcccccccccccccccHHHHHHHHHHHHhhCCCCEE
Confidence 1 1 1 11233333 32 588998888655322 11210 000 234567778999999
Q ss_pred EEcC
Q 031713 148 VVRK 151 (154)
Q Consensus 148 iv~~ 151 (154)
+.-.
T Consensus 246 vlsg 249 (340)
T PRK12858 246 FLSA 249 (340)
T ss_pred EECC
Confidence 8743
No 139
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=74.32 E-value=26 Score=24.61 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=33.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHh----cCCCEEEEecCC
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEK----HKIQLLIVGSHS 122 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~----~~~dlivlg~~~ 122 (154)
+.+...++..|+.-.+.+..|+..+.+-+...+ ..+|+|++.+.+
T Consensus 118 ~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK 166 (247)
T PLN02589 118 ELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADK 166 (247)
T ss_pred HHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCCH
Confidence 344555566787767778889988888776643 589999998764
No 140
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=74.15 E-value=29 Score=24.70 Aligned_cols=73 Identities=15% Similarity=0.136 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCC-hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGD-PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRK 151 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~-~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~ 151 (154)
.+..+++.+.+.+.++++........ ....+.+.+.+.++|.||+.- |.+.+. .+++.+..... .|+-++|.
T Consensus 18 ~~~~~~i~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~ivv~G-GDGTl~-----~v~~~l~~~~~~~~lgiiP~ 91 (293)
T TIGR00147 18 NKPLREVIMLLREEGMEIHVRVTWEKGDAARYVEEARKFGVDTVIAGG-GDGTIN-----EVVNALIQLDDIPALGILPL 91 (293)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEecCcccHHHHHHHHHhcCCCEEEEEC-CCChHH-----HHHHHHhcCCCCCcEEEEcC
Confidence 34455667777788888766554432 334445444455788777653 344333 34455544333 46777875
Q ss_pred C
Q 031713 152 P 152 (154)
Q Consensus 152 ~ 152 (154)
.
T Consensus 92 G 92 (293)
T TIGR00147 92 G 92 (293)
T ss_pred c
Confidence 4
No 141
>PRK09261 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated
Probab=74.04 E-value=31 Score=25.60 Aligned_cols=128 Identities=17% Similarity=0.096 Sum_probs=66.7
Q ss_pred cEEEEEecC-C-chHHHHHHHHHHHcccCC-CCCe-EEEEEeccCCchhhcccCCCCC--chHHHHHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDE-S-ECRHYALQWALENLGDAI-SKSD-LIIFTARPTEFIYVQASMFGAA--PPDLLMSIQENQKKAALALL 77 (154)
Q Consensus 4 ~~iLv~vd~-~-~~~~~~l~~a~~la~~~~-~~~~-l~~l~v~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l 77 (154)
+++||-+.+ | +..+.++++|.+++.... .... +.++.+.-..+-.. ++|-+. .+...... ..++.-+.+
T Consensus 52 ~rllvI~GPCSIed~e~a~eyA~~Lk~l~~~~~d~l~ivmR~y~~KPRTs--~g~kGl~~DP~ldgs~---~i~~GL~~~ 126 (349)
T PRK09261 52 DRLLVVVGPCSIHDPKAALEYARRLAKLREELKDKLEIVMRVYFEKPRTT--VGWKGLINDPDLDGSF---DINDGLRIA 126 (349)
T ss_pred CCeEEEEcCCcCCCHHHHHHHHHHHHHHHhhhhcceEEEEEeccccCCCC--CCCcCCCcCcCccccc---cHHHHHHHH
Confidence 355555554 3 446668888888876531 0012 23554433321111 122211 11111111 112233334
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
.++.-...+.|+++-+.+..-...+.+.++ +|++-+|++..... .-.+++..+++||.+
T Consensus 127 R~ll~~~~e~GlpvatE~ld~~~~~y~~dl-----vs~~~IGARt~esq-------~hr~~asg~~~PVg~ 185 (349)
T PRK09261 127 RKLLLDINELGLPAATEFLDPITPQYIADL-----ISWGAIGARTTESQ-------VHRELASGLSCPVGF 185 (349)
T ss_pred HHHHHHHHHhCCCeEEEecccccHHHHHhh-----cceeeeccchhcCH-------HHHHHhcCCCCeeEe
Confidence 444333567799999988776555444443 67999999864332 235677788899876
No 142
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=73.84 E-value=38 Score=26.33 Aligned_cols=70 Identities=13% Similarity=0.071 Sum_probs=44.4
Q ss_pred HHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc------CCCcEEEEc
Q 031713 78 GRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN------AKCPVLVVR 150 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~------~~~pvliv~ 150 (154)
+++...++..+++++...... .-+..+++.+...++|.||+.. |.+.+.. +.+-++.. .+.|+-++|
T Consensus 133 ~~v~~~L~~~gi~~~v~~T~~~ghA~~la~~~~~~~~D~VV~vG-GDGTlnE-----VvNGL~~~~~~~~~~~~pLGiIP 206 (481)
T PLN02958 133 DVVKPLLEDADIQLTIQETKYQLHAKEVVRTMDLSKYDGIVCVS-GDGILVE-----VVNGLLEREDWKTAIKLPIGMVP 206 (481)
T ss_pred HHHHHHHHHcCCeEEEEeccCccHHHHHHHHhhhcCCCEEEEEc-CCCHHHH-----HHHHHhhCccccccccCceEEec
Confidence 356667777888877766554 4566677666666788777653 4443433 44555433 258999998
Q ss_pred CCC
Q 031713 151 KPV 153 (154)
Q Consensus 151 ~~~ 153 (154)
..+
T Consensus 207 aGT 209 (481)
T PLN02958 207 AGT 209 (481)
T ss_pred CcC
Confidence 653
No 143
>PF03575 Peptidase_S51: Peptidase family S51; InterPro: IPR005320 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S51 (clan PC(S)). The type example being dipeptidase E (alpha-aspartyl dipeptidase) from Escherichia coli. The family contains alpha-aspartyl dipeptidases (dipeptidase E) and cyanophycinases. The three-dimensional structure of Salmonella typhimurium aspartyl dipeptidase, peptidase E has been determine at 1.2-A resolution. The structure of this 25kDa enzyme consists of two mixed beta-sheets forming a V, flanked by six alpha-helices. The active site contains a Ser-His-Glu catalytic triad and is the first example of a serine peptidase/protease with a glutamate in the catalytic triad. The active site Ser is located on a strand-helix motif reminiscent of that found in alpha/beta-hydrolases, but the polypeptide fold and the organisation of the catalytic triad differ from those of the known serine proteases. This enzyme appears to represent a new example of convergent evolution of peptidase activity []. Alpha-aspartyl dipeptidase hydrolyses dipeptides containing N-terminal aspartate residues, asp-|-xaa. It does not act on peptides with N-terminal Glu, Asn or Gln, nor does it cleave isoaspartyl peptides. In the cyanobacteria, cyanophycinase is an exopeptidase that catalyses the hydrolytic cleavage of multi-l-arginyl-poly-l-aspartic acid (cyanophycin; a water- insoluble reserve polymer) into aspartate-arginine dipeptides.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3EN0_B 1FYE_A 1FY2_A 3L4E_A.
Probab=73.61 E-value=4.2 Score=26.04 Aligned_cols=62 Identities=11% Similarity=0.137 Sum_probs=36.4
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhh
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVH 140 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~ 140 (154)
++++.+.+++.|++++..-........+.+..+ ++|.|+++-.......+.+.++-....++
T Consensus 2 ~~~~~~~f~~~g~~v~~l~~~~~~~~~~~~~i~--~ad~I~~~GG~~~~l~~~l~~t~l~~~i~ 63 (154)
T PF03575_consen 2 VEKFRKAFRKLGFEVDQLDLSDRNDADILEAIR--EADAIFLGGGDTFRLLRQLKETGLDEAIR 63 (154)
T ss_dssp HHHHHHHHHHCT-EEEECCCTSCGHHHHHHHHH--HSSEEEE--S-HHHHHHHHHHTTHHHHHH
T ss_pred HHHHHHHHHHCCCEEEEEeccCCChHHHHHHHH--hCCEEEECCCCHHHHHHHHHhCCHHHHHH
Confidence 456777888889886555445555667888888 99999998654333333344443444443
No 144
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=73.05 E-value=30 Score=24.49 Aligned_cols=61 Identities=13% Similarity=0.337 Sum_probs=33.9
Q ss_pred HHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhH-HHhhcCCCcEEEEcC
Q 031713 84 CAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSN-YCVHNAKCPVLVVRK 151 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~-~l~~~~~~pvliv~~ 151 (154)
+.+.|+++.... ...+..+.+. ++|.+++|+.. .+.+-. ..|+..- -+.++.++||+++-+
T Consensus 154 L~~~gi~v~~i~-----d~~~~~~m~~-~vd~VliGad~v~~nG~v~n-k~Gt~~~a~~Ak~~~vPv~v~~~ 218 (282)
T PF01008_consen 154 LAEAGIPVTLIP-----DSAVGYVMPR-DVDKVLIGADAVLANGGVVN-KVGTLQLALAAKEFNVPVYVLAE 218 (282)
T ss_dssp HHHTT-EEEEE------GGGHHHHHHC-TESEEEEE-SEEETTS-EEE-ETTHHHHHHHHHHTT-EEEEE--
T ss_pred hhhcceeEEEEe-----chHHHHHHHH-hCCeeEEeeeEEecCCCEee-hhhHHHHHHHHHhhCCCEEEEcc
Confidence 345688776643 3446666773 49999999974 332333 2444433 345777899999843
No 145
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=72.95 E-value=17 Score=21.46 Aligned_cols=49 Identities=16% Similarity=0.161 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEe-----------cC-ChhhHHHHHHHhcCCCEEEEecC
Q 031713 73 ALALLGRAKEICAKHGVVAETMTE-----------MG-DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 73 ~~~~l~~~~~~~~~~~~~~~~~v~-----------~g-~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+..++++...++..|+.+...+. .| --.++|.+.+++.++|++|+...
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC
Confidence 456678888888888877433221 13 24678899999999999999864
No 146
>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=72.84 E-value=20 Score=25.63 Aligned_cols=67 Identities=16% Similarity=0.159 Sum_probs=45.0
Q ss_pred HHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 83 ICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
..++.+.-+--.-... ...+++++.|++.+..+|+--+.+.-.... ..+......+..++++||.+-
T Consensus 7 ~A~~~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIi~~~~~~~~~~~~~~~~~~~~~~a~~~~VPV~lH 75 (276)
T cd00947 7 KAREGGYAVGAFNINNLETLKAILEAAEETRSPVILQISEGAIKYAGLELLVAMVKAAAERASVPVALH 75 (276)
T ss_pred HHHHCCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 3344444433333333 789999999999999999987765433222 245667777888889998764
No 147
>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=72.65 E-value=6.5 Score=28.54 Aligned_cols=50 Identities=16% Similarity=0.281 Sum_probs=34.1
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+....++..+ ++|+||+|-.. .+-...+....+.+ -++++++|++.|.+
T Consensus 163 ~~~~~~l~AI~--~ADlIvlgPGSlyTSI~P~Llv~gi~e-Ai~~s~a~kV~V~n 214 (309)
T cd07044 163 SPSREVLEAIE--KADNIVIGPGSLYTSILPNISVPGIRE-ALKKTXAKKVYVSN 214 (309)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhhhhcCcHhHHH-HHHhcCCCeEEECC
Confidence 45677888888 89999999643 22223344555544 56678999888865
No 148
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=72.62 E-value=27 Score=26.78 Aligned_cols=61 Identities=13% Similarity=0.136 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEec
Q 031713 60 DLLMSIQENQKKAALALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 60 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~ 120 (154)
+....+++...+..++.++++.+.++..|..+.+.-...+..+.|.+.+++.+...|+.|.
T Consensus 36 ~~~~~ik~~~~~~ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~k 96 (432)
T TIGR00273 36 ELVKEIKLKVLENLDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSK 96 (432)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcC
Confidence 3444556666667778888888888887877765443346778888999999999999984
No 149
>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=72.32 E-value=33 Score=24.53 Aligned_cols=68 Identities=12% Similarity=0.060 Sum_probs=39.8
Q ss_pred HHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc---CCCcEEEEcCC
Q 031713 79 RAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN---AKCPVLVVRKP 152 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~---~~~pvliv~~~ 152 (154)
++.+.+++.+++++..... ..-+..+.+.+.+.++|.||+. .|.+.+. .+++-++.. .++|+-++|-.
T Consensus 18 ~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~~~~~d~vv~~-GGDGTi~-----ev~ngl~~~~~~~~~~lgiiP~G 89 (293)
T TIGR03702 18 EAVGDLRDEGIQLHVRVTWEKGDAQRYVAEALALGVSTVIAG-GGDGTLR-----EVATALAQIRDDAAPALGLLPLG 89 (293)
T ss_pred HHHHHHHHCCCeEEEEEecCCCCHHHHHHHHHHcCCCEEEEE-cCChHHH-----HHHHHHHhhCCCCCCcEEEEcCC
Confidence 4444566778877665433 2446667766656678877755 3444333 344555532 34688888854
No 150
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=72.12 E-value=28 Score=25.08 Aligned_cols=52 Identities=8% Similarity=0.097 Sum_probs=38.9
Q ss_pred CChhhHHHHHHHhcCCCEEEEecCCCCCc-ccccccchhHHHhhcCCCcEEEE
Q 031713 98 GDPKNVICEAAEKHKIQLLIVGSHSRGPI-QRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 98 g~~~~~i~~~a~~~~~dlivlg~~~~~~~-~~~~~gs~~~~l~~~~~~pvliv 149 (154)
-...+++++.|++.+..+|+..+.+.-.. ....+......+.+++++||.+-
T Consensus 28 ~e~~~avi~AAee~~sPvIlq~s~~~~~~~~~~~~~~~~~~~a~~~~VPValH 80 (286)
T PRK12738 28 AETIQAILEVCSEMRSPVILAGTPGTFKHIALEEIYALCSAYSTTYNMPLALH 80 (286)
T ss_pred HHHHHHHHHHHHHHCCCEEEEcCcchhhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 47899999999999999999876543221 12234567788889999999864
No 151
>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=71.97 E-value=25 Score=22.95 Aligned_cols=35 Identities=6% Similarity=-0.076 Sum_probs=26.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
+++|++.+.-.|..++.++.+ .| .+++.+|+....
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~----~g--~~v~av~~d~g~ 35 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMK----RG--IEVDALHFNSGP 35 (177)
T ss_pred CEEEEecCChhHHHHHHHHHH----cC--CeEEEEEEeCCC
Confidence 589999998888877766654 35 689999997654
No 152
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=71.87 E-value=4 Score=23.79 Aligned_cols=65 Identities=15% Similarity=0.219 Sum_probs=35.8
Q ss_pred HHHHhcCCeEEEEE-ecCCh-hh----HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 82 EICAKHGVVAETMT-EMGDP-KN----VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 82 ~~~~~~~~~~~~~v-~~g~~-~~----~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
+.++++|+++...+ ..+.+ .. .+.+..++.++|++|.-..+...... --|....++.-...+|++
T Consensus 24 ~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~~~~~~~-~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 24 KFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYPFSDQEH-TDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--THHHHHT-HHHHHHHHHHHHTTSHEE
T ss_pred HHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCCCccccc-CCcHHHHHHHHHcCCCCc
Confidence 34456788843332 23433 32 39999999999988887654322211 135555666666667754
No 153
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=71.83 E-value=39 Score=25.24 Aligned_cols=35 Identities=17% Similarity=0.143 Sum_probs=24.7
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
+.++|+|++++.-.|..++..+ +..| .++..+|+.
T Consensus 4 ~~~kVlVa~SGGvDSsv~a~lL----~~~G--~eV~av~~~ 38 (362)
T PRK14664 4 SKKRVLVGMSGGIDSTATCLML----QEQG--YEIVGVTMR 38 (362)
T ss_pred CCCEEEEEEeCCHHHHHHHHHH----HHcC--CcEEEEEec
Confidence 4579999999987777655432 2345 578888884
No 154
>PF01884 PcrB: PcrB family; InterPro: IPR008205 This entry represents geranylgeranylglyceryl phosphate (GGGP) synthase, which is a prenyltransferase that catalyses the transfer of the geranylgeranyl moiety of geranylgeranyl diphosphate (GGPP) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P). This reaction is the first ether-bond-formation step in the biosynthesis of archaeal membrane lipids. This entry also matches putative glycerol-1-phosphate prenyltransferases that may catalyse the transfer of a prenyl moiety to sn-glycerol-1-phosphate (G1P) []. Some of the prokaryotic proteins in this family are related to pcrB. The Staphylococcus aureus chromosomal gene pcrA encodes a protein with significant similarity (40% identity) to two Escherichia coli helicases: the helicase II encoded by the uvrD gene and the Rep helicase. PcrB gene seems to belong to an operon containing at least one other gene, pcrBA, downstream from pcrB []. The PcrB proteins often contain an FMN binding site although the function of these proteins is still unknown.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 1VIZ_A 2F6X_B 2F6U_B 3VKD_A 3VKA_A 3VK5_B 3VKC_B 3VKB_B.
Probab=71.75 E-value=11 Score=26.13 Aligned_cols=50 Identities=20% Similarity=0.193 Sum_probs=32.0
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
..+..++.+.+.+.|.|++|-.. .+.....+...+-+..+.||++.|...
T Consensus 20 ~~~~~~~~~~~~gtDai~VGGS~----~~~~~d~vv~~ik~~~~lPvilfPg~~ 69 (230)
T PF01884_consen 20 NPEEALEAACESGTDAIIVGGSD----TGVTLDNVVALIKRVTDLPVILFPGSP 69 (230)
T ss_dssp -HHHHHHHHHCTT-SEEEEE-ST----HCHHHHHHHHHHHHHSSS-EEEETSTC
T ss_pred CcHHHHHHHHhcCCCEEEECCCC----CccchHHHHHHHHhcCCCCEEEeCCCh
Confidence 45566677788999999999764 222344455555566889999998654
No 155
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=71.73 E-value=32 Score=24.28 Aligned_cols=64 Identities=9% Similarity=0.087 Sum_probs=39.2
Q ss_pred HHhcCCe-EEEEEecCChhhHHHH-HHHhcCCCEEEEecCCCC-CcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 84 CAKHGVV-AETMTEMGDPKNVICE-AAEKHKIQLLIVGSHSRG-PIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 84 ~~~~~~~-~~~~v~~g~~~~~i~~-~a~~~~~dlivlg~~~~~-~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
|.+.|++ -+.....|+...++-. ..++.++|.||.=.+|.. ++... -...+...+||+++.++.
T Consensus 167 ~~~~G~~~~~iia~~gPfs~e~n~al~~~~~i~~lVtK~SG~~Gg~~eK------i~AA~~lgi~vivI~RP~ 233 (256)
T TIGR00715 167 ALKLGFPSDRIIAMRGPFSEELEKALLREYRIDAVVTKASGEQGGELEK------VKAAEALGINVIRIARPQ 233 (256)
T ss_pred HHHcCCChhcEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCCccchHHH------HHHHHHcCCcEEEEeCCC
Confidence 3344554 2344455766555554 588899999988665543 22211 146678889999997654
No 156
>PRK13057 putative lipid kinase; Reviewed
Probab=71.65 E-value=29 Score=24.67 Aligned_cols=68 Identities=19% Similarity=0.245 Sum_probs=40.1
Q ss_pred HHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 77 LGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
..++...+++.|+++....... .-+..+.+.+ ..++|+||+.- |.+.+ ..+++.+. ..+.|+-++|-.
T Consensus 15 ~~~i~~~l~~~g~~~~~~~t~~~~~a~~~~~~~-~~~~d~iiv~G-GDGTv-----~~v~~~l~-~~~~~lgiiP~G 83 (287)
T PRK13057 15 LAAARAALEAAGLELVEPPAEDPDDLSEVIEAY-ADGVDLVIVGG-GDGTL-----NAAAPALV-ETGLPLGILPLG 83 (287)
T ss_pred HHHHHHHHHHcCCeEEEEecCCHHHHHHHHHHH-HcCCCEEEEEC-chHHH-----HHHHHHHh-cCCCcEEEECCC
Confidence 4566777777888766555442 3344444442 45688877663 33333 33445554 457899999854
No 157
>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=71.14 E-value=37 Score=24.71 Aligned_cols=37 Identities=16% Similarity=0.003 Sum_probs=26.9
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
++++|++.+.-.|..++..+.+ ..| .+++.+|+....
T Consensus 17 ~kVvValSGGVDSsvla~ll~~---~~G--~~v~av~vd~G~ 53 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHR---AIG--DRLTCVFVDHGL 53 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHH---HhC--CCEEEEEEeCCC
Confidence 6899999998888766655443 234 589999997653
No 158
>PRK09197 fructose-bisphosphate aldolase; Provisional
Probab=71.12 E-value=32 Score=25.57 Aligned_cols=71 Identities=15% Similarity=0.156 Sum_probs=45.8
Q ss_pred HHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc----cc------------ccchhHHHhhc
Q 031713 79 RAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR----AF------------LGSVSNYCVHN 141 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~----~~------------~gs~~~~l~~~ 141 (154)
++....++.+.-+----..+ ...+++++.|++.+..+|+..+.+...... .. +......+.++
T Consensus 11 ~~L~~A~~~~yAV~AfNv~n~e~~~avi~AAee~~sPVIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~v~~~A~~ 90 (350)
T PRK09197 11 EMFDRAKENGFALPAVNVVGTDSINAVLEGAAEAKSPVIIQFSNGGAAFIAGKGVKDDGQGAAVLGAIAGAKHVHEVAEH 90 (350)
T ss_pred HHHHHHHHCCceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcChhhHhhcCCccccccchhhhhhhHHHHHHHHHHHHHH
Confidence 33334444454443333344 789999999999999999988765322211 11 44566778889
Q ss_pred CCCcEEEE
Q 031713 142 AKCPVLVV 149 (154)
Q Consensus 142 ~~~pvliv 149 (154)
+++||.+-
T Consensus 91 ~~VPValH 98 (350)
T PRK09197 91 YGVPVILH 98 (350)
T ss_pred CCCCEEEE
Confidence 99998764
No 159
>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=71.12 E-value=16 Score=20.34 Aligned_cols=34 Identities=29% Similarity=0.234 Sum_probs=26.2
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEE
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLII 38 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~ 38 (154)
.++|.++.|+++....+.+...+.....| ..+.+
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g--~~~~~ 76 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLG--LNVRV 76 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCC--CeEEE
Confidence 37899999999999888877777777655 45544
No 160
>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=70.88 E-value=44 Score=25.59 Aligned_cols=75 Identities=16% Similarity=0.120 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEE-ecC--ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 71 KAALALLGRAKEICAKHGVVAETMT-EMG--DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v-~~g--~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
...++..+++.+.+++.++++...- ..+ +-.+...+.++..++|.||+....-+ . ++..-.+++..++||+
T Consensus 19 ~~~~~~~~~~~~~l~~~~~~vv~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~tf~-~-----~~~~~~~~~~~~~Pvl 92 (452)
T cd00578 19 EQVEEYAREVADLLNELPVEVVDKPEVTGTPDEARKAAEEFNEANCDGLIVWMHTFG-P-----AKMWIAGLSELRKPVL 92 (452)
T ss_pred HHHHHHHHHHHHHHhcCCceEEecCcccCCHHHHHHHHHHHhhcCCcEEEEcccccc-c-----HHHHHHHHHhcCCCEE
Confidence 3344445555555555555532211 112 23555667777779999998765432 1 2233455677899999
Q ss_pred EEcC
Q 031713 148 VVRK 151 (154)
Q Consensus 148 iv~~ 151 (154)
+.-.
T Consensus 93 l~a~ 96 (452)
T cd00578 93 LLAT 96 (452)
T ss_pred EEeC
Confidence 8853
No 161
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=70.82 E-value=36 Score=24.45 Aligned_cols=82 Identities=11% Similarity=0.164 Sum_probs=49.7
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
..||.|.+.++.++..++-.+..--. .+ +++.++-...+ .+..
T Consensus 89 ~~ri~vl~Sg~g~nl~al~~~~~~~~-~~--~~i~~visn~~----------------------------------~~~~ 131 (286)
T PRK13011 89 RPKVLIMVSKFDHCLNDLLYRWRIGE-LP--MDIVGVVSNHP----------------------------------DLEP 131 (286)
T ss_pred CceEEEEEcCCcccHHHHHHHHHcCC-CC--cEEEEEEECCc----------------------------------cHHH
Confidence 35788888888777777766653222 22 56555543222 1122
Q ss_pred HHHhcCCeEEEEEec-C---ChhhHHHHHHHhcCCCEEEEecC
Q 031713 83 ICAKHGVVAETMTEM-G---DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~-g---~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+++.|+++...... . +....+.+..++.++|++|+...
T Consensus 132 lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 132 LAAWHGIPFHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred HHHHhCCCEEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 256678886542211 1 23556788888999999999864
No 162
>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI. The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.
Probab=70.73 E-value=42 Score=25.09 Aligned_cols=35 Identities=9% Similarity=-0.047 Sum_probs=26.2
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
.++||.+.+.-.|..++-++.+ .| .++..+|+...
T Consensus 173 ~kvlvllSGGiDS~vaa~ll~k----rG--~~V~av~~~~~ 207 (371)
T TIGR00342 173 GKVLALLSGGIDSPVAAFMMMK----RG--CRVVAVHFFNE 207 (371)
T ss_pred CeEEEEecCCchHHHHHHHHHH----cC--CeEEEEEEeCC
Confidence 5899999998888766655433 36 68999999743
No 163
>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=70.56 E-value=8.4 Score=27.98 Aligned_cols=50 Identities=16% Similarity=0.319 Sum_probs=34.7
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+....++..+ ++|+||+|-.. .+-...+....+.+ -++++++|.+.|.+
T Consensus 164 ~~~~~a~~AI~--~AD~Iv~gPGSlyTSI~P~Llv~gI~e-Ai~~s~a~kV~v~N 215 (308)
T cd07187 164 KANPEALEAIE--EADLIVYGPGSLYTSILPNLLVKGIAE-AIRASKAPKVYICN 215 (308)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHH-HHHhCCCCEEEEec
Confidence 46678888888 99999999643 22233445555555 55788899888865
No 164
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=70.44 E-value=9.4 Score=23.17 Aligned_cols=40 Identities=18% Similarity=0.423 Sum_probs=30.7
Q ss_pred hcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 110 KHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 110 ~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+.+++.||+|+...+.++ ++.-+...+++-.|-|...|-+
T Consensus 59 ee~~E~ivvGTG~~G~l~---l~~ea~e~~r~k~~~vi~~pT~ 98 (121)
T COG1504 59 EEGPEVIVVGTGQSGMLE---LSEEAREFFRKKGCEVIELPTP 98 (121)
T ss_pred hcCCcEEEEecCceeEEE---eCHHHHHHHHhcCCeEEEeCCH
Confidence 368999999987655444 5677788888888988888754
No 165
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=70.13 E-value=31 Score=23.30 Aligned_cols=65 Identities=8% Similarity=0.055 Sum_probs=37.3
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEe----cCCCCCcccccccchhHHHhhcCC-CcEEEEc
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVG----SHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVR 150 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg----~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~ 150 (154)
.+...+...+..+.. +..-+.....+..+....+|++++. -...++. .....+.+..| ++++++-
T Consensus 15 gl~~~L~~~~~~~~v-v~~~~~~~~~~~~~~~~~pDlvLlDl~~~l~~~~g~------~~i~~i~~~~p~~~iivlt 84 (207)
T PRK15411 15 GLTGYLLSRGVKKRE-INDIETVDDLAIACDSLRPSVVFINEDCFIHDASNS------QRIKQIINQHPNTLFIVFM 84 (207)
T ss_pred HHHHHHHhCCCcceE-EEecCCHHHHHHHHhccCCCEEEEeCcccCCCCChH------HHHHHHHHHCCCCeEEEEE
Confidence 344444443433333 3333344445556677789999999 3332211 36677777676 8888873
No 166
>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=70.07 E-value=50 Score=25.77 Aligned_cols=72 Identities=11% Similarity=0.029 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHhcC-CeEEEEEec-CChhhHHHHHHHhc----CCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 74 LALLGRAKEICAKHG-VVAETMTEM-GDPKNVICEAAEKH----KIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~-~~~~~~v~~-g~~~~~i~~~a~~~----~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
.+..+++.+.++..+ +++++.... -...+.+.+..++. ++|.||+-.+..+.- ...-.+++..++||+
T Consensus 22 ~~~~~~i~~~l~~~~~~~~~v~~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a------~~~i~~~~~l~~PvL 95 (484)
T cd03557 22 AAHSREIVDGLNASGKLPVKIVFKPVLTTPDEILAVCREANADDNCAGVITWMHTFSPA------KMWIAGLTALQKPLL 95 (484)
T ss_pred HHHHHHHHHHhcccCCCCeEEEEccccCCHHHHHHHHHHccccCCccEEEEccCCCchH------HHHHHHHHHcCCCEE
Confidence 334445555554432 444332222 14455555666653 599999987764432 244567889999999
Q ss_pred EEcC
Q 031713 148 VVRK 151 (154)
Q Consensus 148 iv~~ 151 (154)
+...
T Consensus 96 ~~~~ 99 (484)
T cd03557 96 HLHT 99 (484)
T ss_pred EEcc
Confidence 9854
No 167
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=69.98 E-value=38 Score=25.60 Aligned_cols=114 Identities=11% Similarity=0.100 Sum_probs=63.6
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
.-++|||+|.++-.+-++++.+..+-+ .| +++.++---.. .++.....
T Consensus 3 ~~k~ill~v~gsiaayk~~~l~r~L~~-~g--a~v~vvmt~~a-----------------------------~~fv~p~~ 50 (392)
T COG0452 3 EGKRILLGVTGSIAAYKSVELVRLLRR-SG--AEVRVVMTESA-----------------------------RKFITPLT 50 (392)
T ss_pred CCceEEEEecCchhhhhHHHHHHHHhh-CC--CeeEEEcchhh-----------------------------hhhcCccc
Confidence 456999999999999999887776665 45 78877744332 22222222
Q ss_pred HHHHhcCCeEEEEEecCChhhHHHH--HHHhcCCCEEEEecCCCCCcccc---cccchhHHHhhcCCCcEEEEcC
Q 031713 82 EICAKHGVVAETMTEMGDPKNVICE--AAEKHKIQLLIVGSHSRGPIQRA---FLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g~~~~~i~~--~a~~~~~dlivlg~~~~~~~~~~---~~gs~~~~l~~~~~~pvliv~~ 151 (154)
-.+.....-+. .........+.+ +++ .+|++++.-...+...+. +........+..+.+|++++|.
T Consensus 51 ~~~~s~~~v~t--~~~~~~~~~~~HI~l~~--~adl~lvaPaTan~i~Kla~g~aD~~~t~~~~a~~~p~~~aPa 121 (392)
T COG0452 51 FQALSGNPVYT--LLDEELTGSVEHIELAR--WADLLLVAPATANTIAKLAVGIADNLSTTTLLAAKAPLVLAPA 121 (392)
T ss_pred HHHhhCCCccc--cccccccccccHhhhhh--ccCEEEecCCChhHHHHHHHhhhccHHHHHHHHhcCcEEEecC
Confidence 22222122222 222233333333 344 899988876655555552 2222233344555569999875
No 168
>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=69.92 E-value=38 Score=24.26 Aligned_cols=77 Identities=14% Similarity=-0.014 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+..+.++.+.+... ..+++-..+.. +. ...+.+.+++.++|-+++..........--+-..-..|...++.||++.
T Consensus 54 Er~~l~~~~~~~~~-~~~pvi~gv~~-~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~~~pi~lY 131 (289)
T cd00951 54 EYAQVVRAAVEETA-GRVPVLAGAGY-GTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKSTDLGVIVY 131 (289)
T ss_pred HHHHHHHHHHHHhC-CCCCEEEecCC-CHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcCCCCEEEE
Confidence 33444555555443 23554444432 44 3444577899999999997654322222111223356777889999988
Q ss_pred c
Q 031713 150 R 150 (154)
Q Consensus 150 ~ 150 (154)
.
T Consensus 132 n 132 (289)
T cd00951 132 N 132 (289)
T ss_pred e
Confidence 4
No 169
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=69.77 E-value=33 Score=24.23 Aligned_cols=64 Identities=23% Similarity=0.315 Sum_probs=37.8
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHHHh-hcCCCcEEEEcC
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNYCV-HNAKCPVLVVRK 151 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~l~-~~~~~pvliv~~ 151 (154)
+...+.+.|++++... .. .+..+.+ ++|.+++|+.. .+..-. ..|+..-.++ +...+|++++..
T Consensus 126 ~a~~L~~~GI~vtli~--Ds---a~~~~m~--~vd~VlvGAd~V~~nG~v~n-kvGT~~~Al~A~~~~vPv~V~~~ 193 (253)
T PRK06372 126 MAKLLVKSGIDVVLLT--DA---SMCEAVL--NVDAVIVGSDSVLYDGGLIH-KNGTFPLALCARYLKKPFYSLTI 193 (253)
T ss_pred HHHHHHHCCCCEEEEe--hh---HHHHHHH--hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEEee
Confidence 3444455788875432 21 2333344 69999999975 222222 3555555444 777799999854
No 170
>PRK00919 GMP synthase subunit B; Validated
Probab=69.76 E-value=40 Score=24.54 Aligned_cols=37 Identities=14% Similarity=-0.036 Sum_probs=28.0
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
++++|++.+.-.|..++..+.+ ..| .+++.+|+....
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~---~lG--~~v~aV~vD~G~ 58 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHR---AIG--DRLTPVFVDTGL 58 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHH---HhC--CeEEEEEEECCC
Confidence 6899999999888877765544 235 589999997664
No 171
>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=69.75 E-value=9.6 Score=27.72 Aligned_cols=51 Identities=20% Similarity=0.298 Sum_probs=35.3
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
.+....++..+ ++|+||+|-.. .+-...++...+.+ -++++++|++.|.+-
T Consensus 161 ~a~~~al~AI~--~ADlIvlgPGSlyTSIiPnLlv~gI~e-AI~~s~a~kV~v~N~ 213 (310)
T TIGR01826 161 PALREAVEAIR--EADLIILGPGSLYTSIIPNLLVPEIAE-ALRESKAPKVYVCNL 213 (310)
T ss_pred CCCHHHHHHHH--hCCEEEECCCcCHHHhchhcCchhHHH-HHHhCCCCEEEEeCC
Confidence 46678888888 99999999643 22233445555655 557788998888653
No 172
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=69.67 E-value=25 Score=25.49 Aligned_cols=64 Identities=17% Similarity=0.268 Sum_probs=37.7
Q ss_pred HHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHHHh-hcCCCcEEEEcC
Q 031713 82 EICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNYCV-HNAKCPVLVVRK 151 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~l~-~~~~~pvliv~~ 151 (154)
..+.+.|++++... ...+....+..++|++++|+.. .+..-. -.|+..-.++ +..++|++++-+
T Consensus 172 ~~L~~~gI~vtlI~-----Dsa~~~~m~~~~vd~VlvGAd~v~~nG~v~n-k~GT~~lA~~Ak~~~vPv~V~a~ 239 (303)
T TIGR00524 172 WELMQDGIDVTLIT-----DSMAAYFMQKGEIDAVIVGADRIARNGDVAN-KIGTYQLAVLAKEFRIPFFVAAP 239 (303)
T ss_pred HHHHHCCCCEEEEC-----hhHHHHHccccCCCEEEEcccEEecCCCEeE-hhhHHHHHHHHHHhCCCEEEecc
Confidence 33445677765533 2233344445689999999975 222222 3455444444 777799999854
No 173
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=69.66 E-value=37 Score=24.04 Aligned_cols=67 Identities=18% Similarity=0.259 Sum_probs=41.9
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHH--hcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEE
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAE--KHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~--~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
...+.+.+...|+++......||..+.|.+..+ ..++|+||+.- |-++...- -+.+.+.+....|+.
T Consensus 23 a~~la~~L~~~G~~v~~~~~VgD~~~~I~~~l~~a~~r~D~vI~tG-GLGPT~DD---iT~e~vAka~g~~lv 91 (255)
T COG1058 23 AAFLADELTELGVDLARITTVGDNPDRIVEALREASERADVVITTG-GLGPTHDD---LTAEAVAKALGRPLV 91 (255)
T ss_pred HHHHHHHHHhcCceEEEEEecCCCHHHHHHHHHHHHhCCCEEEECC-CcCCCccH---hHHHHHHHHhCCCcc
Confidence 455667777889999998888977666665422 23499998863 44444331 144445555555543
No 174
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=69.60 E-value=43 Score=24.77 Aligned_cols=55 Identities=18% Similarity=0.284 Sum_probs=37.6
Q ss_pred HHHHHHHHHHhcCCeEEEEEecC-ChhhHHH---HHHHhcCCCEEEEecCCCCCcccccc
Q 031713 76 LLGRAKEICAKHGVVAETMTEMG-DPKNVIC---EAAEKHKIQLLIVGSHSRGPIQRAFL 131 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~---~~a~~~~~dlivlg~~~~~~~~~~~~ 131 (154)
..+++..+.++.|+++-..- .| +|+..+- ++|+..++|++++.+-||-....-+.
T Consensus 182 AiEQL~~w~er~gv~vI~~~-~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM 240 (340)
T COG0552 182 AIEQLEVWGERLGVPVISGK-EGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLM 240 (340)
T ss_pred HHHHHHHHHHHhCCeEEccC-CCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHH
Confidence 34556666666788865543 55 7776665 46888999999999987655554443
No 175
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=69.55 E-value=16 Score=23.25 Aligned_cols=52 Identities=10% Similarity=0.123 Sum_probs=37.2
Q ss_pred hhhHHHHHHHhcCCCEEEEecCC----CCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHS----RGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~----~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+.|.+.+++.+++.||+|-.- .........-.+++.|-++.+.||..+-+
T Consensus 41 ~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~~L~~r~~lpv~l~DE 96 (141)
T COG0816 41 DFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAERLKKRFNLPVVLWDE 96 (141)
T ss_pred hHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHHHHHHhcCCCEEEEcC
Confidence 68889999999999999999853 11112223445667777888899887743
No 176
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=69.50 E-value=24 Score=25.10 Aligned_cols=91 Identities=7% Similarity=0.051 Sum_probs=53.1
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+|-|.+.-...++.-++-|-++.+..| ...+.|+.-+..... +.+....++....
T Consensus 4 kIGivTgtvSq~ed~~r~Ae~l~~~Yg---~~~I~h~tyPdnf~~----------------------e~EttIskI~~lA 58 (275)
T PF12683_consen 4 KIGIVTGTVSQSEDEYRGAEELIKKYG---DVMIKHVTYPDNFMS----------------------EQETTISKIVSLA 58 (275)
T ss_dssp EEEEEE--TTT-HHHHHHHHHHHHHHH---HHEEEEEE--TTGGG----------------------CHHHHHHHHHGGG
T ss_pred EEEEEeCCcccChHHHHHHHHHHHHhC---cceEEEEeCCCcccc----------------------hHHHHHHHHHHhc
Confidence 466677776777778888888888887 437888876655432 2344455555555
Q ss_pred HhcCCeEEEEEec-C-ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 85 AKHGVVAETMTEM-G-DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 85 ~~~~~~~~~~v~~-g-~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.... ++..++. + +-...-.+-+++.+.|+|.+....
T Consensus 59 dDp~--mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~ 96 (275)
T PF12683_consen 59 DDPD--MKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEP 96 (275)
T ss_dssp G-TT--EEEEEEE-SS---HHHHHHHHHH-TTSEEEESS-
T ss_pred cCCC--ccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCC
Confidence 4444 5555544 3 334555677889999999998764
No 177
>COG0391 Uncharacterized conserved protein [Function unknown]
Probab=69.22 E-value=11 Score=27.60 Aligned_cols=50 Identities=16% Similarity=0.284 Sum_probs=35.2
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+..+.++..+ ++|+||+|-.. .+-...+.++.+++.| +++..|++.+.+
T Consensus 178 ~a~~eaveAI~--~AD~IviGPgSl~TSIlP~Lllp~I~eaL-r~~~ap~i~v~n 229 (323)
T COG0391 178 SAAPEAVEAIK--EADLIVIGPGSLFTSILPILLLPGIAEAL-RETVAPIVYVCN 229 (323)
T ss_pred CCCHHHHHHHH--hCCEEEEcCCccHhhhchhhchhHHHHHH-HhCCCCEEEecc
Confidence 46778888888 99999999653 3333445667676644 448888887754
No 178
>PRK00861 putative lipid kinase; Reviewed
Probab=68.89 E-value=40 Score=24.14 Aligned_cols=66 Identities=11% Similarity=0.186 Sum_probs=37.6
Q ss_pred HHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 79 RAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
++...++. +.+++...... ..+..+.+.+.+.++|+||+.- |.+.+. .+++.++ ...+|+-++|..
T Consensus 24 ~i~~~l~~-~~~~~~~~t~~~~~a~~~a~~~~~~~~d~vv~~G-GDGTl~-----evv~~l~-~~~~~lgviP~G 90 (300)
T PRK00861 24 LIRAILEP-EMDLDIYLTTPEIGADQLAQEAIERGAELIIASG-GDGTLS-----AVAGALI-GTDIPLGIIPRG 90 (300)
T ss_pred HHHHHHHh-cCceEEEEccCCCCHHHHHHHHHhcCCCEEEEEC-ChHHHH-----HHHHHHh-cCCCcEEEEcCC
Confidence 33334443 34555555443 4566777666667889877653 344333 3445554 346888888864
No 179
>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=68.48 E-value=42 Score=24.26 Aligned_cols=35 Identities=14% Similarity=-0.005 Sum_probs=25.5
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
+++|++.+.-.|..++..+.+ ..| .++..+|+...
T Consensus 1 kVlVa~SGGVDSsvla~ll~~---~lG--~~v~aV~vd~g 35 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHK---AIG--DRLTCVFVDNG 35 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHH---HhC--CcEEEEEecCC
Confidence 588999998888766655543 234 57999999655
No 180
>PF01791 DeoC: DeoC/LacD family aldolase; InterPro: IPR002915 This family includes the enzyme deoxyribose-phosphate aldolase, which is involved in nucleotide metabolism. 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde The family also includes a group of related bacterial proteins of unknown function, see examples Q57843 from SWISSPROT and P76143 from SWISSPROT.; GO: 0016829 lyase activity; PDB: 2A4A_A 1VCV_B 1P1X_A 1KTN_B 1JCL_A 1JCJ_A 1MZH_A 3GKF_D 3GLC_L 3GND_N ....
Probab=68.45 E-value=36 Score=23.46 Aligned_cols=79 Identities=13% Similarity=0.075 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEEec-CCh---------hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHh
Q 031713 70 KKAALALLGRAKEICAKHGVVAETMTEM-GDP---------KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCV 139 (154)
Q Consensus 70 ~~~~~~~l~~~~~~~~~~~~~~~~~v~~-g~~---------~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~ 139 (154)
.....+.+.++.+.|+..++++-..... +.. .....+.+.+.++|+|=..+.+. .....---....+++
T Consensus 107 ~~~~~~~i~~v~~~~~~~gl~vIlE~~l~~~~~~~~~~~~~I~~a~ria~e~GaD~vKt~tg~~-~~~t~~~~~~~~~~~ 185 (236)
T PF01791_consen 107 EDEVIEEIAAVVEECHKYGLKVILEPYLRGEEVADEKKPDLIARAARIAAELGADFVKTSTGKP-VGATPEDVELMRKAV 185 (236)
T ss_dssp HHHHHHHHHHHHHHHHTSEEEEEEEECECHHHBSSTTHHHHHHHHHHHHHHTT-SEEEEE-SSS-SCSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcCCcEEEEEEecCchhhcccccHHHHHHHHHHHHHhCCCEEEecCCcc-ccccHHHHHHHHHHH
Confidence 5556677788888888888875444222 222 24555677889999998887632 222211122345677
Q ss_pred hcCCCc----EEEE
Q 031713 140 HNAKCP----VLVV 149 (154)
Q Consensus 140 ~~~~~p----vliv 149 (154)
..+++| |.+-
T Consensus 186 ~~~~~p~~~~Vk~s 199 (236)
T PF01791_consen 186 EAAPVPGKVGVKAS 199 (236)
T ss_dssp HTHSSTTTSEEEEE
T ss_pred HhcCCCcceEEEEe
Confidence 888888 7664
No 181
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=68.40 E-value=46 Score=24.70 Aligned_cols=33 Identities=12% Similarity=0.051 Sum_probs=24.1
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
++|+|++.+.-.|..++..+.+ .+ -++..+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G--~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QG--YEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cC--CeEEEEEEE
Confidence 4799999998888766654433 34 588888884
No 182
>PRK07998 gatY putative fructose-1,6-bisphosphate aldolase; Reviewed
Probab=68.10 E-value=29 Score=24.94 Aligned_cols=69 Identities=12% Similarity=0.160 Sum_probs=45.6
Q ss_pred HHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 81 KEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 81 ~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
.+.+.+.+.-+----..+ ...+++++.|++.+..+|+-.+.+.-...+ ..+......+.+++.+||.+-
T Consensus 10 l~~A~~~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIl~~~~~~~~~~g~~~~~~~~~~~A~~~~vPV~lH 80 (283)
T PRK07998 10 LDRIQEKHVLAGAFNTTNLETTISILNAIERSGLPNFIQIAPTNAQLSGYDYIYEIVKRHADKMDVPVSLH 80 (283)
T ss_pred HHHHHHCCCEEEEEeeCCHHHHHHHHHHHHHhCCCEEEECcHhHHhhCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 333444444433333344 688999999999999999988765332222 235566777888999998764
No 183
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=67.76 E-value=54 Score=25.22 Aligned_cols=47 Identities=21% Similarity=0.276 Sum_probs=24.7
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHH---HHHHHhcCCCEEEEecCCCCCccc
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVI---CEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
+...+...++++.......++...+ ++.++ ..|+||+.+.|+.....
T Consensus 142 L~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~--~~DvVIIDTAGr~~~d~ 191 (437)
T PRK00771 142 LKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFK--KADVIIVDTAGRHALEE 191 (437)
T ss_pred HHHHHHHcCCcEEecCCccCHHHHHHHHHHHhh--cCCEEEEECCCcccchH
Confidence 3334444566643221123444333 33333 46999999988776544
No 184
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=67.61 E-value=27 Score=24.50 Aligned_cols=46 Identities=20% Similarity=0.172 Sum_probs=33.2
Q ss_pred HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 103 VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 103 ~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
......++.+.|++|+.+...... -..-+..++.....|.+|+.+.
T Consensus 51 ~~~~~~~~~~pDf~i~isPN~a~P----GP~~ARE~l~~~~iP~IvI~D~ 96 (277)
T PRK00994 51 VVKKMLEEWKPDFVIVISPNPAAP----GPKKAREILKAAGIPCIVIGDA 96 (277)
T ss_pred HHHHHHHhhCCCEEEEECCCCCCC----CchHHHHHHHhcCCCEEEEcCC
Confidence 344456788999999987643322 2346788999999999998654
No 185
>PLN02476 O-methyltransferase
Probab=67.36 E-value=25 Score=25.21 Aligned_cols=47 Identities=15% Similarity=0.121 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHH---hcCCCEEEEecCC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAE---KHKIQLLIVGSHS 122 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~---~~~~dlivlg~~~ 122 (154)
..+.+.+.++..|+.-...+..|+..+.+-++.. ...+|++++.+.+
T Consensus 155 ~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K 204 (278)
T PLN02476 155 SLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADK 204 (278)
T ss_pred HHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCH
Confidence 3445556666778876677888998888776643 2579999999864
No 186
>PF03162 Y_phosphatase2: Tyrosine phosphatase family; InterPro: IPR004861 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry represents protein-tyrosine phosphatases predominantly from fungi, plants and bacteria, several of which are putative enzymes. These proteins are closely related to the Y-phosphatase and DSPc families. This entry includes the PTPase SIW14 from Saccharomyces cerevisiae (Baker's yeast), which plays a role in actin filament organisation and endocytosis.; PDB: 2Q47_A 1XRI_A.
Probab=67.29 E-value=16 Score=23.84 Aligned_cols=68 Identities=16% Similarity=0.157 Sum_probs=31.6
Q ss_pred HHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCC-c---ccccccchhHHHhhcCCCcEEEEcC
Q 031713 84 CAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGP-I---QRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~-~---~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
++..|++.-..+...++.+....+++++++.++-++...... . ..-..-...+.++...+-||+|...
T Consensus 28 L~~L~LKTII~L~~e~~~~~~~~f~~~~~I~l~~~~~~~~~~~~~~~~~~~v~~aL~~ild~~n~PvLiHC~ 99 (164)
T PF03162_consen 28 LERLGLKTIINLRPEPPSQDFLEFAEENGIKLIHIPMSSSKDPWVPISEEQVAEALEIILDPRNYPVLIHCN 99 (164)
T ss_dssp HHHHT-SEEEE--SS---HHHHHHHHHTT-EEEE-------GGG----HHHHHHHHHHHH-GGG-SEEEE-S
T ss_pred HHHCCCceEEEecCCCCCHHHHHHHhhcCceEEEeccccccCccccCCHHHHHHHHHHHhCCCCCCEEEEeC
Confidence 334577765656555666777779999999999998764332 1 1111222224456677899999864
No 187
>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=67.12 E-value=15 Score=22.70 Aligned_cols=33 Identities=9% Similarity=0.001 Sum_probs=25.5
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEE
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIF 39 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l 39 (154)
+||++.+.++.....+.++...+.+. | .++.++
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~~~-g--~~v~vv 33 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLKRA-G--WEVRVV 33 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHHTT-T--SEEEEE
T ss_pred CEEEEEEECHHHHHHHHHHHHHHhhC-C--CEEEEE
Confidence 68999999999999988888877776 5 576655
No 188
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=66.99 E-value=7.5 Score=24.99 Aligned_cols=19 Identities=32% Similarity=0.448 Sum_probs=9.5
Q ss_pred hHHHHHHHhcCCCEEEEec
Q 031713 102 NVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~ 120 (154)
+.|.++...+++|+|++|.
T Consensus 53 ~~l~~~i~~~kP~vI~v~g 71 (150)
T PF14639_consen 53 ERLKKFIEKHKPDVIAVGG 71 (150)
T ss_dssp HHHHHHHHHH--SEEEE--
T ss_pred HHHHHHHHHcCCeEEEEcC
Confidence 4455566667777777753
No 189
>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=66.88 E-value=43 Score=23.76 Aligned_cols=80 Identities=14% Similarity=0.018 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
++..+.++.+.+.+. ..+.+-..+...+. ..++.+.+++.++|-+++..........--+-..-..|...++.||++
T Consensus 53 ~Er~~l~~~~~~~~~-~~~~vi~gv~~~~~~~~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~~~pi~l 131 (284)
T cd00950 53 EEHEAVIEAVVEAVN-GRVPVIAGTGSNNTAEAIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEATDLPVIL 131 (284)
T ss_pred HHHHHHHHHHHHHhC-CCCcEEeccCCccHHHHHHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcCCCCEEE
Confidence 334455555555443 23333333322233 344456789999998888865432222211223446677778899998
Q ss_pred EcC
Q 031713 149 VRK 151 (154)
Q Consensus 149 v~~ 151 (154)
...
T Consensus 132 Yn~ 134 (284)
T cd00950 132 YNV 134 (284)
T ss_pred EEC
Confidence 853
No 190
>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=66.79 E-value=43 Score=23.69 Aligned_cols=81 Identities=11% Similarity=0.028 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
++..+.++.+.+... ..+++-..+...+. ...+.+.+++.++|-+++..........--+-..-..+...++.|+++
T Consensus 50 ~Er~~l~~~~~~~~~-~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~~~pi~i 128 (281)
T cd00408 50 EERKEVIEAVVEAVA-GRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADASDLPVIL 128 (281)
T ss_pred HHHHHHHHHHHHHhC-CCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEE
Confidence 344555555555543 23444333333333 344556788999999999875433322222223445677778899998
Q ss_pred EcCC
Q 031713 149 VRKP 152 (154)
Q Consensus 149 v~~~ 152 (154)
...+
T Consensus 129 Yn~P 132 (281)
T cd00408 129 YNIP 132 (281)
T ss_pred EECc
Confidence 8543
No 191
>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-dehydro-4-deoxyglucarate dehydratase not only catalyzes the dehydration of the substrate (diol to ketone + water), but causes the decarboxylation of the intermediate product to yield 2-oxoglutarate semialdehyde (2,5-dioxopentanoate). The gene for the enzyme is usually observed in the vicinity of transporters and dehydratases handling D-galactarate and D-gluconate as well as aldehyde dehydrogenases which convert the product to alpha-ketoglutarate.
Probab=66.73 E-value=45 Score=23.94 Aligned_cols=77 Identities=14% Similarity=-0.014 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+.++.++.+.+.... .+++-..+. ++..+ ++.+.+++.++|-+++-.........--+-..-..|...++.||++.
T Consensus 59 Er~~v~~~~~~~~~g-~~pvi~gv~-~~t~~ai~~a~~a~~~Gadav~~~pP~y~~~s~~~i~~~f~~v~~a~~~pvilY 136 (296)
T TIGR03249 59 EYEQVVEIAVSTAKG-KVPVYTGVG-GNTSDAIEIARLAEKAGADGYLLLPPYLINGEQEGLYAHVEAVCESTDLGVIVY 136 (296)
T ss_pred HHHHHHHHHHHHhCC-CCcEEEecC-ccHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhccCCCEEEE
Confidence 344555555554332 344444443 23433 45577889999999886653322222112223356777788999987
Q ss_pred c
Q 031713 150 R 150 (154)
Q Consensus 150 ~ 150 (154)
.
T Consensus 137 n 137 (296)
T TIGR03249 137 Q 137 (296)
T ss_pred e
Confidence 5
No 192
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=66.35 E-value=19 Score=24.75 Aligned_cols=50 Identities=18% Similarity=0.290 Sum_probs=30.5
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKPV 153 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~~ 153 (154)
...+.+.+.+.+.|.|++|.... .. .-...+...+-+... .||++.|...
T Consensus 14 ~~~~~~~~~~~gtdai~vGGS~~--v~-~~~~~~~~~ik~~~~~~Pvilfp~~~ 64 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVGGSDG--VS-STLDNVVRLIKRIRRPVPVILFPSNP 64 (219)
T ss_pred HHHHHHHHHhcCCCEEEECCccc--hh-hhHHHHHHHHHHhcCCCCEEEeCCCc
Confidence 45567777778999999996532 11 122233333333333 8999998764
No 193
>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=66.08 E-value=58 Score=24.98 Aligned_cols=24 Identities=17% Similarity=0.198 Sum_probs=15.6
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.....+++.+++.+.+...+|+.+
T Consensus 243 ~~~~~ll~~a~~~g~~~~wigs~~ 266 (458)
T cd06375 243 EDARELLAAAKRLNASFTWVASDG 266 (458)
T ss_pred HHHHHHHHHHHHcCCcEEEEEecc
Confidence 455566677777777766776654
No 194
>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=65.99 E-value=11 Score=27.20 Aligned_cols=50 Identities=22% Similarity=0.352 Sum_probs=29.7
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+....++..+ ++|+||+|-.. .+-...+....+ .+.++++++|++.|.+
T Consensus 172 ~~~p~~l~AI~--~AD~IiigPgs~~TSI~P~L~v~gi-~~Ai~~s~a~kV~V~n 223 (300)
T PF01933_consen 172 KANPEALEAIE--EADLIIIGPGSLYTSIIPNLLVPGI-REAIRESKAPKVYVSN 223 (300)
T ss_dssp -B-HHHHHHHH--H-SEEEE-SS-CCCCCHHHHTSHHH-HHHHHHSSSEEEEE-S
T ss_pred CCCHHHHHHHH--hCCEEEEcCCCchhhhcccccchhH-HHHHHhCCCCEEEEcC
Confidence 46677888888 89999999653 222223334444 5577777899888865
No 195
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=65.96 E-value=45 Score=23.70 Aligned_cols=104 Identities=15% Similarity=0.026 Sum_probs=61.1
Q ss_pred chHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEE
Q 031713 14 ECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAET 93 (154)
Q Consensus 14 ~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 93 (154)
+..+.++++|..+.+. + .++...+.+.+..... +|.+ -.++.+..+.+.+++.|+.+-+
T Consensus 38 e~~~~~~~~A~~lk~~-g--~~~~r~~~~kpRTs~~---s~~G---------------~g~~gl~~l~~~~~~~Gl~~~t 96 (266)
T PRK13398 38 ESEEQMVKVAEKLKEL-G--VHMLRGGAFKPRTSPY---SFQG---------------LGEEGLKILKEVGDKYNLPVVT 96 (266)
T ss_pred CCHHHHHHHHHHHHHc-C--CCEEEEeeecCCCCCC---ccCC---------------cHHHHHHHHHHHHHHcCCCEEE
Confidence 4567788888888774 4 5777777777443311 1111 1144556666667888999888
Q ss_pred EEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 94 MTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 94 ~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+..-...+.+ .+. +|++-+|++.-.... ...++ ...+.||++=+
T Consensus 97 e~~d~~~~~~l----~~~-vd~~kIga~~~~n~~------LL~~~-a~~gkPV~lk~ 141 (266)
T PRK13398 97 EVMDTRDVEEV----ADY-ADMLQIGSRNMQNFE------LLKEV-GKTKKPILLKR 141 (266)
T ss_pred eeCChhhHHHH----HHh-CCEEEECcccccCHH------HHHHH-hcCCCcEEEeC
Confidence 77555444444 333 689999987533211 11222 34567776543
No 196
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=65.45 E-value=41 Score=22.95 Aligned_cols=82 Identities=9% Similarity=0.031 Sum_probs=49.1
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
||.|-+.++.+...++-.+++-- . ....++.|+..... ....+.+
T Consensus 1 ki~vl~Sg~Gsn~~al~~~~~~~---~--l~~~i~~visn~~~------------------------------~~~~~~A 45 (207)
T PLN02331 1 KLAVFVSGGGSNFRAIHDACLDG---R--VNGDVVVVVTNKPG------------------------------CGGAEYA 45 (207)
T ss_pred CEEEEEeCCChhHHHHHHHHHcC---C--CCeEEEEEEEeCCC------------------------------ChHHHHH
Confidence 47788888888887776665322 1 23344444444321 1224455
Q ss_pred HhcCCeEEEEEecC-----ChhhHHHHHHHhcCCCEEEEecC
Q 031713 85 AKHGVVAETMTEMG-----DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 85 ~~~~~~~~~~v~~g-----~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
++.|+++...-... ....++.+..++.++|++|+...
T Consensus 46 ~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~Dliv~agy 87 (207)
T PLN02331 46 RENGIPVLVYPKTKGEPDGLSPDELVDALRGAGVDFVLLAGY 87 (207)
T ss_pred HHhCCCEEEeccccCCCcccchHHHHHHHHhcCCCEEEEeCc
Confidence 66788864422211 12567888889999999999654
No 197
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=65.38 E-value=12 Score=20.91 Aligned_cols=29 Identities=24% Similarity=0.161 Sum_probs=21.7
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAI 31 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~ 31 (154)
.++|++++|++.....+..+..+.....|
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~g 74 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLG 74 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG---
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhc
Confidence 47899999999999988888888665544
No 198
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=65.32 E-value=50 Score=24.00 Aligned_cols=52 Identities=13% Similarity=0.177 Sum_probs=36.5
Q ss_pred cCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 97 MGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 97 ~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
.++....++..|++..-++-|+-+.++..++ |...-+-+++..+|+.++++.
T Consensus 128 ~S~~v~~~l~~A~~~~k~~~V~VtESRP~~e----G~~~ak~L~~~gI~~~~I~Ds 179 (301)
T COG1184 128 FSKTVLEVLKTAADRGKRFKVIVTESRPRGE----GRIMAKELRQSGIPVTVIVDS 179 (301)
T ss_pred CcHHHHHHHHHhhhcCCceEEEEEcCCCcch----HHHHHHHHHHcCCceEEEech
Confidence 3467777888887766555555555544444 677788889999999988764
No 199
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=65.06 E-value=41 Score=22.93 Aligned_cols=102 Identities=13% Similarity=0.086 Sum_probs=56.0
Q ss_pred EEecCC---chHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 8 VAIDES---ECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 8 v~vd~~---~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
+.+.+. .....+.++.++++...+ .++.++-.-.... +...+.+.+.+
T Consensus 3 ~~iGGg~~~~~~~~i~~~~~~~ag~~~--~~i~~iptA~~~~---------------------------~~~~~~~~~~~ 53 (217)
T cd03145 3 VLIGGAEDKYDNRAILQRFVARAGGAG--ARIVVIPAASEEP---------------------------AEVGEEYRDVF 53 (217)
T ss_pred EEEeCCCCCcCHHHHHHHHHHHcCCCC--CcEEEEeCCCcCh---------------------------hHHHHHHHHHH
Confidence 444444 367778888888887433 5665553322210 12233444444
Q ss_pred HhcCCe-EEEEEecC---ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhh
Q 031713 85 AKHGVV-AETMTEMG---DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVH 140 (154)
Q Consensus 85 ~~~~~~-~~~~v~~g---~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~ 140 (154)
++.|.. +....... .....+.+..+ ++|.|+++-.....+.+.+.++-..+.++
T Consensus 54 ~~lG~~~v~~~~~~~~~~a~~~~~~~~l~--~ad~I~~~GG~~~~~~~~l~~t~l~~~l~ 111 (217)
T cd03145 54 ERLGAREVEVLVIDSREAANDPEVVARLR--DADGIFFTGGDQLRITSALGGTPLLDALR 111 (217)
T ss_pred HHcCCceeEEeccCChHHcCCHHHHHHHH--hCCEEEEeCCcHHHHHHHHcCChHHHHHH
Confidence 455765 33333321 23455667777 89999998765555555555555555444
No 200
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=65.06 E-value=51 Score=23.99 Aligned_cols=62 Identities=16% Similarity=0.352 Sum_probs=36.7
Q ss_pred HHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHH-HhhcCCCcEEEEcC
Q 031713 82 EICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNY-CVHNAKCPVLVVRK 151 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~-l~~~~~~pvliv~~ 151 (154)
..+.+.|+++..... ..+..... ++|.+++|+.. .+..-. ..|+..-. +.++..+||+++-+
T Consensus 165 ~~L~~~GI~vtlI~D-----sav~~~m~--~vd~VivGAd~v~~nG~v~n-kiGT~~~A~~Ak~~~vPv~V~a~ 230 (310)
T PRK08535 165 KELAEYGIPVTLIVD-----SAVRYFMK--DVDKVVVGADAITANGAVIN-KIGTSQIALAAHEARVPFMVAAE 230 (310)
T ss_pred HHHHHCCCCEEEEeh-----hHHHHHHH--hCCEEEECccEEecCCCEEe-HHhHHHHHHHHHHhCCCEEEecc
Confidence 344566888765432 22333344 59999999975 222222 34554444 44667799999844
No 201
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=65.05 E-value=27 Score=20.78 Aligned_cols=61 Identities=16% Similarity=0.224 Sum_probs=37.3
Q ss_pred HhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 85 AKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 85 ~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
++.|++++...........|.+..++.++|++|-...+... .-.|....+..-...+|++.
T Consensus 40 ~~~gi~~~~v~~~~~~~~~i~~~i~~~~id~vIn~~~~~~~---~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 40 QEAGIPVEVVNKVSEGRPNIVDLIKNGEIQLVINTPSGKRA---IRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred HHcCCeEEEEeecCCCchhHHHHHHcCCeEEEEECCCCCcc---CccHHHHHHHHHHhCCCEEe
Confidence 34688765543332344778999999999999987543321 11233445555555788764
No 202
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=64.73 E-value=49 Score=23.69 Aligned_cols=63 Identities=19% Similarity=0.213 Sum_probs=36.7
Q ss_pred HHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHHHh-hcCCCcEEEEcC
Q 031713 81 KEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNYCV-HNAKCPVLVVRK 151 (154)
Q Consensus 81 ~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~l~-~~~~~pvliv~~ 151 (154)
...+.+.|++++... .+. +..+.+ ++|.+++|+.. .+..-. -.|+..-.++ +.-.+|++++-+
T Consensus 153 a~eL~~~GI~vtlI~--Dsa---~~~~m~--~vd~VivGAD~I~~nG~v~N-KiGT~~lA~~Ak~~~vPfyV~a~ 219 (275)
T PRK08335 153 ANELEFLGIEFEVIT--DAQ---LGLFAK--EATLALVGADNVTRDGYVVN-KAGTYLLALACHDNGVPFYVAAE 219 (275)
T ss_pred HHHHHHCCCCEEEEe--ccH---HHHHHH--hCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEECc
Confidence 444455688876543 222 222344 49999999975 222222 3455444444 667799999854
No 203
>PRK13399 fructose-1,6-bisphosphate aldolase; Provisional
Probab=64.73 E-value=46 Score=24.72 Aligned_cols=70 Identities=16% Similarity=0.123 Sum_probs=46.3
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCC-CcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAK-CPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~-~pvliv 149 (154)
+...+.+.+.-+----... ...+++++.|++.+..+|+..+.+...... -++......+..+.+ +||.+-
T Consensus 9 lL~~A~~~~yaV~AfN~~n~e~~~avi~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~v~~~ae~~~~VPVaLH 81 (347)
T PRK13399 9 LLDHAAENGYGVPAFNVNNMEQILAIMEAAEATDSPVILQASRGARKYAGDAMLRHMVLAAAEMYPDIPICLH 81 (347)
T ss_pred HHHHHHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhcCCCcEEEE
Confidence 3333444444433333334 789999999999999999998876443333 345667777787885 898764
No 204
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=64.62 E-value=62 Score=24.76 Aligned_cols=48 Identities=8% Similarity=0.197 Sum_probs=25.4
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCccc
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
+++....+..++++.......+....|.+ ..++|+|++.+.|+.....
T Consensus 268 eqL~~~a~~~~vp~~~~~~~~~l~~~l~~---~~~~DlVlIDt~G~~~~d~ 315 (424)
T PRK05703 268 EQLKTYAKIMGIPVEVVYDPKELAKALEQ---LRDCDVILIDTAGRSQRDK 315 (424)
T ss_pred HHHHHHHHHhCCceEccCCHHhHHHHHHH---hCCCCEEEEeCCCCCCCCH
Confidence 33444444456665432222233333322 2378999999988765543
No 205
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=64.55 E-value=58 Score=24.46 Aligned_cols=48 Identities=19% Similarity=0.132 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHH--hcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCC
Q 031713 74 LALLGRAKEICA--KHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 74 ~~~l~~~~~~~~--~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
+++.+.+.+.++ ..|++++..-........+..... ++|.||+|+...
T Consensus 262 e~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~--~~d~ii~GspT~ 311 (394)
T PRK11921 262 RRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVF--KSKAILVGSSTI 311 (394)
T ss_pred HHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHH--hCCEEEEECCCc
Confidence 444555555555 557776654444434455555555 799999999764
No 206
>COG2876 AroA 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]
Probab=64.46 E-value=20 Score=25.55 Aligned_cols=87 Identities=15% Similarity=-0.020 Sum_probs=49.2
Q ss_pred CchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEE
Q 031713 13 SECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAE 92 (154)
Q Consensus 13 ~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 92 (154)
+-.+..-+..+..-.+..| +++.-.-.+.+....+ .+ +...++-+....+...++|..+.
T Consensus 54 svEs~E~i~~~A~~vk~~G--a~~lRGgafKPRTSPY---sF---------------QGlge~gL~~l~~a~~~~Gl~vv 113 (286)
T COG2876 54 SVESEEQVRETAESVKAAG--AKALRGGAFKPRTSPY---SF---------------QGLGEEGLKLLKRAADETGLPVV 113 (286)
T ss_pred ccCCHHHHHHHHHHHHHcc--hhhccCCcCCCCCCcc---cc---------------cccCHHHHHHHHHHHHHcCCeeE
Confidence 4444444445555556555 5655555555543322 11 11222445555666667899999
Q ss_pred EEEecCChhhHHHHHHHhcCCCEEEEecCCCC
Q 031713 93 TMTEMGDPKNVICEAAEKHKIQLLIVGSHSRG 124 (154)
Q Consensus 93 ~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~ 124 (154)
+.+..-.-.+.+.++ +|+|=+|++...
T Consensus 114 tEvm~~~~~e~~~~y-----~DilqvGARNMQ 140 (286)
T COG2876 114 TEVMDVRDVEAAAEY-----ADILQVGARNMQ 140 (286)
T ss_pred EEecCHHHHHHHHhh-----hhHHHhcccchh
Confidence 988765555554444 568888887543
No 207
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=64.22 E-value=49 Score=23.52 Aligned_cols=51 Identities=20% Similarity=0.257 Sum_probs=29.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHH---HHHHHhcCCCEEEEecCCCCCccc
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVI---CEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
+++..+.+..++++.......++...+ +..+...++|+|++.+.|+.....
T Consensus 117 ~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~~~~D~ViIDT~G~~~~d~ 170 (272)
T TIGR00064 117 EQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNKV 170 (272)
T ss_pred HHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHHCCCCEEEEeCCCCCcchH
Confidence 344445555565543222223555433 334556789999999998776433
No 208
>PRK12361 hypothetical protein; Provisional
Probab=64.18 E-value=70 Score=25.26 Aligned_cols=71 Identities=10% Similarity=0.049 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
.+..+++.+.+++. .+++...... ..+..+.+.+.+.++|+||+.- |.+.+. .+++.+. ...+|+-++|-.
T Consensus 259 ~~~~~~i~~~L~~~-~~~~v~~t~~~~~a~~la~~~~~~~~d~Viv~G-GDGTl~-----ev~~~l~-~~~~~lgiiP~G 330 (547)
T PRK12361 259 QEYGEQIQRELKAY-FDLTVKLTTPEISAEALAKQARKAGADIVIACG-GDGTVT-----EVASELV-NTDITLGIIPLG 330 (547)
T ss_pred HHHHHHHHHHHhcC-CceEEEECCCCccHHHHHHHHHhcCCCEEEEEC-CCcHHH-----HHHHHHh-cCCCCEEEecCC
Confidence 34556666666553 4554444433 3467777766666788877653 344333 3445444 456889998864
No 209
>TIGR01521 FruBisAldo_II_B fructose-bisphosphate aldolase, class II, Calvin cycle subtype. Members of this family are class II examples of the enzyme fructose-bisphosphate aldolase, an enzyme both of glycolysis and (in the opposite direction) of the Calvin cycle of CO2 fixation. A deep split separates the tightly conserved yeast/E. coli/Mycobacterium subtype (all species lacking the Calvin cycle) represented by model TIGR01520 from a broader group of aldolases that includes both tagatose- and fructose-bisphosphate aldolases. This model represents a distinct, elongated, very well conserved subtype within the latter group. Most species with this aldolase subtype have the Calvin cycle.
Probab=64.14 E-value=49 Score=24.62 Aligned_cols=68 Identities=18% Similarity=0.233 Sum_probs=45.5
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCC-CcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAK-CPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~-~pvliv 149 (154)
+.+.+.+.-+----..+ ...+++++.|++.+..+|+..+.+.-...+ -++......+..+++ +||.+-
T Consensus 9 ~~A~~~~yAV~AfN~~n~e~~~aii~AAEe~~sPvIlq~s~~~~~~~g~~~~~~~~~~~ae~~~~VPValH 79 (347)
T TIGR01521 9 DHAAEFGYGVPAFNVNNMEQMRAIMEAADKTDSPVILQASRGARSYAGAPFLRHLILAAIEEYPHIPVVMH 79 (347)
T ss_pred HHHHHcCceEEEEeeCCHHHHHHHHHHHHHhCCCEEEECCcchhhhCCHHHHHHHHHHHHHhCCCCcEEEE
Confidence 33444444433333344 789999999999999999998876433222 345667777888886 898764
No 210
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=63.99 E-value=22 Score=24.61 Aligned_cols=50 Identities=10% Similarity=0.203 Sum_probs=31.6
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
..++++.+.+.+.|.|++|....-... -...+.. .+++...||++.|...
T Consensus 16 ~~~~~~~~~~~gtdai~vGGS~~vt~~--~~~~~v~-~ik~~~lPvilfp~~~ 65 (223)
T TIGR01768 16 ADEIAKAAAESGTDAILIGGSQGVTYE--KTDTLIE-ALRRYGLPIILFPSNP 65 (223)
T ss_pred cHHHHHHHHhcCCCEEEEcCCCcccHH--HHHHHHH-HHhccCCCEEEeCCCc
Confidence 455777888889999999965322112 2223334 3445559999988653
No 211
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=63.88 E-value=45 Score=22.93 Aligned_cols=45 Identities=13% Similarity=0.113 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.++++++...+.+..+...+ .|.....-+..+.+.++|.+|+|+.
T Consensus 153 kI~~l~~~~~~~~~~~~I~v-dGGI~~eni~~l~~aGAd~vVvGSa 197 (220)
T PRK08883 153 KLRAVRKMIDESGRDIRLEI-DGGVKVDNIREIAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHHhcCCCeeEEE-ECCCCHHHHHHHHHcCCCEEEEeHH
Confidence 44555565555666666655 4444444555666779999999964
No 212
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=63.85 E-value=47 Score=23.12 Aligned_cols=57 Identities=18% Similarity=0.263 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCcc
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQ 127 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~ 127 (154)
+..-+.+..+.+.+.+.|+.++...-+ -+..+.|..++...-.|++=+=+...+.+.
T Consensus 119 ~~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQIKtPDLGgi~ 176 (248)
T PF07476_consen 119 EAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQIKTPDLGGIN 176 (248)
T ss_dssp HHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE-GGGGSSTH
T ss_pred HHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEecCCCccchh
Confidence 344566778888899999999887766 599999999999999999999877655443
No 213
>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=63.82 E-value=34 Score=24.90 Aligned_cols=50 Identities=24% Similarity=0.335 Sum_probs=33.2
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+..+.++..+ ++|+||+|-.. .+-...+....+ .+-+++++.|++.|.+
T Consensus 172 ~~~p~vl~AI~--~AD~IVlGPgsp~TSI~P~LlVpgI-~eAL~~s~A~vV~Vsp 223 (303)
T cd07186 172 RPAPEVLEAIE--DADLVIIGPSNPVTSIGPILALPGI-REALRDKKAPVVAVSP 223 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhccchhH-HHHHHhCCCCEEEEcC
Confidence 46778888888 89999999653 222223344444 4466778888887754
No 214
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=63.64 E-value=14 Score=27.65 Aligned_cols=20 Identities=15% Similarity=0.097 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHhcCC
Q 031713 70 KKAALALLGRAKEICAKHGV 89 (154)
Q Consensus 70 ~~~~~~~l~~~~~~~~~~~~ 89 (154)
.+...+.+.++.+.+.+..+
T Consensus 22 ~~d~~~~f~~~l~~a~~~~v 41 (390)
T COG0420 22 LEDQKKAFDELLEIAKEEKV 41 (390)
T ss_pred hHHHHHHHHHHHHHHHHccC
Confidence 33444555555555555554
No 215
>KOG3180 consensus Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=63.58 E-value=44 Score=22.76 Aligned_cols=23 Identities=22% Similarity=0.436 Sum_probs=19.9
Q ss_pred ChhhHHHHHHHhcCCCEEEEecC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
..++.+...++..+.|++++|..
T Consensus 101 ~vAKiLk~~vekek~~lVllGKQ 123 (254)
T KOG3180|consen 101 HVAKILKKLVEKEKSDLVLLGKQ 123 (254)
T ss_pred HHHHHHHHHHHhhcCCEEEEccc
Confidence 46788888899999999999974
No 216
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=63.53 E-value=51 Score=23.42 Aligned_cols=88 Identities=25% Similarity=0.285 Sum_probs=56.3
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKE 82 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 82 (154)
..+++|+..+.-.|..++..|...+- ..+.++.|..+... ++.++.+..
T Consensus 17 ~~kv~vAfSGGvDSslLa~la~~~lG-----~~v~AvTv~sP~~p--------------------------~~e~e~A~~ 65 (269)
T COG1606 17 KKKVVVAFSGGVDSSLLAKLAKEALG-----DNVVAVTVDSPYIP--------------------------RREIEEAKN 65 (269)
T ss_pred cCeEEEEecCCccHHHHHHHHHHHhc-----cceEEEEEecCCCC--------------------------hhhhhHHHH
Confidence 35899999998877766655544332 36777777665433 233445555
Q ss_pred HHHhcCCeEEEEEe--cC----------------ChhhHHHHHHHhcCCCEEEEecC
Q 031713 83 ICAKHGVVAETMTE--MG----------------DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 83 ~~~~~~~~~~~~v~--~g----------------~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
..++.|++-+..-. .+ .....|...+.+.++|.++=|+.
T Consensus 66 ~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtN 122 (269)
T COG1606 66 IAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTN 122 (269)
T ss_pred HHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCc
Confidence 55556665322111 11 24578889999999999999985
No 217
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=63.40 E-value=47 Score=22.95 Aligned_cols=60 Identities=20% Similarity=0.247 Sum_probs=42.7
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHH
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYC 138 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l 138 (154)
..++.+.+++.|.+.-..+-.+.+.+.+..+.. ..|+|.+=+-..++..+.|..+..+++
T Consensus 99 ~~~~l~~Ir~~g~k~GlalnP~T~~~~i~~~l~--~vD~VlvMtV~PGf~GQ~fi~~~l~KI 158 (223)
T PRK08745 99 VHRTIQLIKSHGCQAGLVLNPATPVDILDWVLP--ELDLVLVMSVNPGFGGQAFIPSALDKL 158 (223)
T ss_pred HHHHHHHHHHCCCceeEEeCCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHH
Confidence 456667777788888777777889999999999 788776665555555555666555544
No 218
>COG3969 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]
Probab=63.31 E-value=18 Score=26.84 Aligned_cols=45 Identities=9% Similarity=-0.010 Sum_probs=37.2
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCch
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFI 47 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~ 47 (154)
.|.+|.|...+...|--.++.++++|+..|. ++|.++|+.-....
T Consensus 26 ~f~~VcVSFSGGKDS~lmLhL~~~~ar~~~~-~~i~VlfiD~E~QY 70 (407)
T COG3969 26 TFPRVCVSFSGGKDSGLMLHLVAEVARENGR-DKISVLFIDWEAQY 70 (407)
T ss_pred cCCeEEEEecCCCchhHHHHHHHHHHHHhCC-CceEEEEEcchhhh
Confidence 4678999999999999999999999999874 57999998655433
No 219
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=63.13 E-value=64 Score=24.42 Aligned_cols=64 Identities=19% Similarity=0.123 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHh
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCV 139 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~ 139 (154)
+.+.+.+.+.+.+.|+.+...-.......+|...+. +++-+|+|+..-+.-.....+.....++
T Consensus 261 ~~ma~aiaegl~~~gv~v~~~~~~~~~~~eI~~~i~--~a~~~vvGsPT~~~~~~p~i~~~l~~v~ 324 (388)
T COG0426 261 EKMAQAIAEGLMKEGVDVEVINLEDADPSEIVEEIL--DAKGLVVGSPTINGGAHPPIQTALGYVL 324 (388)
T ss_pred HHHHHHHHHHhhhcCCceEEEEcccCCHHHHHHHHh--hcceEEEecCcccCCCCchHHHHHHHHH
Confidence 456677778888889999888877778888998888 8999999998643333223333334343
No 220
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=63.11 E-value=47 Score=22.91 Aligned_cols=47 Identities=19% Similarity=0.222 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+..+.+.+.+++.|+.-.+.+.. |+..+.+.+ -....+|+|++.+-+
T Consensus 95 e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~-~~~~~fDliFIDadK 142 (219)
T COG4122 95 ERAEIARENLAEAGVDDRIELLLGGDALDVLSR-LLDGSFDLVFIDADK 142 (219)
T ss_pred HHHHHHHHHHHHcCCcceEEEEecCcHHHHHHh-ccCCCccEEEEeCCh
Confidence 33455666677788886666666 588888877 334699999999753
No 221
>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=62.93 E-value=47 Score=22.79 Aligned_cols=71 Identities=14% Similarity=0.153 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEec-CC------hhhHH---HHHHHhcCCCEEEEecCCCCCcccccccchhHHHhh
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEM-GD------PKNVI---CEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVH 140 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~-g~------~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~ 140 (154)
.+..+.+.++.+.++++|+++-..... |. ..+.+ .+.+.+.++|.|-++..+ . -....++.+
T Consensus 105 ~~~~~~i~~v~~~~~~~g~~~iie~~~~g~~~~~~~~~~~i~~~~~~a~~~GaD~Ik~~~~~--~------~~~~~~i~~ 176 (235)
T cd00958 105 REMLEELARVAAEAHKYGLPLIAWMYPRGPAVKNEKDPDLIAYAARIGAELGADIVKTKYTG--D------AESFKEVVE 176 (235)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEeccCCcccCccCHHHHHHHHHHHHHHCCCEEEecCCC--C------HHHHHHHHh
Confidence 345556677777778888885443322 10 11222 344778899998885321 1 124577888
Q ss_pred cCCCcEEEE
Q 031713 141 NAKCPVLVV 149 (154)
Q Consensus 141 ~~~~pvliv 149 (154)
.+++||++.
T Consensus 177 ~~~~pvv~~ 185 (235)
T cd00958 177 GCPVPVVIA 185 (235)
T ss_pred cCCCCEEEe
Confidence 889998765
No 222
>PRK07315 fructose-bisphosphate aldolase; Provisional
Probab=62.91 E-value=48 Score=23.94 Aligned_cols=68 Identities=18% Similarity=0.169 Sum_probs=43.5
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-c-cccccchhHHHhhcC--CCcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-Q-RAFLGSVSNYCVHNA--KCPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~-~~~~gs~~~~l~~~~--~~pvliv 149 (154)
+.+++.+.-+----..+ ...+++++.|++.+..+|+.-+.+.... . -..+......+..+. .+||.+-
T Consensus 11 ~~A~~~~yav~AfN~~n~e~~~avi~aAe~~~sPvIlq~s~~~~~~~~~~~~~~~~~~~~a~~~~~~vPV~lH 83 (293)
T PRK07315 11 QAARDNGYAVGGFNTNNLEWTQAILRAAEAKKAPVLIQTSMGAAKYMGGYKVCKNLIENLVESMGITVPVAIH 83 (293)
T ss_pred HHHHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCcEEEE
Confidence 33444443333333344 7899999999999999999887654322 2 123455667788777 6687653
No 223
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=62.86 E-value=51 Score=23.64 Aligned_cols=68 Identities=16% Similarity=0.124 Sum_probs=43.7
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-c-cccccchhHHHhhcCC-CcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-Q-RAFLGSVSNYCVHNAK-CPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~-~~~~gs~~~~l~~~~~-~pvliv 149 (154)
+...+.+.-+----... ...+++++.|++.+..+|+.-+.+.-.. . -..+......+..+.+ +||.+-
T Consensus 9 ~~A~~~~yav~Afn~~n~e~~~avi~aAe~~~~PvIl~~~~~~~~~~~~~~~~~~~~~~~a~~~~~vpv~lh 80 (282)
T TIGR01859 9 QKAKKEGYAVGAFNFNNLEWTQAILEAAEEENSPVIIQVSEGAIKYMGGYKMAVAMVKTLIERMSIVPVALH 80 (282)
T ss_pred HHHHHCCceEEEEEECCHHHHHHHHHHHHHhCCCEEEEcCcchhhccCcHHHHHHHHHHHHHHCCCCeEEEE
Confidence 33344443333333334 7899999999999999999877653322 1 1234556677788888 898764
No 224
>cd05403 NT_KNTase_like Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. S. aureus KNTase is a plasmid encoded enzyme which confers resistance to a wide range of aminoglycoside antibiotics which have a 4'- or 4''-hydroxyl group in the equatorial position, such as kanamycin A. This enzyme transfers a nucleoside monophosphate group from a nucleotide (ATP,GTP, or UTP) to the 4'-hydroxyl group of kanamycin A. This enzyme is a homodimer, having two NT active sites. The nucleotide and antibiotic binding sites of each active site include residues from each monomer. Included in this subgroup is Escherichia coli AadA5 which confers resistance to the antibiotic spectinomycin and is a putative aminoglycoside-3'-adenylyltransferase. It is part of the aadA5 cassette of a class 1 integron. This subgroup also includes Haemophilus influenzae HI0073 which forms a 2:2 heterotetramer with an unrelated protein HI0074. Structurally HI0074 is
Probab=62.76 E-value=9.9 Score=21.42 Aligned_cols=34 Identities=18% Similarity=0.176 Sum_probs=24.8
Q ss_pred eEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCC
Q 031713 90 VAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGP 125 (154)
Q Consensus 90 ~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~ 125 (154)
.+...+..|+.+..=.+ ...++|+.|++......
T Consensus 17 ~i~~i~LfGS~arg~~~--~~SDiDl~vi~~~~~~~ 50 (93)
T cd05403 17 GVEKVYLFGSYARGDAR--PDSDIDLLVIFDDPLDP 50 (93)
T ss_pred CccEEEEEeeeecCCCC--CCCCeeEEEEeCCCCCH
Confidence 46677778887775554 56799999999876443
No 225
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=62.71 E-value=47 Score=24.48 Aligned_cols=64 Identities=20% Similarity=0.270 Sum_probs=38.8
Q ss_pred HHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHHHh-hcCCCcEEEEcC
Q 031713 82 EICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNYCV-HNAKCPVLVVRK 151 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~l~-~~~~~pvliv~~ 151 (154)
..+.+.|+++.... . ..+..+....++|++++|+.+ .+..-. -.|+..-.++ ++-++|++++-+
T Consensus 190 ~eL~~~GI~vtlI~--D---sa~~~~M~~~~Vd~VivGAd~I~aNG~v~N-KiGT~~lAl~Ak~~~VPfyV~a~ 257 (329)
T PRK06371 190 WELAQEGIDHAIIA--D---NAAGYFMRKKEIDLVIVGADRIASNGDFAN-KIGTYEKAVLAKVNGIPFYVAAP 257 (329)
T ss_pred HHHHHCCCCEEEEc--c---cHHHHHhhhcCCCEEEECccEEecCCCEee-hhhHHHHHHHHHHcCCCEEEecc
Confidence 44555688776532 2 233344555689999999975 222222 3455544444 666799999854
No 226
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=62.68 E-value=57 Score=23.67 Aligned_cols=63 Identities=13% Similarity=0.285 Sum_probs=37.3
Q ss_pred HHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHH-HhhcCCCcEEEEcC
Q 031713 81 KEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNY-CVHNAKCPVLVVRK 151 (154)
Q Consensus 81 ~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~-l~~~~~~pvliv~~ 151 (154)
...+.+.|++++... . ..+..... ++|.+++|+.. .+..-. -.|+..-. +.++..+|++++-+
T Consensus 159 a~~L~~~gI~vtlI~--D---sa~~~~m~--~vd~VivGad~v~~nG~v~n-kiGT~~lA~~Ak~~~vPv~V~a~ 225 (301)
T TIGR00511 159 AKELRDYGIPVTLIV--D---SAVRYFMK--EVDHVVVGADAITANGALIN-KIGTSQLALAAREARVPFMVAAE 225 (301)
T ss_pred HHHHHHCCCCEEEEe--h---hHHHHHHH--hCCEEEECccEEecCCCEEE-HHhHHHHHHHHHHhCCCEEEEcc
Confidence 334556788876643 2 23333344 59999999975 222222 34554443 44666799999854
No 227
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=62.62 E-value=54 Score=23.42 Aligned_cols=79 Identities=9% Similarity=-0.040 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcC-CCcEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA-KCPVLV 148 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~-~~pvli 148 (154)
+..+.++.+.+.... .+.+-.-+...+.. ..+.+.+++.++|-+++..........--+-..-..|...+ +.||++
T Consensus 55 Er~~~~~~~~~~~~~-~~~viagv~~~~~~~ai~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~i 133 (288)
T cd00954 55 ERKQIAEIVAEAAKG-KVTLIAHVGSLNLKESQELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAASLPMII 133 (288)
T ss_pred HHHHHHHHHHHHhCC-CCeEEeccCCCCHHHHHHHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEE
Confidence 334445545544432 23332222223444 44446789999999998765432222211223345677888 799999
Q ss_pred EcC
Q 031713 149 VRK 151 (154)
Q Consensus 149 v~~ 151 (154)
...
T Consensus 134 Yn~ 136 (288)
T cd00954 134 YHI 136 (288)
T ss_pred EeC
Confidence 854
No 228
>PF11965 DUF3479: Domain of unknown function (DUF3479); InterPro: IPR022571 This functionally uncharacterised domain, found N-terminal to PF02514 from PFAM, occurs in magnesium chelatase subunit H, which is involved in chlorophyll biosynthesis. It is found in bacteria, green plants and archaea. It is around 160 amino acids in length.; GO: 0016851 magnesium chelatase activity
Probab=62.61 E-value=41 Score=22.06 Aligned_cols=38 Identities=13% Similarity=0.111 Sum_probs=23.2
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
|+++.+-.+.++..+-+.+..+.+...+.-+|.+....
T Consensus 2 r~V~vtld~~~~~al~~aa~~l~~~~~p~l~l~~~~~~ 39 (164)
T PF11965_consen 2 RFVIVTLDEHYNSALYRAAARLNRDHCPGLELSVFAAA 39 (164)
T ss_pred EEEEEeCchhhhHHHHHHHHHHhhccCCCeEEEEEeHH
Confidence 45555556666666666677777764444566665543
No 229
>KOG1466 consensus Translation initiation factor 2B, alpha subunit (eIF-2Balpha/GCN3) [Translation, ribosomal structure and biogenesis]
Probab=62.50 E-value=54 Score=23.42 Aligned_cols=65 Identities=18% Similarity=0.283 Sum_probs=39.6
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHHHh-hcCCCcEEEEcC
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNYCV-HNAKCPVLVVRK 151 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~l~-~~~~~pvliv~~ 151 (154)
.+.+.+...|++++..+.. ++.-..+ ++|++++|+.| .+++-+ ..|...-.++ +..+.|+.++-+
T Consensus 172 lm~~~L~~~~IPvtlvlDS-----aVgyvMe--~vD~VlVGAEGVvEsGGIIN-~iGTyq~~v~Ak~~~kPfYV~AE 240 (313)
T KOG1466|consen 172 LMAKELKKLGIPVTLVLDS-----AVGYVME--RVDLVLVGAEGVVESGGIIN-KIGTYQVAVCAKSMNKPFYVVAE 240 (313)
T ss_pred HHHHHHHhcCCCeEEEehh-----hHHHHHh--hccEEEEccceeeecCceee-ecccchhhhhHHhcCCCeEEEee
Confidence 3444555678888765522 2333344 78999999987 333333 3555555444 556799998854
No 230
>PRK02929 L-arabinose isomerase; Provisional
Probab=61.79 E-value=77 Score=24.91 Aligned_cols=73 Identities=8% Similarity=0.003 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHhc-CCeEEEEEecC--ChhhHHHHHHHhcC----CCEEEEecCCCCCcccccccchhHHHhhcCCC
Q 031713 72 AALALLGRAKEICAKH-GVVAETMTEMG--DPKNVICEAAEKHK----IQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKC 144 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~-~~~~~~~v~~g--~~~~~i~~~a~~~~----~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~ 144 (154)
+..+..+++.+.++.. .+++++. ..+ ...+.|.+..++.+ +|.||+-.+..+.- +..-.+++..++
T Consensus 26 ~~~~~~~~i~~~l~~~~~~~~~vv-~~~~v~~~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a------~~~i~~~~~l~~ 98 (499)
T PRK02929 26 QVAEHAEEIVDGLNASGKLPVKIV-LKPVLTTPDEITAVCREANYDDNCAGVITWMHTFSPA------KMWIRGLSALQK 98 (499)
T ss_pred HHHHHHHHHHHHhcccCCCCeEEE-EcCccCCHHHHHHHHHHccccCCCcEEEEccCCCchH------HHHHHHHHHcCC
Confidence 3334445555555542 3444443 233 45566666666666 99999987765432 244567889999
Q ss_pred cEEEEcC
Q 031713 145 PVLVVRK 151 (154)
Q Consensus 145 pvliv~~ 151 (154)
||++...
T Consensus 99 PvL~~~~ 105 (499)
T PRK02929 99 PLLHLHT 105 (499)
T ss_pred CEEEEec
Confidence 9999854
No 231
>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=61.63 E-value=62 Score=23.74 Aligned_cols=68 Identities=12% Similarity=0.145 Sum_probs=38.4
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCC---hhhHHHHHHHhcCCCEEE-EecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGD---PKNVICEAAEKHKIQLLI-VGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~---~~~~i~~~a~~~~~dliv-lg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+++...+++.+ .+...+.... ..+.+.+.+++.++|.|| +|-.. ...++..+....++|++.||-
T Consensus 40 ~~~~v~~~l~~~~-~~~~~~~~~~~~~~v~~~~~~~~~~~~d~iIaiGGGs--------~~D~aK~~a~~~~~p~i~iPT 110 (339)
T cd08173 40 AGKKVEALLEDEG-EVDVVIVEDATYEEVEKVESSARDIGADFVIGVGGGR--------VIDVAKVAAYKLGIPFISVPT 110 (339)
T ss_pred HHHHHHHHHHhcC-CeEEEEeCCCCHHHHHHHHHHhhhcCCCEEEEeCCch--------HHHHHHHHHHhcCCCEEEecC
Confidence 4455666666666 5444333222 344555667778899887 55221 123344444445689998885
Q ss_pred C
Q 031713 152 P 152 (154)
Q Consensus 152 ~ 152 (154)
.
T Consensus 111 T 111 (339)
T cd08173 111 A 111 (339)
T ss_pred c
Confidence 3
No 232
>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=61.60 E-value=62 Score=23.79 Aligned_cols=27 Identities=7% Similarity=0.027 Sum_probs=21.0
Q ss_pred CchHHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 13 SECRHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 13 ~~~~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
.+.++..+++|+++|+..+ .+|+++|=
T Consensus 140 r~~~eRi~r~AF~~A~~r~--~~Vt~v~K 166 (322)
T TIGR02088 140 REGSERIARFAFNLAKERN--RKVTCVHK 166 (322)
T ss_pred HHHHHHHHHHHHHHHHHcC--CcEEEEeC
Confidence 4668889999999999876 56666653
No 233
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=61.30 E-value=37 Score=21.41 Aligned_cols=42 Identities=17% Similarity=0.158 Sum_probs=29.4
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+...++.+|.++.. .-...+.+.+++.+.+.++|+|.+++--
T Consensus 21 v~~~l~~~GfeVi~-LG~~v~~e~~v~aa~~~~adiVglS~l~ 62 (134)
T TIGR01501 21 LDHAFTNAGFNVVN-LGVLSPQEEFIKAAIETKADAILVSSLY 62 (134)
T ss_pred HHHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 34455667755422 1122588999999999999999998753
No 234
>PRK04527 argininosuccinate synthase; Provisional
Probab=61.25 E-value=71 Score=24.32 Aligned_cols=36 Identities=11% Similarity=0.106 Sum_probs=27.2
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
.++++|++.+.-.|.-++.++.+ .| .+++.+++...
T Consensus 2 ~~kVvVA~SGGvDSSvla~~l~e----~G--~~Viavt~d~g 37 (400)
T PRK04527 2 SKDIVLAFSGGLDTSFCIPYLQE----RG--YAVHTVFADTG 37 (400)
T ss_pred CCcEEEEEcCChHHHHHHHHHHH----cC--CcEEEEEEEeC
Confidence 47899999998888777766554 35 58888888654
No 235
>PLN02858 fructose-bisphosphate aldolase
Probab=61.21 E-value=45 Score=29.74 Aligned_cols=92 Identities=14% Similarity=0.047 Sum_probs=60.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhH
Q 031713 58 PPDLLMSIQENQKKAALALLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSN 136 (154)
Q Consensus 58 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~ 136 (154)
..+..-...+.+....+.-+.++.+.+++.+.-+----..+ ...+++++.|++.+..+|+.-+.+.-.....-+.....
T Consensus 1083 ~~~tL~~~~~~l~~~~~v~~~~~l~~A~~~~yav~afn~~n~e~~~avi~aAe~~~sPvIl~~~~~~~~~~~~~~~~~~~ 1162 (1378)
T PLN02858 1083 DSTALAEVVKSWARPARSSTKELLLNAEKGGYAVGAFNVYNLEGIEAVVAAAEAEKSPAILQVHPGALKQGGIPLVSCCI 1162 (1378)
T ss_pred ChHHHHHHHHHhcCcCCccHHHHHHHHHHCCcEEEEEEeCCHHHHHHHHHHHHHhCCCEEEECCccHHhhcCHHHHHHHH
Confidence 44444444445555555556666666666665554444455 78999999999999999998876533222222455667
Q ss_pred HHhhcCCCcEEEE
Q 031713 137 YCVHNAKCPVLVV 149 (154)
Q Consensus 137 ~l~~~~~~pvliv 149 (154)
...+++.+||.+-
T Consensus 1163 ~~a~~~~vpV~lH 1175 (1378)
T PLN02858 1163 AAAEQASVPITVH 1175 (1378)
T ss_pred HHHHHCCCCEEEE
Confidence 7888889998764
No 236
>PHA02031 putative DnaG-like primase
Probab=61.14 E-value=51 Score=23.48 Aligned_cols=36 Identities=11% Similarity=0.124 Sum_probs=30.8
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
++|+++.|++....+|...|+++....+ .++.++.+
T Consensus 207 ~~Vil~fDgD~AG~~Aa~ra~~~l~~~~--~~v~vv~l 242 (266)
T PHA02031 207 PRVLIFLDGDPAGVDGSAGAMRRLRPLL--IEGQVIIT 242 (266)
T ss_pred CCEEEEeCCCHHHHHHHHHHHHHHHHcC--CceEEEEC
Confidence 7899999999999999999999988776 56666665
No 237
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=61.11 E-value=25 Score=24.43 Aligned_cols=47 Identities=15% Similarity=0.243 Sum_probs=29.1
Q ss_pred HHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 104 ICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 104 i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
.++.+.+.+.|.|++|-.. ....--...+... +++.+.|+++.|...
T Consensus 24 ~~~~~~~~gtdai~vGGS~--~vt~~~~~~~v~~-ik~~~lPvilfp~~~ 70 (232)
T PRK04169 24 ALEAICESGTDAIIVGGSD--GVTEENVDELVKA-IKEYDLPVILFPGNI 70 (232)
T ss_pred HHHHHHhcCCCEEEEcCCC--ccchHHHHHHHHH-HhcCCCCEEEeCCCc
Confidence 3366777899999999653 1222122333343 444789999988654
No 238
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=61.08 E-value=36 Score=20.87 Aligned_cols=69 Identities=10% Similarity=0.174 Sum_probs=41.7
Q ss_pred HHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCC-CEEEEecCCCCCcccccccchhHHHhhcCC---CcEEEEcCC
Q 031713 78 GRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKI-QLLIVGSHSRGPIQRAFLGSVSNYCVHNAK---CPVLVVRKP 152 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~-dlivlg~~~~~~~~~~~~gs~~~~l~~~~~---~pvliv~~~ 152 (154)
+++...+...+..++...... +..+.+.......+. |.||+.- |.+.+. .+.+.++.... .|+-++|-.
T Consensus 18 ~~v~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~ivv~G-GDGTl~-----~vv~~l~~~~~~~~~~l~iiP~G 91 (130)
T PF00781_consen 18 KKVEPALRAAGIDYEVIETESAGHAEALARILALDDYPDVIVVVG-GDGTLN-----EVVNGLMGSDREDKPPLGIIPAG 91 (130)
T ss_dssp HHHHHHHHHTTCEEEEEEESSTTHHHHHHHHHHHTTS-SEEEEEE-SHHHHH-----HHHHHHCTSTSSS--EEEEEE-S
T ss_pred HHHHHHHHHcCCceEEEEEeccchHHHHHHHHhhccCccEEEEEc-CccHHH-----HHHHHHhhcCCCccceEEEecCC
Confidence 666677777777777766664 677888775555565 7777764 333222 34454444432 488888854
No 239
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=60.91 E-value=59 Score=23.29 Aligned_cols=80 Identities=10% Similarity=0.004 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEecCChhhH--HHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEMGDPKNV--ICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~--i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
++..+.++.+.+.... .+++-..+...+..++ ..+.+++.++|-+++..........--+-..-..|...++.||++
T Consensus 57 eEr~~~~~~~~~~~~~-~~~viagvg~~~t~~ai~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~~lPv~i 135 (293)
T PRK04147 57 EEKKQVLEIVAEEAKG-KVKLIAQVGSVNTAEAQELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSADNPMIV 135 (293)
T ss_pred HHHHHHHHHHHHHhCC-CCCEEecCCCCCHHHHHHHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhCCCCEEE
Confidence 3344455555554432 3333333322244444 446789999999999876432222211222335677788999999
Q ss_pred EcC
Q 031713 149 VRK 151 (154)
Q Consensus 149 v~~ 151 (154)
...
T Consensus 136 Yn~ 138 (293)
T PRK04147 136 YNI 138 (293)
T ss_pred EeC
Confidence 853
No 240
>TIGR00167 cbbA ketose-bisphosphate aldolases. fructose-bisphosphate and tagatose-bisphosphate aldolase.
Probab=60.77 E-value=61 Score=23.40 Aligned_cols=70 Identities=14% Similarity=0.124 Sum_probs=45.4
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-cc-ccccchhHHHhhcC--CCcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-QR-AFLGSVSNYCVHNA--KCPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~~-~~~gs~~~~l~~~~--~~pvliv 149 (154)
+.+.+++.+.-+----... ...+++++.|++.+..+|+..+.+.-.. .+ ..+.........++ .+||.+-
T Consensus 9 iL~~A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~~g~~~~~~~~~~~a~~~~~~VPV~lH 83 (288)
T TIGR00167 9 LLQDAKEEGYAIPAFNINNLETINAVLEAAAEEKSPVIIQFSNGAAKYIAGLGAISAMVKAMSEAYPYGVPVALH 83 (288)
T ss_pred HHHHHHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEECCcchhhccCCHHHHHHHHHHHHHhccCCCcEEEE
Confidence 3333444444433333344 7899999999999999999877654322 21 23556667778888 7898764
No 241
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=60.70 E-value=59 Score=23.22 Aligned_cols=79 Identities=13% Similarity=-0.007 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+..+.++.+.+... ..+.+-..+...+..+ ...+.+++.++|-+++..........--+-..-..|...++.||++.
T Consensus 55 Er~~~~~~~~~~~~-~~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~~~pv~lY 133 (292)
T PRK03170 55 EHEELIRAVVEAVN-GRVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEATDLPIILY 133 (292)
T ss_pred HHHHHHHHHHHHhC-CCCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcCCCCEEEE
Confidence 33455555555443 2344444443334433 44467889999999987654322222112234466777888999988
Q ss_pred cC
Q 031713 150 RK 151 (154)
Q Consensus 150 ~~ 151 (154)
..
T Consensus 134 n~ 135 (292)
T PRK03170 134 NV 135 (292)
T ss_pred EC
Confidence 53
No 242
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=60.69 E-value=40 Score=21.28 Aligned_cols=41 Identities=12% Similarity=0.148 Sum_probs=25.4
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHh--cCCCEEEEe
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEK--HKIQLLIVG 119 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~--~~~dlivlg 119 (154)
-+...+++.|.++......++-.+.|.+..++ .++|+||..
T Consensus 31 ~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~DliItt 73 (144)
T TIGR00177 31 LLAALLEEAGFNVSRLGIVPDDPEEIREILRKAVDEADVVLTT 73 (144)
T ss_pred HHHHHHHHCCCeEEEEeecCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 34455566788876665566555555554332 279999986
No 243
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=60.50 E-value=26 Score=26.62 Aligned_cols=52 Identities=19% Similarity=0.224 Sum_probs=38.5
Q ss_pred ChhhHHHHHHHh--cCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 99 DPKNVICEAAEK--HKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 99 ~~~~~i~~~a~~--~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
...+.|++..++ .++|.+|+.-++++.+.. -...-++.++.+.||++=|.+.
T Consensus 128 ~~~~~ll~~~~~~l~~~~~vVLSDY~KG~L~~---~q~~I~~ar~~~~pVLvDPKg~ 181 (467)
T COG2870 128 EDENKLLEKIKNALKSFDALVLSDYAKGVLTN---VQKMIDLAREAGIPVLVDPKGK 181 (467)
T ss_pred hhHHHHHHHHHHHhhcCCEEEEeccccccchh---HHHHHHHHHHcCCcEEECCCCc
Confidence 345666666655 799999999998877664 2344567888999999988764
No 244
>TIGR01520 FruBisAldo_II_A fructose-bisphosphate aldolase, class II, yeast/E. coli subtype. This model represents one of two deeply split, architecturally distinct clades of the family that includes class II fructose-bisphosphate aldolases, tagatose-bisphosphate aldolases, and related uncharacterized proteins. This family is well-conserved and includes characterized FBA from Saccharomyces cerevisiae, Escherichia coli, and Corynebacterium glutamicum. Proteins outside the scope of this model may also be designated as class II fructose-bisphosphate aldolases, but are well separated in an alignment-based phylogenetic tree.
Probab=60.07 E-value=70 Score=23.91 Aligned_cols=71 Identities=13% Similarity=0.075 Sum_probs=46.0
Q ss_pred HHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-cc----c------------cccchhHHHhh
Q 031713 79 RAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-QR----A------------FLGSVSNYCVH 140 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~~----~------------~~gs~~~~l~~ 140 (154)
++.+.+.+.+.-+----... ...+++++.|++.+..+|+..+.+.-.. .. . .+......+..
T Consensus 17 ~lL~~A~~~~yAVgAfNv~n~e~~~Avi~AAEe~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~v~~~Ae 96 (357)
T TIGR01520 17 KLFQYAKENNFAIPAINCTSSSTINAALEAAADVKSPIIIQFSNGGAAFIAGKGVKDEVPQGASILGAIAGAHHVHSIAE 96 (357)
T ss_pred HHHHHHHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchhhhcCCcccccccchhhhhhhHHHHHHHHHHHHH
Confidence 33344444444433333344 7899999999999999999887653221 11 0 14556778888
Q ss_pred cCCCcEEEE
Q 031713 141 NAKCPVLVV 149 (154)
Q Consensus 141 ~~~~pvliv 149 (154)
++++||.+-
T Consensus 97 ~a~VPValH 105 (357)
T TIGR01520 97 HYGVPVVLH 105 (357)
T ss_pred HCCCCEEEE
Confidence 999998764
No 245
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=60.06 E-value=72 Score=24.55 Aligned_cols=60 Identities=12% Similarity=0.098 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 62 LMSIQENQKKAALALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 62 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.++.+...-+.....++++.+.+.+.|..+.+--...+..+.|.+.+.+.+.+.||.+.+
T Consensus 52 ~~eik~~~lenLd~~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKS 111 (459)
T COG1139 52 AREIKLHVLENLDEYLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKS 111 (459)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecc
Confidence 334444445556666777777777778887664433466777778899999999999864
No 246
>PRK05920 aromatic acid decarboxylase; Validated
Probab=59.91 E-value=25 Score=23.90 Aligned_cols=36 Identities=14% Similarity=0.165 Sum_probs=28.4
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
+.++|++++.++-.+-++++..-.|.+. | .+++++-
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~~~-g--~~V~vi~ 37 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLLAA-D--YEVHLVI 37 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHHHC-C--CEEEEEE
Confidence 4689999999999999998888777664 5 5766654
No 247
>PRK08610 fructose-bisphosphate aldolase; Reviewed
Probab=59.87 E-value=62 Score=23.35 Aligned_cols=68 Identities=12% Similarity=0.089 Sum_probs=43.9
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-c-cccccchhHHHhhcCC--CcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-Q-RAFLGSVSNYCVHNAK--CPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~-~~~~gs~~~~l~~~~~--~pvliv 149 (154)
+...+.+.-+----... ...+++++.|++.+..+|+--+.+.... . -..+......+..+++ +||.+-
T Consensus 11 ~~A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~vPV~lH 83 (286)
T PRK08610 11 IDAKENGYAVGQYNLNNLEFTQAILEASQEENAPVILGVSEGAARYMSGFYTVVKMVEGLMHDLNITIPVAIH 83 (286)
T ss_pred HHHHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhcCcHHHHHHHHHHHHHHcCCCCCEEEE
Confidence 33344443333323333 7899999999999999999887754333 2 1235566777777877 787764
No 248
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=59.76 E-value=65 Score=23.38 Aligned_cols=80 Identities=9% Similarity=-0.040 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcC-CCcEE
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA-KCPVL 147 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~-~~pvl 147 (154)
++.++.++.+.+... ..+++-..+...+. .....+.+++.++|-+++-.........--+-..-..|...+ +.||+
T Consensus 61 eEr~~v~~~~~~~~~-grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lPv~ 139 (309)
T cd00952 61 EEKQAFVATVVETVA-GRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMAIA 139 (309)
T ss_pred HHHHHHHHHHHHHhC-CCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCcEE
Confidence 344555555555443 24554444433334 444557799999998888765322222211112335677788 59999
Q ss_pred EEcC
Q 031713 148 VVRK 151 (154)
Q Consensus 148 iv~~ 151 (154)
+...
T Consensus 140 iYn~ 143 (309)
T cd00952 140 IYAN 143 (309)
T ss_pred EEcC
Confidence 9854
No 249
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=59.75 E-value=62 Score=23.20 Aligned_cols=80 Identities=9% Similarity=-0.039 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcC-CCcEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA-KCPVLV 148 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~-~~pvli 148 (154)
+..+.++.+.+.... .+++-..+...+.. ..+.+.+++.++|.+++..........--+-..-..|...+ +.||++
T Consensus 55 Er~~~~~~~~~~~~~-~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~lpv~l 133 (290)
T TIGR00683 55 EKKEIFRIAKDEAKD-QIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGLNMIV 133 (290)
T ss_pred HHHHHHHHHHHHhCC-CCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCCCEEE
Confidence 334455555554432 34444444333443 44557889999999999765432222111112334566666 699999
Q ss_pred EcCC
Q 031713 149 VRKP 152 (154)
Q Consensus 149 v~~~ 152 (154)
...+
T Consensus 134 Yn~P 137 (290)
T TIGR00683 134 YSIP 137 (290)
T ss_pred EeCc
Confidence 8543
No 250
>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=59.49 E-value=41 Score=21.04 Aligned_cols=41 Identities=15% Similarity=0.165 Sum_probs=28.6
Q ss_pred HHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 81 KEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 81 ~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
...++.+|.++.. .-...+.+.+++.+.++++|+|.+++--
T Consensus 20 ~~~L~~~GfeVid-LG~~v~~e~~v~aa~~~~adiVglS~L~ 60 (128)
T cd02072 20 DHAFTEAGFNVVN-LGVLSPQEEFIDAAIETDADAILVSSLY 60 (128)
T ss_pred HHHHHHCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEeccc
Confidence 3455566755421 1123588999999999999999998743
No 251
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=59.48 E-value=62 Score=23.08 Aligned_cols=56 Identities=4% Similarity=0.120 Sum_probs=29.5
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccch
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSV 134 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~ 134 (154)
++...+...++++.......+..+.+....+..++|++++.+.|+.......+...
T Consensus 121 ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el 176 (270)
T PRK06731 121 QLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILIDTAGKNYRASETVEEM 176 (270)
T ss_pred HHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHH
Confidence 33344444455543221112234444334444579999999998876554444333
No 252
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=59.47 E-value=78 Score=25.14 Aligned_cols=64 Identities=14% Similarity=0.214 Sum_probs=40.6
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHH---HHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEA---AEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~---a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
+.+.+.+.+.+++...+..++.+...+++... ....++|+||-. |+++..|-++.++||+-++-
T Consensus 25 l~~~~~~i~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~ 91 (538)
T PRK15424 25 LFELFRDISLEFDHLANITPIQLGFEKAVTYIRKRLATERCDAIIAA------------GSNGAYLKSRLSVPVILIKP 91 (538)
T ss_pred HHHHHHHHHHhcCCCceEEehhhhHHHHHHHHHHHHhhCCCcEEEEC------------chHHHHHHhhCCCCEEEecC
Confidence 44555666666666666665565444444333 445678887732 45667777778899998864
No 253
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=59.31 E-value=65 Score=23.26 Aligned_cols=77 Identities=14% Similarity=0.046 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+..+.++.+.+.... .+++-..+. ++..+ .+.+.+++.++|-+++..........--+-..-..+...++.||++.
T Consensus 61 Er~~~~~~~~~~~~~-~~pvi~gv~-~~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~~lpi~lY 138 (303)
T PRK03620 61 EYSQVVRAAVETTAG-RVPVIAGAG-GGTAQAIEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKSTDLGVIVY 138 (303)
T ss_pred HHHHHHHHHHHHhCC-CCcEEEecC-CCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 344555555554432 344444342 24433 34467889999999987654322222222233456778889999988
Q ss_pred c
Q 031713 150 R 150 (154)
Q Consensus 150 ~ 150 (154)
.
T Consensus 139 n 139 (303)
T PRK03620 139 N 139 (303)
T ss_pred c
Confidence 5
No 254
>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=59.26 E-value=53 Score=22.23 Aligned_cols=35 Identities=9% Similarity=-0.050 Sum_probs=22.9
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
.++|+.+.+.-.|.-| .+++...| .++..||....
T Consensus 4 gk~l~LlSGGiDSpVA----a~lm~krG--~~V~~l~f~~~ 38 (197)
T PF02568_consen 4 GKALALLSGGIDSPVA----AWLMMKRG--CEVIALHFDSP 38 (197)
T ss_dssp -EEEEE-SSCCHHHHH----HHHHHCBT---EEEEEEEE-T
T ss_pred ceEEEEecCCccHHHH----HHHHHHCC--CEEEEEEEECC
Confidence 4788888887777643 34555567 89999999744
No 255
>cd05569 PTS_IIB_fructose PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and FruB) each containing 3 domains. The FruA protein contains two tandem nonidentical IIB domains and a C-terminal IIC transmembrane domain. Both IIB domains of FruA are included in this alignment. The FruB protein (also referred to as diphosphoryl transfer protein) contains a IIA domain, a domain of unknown function, and an Hpr-like domain called FPr (fructose-inducible HPr). This familiy also includes the IIB domains of several fructose-like PTS permeases including the Frv permease encoded by the frvABXR operon, the Frw permease encoded by the frwACBD operon, the Frx permease encoded by the hrsA gene, and the Fry permease encoded by the fryABC (ypdDGH) operon. FruAB takes up exogenous fructose, releasing the 1-p
Probab=59.13 E-value=33 Score=20.05 Aligned_cols=45 Identities=13% Similarity=0.076 Sum_probs=29.3
Q ss_pred HHHHHHHHHhcCCeEEEEEecCC-hhhHHH-HHHHhcCCCEEEEecCCC
Q 031713 77 LGRAKEICAKHGVVAETMTEMGD-PKNVIC-EAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~-~~~~i~-~~a~~~~~dlivlg~~~~ 123 (154)
.+.+.+.+++.|+++........ +...+- .... .+|++|+-....
T Consensus 18 a~~L~~aa~~~g~~~~ve~~~~~g~~~~l~~~~i~--~Ad~vi~~~~~~ 64 (96)
T cd05569 18 AEALEKAAKKLGWEIKVETQGSLGIENELTAEDIA--EADAVILAADVP 64 (96)
T ss_pred HHHHHHHHHHCCCeEEEEEecCcCccCcCCHHHHh--hCCEEEEecCCC
Confidence 35566777788988777665543 333333 4455 899999987643
No 256
>KOG1116 consensus Sphingosine kinase, involved in sphingolipid metabolism [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=58.97 E-value=50 Score=26.30 Aligned_cols=79 Identities=13% Similarity=0.129 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcC-CCcEEEEcC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA-KCPVLVVRK 151 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~-~~pvliv~~ 151 (154)
+.+.+++.-.+.+++++++.....+ +-+++|++...-.++|-||.-.. .+-+-..+-|=.-..=.+.+ +.||-+||.
T Consensus 197 ~~F~~~v~Pll~~A~i~~evv~T~~~~HArei~rt~dl~kyDgIv~vsG-DGl~hEVlNGLl~R~D~~~~~klPigiiP~ 275 (579)
T KOG1116|consen 197 KLFKNHVEPLLSEAGISFEVVLTTRPNHAREIVRTLDLGKYDGIVCVSG-DGLLHEVLNGLLERPDWEAAVKLPIGIIPC 275 (579)
T ss_pred HHHHhhhhhhhhhcCceEEEEEecCccHHHHHHHhhhccccceEEEecC-CcCHHHhhhccccccchhhHhcCceeEeec
Confidence 4455666677778899999999887 78999999888899999988753 33333322221111002223 378888876
Q ss_pred CC
Q 031713 152 PV 153 (154)
Q Consensus 152 ~~ 153 (154)
.+
T Consensus 276 GS 277 (579)
T KOG1116|consen 276 GS 277 (579)
T ss_pred CC
Confidence 54
No 257
>PRK08005 epimerase; Validated
Probab=58.92 E-value=56 Score=22.38 Aligned_cols=61 Identities=10% Similarity=0.010 Sum_probs=42.9
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHh
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCV 139 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~ 139 (154)
..++.+.+++.|.+.-..+-.+.+.+.+..+.. ..|+|.+=+...++..+.|.....+++-
T Consensus 95 ~~~~l~~Ik~~G~k~GlAlnP~Tp~~~i~~~l~--~vD~VlvMsV~PGf~GQ~f~~~~~~KI~ 155 (210)
T PRK08005 95 PSEILADIRAIGAKAGLALNPATPLLPYRYLAL--QLDALMIMTSEPDGRGQQFIAAMCEKVS 155 (210)
T ss_pred HHHHHHHHHHcCCcEEEEECCCCCHHHHHHHHH--hcCEEEEEEecCCCccceecHHHHHHHH
Confidence 445667777788888777777889999999998 7887766665555555556655555544
No 258
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=58.86 E-value=26 Score=24.95 Aligned_cols=43 Identities=7% Similarity=0.150 Sum_probs=31.1
Q ss_pred HHHHHHHhcCCeEEEEEecC----ChhhHHHHHHHhcCCCEEEEecC
Q 031713 79 RAKEICAKHGVVAETMTEMG----DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g----~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+......+|+++...-... ...+.+++..+++++|++|+...
T Consensus 129 dl~~~v~~~~IPfhhip~~~~~k~e~E~~~~~ll~~~~~DlvVLARY 175 (287)
T COG0788 129 DLRPLVERFDIPFHHIPVTKENKAEAEARLLELLEEYGADLVVLARY 175 (287)
T ss_pred HHHHHHHHcCCCeeeccCCCCcchHHHHHHHHHHHHhCCCEEeehhh
Confidence 44455556788876655543 35677888999999999999864
No 259
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=58.83 E-value=65 Score=23.54 Aligned_cols=68 Identities=16% Similarity=0.104 Sum_probs=44.1
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCC-CcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAK-CPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~-~pvliv 149 (154)
+...+.+.-+----... ...+++++.|++.+..+|+..+.+.-...+ ..+......+..+++ +||.+-
T Consensus 10 ~~A~~~~yaV~AfN~~n~e~~~avi~AAe~~~sPvIlq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValH 80 (307)
T PRK05835 10 LKAHKEGYGVGAFNFVNFEMLNAIFEAGNEENSPLFIQASEGAIKYMGIDMAVGMVKIMCERYPHIPVALH 80 (307)
T ss_pred HHHHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCccHHhhCChHHHHHHHHHHHHhcCCCeEEEE
Confidence 33444444433333344 789999999999999999988765322221 234456667778886 898764
No 260
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=58.77 E-value=53 Score=22.44 Aligned_cols=66 Identities=18% Similarity=0.197 Sum_probs=39.7
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEE
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLV 148 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvli 148 (154)
+...++..|.++.. ....-|.+.+++.+.+.++|+|.++..-...... ...+.+.+-.... ++|++
T Consensus 108 v~~~l~~~G~~Vi~-LG~~vp~e~~v~~~~~~~~~~V~lS~~~~~~~~~--~~~~i~~L~~~~~~~~i~v 174 (213)
T cd02069 108 VGVILSNNGYEVID-LGVMVPIEKILEAAKEHKADIIGLSGLLVPSLDE--MVEVAEEMNRRGIKIPLLI 174 (213)
T ss_pred HHHHHHhCCCEEEE-CCCCCCHHHHHHHHHHcCCCEEEEccchhccHHH--HHHHHHHHHhcCCCCeEEE
Confidence 34455566755422 2223589999999999999999998764333332 3344454443332 55544
No 261
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=58.56 E-value=47 Score=22.95 Aligned_cols=45 Identities=13% Similarity=0.103 Sum_probs=30.9
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHh---cCCCEEEEecC
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEK---HKIQLLIVGSH 121 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~---~~~dlivlg~~ 121 (154)
.+.+.+.++..|+.-...+..|+..+.+-+...+ ..+|++++...
T Consensus 106 ~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~ 153 (234)
T PLN02781 106 YEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDAD 153 (234)
T ss_pred HHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCC
Confidence 3444555556677656677789888877666543 57999999864
No 262
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=58.41 E-value=65 Score=22.96 Aligned_cols=79 Identities=9% Similarity=-0.005 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+..+.++.+.+.... .+++-..+...+..+ .+.+.+++.++|-+++..........--+-..-..|...++.||++.
T Consensus 52 Er~~~~~~~~~~~~~-~~~vi~gv~~~s~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~~~pi~lY 130 (285)
T TIGR00674 52 EHKKVIEFVVDLVNG-RVPVIAGTGSNATEEAISLTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEVDLPIILY 130 (285)
T ss_pred HHHHHHHHHHHHhCC-CCeEEEeCCCccHHHHHHHHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcCCCCEEEE
Confidence 334455555554432 344333332223433 34467889999999998654322222111123356777788999988
Q ss_pred cC
Q 031713 150 RK 151 (154)
Q Consensus 150 ~~ 151 (154)
..
T Consensus 131 n~ 132 (285)
T TIGR00674 131 NV 132 (285)
T ss_pred EC
Confidence 53
No 263
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=58.22 E-value=36 Score=21.75 Aligned_cols=16 Identities=6% Similarity=0.154 Sum_probs=6.9
Q ss_pred HHHHhcCCCEEEEecC
Q 031713 106 EAAEKHKIQLLIVGSH 121 (154)
Q Consensus 106 ~~a~~~~~dlivlg~~ 121 (154)
+.++..+...|++...
T Consensus 123 dl~~~~~~~vilV~~~ 138 (166)
T TIGR00347 123 DLIKLLQLPVILVVRV 138 (166)
T ss_pred HHHHHhCCCEEEEECC
Confidence 3444444444444433
No 264
>PRK06850 hypothetical protein; Provisional
Probab=57.93 E-value=92 Score=24.57 Aligned_cols=73 Identities=11% Similarity=0.008 Sum_probs=42.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccC---CCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDA---ISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~---~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
.+.|+..+...|..++..+..-.... +-...+++++..-.-... ......++.++.+.
T Consensus 36 P~vV~fSGGKDStavL~Lv~~Al~~lp~e~r~k~v~Vi~~DTgvE~P-------------------e~~~~v~~~l~~i~ 96 (507)
T PRK06850 36 PWVIGYSGGKDSTAVLQLVWNALAGLPPEKRTKPVYVISSDTLVENP-------------------VVVDWVNKSLERIN 96 (507)
T ss_pred CeEEeCCCCchHHHHHHHHHHHHHhcchhccCCcEEEEECCCCCccH-------------------HHHHHHHHHHHHHH
Confidence 36889999999988887776543321 111356666663332211 34445556666666
Q ss_pred HHHHhcCCeEEEEEe
Q 031713 82 EICAKHGVVAETMTE 96 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~ 96 (154)
..+++.|+++.+++.
T Consensus 97 ~~a~~~glpi~~~~v 111 (507)
T PRK06850 97 EAAKKQGLPITPHKL 111 (507)
T ss_pred HHHHHcCCceEEEee
Confidence 666666777665443
No 265
>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=57.88 E-value=35 Score=19.68 Aligned_cols=67 Identities=13% Similarity=0.116 Sum_probs=39.2
Q ss_pred HHHHHHHHhcCC-eEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 78 GRAKEICAKHGV-VAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 78 ~~~~~~~~~~~~-~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
+.+...++..|. .+. ...+ ..+..+..+...+|+++++..-.. ... -.+.+++-+..+ +|++++-..
T Consensus 12 ~~l~~~l~~~~~~~v~---~~~~-~~~~~~~~~~~~~d~iiid~~~~~-~~~---~~~~~~i~~~~~~~~ii~~t~~ 80 (112)
T PF00072_consen 12 ELLEKLLERAGYEEVT---TASS-GEEALELLKKHPPDLIIIDLELPD-GDG---LELLEQIRQINPSIPIIVVTDE 80 (112)
T ss_dssp HHHHHHHHHTTEEEEE---EESS-HHHHHHHHHHSTESEEEEESSSSS-SBH---HHHHHHHHHHTTTSEEEEEESS
T ss_pred HHHHHHHHhCCCCEEE---EECC-HHHHHHHhcccCceEEEEEeeecc-ccc---cccccccccccccccEEEecCC
Confidence 344444555565 222 2333 555557778889999999976433 221 245566655554 888887543
No 266
>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=57.83 E-value=64 Score=22.69 Aligned_cols=105 Identities=15% Similarity=0.084 Sum_probs=56.5
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICA 85 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 85 (154)
.=|+..+.-.+...++.++.+|+..| --.--|.-.++... |+ ....+--.++..+.....+..+...++
T Consensus 30 aNIACG~HAGDp~~M~~tv~lA~~~g---V~iGAHPsyPD~~g-----FG---Rr~m~~s~~el~~~v~yQigaL~~~a~ 98 (242)
T PF03746_consen 30 ANIACGFHAGDPETMRRTVRLAKEHG---VAIGAHPSYPDREG-----FG---RRSMDISPEELRDSVLYQIGALQAIAA 98 (242)
T ss_dssp EEEE-SSSS--HHHHHHHHHHHHHTT----EEEEE---S-TTT-----TT----S-----HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhcccccCHHHHHHHHHHHHHcC---CEeccCCCCCCCCC-----CC---CCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34566777778889999999999987 33344443333222 22 111122233444445555666777777
Q ss_pred hcCCeEEEEEec----------CChhhHHHHHHHhcCCCEEEEecC
Q 031713 86 KHGVVAETMTEM----------GDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 86 ~~~~~~~~~v~~----------g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
..|.++...--- ...++.+++.+++.+.++.+++-.
T Consensus 99 ~~g~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~a 144 (242)
T PF03746_consen 99 AEGVPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLA 144 (242)
T ss_dssp HTT--EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEET
T ss_pred HcCCeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcC
Confidence 888875443211 246788999999999999999865
No 267
>cd06389 PBP1_iGluR_AMPA_GluR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR2 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=57.75 E-value=76 Score=23.53 Aligned_cols=38 Identities=16% Similarity=0.086 Sum_probs=28.3
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
+++++.+..+ ++++...++...+.++..+ .+|....+.
T Consensus 117 ~wk~vailYd-sd~gl~~lq~l~~~~~~~g--~~V~~~~~~ 154 (370)
T cd06389 117 QWDKFAYLYD-SDRGLSTLQAVLDSAAEKK--WQVTAINVG 154 (370)
T ss_pred CCcEEEEEec-CchHHHHHHHHHHhhccCC--ceEEEEEee
Confidence 5788888888 6688888888888888766 566655543
No 268
>TIGR01304 IMP_DH_rel_2 IMP dehydrogenase family protein. This model represents a family of proteins, often annotated as a putative IMP dehydrogenase, related to IMP dehydrogenase and GMP reductase. Most species with a member of this family belong to the high GC Gram-positive bacteria, and these also have the IMP dehydrogenase described by TIGRFAMs equivalog model TIGR01302.
Probab=57.73 E-value=79 Score=23.76 Aligned_cols=65 Identities=12% Similarity=0.083 Sum_probs=38.2
Q ss_pred HHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCC-----CcccccccchhHHHhhcCCCcEEE
Q 031713 79 RAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRG-----PIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~-----~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
++.....+.+ +...++.+ ....++.+.+.+.++|+|++-.+..+ ....+ - ...++.+..++||++
T Consensus 123 ~ii~~vr~a~--VtvkiRl~~~~~~e~a~~l~eAGad~I~ihgrt~~q~~~sg~~~p--~-~l~~~i~~~~IPVI~ 193 (369)
T TIGR01304 123 ERIAEVRDSG--VITAVRVSPQNAREIAPIVVKAGADLLVIQGTLVSAEHVSTSGEP--L-NLKEFIGELDVPVIA 193 (369)
T ss_pred HHHHHHHhcc--eEEEEecCCcCHHHHHHHHHHCCCCEEEEeccchhhhccCCCCCH--H-HHHHHHHHCCCCEEE
Confidence 3344444445 33444445 36778899999999999998643211 00111 1 234566777899885
No 269
>PRK13606 LPPG:FO 2-phospho-L-lactate transferase; Provisional
Probab=57.64 E-value=23 Score=25.71 Aligned_cols=47 Identities=19% Similarity=0.262 Sum_probs=31.9
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+..+.++..+ ++|+||+|-.. .+-...+.+..+.+.| ++.||+.|.
T Consensus 174 ~a~p~vl~AI~--~AD~IiiGPgnp~TSI~P~L~v~gi~eAL---~~a~vV~Vs 222 (303)
T PRK13606 174 KPAPGVLEAIE--EADAVIIGPSNPVTSIGPILAVPGIREAL---TEAPVVAVS 222 (303)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHhhchhccchhHHHHH---hCCCEEEEc
Confidence 36677888888 89999999653 2222334566677777 777887553
No 270
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=56.93 E-value=71 Score=22.97 Aligned_cols=78 Identities=10% Similarity=-0.005 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChhhH--HHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcC-CCcEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPKNV--ICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA-KCPVLV 148 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~--i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~-~~pvli 148 (154)
+..+.++.+.+... ..+++-..+...+..++ +.+.+++.++|-+++..........--+-..-..|...+ +.||++
T Consensus 54 Er~~l~~~~~~~~~-g~~pvi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lpv~i 132 (294)
T TIGR02313 54 ERKQAIENAIDQIA-GRIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFPIII 132 (294)
T ss_pred HHHHHHHHHHHHhC-CCCcEEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCCEEE
Confidence 34455555555443 23444433433344444 557889999999999886433322211222335677888 699998
Q ss_pred Ec
Q 031713 149 VR 150 (154)
Q Consensus 149 v~ 150 (154)
..
T Consensus 133 Yn 134 (294)
T TIGR02313 133 YN 134 (294)
T ss_pred Ee
Confidence 84
No 271
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=56.80 E-value=86 Score=23.91 Aligned_cols=50 Identities=8% Similarity=0.061 Sum_probs=26.3
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCccc
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
++....+..++++.......+..++|.......++|+|++.+.|++....
T Consensus 252 QLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~~D~VLIDTAGr~~~d~ 301 (407)
T PRK12726 252 QFQGYADKLDVELIVATSPAELEEAVQYMTYVNCVDHILIDTVGRNYLAE 301 (407)
T ss_pred HHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCCCCEEEEECCCCCccCH
Confidence 44445555566654321111222233223323578999999998876544
No 272
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=56.72 E-value=53 Score=21.41 Aligned_cols=26 Identities=15% Similarity=0.256 Sum_probs=22.3
Q ss_pred HHHHHHHhcCCCEEEEecCCCCCccc
Q 031713 103 VICEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 103 ~i~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
-+++++++.++..||=|-+.-+.++-
T Consensus 73 Llvd~ak~~~a~~ivRGLR~~sDfeY 98 (159)
T COG0669 73 LLVDYAKKLGATVLVRGLRAVSDFEY 98 (159)
T ss_pred HHHHHHHHcCCCEEEEeccccchHHH
Confidence 78899999999999999987666654
No 273
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=56.72 E-value=64 Score=22.36 Aligned_cols=91 Identities=21% Similarity=0.215 Sum_probs=52.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
++++-+.+...|..|+-+|. ..|. --..++++.+....... +.. -.++-+....
T Consensus 2 k~~aL~SGGKDS~~Al~~a~----~~G~-eV~~Ll~~~p~~~dS~m---~H~------------------~n~~~~~~~A 55 (223)
T COG2102 2 KVIALYSGGKDSFYALYLAL----EEGH-EVVYLLTVKPENGDSYM---FHT------------------PNLELAELQA 55 (223)
T ss_pred cEEEEEecCcHHHHHHHHHH----HcCC-eeEEEEEEecCCCCeee---eec------------------cchHHHHHHH
Confidence 56677788888875555554 4441 24455666665542210 000 0112223333
Q ss_pred HhcCCeEEEEEecC---ChhhHHHHHHHhcCCCEEEEecC
Q 031713 85 AKHGVVAETMTEMG---DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 85 ~~~~~~~~~~v~~g---~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+..|+++.+....| .-.+.+....+..++|-|+.|+-
T Consensus 56 e~~gi~l~~~~~~g~~e~eve~L~~~l~~l~~d~iv~GaI 95 (223)
T COG2102 56 EAMGIPLVTFDTSGEEEREVEELKEALRRLKVDGIVAGAI 95 (223)
T ss_pred HhcCCceEEEecCccchhhHHHHHHHHHhCcccEEEEchh
Confidence 44588866666566 35667777788889999999984
No 274
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=56.50 E-value=78 Score=23.31 Aligned_cols=71 Identities=15% Similarity=0.121 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCCh----hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDP----KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~----~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+++.+.+++.|+.+......+++ ...+.+.+++.++|+||-= .|.+... ++..+......|++.||
T Consensus 36 ~~~~~v~~~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIav-GGGS~iD------~aK~ia~~~~~P~iaIP 108 (351)
T cd08170 36 LVGAKIEESLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVIGI-GGGKTLD------TAKAVADYLGAPVVIVP 108 (351)
T ss_pred HHHHHHHHHHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEe-cCchhhH------HHHHHHHHcCCCEEEeC
Confidence 45667777777778876544445543 3345566778899976643 2322221 22223233468999888
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
-.
T Consensus 109 TT 110 (351)
T cd08170 109 TI 110 (351)
T ss_pred Cc
Confidence 53
No 275
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=56.38 E-value=72 Score=23.75 Aligned_cols=68 Identities=19% Similarity=0.220 Sum_probs=44.7
Q ss_pred HHHHhcCCeEEEEEec-CChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCC-CcEEEE
Q 031713 82 EICAKHGVVAETMTEM-GDPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAK-CPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~-g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~-~pvliv 149 (154)
+.+.+.+.-+----.. -...+++++.|++.+.-+|+.-+.+...... .++.........+.+ +||.+-
T Consensus 11 ~~A~~~~yAVgAfN~~n~e~~~avi~AAee~~sPvIiq~s~~~~~~~g~~~~~~~~~~~a~~~~~VPValH 81 (347)
T PRK09196 11 DHAAEHGYGVPAFNVNNLEQVQAIMEAADETDSPVILQASAGARKYAGEPFLRHLILAAVEEYPHIPVVMH 81 (347)
T ss_pred HHHHHcCceEEEeeeCCHHHHHHHHHHHHHhCCCEEEECCccHhhhCCHHHHHHHHHHHHHhCCCCcEEEE
Confidence 3333344433332233 4789999999999999999998776433222 245667777777776 898764
No 276
>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=56.33 E-value=47 Score=20.76 Aligned_cols=57 Identities=12% Similarity=0.107 Sum_probs=35.8
Q ss_pred HHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhh
Q 031713 80 AKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVH 140 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~ 140 (154)
+...++..|.++. -..+ .+.+++++.+.+.++|.|++.+...+... ....+.+.+-.
T Consensus 22 v~~~l~~~GfeVi--~lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~--~~~~~~~~L~~ 79 (132)
T TIGR00640 22 IATAYADLGFDVD--VGPLFQTPEEIARQAVEADVHVVGVSSLAGGHLT--LVPALRKELDK 79 (132)
T ss_pred HHHHHHhCCcEEE--ECCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHH--HHHHHHHHHHh
Confidence 3455566675542 2223 46778999999999999999876433333 24455555543
No 277
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=56.06 E-value=42 Score=20.04 Aligned_cols=42 Identities=12% Similarity=0.082 Sum_probs=29.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCC-hhhHHHHHHHhcCCCEEEEecC
Q 031713 78 GRAKEICAKHGVVAETMTEMGD-PKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~-~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.-+...+++.|.++. ....+ ..+.+.+.+++.++|+|.++..
T Consensus 18 ~~la~~l~~~G~~v~--~~d~~~~~~~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 18 LYLAAYLRKAGHEVD--ILDANVPPEELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHHHTTBEEE--EEESSB-HHHHHHHHHHTTCSEEEEEES
T ss_pred HHHHHHHHHCCCeEE--EECCCCCHHHHHHHHhcCCCcEEEEEcc
Confidence 344555666676554 33333 4589999999999999999874
No 278
>cd00453 FTBP_aldolase_II Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to yield fructose-1,6-bisphosphate. TBP-aldolase is tetrameric and produces tagarose-1,6-bisphosphate. There is an absolute requirement for a divalent metal ion, usually zinc, and in addition the enzymes are activated by monovalent cations such as Na+. Although structurally similar, the class I aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=56.04 E-value=59 Score=24.12 Aligned_cols=66 Identities=17% Similarity=0.160 Sum_probs=43.3
Q ss_pred HHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecC-CCCCccc----------------ccccchhHHHhhcCCCc
Q 031713 84 CAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSH-SRGPIQR----------------AFLGSVSNYCVHNAKCP 145 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~-~~~~~~~----------------~~~gs~~~~l~~~~~~p 145 (154)
.++.+.-+--.-..+ ...+++++.|++.+..+|+..+. +...... ..+...+....+++.+|
T Consensus 8 A~~~~yAV~AfN~~n~e~~~Avi~aAee~~sPvIlq~s~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~VP 87 (340)
T cd00453 8 AKENNFALPAVNCVGTDSINAVLETAAKVKAPVIVQFSNGGASFIAGKGVKSDVPQGAAILGAISGAHHVHQMAEHYGVP 87 (340)
T ss_pred HHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchHHHhCCCcccccccchhhhhhHHHHHHHHHHHHHHCCCC
Confidence 333444433333344 68889999999999999998876 2211111 23555677788888999
Q ss_pred EEEE
Q 031713 146 VLVV 149 (154)
Q Consensus 146 vliv 149 (154)
|.+-
T Consensus 88 V~lH 91 (340)
T cd00453 88 VILH 91 (340)
T ss_pred EEEE
Confidence 8764
No 279
>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=55.95 E-value=81 Score=23.36 Aligned_cols=23 Identities=17% Similarity=0.218 Sum_probs=18.5
Q ss_pred hhHHHHHHHhcCCCEEEEecCCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
...+.+++++.++|.|+.|++.+
T Consensus 102 f~~l~~~A~~~g~~~IatGHya~ 124 (349)
T cd01998 102 FGALLDYAKKLGADYIATGHYAR 124 (349)
T ss_pred HHHHHHHHHHcCcCEEEECCcCC
Confidence 34566789999999999998754
No 280
>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=55.69 E-value=54 Score=21.21 Aligned_cols=24 Identities=21% Similarity=0.217 Sum_probs=19.3
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
..+.|.+.+++.++|+|++|....
T Consensus 71 ~a~al~~~i~~~~p~~Vl~~~t~~ 94 (168)
T cd01715 71 YAPALVALAKKEKPSHILAGATSF 94 (168)
T ss_pred HHHHHHHHHHhcCCCEEEECCCcc
Confidence 466788888888999999998753
No 281
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=55.54 E-value=84 Score=23.39 Aligned_cols=124 Identities=12% Similarity=0.030 Sum_probs=64.3
Q ss_pred cEEEEEecC-C-chHHHHHHHHHHHcccCC-CCCe-EEEEEeccCCchhhcc-cCCC--C---CchHHHHHHHHHHHHHH
Q 031713 4 KKVMVAIDE-S-ECRHYALQWALENLGDAI-SKSD-LIIFTARPTEFIYVQA-SMFG--A---APPDLLMSIQENQKKAA 73 (154)
Q Consensus 4 ~~iLv~vd~-~-~~~~~~l~~a~~la~~~~-~~~~-l~~l~v~~~~~~~~~~-~~~~--~---~~~~~~~~~~~~~~~~~ 73 (154)
+++||-+.. | +.-..+++||.++++... ...+ +.++.+.-..+-...| .++. . .+.+. ++.
T Consensus 47 ~rllvIvGPCSIhd~~~a~eyA~rLk~l~~~~~d~l~ivmR~y~eKPRTt~GWKGli~DP~ld~sf~i---------~~G 117 (344)
T TIGR00034 47 DRLLVVIGPCSIHDPEAAIEYATRLKALREELKDDLEIVMRVYFEKPRTTVGWKGLINDPDLNGSFRI---------NHG 117 (344)
T ss_pred CCeEEEecCCCCCCHHHHHHHHHHHHHHHHhhhcceEEEEEeccccCCCccccccccCCCCcCCCCCH---------HHH
Confidence 456666654 3 445678888887776521 0012 3344443332211111 0111 1 12221 333
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
-+.+.++.-.+.+.|+++-+.+..-...+-+.++. +..-+|++..... .-.++.....+||.+
T Consensus 118 L~~~R~ll~~i~~~GlPvatE~ld~~~~~y~~Dli-----sw~aIGARt~esq-------~hRelaSgl~~PVgf 180 (344)
T TIGR00034 118 LRIARKLLLDLVNLGLPIAGEFLDMISPQYLADLF-----SWGAIGARTTESQ-------VHRELASGLSCPVGF 180 (344)
T ss_pred HHHHHHHHHHHHHhCCCeEEEecCcCcHHHHHHHH-----hhccccCccccCH-------HHHHHHhCCCCceEe
Confidence 34444444445678999999888766555554443 3557888753221 226677778889875
No 282
>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=55.51 E-value=48 Score=23.31 Aligned_cols=56 Identities=13% Similarity=0.213 Sum_probs=37.3
Q ss_pred EEEEecCChhhHHHH-HHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 92 ETMTEMGDPKNVICE-AAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 92 ~~~v~~g~~~~~i~~-~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
......|+...++-. ..++.++|.||.=.+|..+.... -...+.+.+||++++++.
T Consensus 173 ~iia~~GPfs~e~n~al~~~~~i~~lVtK~SG~~g~~eK------i~AA~~lgi~vivI~RP~ 229 (249)
T PF02571_consen 173 NIIAMQGPFSKELNRALFRQYGIDVLVTKESGGSGFDEK------IEAARELGIPVIVIKRPP 229 (249)
T ss_pred hEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHH------HHHHHHcCCeEEEEeCCC
Confidence 344455766666554 58889999999866654422221 246688899999997764
No 283
>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=55.24 E-value=25 Score=21.94 Aligned_cols=42 Identities=19% Similarity=0.096 Sum_probs=34.3
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCc
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEF 46 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~ 46 (154)
-.+|+|.-|....+....+.++.-....| .++..+...+.+.
T Consensus 40 ~~~VvVg~D~R~~s~~~~~~~~~~l~~~G--~~V~~~g~~~tP~ 81 (137)
T PF02878_consen 40 GSRVVVGRDTRPSSPMLAKALAAGLRANG--VDVIDIGLVPTPA 81 (137)
T ss_dssp SSEEEEEE-SSTTHHHHHHHHHHHHHHTT--EEEEEEEEB-HHH
T ss_pred CCeEEEEEcccCCHHHHHHHHHHHHhhcc--cccccccccCcHH
Confidence 46899999999999999999999999988 7888888666543
No 284
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=55.15 E-value=71 Score=22.46 Aligned_cols=71 Identities=13% Similarity=0.207 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+.+..+.+.+++.|.++......+++ ....++.....++|-+|++........ ..-..++..++|++.+-
T Consensus 42 ~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~------~~l~~~~~~~ipvV~~~ 114 (295)
T PRK10653 42 VSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINPTDSDAVG------NAVKMANQANIPVITLD 114 (295)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHH------HHHHHHHHCCCCEEEEc
Confidence 455666777777788776553333343 334455566678998888753211111 11245556778988874
No 285
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=55.01 E-value=1.4e+02 Score=26.15 Aligned_cols=49 Identities=20% Similarity=0.293 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEec--CChhhHHHHHHHhcCCCEEEEecCC
Q 031713 73 ALALLGRAKEICAKHGVVAETMTEM--GDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 73 ~~~~l~~~~~~~~~~~~~~~~~v~~--g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+++..+.++++++..+++++...+. ....+.+++-.++.++|+ |+|+|.
T Consensus 656 A~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDI-vIGTHr 706 (1139)
T COG1197 656 AQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDI-VIGTHR 706 (1139)
T ss_pred HHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccE-EEechH
Confidence 4566788888888888888776666 357888899999999986 567764
No 286
>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=54.95 E-value=24 Score=26.09 Aligned_cols=50 Identities=20% Similarity=0.185 Sum_probs=35.6
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
..+.|+..+++.++|++|.|--=....-..--|.++..+-.+..+|++.-
T Consensus 68 a~~~i~~mv~~~~pD~viaGPaFnagrYG~acg~v~~aV~e~~~IP~vta 117 (349)
T PF07355_consen 68 ALKKILEMVKKLKPDVVIAGPAFNAGRYGVACGEVAKAVQEKLGIPVVTA 117 (349)
T ss_pred HHHHHHHHHHhcCCCEEEEcCCcCCchHHHHHHHHHHHHHHhhCCCEEEE
Confidence 45677888999999999999632221222345667777888899998754
No 287
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=54.78 E-value=81 Score=23.00 Aligned_cols=73 Identities=14% Similarity=0.161 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEecC-C---hhhHHHHHHHhcCCCEEEEecCCCCCcccccccc-----hhHHHhhcCC
Q 031713 73 ALALLGRAKEICAKHGVVAETMTEMG-D---PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGS-----VSNYCVHNAK 143 (154)
Q Consensus 73 ~~~~l~~~~~~~~~~~~~~~~~v~~g-~---~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs-----~~~~l~~~~~ 143 (154)
..+.++.+.+... .++++..+++.| + ....+++.+++.++|.|.+..+.+. . .+.|. .+.++-+..+
T Consensus 119 ~~eiv~avr~~~~-~~~pVsvKiR~g~~~~~~~~~~a~~l~~~Gvd~i~Vh~Rt~~--~-~y~g~~~~~~~i~~ik~~~~ 194 (312)
T PRK10550 119 IYQGAKAMREAVP-AHLPVTVKVRLGWDSGERKFEIADAVQQAGATELVVHGRTKE--D-GYRAEHINWQAIGEIRQRLT 194 (312)
T ss_pred HHHHHHHHHHhcC-CCcceEEEEECCCCCchHHHHHHHHHHhcCCCEEEECCCCCc--c-CCCCCcccHHHHHHHHhhcC
Confidence 4445555544332 146777777666 2 3456777788899999999654322 1 22232 3566667778
Q ss_pred CcEEEE
Q 031713 144 CPVLVV 149 (154)
Q Consensus 144 ~pvliv 149 (154)
+||+..
T Consensus 195 iPVi~n 200 (312)
T PRK10550 195 IPVIAN 200 (312)
T ss_pred CcEEEe
Confidence 898765
No 288
>PRK08392 hypothetical protein; Provisional
Probab=54.60 E-value=65 Score=21.85 Aligned_cols=69 Identities=17% Similarity=0.033 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCP 145 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~p 145 (154)
..++++.+.+.+.|+.++.....+-|...+++.+++.+. .+++|+-.+... .+..=..+..+++++..+
T Consensus 137 ~~~~~i~~~~~~~g~~lEiNt~~~~p~~~~l~~~~~~G~-~~~igSDAH~~~-~vg~~~~a~~~~~~~g~~ 205 (215)
T PRK08392 137 EELKEILDLAEAYGKAFEISSRYRVPDLEFIRECIKRGI-KLTFASDAHRPE-DVGNVSWSLKVFKKAGGK 205 (215)
T ss_pred HHHHHHHHHHHHhCCEEEEeCCCCCCCHHHHHHHHHcCC-EEEEeCCCCChH-HCCcHHHHHHHHHHcCCC
Confidence 345666677777888877766556677889999998886 589998654422 111013556777777644
No 289
>PF07302 AroM: AroM protein; InterPro: IPR010843 This family consists of several bacterial and archaeal AroM proteins. In Escherichia coli the aroM gene is cotranscribed with aroL []. The function of this family is unknown.
Probab=54.44 E-value=70 Score=22.15 Aligned_cols=64 Identities=14% Similarity=0.122 Sum_probs=37.9
Q ss_pred HHHHHHHhcCCeEEEEEec-C-ChhhHHHHHH---HhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 79 RAKEICAKHGVVAETMTEM-G-DPKNVICEAA---EKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~-g-~~~~~i~~~a---~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
...+.++..+.++.+.... . ...+.+.+.+ ++.++|+||+.--|.+.--+ +.+-+.+++||++-
T Consensus 140 ~~~~kW~~l~~~~~~a~asPy~~~~~~l~~Aa~~L~~~gadlIvLDCmGYt~~~r-------~~~~~~~g~PVlLs 208 (221)
T PF07302_consen 140 QQAEKWQPLGNPVVVAAASPYEGDEEELAAAARELAEQGADLIVLDCMGYTQEMR-------DIVQRALGKPVLLS 208 (221)
T ss_pred HHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCHHHH-------HHHHHHhCCCEEeH
Confidence 3444444455555444433 1 3345555544 45689999998776553332 55667788999864
No 290
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=54.43 E-value=88 Score=23.26 Aligned_cols=69 Identities=14% Similarity=0.158 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCCh----hhHHHHHHHhcCCCEEE-EecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDP----KNVICEAAEKHKIQLLI-VGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~----~~~i~~~a~~~~~dliv-lg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
..+++...+...|+.+......|++ .+.+.+.+++.++|.|| +|-. + ...++..+......|++.||
T Consensus 44 ~~~~v~~~l~~~~~~~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavGGG--s------v~D~aK~iA~~~~~p~i~IP 115 (366)
T PRK09423 44 VGDRVEASLKEAGLTVVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIGGG--K------TLDTAKAVADYLGVPVVIVP 115 (366)
T ss_pred HHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEecCh--H------HHHHHHHHHHHcCCCEEEeC
Confidence 4566666777777765433344543 33455567788999877 3421 1 11233333333468888888
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
-.
T Consensus 116 Tt 117 (366)
T PRK09423 116 TI 117 (366)
T ss_pred Cc
Confidence 53
No 291
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=54.38 E-value=73 Score=23.45 Aligned_cols=68 Identities=10% Similarity=0.115 Sum_probs=40.6
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc----ccccchhHHHhhcC--CCcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR----AFLGSVSNYCVHNA--KCPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~----~~~gs~~~~l~~~~--~~pvliv 149 (154)
+.+++.+.-+----..+ ...+++++.|++.+..+|+-.+.+...... ..+........+++ .+||.+-
T Consensus 17 ~~A~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~~~~g~~~~~~~~~~~~~~a~~a~~~VPV~lH 91 (321)
T PRK07084 17 AKAVKGGYAIPAYNFNNMEQLQAIIQACVETKSPVILQVSKGARKYANATLLRYMAQGAVEYAKELGCPIPIVLH 91 (321)
T ss_pred HHHHHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEechhHHhhCCchHHHHHHHHHHHHHHHcCCCCcEEEE
Confidence 33444444433333334 789999999999999999988765332222 11222334556665 6887764
No 292
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=54.21 E-value=54 Score=23.03 Aligned_cols=53 Identities=11% Similarity=0.201 Sum_probs=33.4
Q ss_pred EecCChhhHHHH-HHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 95 TEMGDPKNVICE-AAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 95 v~~g~~~~~i~~-~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
...|+...++-. ..++.++|.+|.=.+|..+.... -...+.+.+||+++.+++
T Consensus 172 am~gPfs~e~n~aL~~~~~i~~lVtK~SG~~g~~eK------i~AA~~lgi~vivI~RP~ 225 (248)
T PRK08057 172 ALRGPFSLELERALLRQHRIDVVVTKNSGGAGTEAK------LEAARELGIPVVMIARPA 225 (248)
T ss_pred EeeCCCCHHHHHHHHHHcCCCEEEEcCCCchhhHHH------HHHHHHcCCeEEEEeCCC
Confidence 344655555543 57788999888765554322211 156788889999997653
No 293
>PRK14561 hypothetical protein; Provisional
Probab=54.08 E-value=64 Score=21.60 Aligned_cols=32 Identities=16% Similarity=0.004 Sum_probs=20.8
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
++|+|++.+...|..++..+.++ . ++.++++.
T Consensus 1 mkV~ValSGG~DSslll~~l~~~----~---~v~a~t~~ 32 (194)
T PRK14561 1 MKAGVLFSGGKDSSLAAILLERF----Y---DVELVTVN 32 (194)
T ss_pred CEEEEEEechHHHHHHHHHHHhc----C---CeEEEEEe
Confidence 36999999988887666544322 1 45566664
No 294
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=54.05 E-value=56 Score=20.87 Aligned_cols=78 Identities=22% Similarity=0.176 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHHHhcCC---eEEEEEecC--ChhhHHHHHHHhcCCCEEEE-ec--CCCCCcccccccchhHHHhhc
Q 031713 70 KKAALALLGRAKEICAKHGV---VAETMTEMG--DPKNVICEAAEKHKIQLLIV-GS--HSRGPIQRAFLGSVSNYCVHN 141 (154)
Q Consensus 70 ~~~~~~~l~~~~~~~~~~~~---~~~~~v~~g--~~~~~i~~~a~~~~~dlivl-g~--~~~~~~~~~~~gs~~~~l~~~ 141 (154)
....+.+++.+.+.+.+.|+ +++..-+.| +..-.+...++..++|-+|. |. +|.+.--+.....++..+++-
T Consensus 15 ~~i~~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI~G~T~H~~~v~~~v~~gl~~l 94 (144)
T PF00885_consen 15 EEITDRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVIRGETDHFEYVANAVSRGLMDL 94 (144)
T ss_dssp HHHHHHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE--SSTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEeccccCCCchHHHHHHHHHHHHHHHH
Confidence 34557778888888888888 677777788 45566667788777887664 63 665555555555555555433
Q ss_pred ---CCCcEE
Q 031713 142 ---AKCPVL 147 (154)
Q Consensus 142 ---~~~pvl 147 (154)
...||.
T Consensus 95 sl~~~~PV~ 103 (144)
T PF00885_consen 95 SLEYGIPVI 103 (144)
T ss_dssp HHHHTSEEE
T ss_pred hccCCccEE
Confidence 256654
No 295
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=53.93 E-value=39 Score=20.03 Aligned_cols=47 Identities=17% Similarity=0.246 Sum_probs=32.1
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
.+.-++.++..++.+||+.+.-....++ -.++=..-+.+||+..+..
T Consensus 24 ~k~tiK~lk~gkaKliiiAsN~P~~~k~-----~ieyYAkLs~ipV~~y~Gt 70 (100)
T COG1911 24 SKRTIKSLKLGKAKLIIIASNCPKELKE-----DIEYYAKLSDIPVYVYEGT 70 (100)
T ss_pred hHHHHHHHHcCCCcEEEEecCCCHHHHH-----HHHHHHHHcCCcEEEecCC
Confidence 4556777888899999998775544433 3355555568998887654
No 296
>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=53.73 E-value=63 Score=21.40 Aligned_cols=32 Identities=9% Similarity=0.176 Sum_probs=23.4
Q ss_pred CCeEEEEEecC--C--hhhHHHHHHHhcCCCEEEEecC
Q 031713 88 GVVAETMTEMG--D--PKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 88 ~~~~~~~v~~g--~--~~~~i~~~a~~~~~dlivlg~~ 121 (154)
++++... .| + ..+.+++.+++.++|+|++|-.
T Consensus 74 ~l~i~g~--~g~f~~~~~~~i~~~I~~s~~dil~VglG 109 (177)
T TIGR00696 74 KLKIVGA--FGPLEPEERKAALAKIARSGAGIVFVGLG 109 (177)
T ss_pred CCEEEEE--CCCCChHHHHHHHHHHHHcCCCEEEEEcC
Confidence 6665543 43 2 3467889999999999999964
No 297
>PF01116 F_bP_aldolase: Fructose-bisphosphate aldolase class-II; InterPro: IPR000771 Fructose-bisphosphate aldolase [, ] is a glycolytic enzyme that catalyses the reversible aldol cleavage or condensation of fructose-1,6-bisphosphate into dihydroxyacetone-phosphate and glyceraldehyde 3-phosphate. There are two classes of fructose-bisphosphate aldolases with different catalytic mechanisms. Class-II aldolases [], mainly found in prokaryotes and fungi, are homodimeric enzymes, which require a divalent metal ion, generally zinc, for their activity. This family also includes the Escherichia coli galactitol operon protein, gatY, which catalyses the transformation of tagatose 1,6-bisphosphate into glycerone phosphate and D-glyceraldehyde 3-phosphate; and E. coli N-acetyl galactosamine operon protein, agaY, which catalyses the same reaction. There are two histidine residues in the first half of the sequence of these enzymes that have been shown to be involved in binding a zinc ion [].; GO: 0008270 zinc ion binding, 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3Q94_A 1RVG_B 1RV8_C 3C4U_A 3C56_B 3C52_A 2FJK_A 3N9R_P 3N9S_A 1GVF_B ....
Probab=53.68 E-value=19 Score=25.91 Aligned_cols=66 Identities=17% Similarity=0.221 Sum_probs=43.2
Q ss_pred HHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCccc-ccccchhHHHhhcCCCcEEEE
Q 031713 84 CAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPIQR-AFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~~~-~~~gs~~~~l~~~~~~pvliv 149 (154)
+++.+.-+----..+ ...+++++.|++.+..+|+.-+.+...... ..+......+.+++++||.+-
T Consensus 12 A~~~~yAV~AfN~~n~e~~~avi~AAe~~~sPvIlq~~~~~~~~~~~~~~~~~~~~~a~~~~vPValH 79 (287)
T PF01116_consen 12 AKEGGYAVPAFNVYNLETARAVIEAAEELNSPVILQISPSEVKYMGLEYLAAMVKAAAEEASVPVALH 79 (287)
T ss_dssp HHHHT-BEEEEE-SSHHHHHHHHHHHHHTTS-EEEEEEHHHHHHHHHHHHHHHHHHHHHHSTSEEEEE
T ss_pred HHHCCCeEEEEeeCCHHHHHHHHHHHHHhCCCEEEEcchhhhhhhhHHHHHHHHHHHHHHcCCCEEee
Confidence 333344433333344 789999999999999999888764322222 245667888999999999763
No 298
>PF10808 DUF2542: Protein of unknown function (DUF2542) ; InterPro: IPR020155 This entry represents transmembrane proteins with no known function.; GO: 0016021 integral to membrane
Probab=53.46 E-value=7 Score=21.80 Aligned_cols=28 Identities=29% Similarity=0.297 Sum_probs=20.9
Q ss_pred CCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 124 GPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 124 ~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
..++++..|.+ +++.++++-||.+-+..
T Consensus 22 Ea~KgwRsGaV-dK~vkna~ePvyi~R~~ 49 (79)
T PF10808_consen 22 EAWKGWRSGAV-DKIVKNAQEPVYIYRAK 49 (79)
T ss_pred HHHHHHhhcch-HHHhcCCCCcEEEEecC
Confidence 34555556654 88999999999998754
No 299
>PRK09875 putative hydrolase; Provisional
Probab=53.24 E-value=84 Score=22.72 Aligned_cols=48 Identities=15% Similarity=0.056 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCC--CEEEEecCC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKI--QLLIVGSHS 122 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~--dlivlg~~~ 122 (154)
+.++.+.....+.|.++.++...|+...++++.+++.++ +-+|+|+-.
T Consensus 139 kvl~Aaa~a~~~TG~pi~~Ht~~~~~g~e~l~il~e~Gvd~~rvvi~H~d 188 (292)
T PRK09875 139 KVFIAAALAHNQTGRPISTHTSFSTMGLEQLALLQAHGVDLSRVTVGHCD 188 (292)
T ss_pred HHHHHHHHHHHHHCCcEEEcCCCccchHHHHHHHHHcCcCcceEEEeCCC
Confidence 444444444455577777776556666666778887777 788888765
No 300
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=53.02 E-value=74 Score=22.00 Aligned_cols=46 Identities=17% Similarity=0.194 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+...++..+.+++.|..+.-.-+.-++.+.|..+.. ++|.|.+|-.
T Consensus 48 ~~Yv~k~~~~l~~lg~~v~~L~l~~~~~~~Ie~~l~--~~d~IyVgGG 93 (224)
T COG3340 48 DFYVEKVRNALAKLGLEVSELHLSKPPLAAIENKLM--KADIIYVGGG 93 (224)
T ss_pred HHHHHHHHHHHHHcCCeeeeeeccCCCHHHHHHhhh--hccEEEECCc
Confidence 344566677777889888777777788999999988 8999999854
No 301
>TIGR00829 FRU PTS system, fructose-specific, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several PTS components of unknown specificities. The fructose components of this family phosphorylate fructose on the 1-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIB domain of the fructose PTS transporters.
Probab=53.02 E-value=42 Score=19.21 Aligned_cols=43 Identities=14% Similarity=0.139 Sum_probs=25.8
Q ss_pred HHHHHHHHhcCCeEEEEEecCC-hhhHHH-HHHHhcCCCEEEEecCC
Q 031713 78 GRAKEICAKHGVVAETMTEMGD-PKNVIC-EAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~-~~~~i~-~~a~~~~~dlivlg~~~ 122 (154)
+.+.+..++.|..+.+...... +...+- +... .+|++|+....
T Consensus 18 e~L~~aA~~~G~~i~VE~qg~~g~~~~lt~~~i~--~Ad~viia~d~ 62 (85)
T TIGR00829 18 EALEKAAKKRGWEVKVETQGSVGAQNALTAEDIA--AADGVILAADR 62 (85)
T ss_pred HHHHHHHHHCCCeEEEEecCCcCccCCCCHHHHH--hCCEEEEeccC
Confidence 3445555667888777665543 233322 3355 88999998654
No 302
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=52.86 E-value=76 Score=22.09 Aligned_cols=73 Identities=12% Similarity=0.052 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccch---hHHHhhcCCCcEEE
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSV---SNYCVHNAKCPVLV 148 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~---~~~l~~~~~~pvli 148 (154)
..+.+.+.++++|++.-..+....+.+.+..+++...--+.+|+..+.++....+.... ..++-+..++||.+
T Consensus 117 e~~~~~~~~~~~g~~~i~~i~P~T~~~~i~~i~~~~~~~vy~~s~~g~tG~~~~~~~~~~~~i~~lr~~~~~pI~v 192 (242)
T cd04724 117 EAEEFREAAKEYGLDLIFLVAPTTPDERIKKIAELASGFIYYVSRTGVTGARTELPDDLKELIKRIRKYTDLPIAV 192 (242)
T ss_pred HHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHhhCCCCEEEEeCCCCCCCccCCChhHHHHHHHHHhcCCCcEEE
Confidence 35567777788888876666556666666666653333345566554443333233333 23344444577765
No 303
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=52.84 E-value=92 Score=23.02 Aligned_cols=23 Identities=26% Similarity=0.276 Sum_probs=18.5
Q ss_pred hhhHHHHHHHhcCCCEEEEecCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
....+.+.|++.++.+|+-|...
T Consensus 148 ~~~~l~~~A~~~gi~~Il~G~~~ 170 (343)
T TIGR03573 148 IFASVYQVALKFNIPLIIWGENI 170 (343)
T ss_pred HHHHHHHHHHHhCCCEEEeCCCH
Confidence 34566788999999999999864
No 304
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=52.67 E-value=16 Score=20.84 Aligned_cols=44 Identities=11% Similarity=0.168 Sum_probs=20.0
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 102 NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
+++....+..++.++|+...-.....+ ....+.+..++|+..+.
T Consensus 17 ~~v~kai~~gkaklViiA~D~~~~~~~-----~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 17 KQTVKALKRGSVKEVVVAEDADPRLTE-----KVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHHcCCeeEEEEECCCCHHHHH-----HHHHHHHHcCCCEEEEC
Confidence 344444555566666665442221111 12334455556655554
No 305
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=52.64 E-value=76 Score=22.06 Aligned_cols=60 Identities=13% Similarity=0.038 Sum_probs=39.9
Q ss_pred HHHHHHHHHhcCC--eEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHH
Q 031713 77 LGRAKEICAKHGV--VAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYC 138 (154)
Q Consensus 77 l~~~~~~~~~~~~--~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l 138 (154)
+.++.+.+++.|. +.-..+-.+.+.+.+..+.. ..|+|.+=+...++..+.|.....+++
T Consensus 105 ~~~~l~~Ik~~g~~~kaGlalnP~Tp~~~i~~~l~--~vD~VLiMtV~PGfgGQ~f~~~~l~KI 166 (228)
T PRK08091 105 LALTIEWLAKQKTTVLIGLCLCPETPISLLEPYLD--QIDLIQILTLDPRTGTKAPSDLILDRV 166 (228)
T ss_pred HHHHHHHHHHCCCCceEEEEECCCCCHHHHHHHHh--hcCEEEEEEECCCCCCccccHHHHHHH
Confidence 4456666777787 66565656788999999999 788776665545555555555544444
No 306
>PRK14974 cell division protein FtsY; Provisional
Probab=52.33 E-value=94 Score=23.00 Aligned_cols=52 Identities=19% Similarity=0.250 Sum_probs=31.1
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHH---HHHHHhcCCCEEEEecCCCCCccccc
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVI---CEAAEKHKIQLLIVGSHSRGPIQRAF 130 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~~ 130 (154)
++.......|+++......+++...+ +++++..++|+|++.+.|+......+
T Consensus 186 qL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~DvVLIDTaGr~~~~~~l 240 (336)
T PRK14974 186 QLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMHTDANL 240 (336)
T ss_pred HHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCCCEEEEECCCccCCcHHH
Confidence 34445555677665433234555433 34556678999999998877544433
No 307
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=52.23 E-value=55 Score=20.26 Aligned_cols=41 Identities=22% Similarity=0.286 Sum_probs=23.5
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHh--cCCCEEEEe
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEK--HKIQLLIVG 119 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~--~~~dlivlg 119 (154)
.+.+.+++.|.++.......+-.+.|.+..++ ..+|+||..
T Consensus 22 ~l~~~l~~~G~~~~~~~~v~Dd~~~I~~~l~~~~~~~dliitt 64 (135)
T smart00852 22 ALAELLTELGIEVTRYVIVPDDKEAIKEALREALERADLVITT 64 (135)
T ss_pred HHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEc
Confidence 44555667788765554445544444444332 268988775
No 308
>PRK00211 sulfur relay protein TusC; Validated
Probab=52.19 E-value=53 Score=20.11 Aligned_cols=39 Identities=13% Similarity=0.107 Sum_probs=25.6
Q ss_pred CcEEEEEecCCch----HHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 3 KKKVMVAIDESEC----RHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 3 ~~~iLv~vd~~~~----~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
++++++.+..+|+ +..+++.|+..+.. + -++.++..-+.
T Consensus 1 M~ki~~i~~~~Pyg~~~~~eaLd~ala~~a~-~--~~v~vff~~Dg 43 (119)
T PRK00211 1 MKRIAFVFRQAPHGTASGREGLDALLATSAF-T--EDIGVFFIDDG 43 (119)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHHHHHhcc-c--CCeeEEEEhhh
Confidence 4678998887766 45566666655443 3 48888877554
No 309
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=52.05 E-value=22 Score=23.32 Aligned_cols=45 Identities=22% Similarity=0.359 Sum_probs=28.7
Q ss_pred HHhcCCCEEEEecCCCCCcccccccc----hhHHHhh--cCCCcEEEEcCC
Q 031713 108 AEKHKIQLLIVGSHSRGPIQRAFLGS----VSNYCVH--NAKCPVLVVRKP 152 (154)
Q Consensus 108 a~~~~~dlivlg~~~~~~~~~~~~gs----~~~~l~~--~~~~pvliv~~~ 152 (154)
..-.++|++++..-..+...+.-.|- +++.+.. +..+||+|+|.+
T Consensus 84 lqlGkYD~llvaPaTsNTvAKIa~GIADtLVTNAVaqa~Kg~VPvyivP~D 134 (187)
T COG1036 84 LQLGKYDFLLVAPATSNTVAKIAYGIADTLVTNAVAQAGKGKVPVYIVPVD 134 (187)
T ss_pred eecccccEEEEcccccchHHHHHhhhHHHHHHHHHHHhcCCCCcEEEeccc
Confidence 34458999999876666666654431 2333333 335999999965
No 310
>PRK05595 replicative DNA helicase; Provisional
Probab=51.84 E-value=99 Score=23.73 Aligned_cols=44 Identities=16% Similarity=0.415 Sum_probs=25.4
Q ss_pred HHHHhcCCCEEEEecCC-----CC-CcccccccchhH---HHhhcCCCcEEEE
Q 031713 106 EAAEKHKIQLLIVGSHS-----RG-PIQRAFLGSVSN---YCVHNAKCPVLVV 149 (154)
Q Consensus 106 ~~a~~~~~dlivlg~~~-----~~-~~~~~~~gs~~~---~l~~~~~~pvliv 149 (154)
++..+.++|+||+..=+ +. .....-++.++. .+.+...|||+++
T Consensus 305 ~~~~~~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~l 357 (444)
T PRK05595 305 RLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIAL 357 (444)
T ss_pred HHHHhcCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEe
Confidence 34445689999997611 11 111112344444 4477788999987
No 311
>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=51.53 E-value=1.2e+02 Score=24.02 Aligned_cols=60 Identities=17% Similarity=0.267 Sum_probs=36.0
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHH---HHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEA---AEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~---a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
+.+.+.+++-..+..+..|+..+++... ....++|+||-. |.++..|-++.+.||+-++-
T Consensus 19 ~~~i~~~~~~~~~~~v~~~~~~~~~~~a~~~~~~~~~dviIsr------------G~ta~~i~~~~~iPVv~i~~ 81 (526)
T TIGR02329 19 FRDIAPEFDHRANITPIQLGFEDAVREIRQRLGAERCDVVVAG------------GSNGAYLKSRLSLPVIVIKP 81 (526)
T ss_pred HHHHHHhCCCCceEEEEeccHHHHHHHHHHHHHhCCCcEEEEC------------chHHHHHHHhCCCCEEEecC
Confidence 3344444443344556667665555533 445678877632 45666666777899988864
No 312
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=51.44 E-value=30 Score=24.25 Aligned_cols=24 Identities=21% Similarity=0.245 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGD 99 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~ 99 (154)
...++++.+.+.+.++. ..+..||
T Consensus 25 ~~~l~~l~~~~~~~~~D--~lli~GD 48 (253)
T TIGR00619 25 KAFLDDLLEFAKAEQID--ALLVAGD 48 (253)
T ss_pred HHHHHHHHHHHHHcCCC--EEEECCc
Confidence 45666777766665544 4444554
No 313
>COG1162 Predicted GTPases [General function prediction only]
Probab=51.37 E-value=93 Score=22.68 Aligned_cols=89 Identities=11% Similarity=0.024 Sum_probs=53.3
Q ss_pred EEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 6 VMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICA 85 (154)
Q Consensus 6 iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 85 (154)
|+|.....+-+...++..+-+|...|. .++.++.=.+...... ... ++....+.
T Consensus 85 iIvs~~~P~~~~~~ldR~Lv~ae~~gi-~pvIvlnK~DL~~~~~-----------------------~~~--~~~~~~y~ 138 (301)
T COG1162 85 IVVSLVDPDFNTNLLDRYLVLAEAGGI-EPVIVLNKIDLLDDEE-----------------------AAV--KELLREYE 138 (301)
T ss_pred EEEeccCCCCCHHHHHHHHHHHHHcCC-cEEEEEEccccCcchH-----------------------HHH--HHHHHHHH
Confidence 445555667788889999889988774 4555554444422110 011 34445555
Q ss_pred hcCCeEEEEE-ecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 86 KHGVVAETMT-EMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 86 ~~~~~~~~~v-~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
..|..+-..- ..++..+.+..+.+ +--.+++|.+|
T Consensus 139 ~~gy~v~~~s~~~~~~~~~l~~~l~--~~~svl~GqSG 174 (301)
T COG1162 139 DIGYPVLFVSAKNGDGLEELAELLA--GKITVLLGQSG 174 (301)
T ss_pred hCCeeEEEecCcCcccHHHHHHHhc--CCeEEEECCCC
Confidence 5676643322 34567778887777 44678888876
No 314
>PRK09271 flavodoxin; Provisional
Probab=51.31 E-value=45 Score=21.42 Aligned_cols=47 Identities=11% Similarity=0.173 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+++.+.+.+.++..|+.++..-........+ .....++|.|++|+..
T Consensus 15 e~~A~~ia~~l~~~g~~v~~~~~~~~~~~~~--~~~~~~~d~vilgt~T 61 (160)
T PRK09271 15 REVAREIEERCEEAGHEVDWVETDVQTLAEY--PLDPEDYDLYLLGTWT 61 (160)
T ss_pred HHHHHHHHHHHHhCCCeeEEEeccccccccc--ccCcccCCEEEEECcc
Confidence 4445555566666676654322221111111 1122367888888753
No 315
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=51.30 E-value=1.1e+02 Score=23.28 Aligned_cols=44 Identities=11% Similarity=0.246 Sum_probs=25.0
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHH-HHhcCCCEEEEecCCCCCc
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEA-AEKHKIQLLIVGSHSRGPI 126 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~-a~~~~~dlivlg~~~~~~~ 126 (154)
++...++..|+++...- ....+... .+..++|+|++.+-|++..
T Consensus 224 QL~~~a~~lgvpv~~~~----~~~~l~~~L~~~~~~DlVLIDTaGr~~~ 268 (388)
T PRK12723 224 QIQTYGDIMGIPVKAIE----SFKDLKEEITQSKDFDLVLVDTIGKSPK 268 (388)
T ss_pred HHHHHhhcCCcceEeeC----cHHHHHHHHHHhCCCCEEEEcCCCCCcc
Confidence 34455555577653322 12223322 3335899999999887754
No 316
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=51.24 E-value=52 Score=19.71 Aligned_cols=63 Identities=14% Similarity=0.208 Sum_probs=39.1
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
++..+..++.|.+++..... ...+.++.. ++|++.+|-.- ++.+ ...+++.....+||-+++.
T Consensus 19 ~Km~~aA~~kg~~~~I~A~s---~~e~~~~~~--~~DvvLlGPQv-----~y~~-~~~~~~~~~~giPV~vI~~ 81 (102)
T COG1440 19 TKMKKAAESKGKDVTIEAYS---ETELSEYID--NADVVLLGPQV-----RYML-KQLKEAAEEKGIPVEVIDM 81 (102)
T ss_pred HHHHHHHHhCCCceEEEEec---hhHHHHhhh--cCCEEEEChHH-----HHHH-HHHHHHhcccCCCeEEeCH
Confidence 34444455567777665543 344555555 99999999642 2222 2346677777889988863
No 317
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=50.94 E-value=1e+02 Score=23.11 Aligned_cols=62 Identities=15% Similarity=0.288 Sum_probs=38.0
Q ss_pred HHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC---CCCcccccccchhHHHh-hcCCCcEEEEcC
Q 031713 84 CAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS---RGPIQRAFLGSVSNYCV-HNAKCPVLVVRK 151 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~---~~~~~~~~~gs~~~~l~-~~~~~pvliv~~ 151 (154)
+.+.|++++... ...+..+..+..+|.+++|+.+ .+..-. -.|+..-.++ ++..+|++++-+
T Consensus 223 L~~~GIpvtlI~-----Dsa~~~~m~~~~Vd~VivGAD~I~~NG~v~N-KiGTy~lA~~Ak~~~vPfyV~ap 288 (363)
T PRK05772 223 LMEEGIKVTLIT-----DTAVGLVMYKDMVNNVMVGADRILRDGHVFN-KIGTFKEAVIAHELGIPFYALAP 288 (363)
T ss_pred HHHCCCCEEEEe-----hhHHHHHHhhcCCCEEEECccEEecCCCEee-hhhhHHHHHHHHHhCCCEEEEcc
Confidence 555688876543 2233344445689999999975 222222 3565554444 667799999854
No 318
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=50.61 E-value=78 Score=21.54 Aligned_cols=68 Identities=12% Similarity=0.084 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
..++.+.+.+++.|..+.......++.+ .+++.....++|-||+...... .. .. -+.+...+.|++++
T Consensus 16 ~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~-~~-----~~-~~~~~~~~ipvV~~ 85 (266)
T cd06282 16 ECVQGIQEEARAAGYSLLLATTDYDAEREADAVETLLRQRVDGLILTVADAA-TS-----PA-LDLLDAERVPYVLA 85 (266)
T ss_pred HHHHHHHHHHHHCCCEEEEeeCCCCHHHHHHHHHHHHhcCCCEEEEecCCCC-ch-----HH-HHHHhhCCCCEEEE
Confidence 4455666666667777665443334332 4445555678999988643211 11 11 23456667887766
No 319
>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=50.59 E-value=88 Score=22.18 Aligned_cols=71 Identities=14% Similarity=0.099 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHh--cCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 74 LALLGRAKEICAK--HGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 74 ~~~l~~~~~~~~~--~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
...++.+.+.+++ .|+.+......+++.+ .+++.+...++|-||+........ ..... -+...++||+++
T Consensus 15 ~~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l~~~~vdgiii~~~~~~~~-----~~~~~-~~~~~giPvV~~ 88 (303)
T cd01539 15 SLVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTALAKGVDLLAVNLVDPTAA-----QTVIN-KAKQKNIPVIFF 88 (303)
T ss_pred HHHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhH-----HHHHH-HHHHCCCCEEEe
Confidence 3444555666666 5555444332234433 455566778999888864321111 12223 345678898887
Q ss_pred c
Q 031713 150 R 150 (154)
Q Consensus 150 ~ 150 (154)
-
T Consensus 89 ~ 89 (303)
T cd01539 89 N 89 (303)
T ss_pred C
Confidence 3
No 320
>PRK00074 guaA GMP synthase; Reviewed
Probab=50.56 E-value=1.2e+02 Score=23.83 Aligned_cols=36 Identities=14% Similarity=0.017 Sum_probs=26.8
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
++++|++.+.-.|..++..+.+. .| .++..+|+...
T Consensus 216 ~~vlva~SGGvDS~vll~ll~~~---lg--~~v~av~vd~g 251 (511)
T PRK00074 216 KKVILGLSGGVDSSVAAVLLHKA---IG--DQLTCVFVDHG 251 (511)
T ss_pred CcEEEEeCCCccHHHHHHHHHHH---hC--CceEEEEEeCC
Confidence 68999999998887777655442 24 58999999654
No 321
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=50.53 E-value=97 Score=22.65 Aligned_cols=62 Identities=19% Similarity=0.153 Sum_probs=36.5
Q ss_pred CCeEEEEEecC-Ch----hhHHHHHHHhcCCCEEEEecCCCCC-cccccccchhHHHhhcCCCcEEEE
Q 031713 88 GVVAETMTEMG-DP----KNVICEAAEKHKIQLLIVGSHSRGP-IQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 88 ~~~~~~~v~~g-~~----~~~i~~~a~~~~~dlivlg~~~~~~-~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
++++..+++.| +. ...+++.+++.++|.|.+..+.+.. ..+...=....++.+..++||+..
T Consensus 133 d~pv~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~~~~~G~a~~~~i~~ik~~~~iPVI~n 200 (321)
T PRK10415 133 DVPVTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRACLFNGEAEYDSIRAVKQKVSIPVIAN 200 (321)
T ss_pred CCceEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccccccCCCcChHHHHHHHHhcCCcEEEe
Confidence 56677777666 22 3456677788899999876543211 111011124456666778998765
No 322
>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=49.72 E-value=48 Score=21.65 Aligned_cols=44 Identities=20% Similarity=0.280 Sum_probs=28.8
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
....+++.+++.++|+|++|-.. +....|. .+.....+.++++.
T Consensus 87 ~~~~i~~~I~~~~pdiv~vglG~--PkQE~~~----~~~~~~l~~~v~~~ 130 (171)
T cd06533 87 EEEEIIERINASGADILFVGLGA--PKQELWI----ARHKDRLPVPVAIG 130 (171)
T ss_pred hHHHHHHHHHHcCCCEEEEECCC--CHHHHHH----HHHHHHCCCCEEEE
Confidence 45558999999999999999642 2333332 44555556666553
No 323
>PLN02925 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase
Probab=49.51 E-value=1.5e+02 Score=24.52 Aligned_cols=83 Identities=12% Similarity=0.096 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCeEEEEEecCChhhHHH------------------HHHHhcCCCEEEEecCCCCCcc
Q 031713 66 QENQKKAALALLGRAKEICAKHGVVAETMTEMGDPKNVIC------------------EAAEKHKIQLLIVGSHSRGPIQ 127 (154)
Q Consensus 66 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~------------------~~a~~~~~dlivlg~~~~~~~~ 127 (154)
..+..++.++.+..+.+.|++.|+.+..-+-.|+..+.|+ +.+++.+++=||+.-+..+...
T Consensus 201 Y~~Ele~i~e~f~~~v~~ak~~~~~iRIGvN~GSLs~ri~~~yGdtp~gmVeSAle~~~i~e~~~f~diviS~KsSn~~~ 280 (733)
T PLN02925 201 YQKELEHIEEVFTPLVEKCKKYGRAMRIGTNHGSLSDRIMSYYGDSPRGMVESAFEFARICRKLDYHNFVFSMKASNPVV 280 (733)
T ss_pred hhhhHHHHHHHHHHHHHHHHHCCCCEEEecCCcCchHHHHHHhCCChHHHHHHHHHHHHHHHHCCCCcEEEEEEcCChHH
Confidence 3344455666777888999999988887776665444433 3467889999999988655444
Q ss_pred cccc-cchhHHHhhc-CCCcEEE
Q 031713 128 RAFL-GSVSNYCVHN-AKCPVLV 148 (154)
Q Consensus 128 ~~~~-gs~~~~l~~~-~~~pvli 148 (154)
.... .-.+..+.+. ...|+++
T Consensus 281 ~V~AyR~La~~L~~~g~~yPLhL 303 (733)
T PLN02925 281 MVQAYRLLVAEMYVLGWDYPLHL 303 (733)
T ss_pred HHHHHHHHHHHHHhcCCCCceEE
Confidence 3211 1122222221 5788876
No 324
>PF09043 Lys-AminoMut_A: D-Lysine 5,6-aminomutase alpha subunit; InterPro: IPR015130 This domain is found in proteins involved in the 1,2 rearrangement of the terminal amino group of DL-lysine and of L-beta-lysine, using adenosylcobalamin (AdoCbl) and pyridoxal-5'-phosphate as cofactors. The structure is predominantly a PLP-binding TIM barrel domain, with several additional alpha-helices and beta-strands at the N and C termini. These helices and strands form an intertwined accessory clamp structure that wraps around the sides of the TIM barrel and extends up toward the Ado ligand of the Cbl cofactor, providing most of the interactions observed between the protein and the Ado ligand of the Cbl, suggesting that its role is mainly in stabilising AdoCbl in the precatalytic resting state. ; PDB: 3KP1_A 3KOW_A 3KOZ_A 3KOY_B 3KOX_A 3KP0_C 1XRS_A.
Probab=49.48 E-value=1.2e+02 Score=23.44 Aligned_cols=44 Identities=14% Similarity=0.138 Sum_probs=25.5
Q ss_pred EEEEEecCChhhHHHH--HHHhcCCCEEEEecC-CCCCcccccccch
Q 031713 91 AETMTEMGDPKNVICE--AAEKHKIQLLIVGSH-SRGPIQRAFLGSV 134 (154)
Q Consensus 91 ~~~~v~~g~~~~~i~~--~a~~~~~dlivlg~~-~~~~~~~~~~gs~ 134 (154)
+.+.+-+|+..+.|.+ .|..+++|.|.+-+. +.+.+.....|.+
T Consensus 149 iy~iVAtG~iyeDi~qaraAA~~GAD~IaVIRttgQSllDyvp~GaT 195 (509)
T PF09043_consen 149 IYVIVATGNIYEDIRQARAAARQGADIIAVIRTTGQSLLDYVPEGAT 195 (509)
T ss_dssp EEEEE-SS-HHHHHHHHHHHHHTT-SEEEE-BSTTGGG-SS-B-S--
T ss_pred EEEEEecCchHHHHHHHHHHHHcCCCEEEEecccchhhhccccCCCC
Confidence 6667778999999986 488999999987654 3444444444433
No 325
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=49.47 E-value=92 Score=23.05 Aligned_cols=51 Identities=12% Similarity=0.102 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQ 127 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~ 127 (154)
-.++..+...+++.|.++....+.- ..+.+.++..+++.+++|.++.+...
T Consensus 13 vhfFk~~I~eL~~~GheV~it~R~~---~~~~~LL~~yg~~y~~iG~~g~~~~~ 63 (335)
T PF04007_consen 13 VHFFKNIIRELEKRGHEVLITARDK---DETEELLDLYGIDYIVIGKHGDSLYG 63 (335)
T ss_pred HHHHHHHHHHHHhCCCEEEEEEecc---chHHHHHHHcCCCeEEEcCCCCCHHH
Confidence 3556777788888888876666654 45666677889999999998855443
No 326
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=49.24 E-value=83 Score=21.46 Aligned_cols=56 Identities=16% Similarity=0.201 Sum_probs=42.8
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccch
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSV 134 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~ 134 (154)
..++.+.+++.|..+-..+-.|.+.+.|..++. ..|++.+-+-..++..+.|..+.
T Consensus 101 ~~~lv~~ir~~Gmk~G~alkPgT~Ve~~~~~~~--~~D~vLvMtVePGFGGQkFme~m 156 (224)
T KOG3111|consen 101 PAELVEKIREKGMKVGLALKPGTPVEDLEPLAE--HVDMVLVMTVEPGFGGQKFMEDM 156 (224)
T ss_pred HHHHHHHHHHcCCeeeEEeCCCCcHHHHHHhhc--cccEEEEEEecCCCchhhhHHHH
Confidence 356667777889999888888999999999999 88888777765665555555443
No 327
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=48.86 E-value=89 Score=21.73 Aligned_cols=60 Identities=12% Similarity=0.057 Sum_probs=39.8
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHH
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYC 138 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l 138 (154)
..++.+.+++.|.+.-..+-.+.+.+.+..+.. ..|+|.+=+-..++..+.|.....+++
T Consensus 97 ~~~~i~~Ik~~G~kaGlalnP~T~~~~l~~~l~--~vD~VLvMsV~PGf~GQ~fi~~~l~KI 156 (229)
T PRK09722 97 AFRLIDEIRRAGMKVGLVLNPETPVESIKYYIH--LLDKITVMTVDPGFAGQPFIPEMLDKI 156 (229)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCCHHHHHHHHH--hcCEEEEEEEcCCCcchhccHHHHHHH
Confidence 345566777788888777766788899999999 777666655444444444555444443
No 328
>PF13362 Toprim_3: Toprim domain
Probab=48.83 E-value=51 Score=18.94 Aligned_cols=38 Identities=24% Similarity=0.244 Sum_probs=27.1
Q ss_pred CCcEEEEEecCCch--HHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 2 DKKKVMVAIDESEC--RHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 2 ~~~~iLv~vd~~~~--~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
..++|+++.|.... ...+...+.+.+...| ..+.++.-
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g--~~~~~~~p 79 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAG--IAVSIVEP 79 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCC--CeEEEECC
Confidence 46789999999888 7777777777777655 45554433
No 329
>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=48.48 E-value=82 Score=21.17 Aligned_cols=70 Identities=14% Similarity=0.120 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.+.+.+.+.+++.|+.+...-..+++ ....++.+...++|.+|+........ . .-..+.+.++|++.+..
T Consensus 16 ~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~------~-~~~~l~~~~ip~v~~~~ 87 (264)
T cd01537 16 QVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAP------T-IVKLARKAGIPVVLVDR 87 (264)
T ss_pred HHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcch------h-HHHHhhhcCCCEEEecc
Confidence 34444445555567766544433343 34444444556899998875432211 0 23566778889888743
No 330
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=48.45 E-value=59 Score=24.73 Aligned_cols=10 Identities=20% Similarity=0.441 Sum_probs=7.9
Q ss_pred CCCcEEEEcC
Q 031713 142 AKCPVLVVRK 151 (154)
Q Consensus 142 ~~~pvliv~~ 151 (154)
..+||++++.
T Consensus 109 ~~iPVf~I~G 118 (405)
T TIGR00583 109 VAIPVFSIHG 118 (405)
T ss_pred CCCCEEEEcC
Confidence 4799999964
No 331
>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=48.43 E-value=88 Score=21.53 Aligned_cols=68 Identities=12% Similarity=0.085 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+++.+.+.+++.|..+.......+..+.+.+.....++|-||+-..... . .. -+.+...+.||+++-
T Consensus 27 ~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~--~-----~~-~~~~~~~~ipvV~~~ 94 (275)
T cd06295 27 SLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ--D-----PL-PERLAETGLPFVVWG 94 (275)
T ss_pred HHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC--h-----HH-HHHHHhCCCCEEEEC
Confidence 34455556666667766554333333455566666678887776432111 1 11 233456778888774
No 332
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=48.41 E-value=66 Score=20.12 Aligned_cols=47 Identities=15% Similarity=0.121 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecC-----------------ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMG-----------------DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g-----------------~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+...+.+.+.+++.|++++..-... +..+.+.+... .+|.||+++.-
T Consensus 17 ~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~--~aD~iI~~sP~ 80 (152)
T PF03358_consen 17 RKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLK--EADGIIFASPV 80 (152)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHH--HSSEEEEEEEE
T ss_pred HHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhcee--cCCeEEEeecE
Confidence 5666777777777677766654433 12344555555 89999999864
No 333
>PRK08227 autoinducer 2 aldolase; Validated
Probab=47.89 E-value=1e+02 Score=22.03 Aligned_cols=68 Identities=9% Similarity=0.089 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCC----hhhHH---HHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCC
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGD----PKNVI---CEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKC 144 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~----~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~ 144 (154)
+.-+.+.++.+.|.++|+++-...-.|. ..+.| .+.+.|.++|+|=+... |..-.+++..+++
T Consensus 124 ~~l~~l~~v~~ea~~~G~Plla~~prG~~~~~~~~~ia~aaRiaaELGADiVK~~y~----------~~~f~~vv~a~~v 193 (264)
T PRK08227 124 QSIKNIIQLVDAGLRYGMPVMAVTAVGKDMVRDARYFSLATRIAAEMGAQIIKTYYV----------EEGFERITAGCPV 193 (264)
T ss_pred HHHHHHHHHHHHHHHhCCcEEEEecCCCCcCchHHHHHHHHHHHHHHcCCEEecCCC----------HHHHHHHHHcCCC
Confidence 3445577888899999998444222332 12233 34567899998866543 1233678889999
Q ss_pred cEEEE
Q 031713 145 PVLVV 149 (154)
Q Consensus 145 pvliv 149 (154)
||++-
T Consensus 194 PVvia 198 (264)
T PRK08227 194 PIVIA 198 (264)
T ss_pred cEEEe
Confidence 99986
No 334
>PRK08576 hypothetical protein; Provisional
Probab=47.85 E-value=1.3e+02 Score=23.28 Aligned_cols=34 Identities=18% Similarity=0.041 Sum_probs=24.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
+++|++++...|..++..+.+. .+ .+.++++...
T Consensus 236 rVvVafSGGKDStvLL~La~k~---~~---~V~aV~iDTG 269 (438)
T PRK08576 236 TVIVPWSGGKDSTAALLLAKKA---FG---DVTAVYVDTG 269 (438)
T ss_pred CEEEEEcChHHHHHHHHHHHHh---CC---CCEEEEeCCC
Confidence 7999999999998877666543 22 4777877544
No 335
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=47.78 E-value=71 Score=20.30 Aligned_cols=60 Identities=17% Similarity=0.071 Sum_probs=35.3
Q ss_pred hc-CCeEEEEEecCC--hhhHHHHHHHhcCCCEEEEec--CCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 86 KH-GVVAETMTEMGD--PKNVICEAAEKHKIQLLIVGS--HSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 86 ~~-~~~~~~~v~~g~--~~~~i~~~a~~~~~dlivlg~--~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
+. |++++..+ .++ -...|.+..++.++|+||--. .++.... --|....+..-..++|++.
T Consensus 47 ~~~Gi~v~~vi-~~~~gg~~~i~~~I~~g~i~lVInt~dp~~~~~~~--~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 47 EATGLDVTRLL-SGPLGGDQQIGALIAEGKIDMLIFFRDPLTAQPHD--PDVKALLRLADVWNIPVAT 111 (142)
T ss_pred hccCCeeEEEE-cCCCCCchhHHHHHHcCceeEEEEecCCCCCCccc--chHHHHHHHHHHcCCCEEc
Confidence 45 88877653 332 236799999999999998865 3322211 1233334444455677653
No 336
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=47.71 E-value=1.1e+02 Score=22.56 Aligned_cols=66 Identities=20% Similarity=0.192 Sum_probs=35.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCC---hhhHHHHHHHhcCCCEEE-EecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 78 GRAKEICAKHGVVAETMTEMGD---PKNVICEAAEKHKIQLLI-VGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~---~~~~i~~~a~~~~~dliv-lg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+++.+.+...+ .+...+.... ..+.+.+.+++.++|.|| +|-. . .+.++..+.....+|++.||-.
T Consensus 51 ~~l~~~l~~~~-~~~~~~~~~~t~~~v~~~~~~~~~~~~d~IIaiGGG--s------v~D~ak~vA~~rgip~I~IPTT 120 (350)
T PRK00843 51 DRVEENLEDAG-DVEVVIVDEATMEEVEKVEEKAKDVNAGFLIGVGGG--K------VIDVAKLAAYRLGIPFISVPTA 120 (350)
T ss_pred HHHHHHHHhcC-CeeEEeCCCCCHHHHHHHHHHhhccCCCEEEEeCCc--h------HHHHHHHHHHhcCCCEEEeCCC
Confidence 44444555555 4443332222 244566667777888877 4421 1 2334444444456888888753
No 337
>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=47.71 E-value=69 Score=20.14 Aligned_cols=35 Identities=14% Similarity=0.133 Sum_probs=23.3
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
.++|++.+.-.|..++..+.+. .+ -++.++|+...
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~---~~--~~v~~v~~~~g 37 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEK---YG--LNPLAVTVDNG 37 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHH---hC--CceEEEEeCCC
Confidence 5889999988888777665442 22 26666777543
No 338
>TIGR03151 enACPred_II putative enoyl-(acyl-carrier-protein) reductase II. This oxidoreductase of the 2-nitropropane dioxygenase family (pfam03060) is commonly found in apparent operons with genes involved in fatty acid biosynthesis. Furthermore, this genomic context generally includes the fabG 3-oxoacyl-[ACP] reductase and lacks the fabI enoyl-[ACP] reductase.
Probab=47.34 E-value=1.1e+02 Score=22.27 Aligned_cols=66 Identities=14% Similarity=0.114 Sum_probs=34.1
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCc-ccccccchhHHHhhcCCCcEEEE
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPI-QRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~-~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+.+.++..|+.+-.. .++.. ....+.+.++|.|++-.+..+.. .....-....++....++||+.-
T Consensus 101 ~i~~lk~~g~~v~~~--v~s~~--~a~~a~~~GaD~Ivv~g~eagGh~g~~~~~~ll~~v~~~~~iPviaa 167 (307)
T TIGR03151 101 YIPRLKENGVKVIPV--VASVA--LAKRMEKAGADAVIAEGMESGGHIGELTTMALVPQVVDAVSIPVIAA 167 (307)
T ss_pred HHHHHHHcCCEEEEE--cCCHH--HHHHHHHcCCCEEEEECcccCCCCCCCcHHHHHHHHHHHhCCCEEEE
Confidence 444555557654332 23333 34666777999999833211111 11111233455666667998764
No 339
>PHA02546 47 endonuclease subunit; Provisional
Probab=47.30 E-value=37 Score=24.94 Aligned_cols=27 Identities=30% Similarity=0.521 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEecCC
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEMGD 99 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~g~ 99 (154)
+.....++++.+.+.+.++. ..+..||
T Consensus 22 ~~~~~~l~~ii~~a~~~~vD--~VliaGD 48 (340)
T PHA02546 22 NYQLKFIKQAIEYSKAHGIT--TWIQLGD 48 (340)
T ss_pred HHHHHHHHHHHHHHHHcCCC--EEEECCc
Confidence 33456677777777766654 3444443
No 340
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=47.26 E-value=1.1e+02 Score=22.38 Aligned_cols=51 Identities=24% Similarity=0.264 Sum_probs=30.3
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHH---HHHHHhcCCCEEEEecCCCCCcccc
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVI---CEAAEKHKIQLLIVGSHSRGPIQRA 129 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i---~~~a~~~~~dlivlg~~~~~~~~~~ 129 (154)
++..+....++.+.......++...+ +..+...++|+|++.+.|+......
T Consensus 160 ql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~~~~~D~ViIDTaGr~~~~~~ 213 (318)
T PRK10416 160 QLQVWGERVGVPVIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNKTN 213 (318)
T ss_pred HHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCCcCCHH
Confidence 33334444566654443233554333 3345667999999999988765543
No 341
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=47.02 E-value=69 Score=20.47 Aligned_cols=42 Identities=21% Similarity=0.301 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+.++.+.+++.|+++. +.+| ...+...+.+. ..|.+++|..
T Consensus 76 ~l~~ll~~lk~~Gl~i~--l~Tg~~~~~~~~~il~--~iD~l~~g~y 118 (147)
T TIGR02826 76 ALLSLLKIFKEKGLKTC--LYTGLEPKDIPLELVQ--HLDYLKTGRW 118 (147)
T ss_pred HHHHHHHHHHHCCCCEE--EECCCCCHHHHHHHHH--hCCEEEEChH
Confidence 44555555666676543 4445 34333445555 7999999984
No 342
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=46.82 E-value=64 Score=21.78 Aligned_cols=13 Identities=23% Similarity=0.383 Sum_probs=6.1
Q ss_pred HHhhcCCCcEEEE
Q 031713 137 YCVHNAKCPVLVV 149 (154)
Q Consensus 137 ~l~~~~~~pvliv 149 (154)
.+++..++|+++|
T Consensus 127 dl~~~l~~pvilV 139 (222)
T PRK00090 127 DLAKQLQLPVILV 139 (222)
T ss_pred HHHHHhCCCEEEE
Confidence 3444445554444
No 343
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=46.69 E-value=41 Score=25.62 Aligned_cols=27 Identities=7% Similarity=0.137 Sum_probs=18.3
Q ss_pred CChhhHHHHHHHhcCCCEEEEecCCCC
Q 031713 98 GDPKNVICEAAEKHKIQLLIVGSHSRG 124 (154)
Q Consensus 98 g~~~~~i~~~a~~~~~dlivlg~~~~~ 124 (154)
|+-.+.+++.+++.++.++.+.+.+..
T Consensus 102 GdDi~~v~~~~~~~~~~vi~v~t~gf~ 128 (427)
T cd01971 102 GDDVGAVVSEFQEGGAPIVYLETGGFK 128 (427)
T ss_pred hcCHHHHHHHhhhcCCCEEEEECCCcC
Confidence 666666666557677888888776533
No 344
>KOG1643 consensus Triosephosphate isomerase [Carbohydrate transport and metabolism]
Probab=46.41 E-value=95 Score=21.35 Aligned_cols=72 Identities=13% Similarity=0.097 Sum_probs=36.1
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
.++...++...++..+.+...+|.--|.-.-...+.++-|-+..-.....+-|.|.++-..+..+.++-.|+
T Consensus 21 ~eii~~ln~a~~~~~vevvi~pP~~Yl~~ak~~l~~~i~v~aQn~~~~k~GafTGEiS~~mlkd~G~~wVIl 92 (247)
T KOG1643|consen 21 KEIIKTLNAAKLPANVEVVIAPPAPYLDYAKSKLKPDIGVAAQNCYKVKSGAFTGEISAEMLKDLGAEWVIL 92 (247)
T ss_pred HHHHHHhhhccCCCCCcEEEeCChhHHHHHHHhCCccceeecceeeeccCccccCccCHHHHHhCCCCEEEe
Confidence 344444444444444444455555444433334444444444333333344566666666666666665554
No 345
>TIGR03297 Ppyr-DeCO2ase phosphonopyruvate decarboxylase. This family consists of examples of phosphonopyruvate an decarboxylase enzyme that produces phosphonoacetaldehyde (Pald), the second step in the biosynthesis phosphonate-containing compounds. Since the preceding enzymate step, PEP phosphomutase (AepX, TIGR02320) favors the substrate PEP energetically, the decarboxylase is required to drive the reaction in the direction of phosphonate production. Pald is a precursor of natural products including antibiotics like bialaphos and phosphonothricin in Streptomyces species, phosphonate-modified molecules such as the polysaccharide B of Bacteroides fragilis, the phosphonolipids of Tetrahymena pyroformis, the glycosylinositolphospholipids of Trypanosoma cruzi. This gene generally occurs in prokaryotic organisms adjacent to the gene for AepX. Most often an aminotansferase (aepZ) is also present which leads to the production of the most common phosphonate compound, 2-aminoethylphosphonate (A
Probab=46.30 E-value=27 Score=26.02 Aligned_cols=55 Identities=25% Similarity=0.256 Sum_probs=39.6
Q ss_pred CChhhHHHHHH--HhcCCC-EEEEecCCCCC----cccccccchhHHHhhcCCCcEEEEcCC
Q 031713 98 GDPKNVICEAA--EKHKIQ-LLIVGSHSRGP----IQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 98 g~~~~~i~~~a--~~~~~d-livlg~~~~~~----~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
|+....|..++ .-+++- ++++|.+|... ......|..+..++.-+.+|..++++.
T Consensus 63 Gn~vN~l~SL~~~~~y~iP~l~~i~~RG~~g~~depqh~~~G~~t~~lL~~~~i~~~~~~~~ 124 (361)
T TIGR03297 63 GNAVNPLTSLADTEVYDIPLLLIVGWRGEPGVHDEPQHVKQGRITLSLLDALEIPWEVLSTD 124 (361)
T ss_pred hhhhhHHHhhccccccCcCeeEEEecCCCCCCCCCchhhHHhHHHHHHHHHcCCCEEECCCC
Confidence 57888887774 333333 36778877443 335678999999999999999999643
No 346
>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=46.20 E-value=71 Score=21.65 Aligned_cols=60 Identities=13% Similarity=0.120 Sum_probs=37.1
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHH
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYC 138 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l 138 (154)
..++.+.+++.|.++-..+..+.+.+.+..+.. ..|+|.+=+-..+...+.|...+.+++
T Consensus 94 ~~~~i~~ik~~g~k~GialnP~T~~~~~~~~l~--~vD~VlvMsV~PG~~Gq~f~~~~~~KI 153 (201)
T PF00834_consen 94 PKETIKYIKEAGIKAGIALNPETPVEELEPYLD--QVDMVLVMSVEPGFGGQKFIPEVLEKI 153 (201)
T ss_dssp HHHHHHHHHHTTSEEEEEE-TTS-GGGGTTTGC--CSSEEEEESS-TTTSSB--HGGHHHHH
T ss_pred HHHHHHHHHHhCCCEEEEEECCCCchHHHHHhh--hcCEEEEEEecCCCCcccccHHHHHHH
Confidence 345556666778888777777888888888888 888866655444544455555554443
No 347
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=45.90 E-value=48 Score=20.57 Aligned_cols=47 Identities=17% Similarity=0.181 Sum_probs=25.6
Q ss_pred HHHHHHhcCCeEEEEEecCC-hhhHHH-HHHHhcCCCEEEEecCCCCCccc
Q 031713 80 AKEICAKHGVVAETMTEMGD-PKNVIC-EAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~-~~~~i~-~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
+.+.+...|+.+++.-.-.. ....|- +.+. .+|++|+.....-...+
T Consensus 24 Le~~A~~~g~~IKVETqGs~G~eN~LT~edI~--~Ad~VI~AaD~~i~~~~ 72 (122)
T COG1445 24 LEKAAKKLGVEIKVETQGAVGIENRLTAEDIA--AADVVILAADIEVDLSR 72 (122)
T ss_pred HHHHHHHcCCeEEEEcCCcccccCcCCHHHHH--hCCEEEEEecccccHhH
Confidence 34444456766665543322 333333 2355 89999998864433343
No 348
>PRK03670 competence damage-inducible protein A; Provisional
Probab=45.71 E-value=1e+02 Score=21.81 Aligned_cols=42 Identities=17% Similarity=0.236 Sum_probs=29.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHh---cCCCEEEEe
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEK---HKIQLLIVG 119 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~---~~~dlivlg 119 (154)
..+.+.+.+.|+++......+|-.+.|.+..++ ..+|+||+.
T Consensus 23 ~~la~~L~~~G~~v~~~~iV~Dd~~~I~~~l~~a~~~~~DlVItt 67 (252)
T PRK03670 23 AFIAQKLTEKGYWVRRITTVGDDVEEIKSVVLEILSRKPEVLVIS 67 (252)
T ss_pred HHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHHhhCCCCEEEEC
Confidence 345566777899987777777766667766543 247888876
No 349
>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=45.34 E-value=1.3e+02 Score=22.51 Aligned_cols=26 Identities=8% Similarity=-0.120 Sum_probs=21.0
Q ss_pred chHHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 14 ECRHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 14 ~~~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
..++..+++|+++|+..+ .+|+++|=
T Consensus 163 ~~~eRI~r~AF~~A~~r~--~~Vt~v~K 188 (349)
T TIGR00169 163 PEIERIARVAFEMARKRR--KKVTSVDK 188 (349)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEEC
Confidence 458889999999999876 57777764
No 350
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=45.25 E-value=98 Score=21.19 Aligned_cols=68 Identities=12% Similarity=0.007 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
..+++.+.+.+++.|..+.......+. ...+.+...+.++|-||+..... . .. -+.+...++|++.+-
T Consensus 18 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~---~-----~~-~~~l~~~~ipvV~~~ 87 (268)
T cd06277 18 SEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIS---T-----EY-IKEIKELGIPFVLVD 87 (268)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCC---h-----HH-HHHHhhcCCCEEEEc
Confidence 344555566666677665444333332 22344555567888888764321 1 11 223455678877773
No 351
>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=45.11 E-value=1e+02 Score=21.42 Aligned_cols=71 Identities=15% Similarity=0.113 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
..+++.+.+.+++.|..+......++.. ..+++.....++|-||+-........ +.. ..++...+|++++-
T Consensus 16 ~~~~~gi~~~a~~~gy~~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~-----~~~-~~~~~~~iPvV~~d 88 (280)
T cd06315 16 LGVGEGVREAAKAIGWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGGVDAAELQ-----AEL-ELAQKAGIPVVGWH 88 (280)
T ss_pred HHHHHHHHHHHHHcCcEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHH-----HHH-HHHHHCCCCEEEec
Confidence 4566777777777786654433333443 35667777889999999642211011 111 33456789998884
No 352
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=45.08 E-value=50 Score=19.87 Aligned_cols=40 Identities=18% Similarity=0.138 Sum_probs=30.0
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
-+.+++.+..+.++...++ +++.|+..| +++..+.-.+..
T Consensus 46 ~~d~~I~iS~sG~t~e~~~-~~~~a~~~g--~~vi~iT~~~~s 85 (126)
T cd05008 46 EDTLVIAISQSGETADTLA-ALRLAKEKG--AKTVAITNVVGS 85 (126)
T ss_pred CCcEEEEEeCCcCCHHHHH-HHHHHHHcC--CeEEEEECCCCC
Confidence 4678999999999988776 557888877 777777665443
No 353
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=45.00 E-value=51 Score=19.09 Aligned_cols=62 Identities=11% Similarity=0.153 Sum_probs=31.9
Q ss_pred HHHhcCCeEEEEE-ecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 83 ICAKHGVVAETMT-EMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 83 ~~~~~~~~~~~~v-~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
.++-.|++..... ...+..+.+.+..+..++.+|++..+-...+ .....++......|+++.
T Consensus 12 gFrLaGv~~~~~~~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~~-----~~~l~~~~~~~~~P~iv~ 74 (95)
T PF01990_consen 12 GFRLAGVEGVYVNTDPEEAEEALKELLKDEDVGIIIITEDLAEKI-----RDELDEYREESSLPLIVE 74 (95)
T ss_dssp HHHHTTSEEEEESHSHHHHHHHHHHHHHHTTEEEEEEEHHHHTTH-----HHHHHHHHHTSSSSEEEE
T ss_pred HHHHcCCCCccCCCCHHHHHHHHHHHhcCCCccEEEeeHHHHHHH-----HHHHHHHHhccCCceEEE
Confidence 3444465543332 2224556666666666777777765432222 223345555556666654
No 354
>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=44.93 E-value=1.3e+02 Score=22.50 Aligned_cols=27 Identities=15% Similarity=0.063 Sum_probs=21.4
Q ss_pred chHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 14 ECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 14 ~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
..++..+++|+++|+... .+|+++|=.
T Consensus 164 ~~~eRi~r~Af~~A~~rr--~kVt~v~Ka 190 (352)
T TIGR02089 164 KGVERIMRFAFELAQKRR--KHLTSATKS 190 (352)
T ss_pred HHHHHHHHHHHHHHHHcC--CCEEEEeCC
Confidence 568889999999998864 678888753
No 355
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=44.82 E-value=81 Score=20.08 Aligned_cols=15 Identities=13% Similarity=0.299 Sum_probs=6.9
Q ss_pred HHHHhcCCCEEEEec
Q 031713 106 EAAEKHKIQLLIVGS 120 (154)
Q Consensus 106 ~~a~~~~~dlivlg~ 120 (154)
.+.+++++|-||+-.
T Consensus 55 kl~~dy~Vd~VvIk~ 69 (138)
T PF11215_consen 55 KLMEDYKVDKVVIKE 69 (138)
T ss_pred HHHHHcCCCEEEEEe
Confidence 344444555555443
No 356
>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=44.57 E-value=1e+02 Score=21.09 Aligned_cols=71 Identities=18% Similarity=0.142 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...++.+.+.+++.|..+......+++ ....++.+...++|-+|+......... ...+ .+...++|++.+-
T Consensus 15 ~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~-----~~~~-~~~~~~ipvV~~~ 87 (267)
T cd06322 15 IELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFITKKVDAIVLSPVDSKGIR-----AAIA-KAKKAGIPVITVD 87 (267)
T ss_pred HHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChhhhH-----HHHH-HHHHCCCCEEEEc
Confidence 455666667777778776554333343 334555566779999998643221111 1123 3455678888874
No 357
>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative. Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.
Probab=44.43 E-value=1.1e+02 Score=21.37 Aligned_cols=37 Identities=3% Similarity=-0.219 Sum_probs=27.4
Q ss_pred HHhcCCeEEEEEecC-C--hhhHHHHHHHhcCCCEEEEec
Q 031713 84 CAKHGVVAETMTEMG-D--PKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 84 ~~~~~~~~~~~v~~g-~--~~~~i~~~a~~~~~dlivlg~ 120 (154)
..+.++++..+++.| + ....+.+.+.+.++|.|.+-.
T Consensus 130 v~~~~~PVsvKiR~~~~~~~~~~~a~~l~~aGad~i~Vd~ 169 (231)
T TIGR00736 130 MKELNKPIFVKIRGNCIPLDELIDALNLVDDGFDGIHVDA 169 (231)
T ss_pred HHcCCCcEEEEeCCCCCcchHHHHHHHHHHcCCCEEEEee
Confidence 334478888888876 3 344777888999999998853
No 358
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=44.30 E-value=96 Score=20.81 Aligned_cols=59 Identities=10% Similarity=0.068 Sum_probs=37.0
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhc
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHN 141 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~ 141 (154)
+...++..|.++.. +-..-|.+.+++.+++.++|+|.+...-...... +....+.+-+.
T Consensus 104 v~~~l~~~G~~vi~-LG~~vp~e~~v~~~~~~~pd~v~lS~~~~~~~~~--~~~~i~~l~~~ 162 (197)
T TIGR02370 104 VVTMLRANGFDVID-LGRDVPIDTVVEKVKKEKPLMLTGSALMTTTMYG--QKDINDKLKEE 162 (197)
T ss_pred HHHHHHhCCcEEEE-CCCCCCHHHHHHHHHHcCCCEEEEccccccCHHH--HHHHHHHHHHc
Confidence 34455566754422 2223589999999999999999999864443333 33444444444
No 359
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=44.29 E-value=40 Score=24.01 Aligned_cols=40 Identities=18% Similarity=0.104 Sum_probs=31.4
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
....++|.++++.+....++. ++.|+..| +++..+.-...
T Consensus 176 ~~~Dv~i~iS~sG~t~e~i~~-a~~ak~~g--a~vIaiT~~~~ 215 (281)
T COG1737 176 TPGDVVIAISFSGYTREIVEA-AELAKERG--AKVIAITDSAD 215 (281)
T ss_pred CCCCEEEEEeCCCCcHHHHHH-HHHHHHCC--CcEEEEcCCCC
Confidence 456799999999999999875 47888877 78777766533
No 360
>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=44.19 E-value=1.1e+02 Score=21.25 Aligned_cols=37 Identities=16% Similarity=0.013 Sum_probs=30.3
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
.++|.+++|++.....|...+..+....| -.+.++..
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G--~~v~vv~l 190 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAG--FITKVIEI 190 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCC--CeEEEEeC
Confidence 46899999999999999999999998766 46655544
No 361
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=44.15 E-value=60 Score=18.39 Aligned_cols=48 Identities=15% Similarity=0.066 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.....++.+.+...|+.+.......++.+.+-++-...-.=.||+|..
T Consensus 15 ~~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~~~a~~~g~p~~iiiG~~ 62 (94)
T PF03129_consen 15 IEYAQELANKLRKAGIRVELDDSDKSLGKQIKYADKLGIPFIIIIGEK 62 (94)
T ss_dssp HHHHHHHHHHHHHTTSEEEEESSSSTHHHHHHHHHHTTESEEEEEEHH
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCCchhHHHHHHhhcCCeEEEEECch
Confidence 345567777777889887776644567777666655545556666753
No 362
>PRK12569 hypothetical protein; Provisional
Probab=44.08 E-value=1e+02 Score=21.74 Aligned_cols=101 Identities=13% Similarity=0.088 Sum_probs=56.2
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
.+.-.....++.++++|+..| -.| --|.-.++.. +|+...- +--.++..+.....+..+...++..|.+
T Consensus 40 G~HAGDp~~M~~tv~lA~~~~--V~I-GAHPsyPD~~-----gFGRr~m---~~s~~el~~~v~yQigaL~~~~~~~g~~ 108 (245)
T PRK12569 40 GFHAGDPNIMRRTVELAKAHG--VGI-GAHPGFRDLV-----GFGRRHI---NASPQELVNDVLYQLGALREFARAHGVR 108 (245)
T ss_pred cccCCCHHHHHHHHHHHHHcC--CEe-ccCCCCCcCC-----CCCCCCC---CCCHHHHHHHHHHHHHHHHHHHHHcCCe
Confidence 344456677888999999877 222 2233222222 2221100 0111123333444456666777777777
Q ss_pred EEEEE----------ecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 91 AETMT----------EMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 91 ~~~~v----------~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+...- .....++.+++.+++.+.+|++++..+
T Consensus 109 l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~~ 150 (245)
T PRK12569 109 LQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMDG 150 (245)
T ss_pred eEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 54322 122467888898888898998888543
No 363
>PRK06683 hypothetical protein; Provisional
Probab=44.05 E-value=27 Score=19.86 Aligned_cols=44 Identities=11% Similarity=0.130 Sum_probs=23.8
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 102 NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
+..++..+..++-++++...-.....+ ...++.+...+|+..++
T Consensus 17 ~~v~kaik~gkaklViiA~Da~~~~~~-----~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 17 KRTLEAIKNGIVKEVVIAEDADMRLTH-----VIIRTALQHNIPITKVE 60 (82)
T ss_pred HHHHHHHHcCCeeEEEEECCCCHHHHH-----HHHHHHHhcCCCEEEEC
Confidence 445556666777777777543222211 12344555567776665
No 364
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=44.04 E-value=1.2e+02 Score=22.32 Aligned_cols=47 Identities=13% Similarity=0.091 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCC-h----hhHHHHHHHhcCCCEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGD-P----KNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~-~----~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.+.++.+.+... +++++++++.|- . ...+.+.+++.+++.+.+-.+.
T Consensus 124 ~~iv~a~~~av~--~iPVTVKiRlG~d~~~~~~~~ia~~~~~~g~~~ltVHgRt 175 (323)
T COG0042 124 AEIVKAMVEAVG--DIPVTVKIRLGWDDDDILALEIARILEDAGADALTVHGRT 175 (323)
T ss_pred HHHHHHHHHhhC--CCCeEEEEecccCcccccHHHHHHHHHhcCCCEEEEeccc
Confidence 344444444332 488888888873 2 3468899999999999996654
No 365
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=43.98 E-value=91 Score=20.43 Aligned_cols=41 Identities=24% Similarity=0.319 Sum_probs=25.8
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHh--cCCCEEEEe
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEK--HKIQLLIVG 119 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~--~~~dlivlg 119 (154)
-+...+.+.|+++......++-.+.|.+..++ ..+|+||..
T Consensus 23 ~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~~~~~~dlVItt 65 (170)
T cd00885 23 FLAKELAELGIEVYRVTVVGDDEDRIAEALRRASERADLVITT 65 (170)
T ss_pred HHHHHHHHCCCEEEEEEEeCCCHHHHHHHHHHHHhCCCEEEEC
Confidence 44555667788877666666555555554332 368888876
No 366
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=43.93 E-value=1.2e+02 Score=21.80 Aligned_cols=74 Identities=15% Similarity=0.139 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhcCCeEEEEEec--C------------ChhhHHHHHHHhcCCCEEEE--ec-CCCCCcccccccchhHHH
Q 031713 76 LLGRAKEICAKHGVVAETMTEM--G------------DPKNVICEAAEKHKIQLLIV--GS-HSRGPIQRAFLGSVSNYC 138 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~--g------------~~~~~i~~~a~~~~~dlivl--g~-~~~~~~~~~~~gs~~~~l 138 (154)
...++.+.+...|+.++..+-. | .-.++..++.++.++|.|.+ |+ ++.......+--.....+
T Consensus 116 ~t~~v~~~a~~~gv~Ve~ElG~~gg~ed~~~g~~~~~t~~eea~~f~~~tgvD~Lavs~Gt~hg~~~~~~~l~~e~L~~i 195 (282)
T TIGR01859 116 LTKKVVEIAHAKGVSVEAELGTLGGIEDGVDEKEAELADPDEAEQFVKETGVDYLAAAIGTSHGKYKGEPGLDFERLKEI 195 (282)
T ss_pred HHHHHHHHHHHcCCEEEEeeCCCcCccccccccccccCCHHHHHHHHHHHCcCEEeeccCccccccCCCCccCHHHHHHH
Confidence 3456667777778877755533 1 12344566677789999994 55 221111111111234566
Q ss_pred hhcCCCcEEEE
Q 031713 139 VHNAKCPVLVV 149 (154)
Q Consensus 139 ~~~~~~pvliv 149 (154)
....++|+...
T Consensus 196 ~~~~~iPlv~h 206 (282)
T TIGR01859 196 KELTNIPLVLH 206 (282)
T ss_pred HHHhCCCEEEE
Confidence 77778997654
No 367
>PRK07709 fructose-bisphosphate aldolase; Provisional
Probab=43.89 E-value=1.2e+02 Score=21.87 Aligned_cols=68 Identities=12% Similarity=0.078 Sum_probs=43.8
Q ss_pred HHHHhcCCeEEEEEecC-ChhhHHHHHHHhcCCCEEEEecCCCCCc-cc-ccccchhHHHhhcCC--CcEEEE
Q 031713 82 EICAKHGVVAETMTEMG-DPKNVICEAAEKHKIQLLIVGSHSRGPI-QR-AFLGSVSNYCVHNAK--CPVLVV 149 (154)
Q Consensus 82 ~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~~~~dlivlg~~~~~~~-~~-~~~gs~~~~l~~~~~--~pvliv 149 (154)
+.+.+.+.-+----... ...+++++.|++.+..+|+-.+.+.... .. ..+......+.++.. +||.+-
T Consensus 11 ~~A~~~~yAV~AfN~~n~e~~~avi~AAe~~~sPvIiq~~~~~~~~~~~~~~~~~~~~~~a~~~~~~VPV~lH 83 (285)
T PRK07709 11 NKALEGKYAVGQFNMNNLEWTQAILAAAEEEKSPVILGVSEGAARHMTGFKTVVAMVKALIEEMNITVPVAIH 83 (285)
T ss_pred HHHHHCCceEEEEEECCHHHHHHHHHHHHHHCCCEEEEcCcchhhhcCCHHHHHHHHHHHHHHcCCCCcEEEE
Confidence 33344444433333344 7899999999999999999887653332 12 234566777887776 687654
No 368
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=43.69 E-value=1.3e+02 Score=22.07 Aligned_cols=11 Identities=0% Similarity=0.093 Sum_probs=6.9
Q ss_pred CeEEEEEeccC
Q 031713 34 SDLIIFTARPT 44 (154)
Q Consensus 34 ~~l~~l~v~~~ 44 (154)
.++.+++....
T Consensus 141 ~kvaiv~~~~~ 151 (351)
T cd06334 141 KKIALVYHDSP 151 (351)
T ss_pred CeEEEEeCCCc
Confidence 57777776433
No 369
>PRK05406 LamB/YcsF family protein; Provisional
Probab=43.56 E-value=1.1e+02 Score=21.54 Aligned_cols=101 Identities=13% Similarity=0.048 Sum_probs=55.5
Q ss_pred cCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCe
Q 031713 11 DESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVV 90 (154)
Q Consensus 11 d~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 90 (154)
.+.-.....++.++.+|+..|+ . .--|.-.++.. +|+...- +--.++..+.....+..+...++..|.+
T Consensus 37 G~HAGDp~~M~~tv~lA~~~gV--~-IGAHPgypD~~-----gFGRR~m---~~s~~el~~~v~yQigAL~~~a~~~g~~ 105 (246)
T PRK05406 37 GFHAGDPAVMRRTVRLAKENGV--A-IGAHPGYPDLE-----GFGRRNM---DLSPEELYALVLYQIGALQAIARAAGGR 105 (246)
T ss_pred cccCCCHHHHHHHHHHHHHcCC--e-EccCCCCCccC-----CCCCCCC---CCCHHHHHHHHHHHHHHHHHHHHHcCCe
Confidence 3444566778889999998772 2 22233222221 2221100 0111233334444556666777777777
Q ss_pred EEEEE----------ecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 91 AETMT----------EMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 91 ~~~~v----------~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
+...- .....++.+++.+++.+.+|++++..+
T Consensus 106 l~hVKPHGALYN~~~~d~~~a~av~~ai~~~~~~l~l~~~~~ 147 (246)
T PRK05406 106 VSHVKPHGALYNMAAKDPALADAVAEAVAAVDPSLILVGLAG 147 (246)
T ss_pred eEEeCccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCC
Confidence 54422 112467888888888888888888543
No 370
>KOG1552 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=43.36 E-value=76 Score=22.53 Aligned_cols=65 Identities=15% Similarity=0.197 Sum_probs=36.1
Q ss_pred cCCeEEEEEecC-Chh-hHHHHHHHhcCCCEEEEecCCCCCccc---------ccccchh-HHHhhcCCCcEEEEcCCC
Q 031713 87 HGVVAETMTEMG-DPK-NVICEAAEKHKIQLLIVGSHSRGPIQR---------AFLGSVS-NYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 87 ~~~~~~~~v~~g-~~~-~~i~~~a~~~~~dlivlg~~~~~~~~~---------~~~gs~~-~~l~~~~~~pvliv~~~~ 153 (154)
.| +.+..+.+| +.. -..+++|.+...+.+|+-+.=.+ ..+ +.+.... ..-++..+|||++++...
T Consensus 126 ~g-~~~~Iil~G~SiGt~~tv~Lasr~~~~alVL~SPf~S-~~rv~~~~~~~~~~~d~f~~i~kI~~i~~PVLiiHgtd 202 (258)
T KOG1552|consen 126 YG-SPERIILYGQSIGTVPTVDLASRYPLAAVVLHSPFTS-GMRVAFPDTKTTYCFDAFPNIEKISKITCPVLIIHGTD 202 (258)
T ss_pred cC-CCceEEEEEecCCchhhhhHhhcCCcceEEEeccchh-hhhhhccCcceEEeeccccccCcceeccCCEEEEeccc
Confidence 35 666677776 332 22467766666888888653111 111 1111111 334566789999998553
No 371
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=43.14 E-value=49 Score=17.85 Aligned_cols=26 Identities=23% Similarity=0.072 Sum_probs=17.3
Q ss_pred cEEEEEecCCchHHHHHHHHHHHccc
Q 031713 4 KKVMVAIDESECRHYALQWALENLGD 29 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~ 29 (154)
++|.++.|++...+.+.....+....
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhh
Confidence 45788888877777776665555443
No 372
>COG0371 GldA Glycerol dehydrogenase and related enzymes [Energy production and conversion]
Probab=43.08 E-value=1.4e+02 Score=22.40 Aligned_cols=69 Identities=9% Similarity=0.103 Sum_probs=40.1
Q ss_pred HHHHHHHHHHhcCCeEEEEEecC-ChhhHHHHHHHh---cCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 76 LLGRAKEICAKHGVVAETMTEMG-DPKNVICEAAEK---HKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g-~~~~~i~~~a~~---~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+.+.+.+...|. ....+..| -..+.+-+.+++ .++|. |+|-.|.. . =.++..+.++..+|+.++|-
T Consensus 45 ~~~~~~~~l~~~g~-~~~~~~~~~a~~~ev~~~~~~~~~~~~d~-vIGVGGGk-~-----iD~aK~~A~~~~~pfIsvPT 116 (360)
T COG0371 45 AGEKVEKSLKDEGL-VVHVVFVGEASEEEVERLAAEAGEDGADV-VIGVGGGK-T-----IDTAKAAAYRLGLPFISVPT 116 (360)
T ss_pred HHHHHHHHhcccCc-ceeeeecCccCHHHHHHHHHHhcccCCCE-EEEecCcH-H-----HHHHHHHHHHcCCCEEEecC
Confidence 34555666667777 33333344 345555555443 44554 45544322 1 14778888999999999985
Q ss_pred C
Q 031713 152 P 152 (154)
Q Consensus 152 ~ 152 (154)
.
T Consensus 117 ~ 117 (360)
T COG0371 117 I 117 (360)
T ss_pred c
Confidence 4
No 373
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=43.07 E-value=95 Score=20.40 Aligned_cols=42 Identities=5% Similarity=0.067 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
++..+.+.+.+.. |..++..-....... .. .++|.||+|+.-
T Consensus 15 ~~iA~~Ia~~l~~-g~~v~~~~~~~~~~~----~l--~~yD~vIlGspi 56 (177)
T PRK11104 15 RKIASYIASELKE-GIQCDVVNLHRIEEP----DL--SDYDRVVIGASI 56 (177)
T ss_pred HHHHHHHHHHhCC-CCeEEEEEhhhcCcc----CH--HHCCEEEEECcc
Confidence 3444555555555 655543322211111 12 368999999864
No 374
>COG5017 Uncharacterized conserved protein [Function unknown]
Probab=42.81 E-value=66 Score=20.64 Aligned_cols=42 Identities=17% Similarity=0.318 Sum_probs=28.8
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCCC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKPV 153 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~~ 153 (154)
+....+..+.. ++. ||+.+-|.+.+. .+.+.+.|++++|+.+
T Consensus 54 ~~~~kiQsli~--dar-IVISHaG~GSIL----------~~~rl~kplIv~pr~s 95 (161)
T COG5017 54 DKEEKIQSLIH--DAR-IVISHAGEGSIL----------LLLRLDKPLIVVPRSS 95 (161)
T ss_pred chHHHHHHHhh--cce-EEEeccCcchHH----------HHhhcCCcEEEEECch
Confidence 66777888887 666 777765544332 3456789999998764
No 375
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=42.74 E-value=77 Score=19.22 Aligned_cols=59 Identities=12% Similarity=0.016 Sum_probs=36.1
Q ss_pred cCCeEEEEEec--CChhhHHHHHHHhcCCCEEEEecC--CCCCcccccccchhHHHhhcCCCcEEE
Q 031713 87 HGVVAETMTEM--GDPKNVICEAAEKHKIQLLIVGSH--SRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 87 ~~~~~~~~v~~--g~~~~~i~~~a~~~~~dlivlg~~--~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
.|+.++.. .. ..-...|.+..++.++|+||--.. ++... ..-|....+..-...+|++.
T Consensus 44 ~Gi~v~~v-k~~~~~g~~~i~~~i~~g~i~~VInt~~~~~~~~~--~~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 44 TGLTVNRM-KSGPLGGDQQIGALIAEGEIDAVIFFRDPLTAQPH--EPDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred hCCcEEEE-ecCCCCchhHHHHHHHcCceeEEEEcCCCCCCCcc--cccHHHHHHHHHHcCCCEEE
Confidence 58887665 32 122366999999999999987654 32221 12344445555556677654
No 376
>PLN00096 isocitrate dehydrogenase (NADP+); Provisional
Probab=42.57 E-value=1.5e+02 Score=22.56 Aligned_cols=32 Identities=13% Similarity=-0.087 Sum_probs=24.6
Q ss_pred EecCCchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 9 AIDESECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 9 ~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
-.+..+++...+++|+++|...+ .+|+++|=.
T Consensus 171 ~~N~~~si~RiAr~AF~~A~~r~--~~Vt~v~Ka 202 (393)
T PLN00096 171 YHNPLDNVHHLARIFFGRCLDAG--IVPYVVTKK 202 (393)
T ss_pred eccCHHHHHHHHHHHHHHHHHhC--CcEEEEeCc
Confidence 34556788999999999999876 577777643
No 377
>TIGR01819 F420_cofD LPPG:FO 2-phospho-L-lactate transferase. This model represents LPPG:Fo 2-phospho-L-lactate transferase, which catalyses the fourth step in the biosynthesis of coenzyme F420, a flavin derivative found in methanogens, the Mycobacteria, and several other lineages. This enzyme is characterized so far in Methanococcus jannaschii but appears restricted to F420-containing species and is predicted to carry out the same function in these other species. The clade represented by this model is one of two major divisions of proteins in pfam model pfam01933.
Probab=42.51 E-value=51 Score=23.92 Aligned_cols=47 Identities=15% Similarity=0.072 Sum_probs=30.6
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCC--CCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHS--RGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~--~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+..+.++..+ ++|+||+|-.. .+-...+....+.+.|.+ .|++.|.
T Consensus 171 ~a~peal~AI~--~AD~IIlGPgsp~TSI~P~LlVpgIreAL~~---a~vV~Vs 219 (297)
T TIGR01819 171 SIAPKVLEAIR--KEDNILIGPSNPITSIGPILSLPGIREALRD---KKVVAVS 219 (297)
T ss_pred CCCHHHHHHHH--hCCEEEECCCccHHHhhhhcCchhHHHHHHc---CCEEEEc
Confidence 46778888888 89999999653 222233455666665544 6776553
No 378
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=42.11 E-value=90 Score=20.52 Aligned_cols=43 Identities=21% Similarity=0.122 Sum_probs=27.2
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.++.+.++..+.++...+--|-..+.|.+|++ .++|.|.+|+-
T Consensus 115 ~~~v~~l~~~~~~v~ie~SGGI~~~ni~~ya~-~gvD~isvg~~ 157 (169)
T PF01729_consen 115 KEAVEELRELNPRVKIEASGGITLENIAEYAK-TGVDVISVGSL 157 (169)
T ss_dssp HHHHHHHHHHTTTSEEEEESSSSTTTHHHHHH-TT-SEEEECHH
T ss_pred HHHHHHHhhcCCcEEEEEECCCCHHHHHHHHh-cCCCEEEcChh
Confidence 34444344444456666655667888888885 45899999973
No 379
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=42.08 E-value=1.1e+02 Score=21.03 Aligned_cols=71 Identities=21% Similarity=0.179 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+..+.+.+++.|..+......+++. ...++.....++|-||+......... ... +.+.....|++++-
T Consensus 15 ~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~-----~~i-~~~~~~~iPvV~~~ 87 (282)
T cd06318 15 AALTEAAKAHAKALGYELISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLV-----PAV-AAAKAAGVPVVVVD 87 (282)
T ss_pred HHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchH-----HHH-HHHHHCCCCEEEec
Confidence 4556677777777887765543334543 34566677789999999753211111 111 23345678888774
No 380
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=42.01 E-value=67 Score=18.32 Aligned_cols=52 Identities=13% Similarity=0.149 Sum_probs=29.1
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCC--cccccccchhHHHhhcCCCcEEEEcC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGP--IQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~--~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+.|.+..++.+++.|.+|..+.-. ....+.-.+.+.+-++.++||.+..+
T Consensus 39 ~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~~~l~~~l~~~~~~pv~~~nD 92 (99)
T smart00732 39 DAARLKKLIKKYQPDLIVIGLPLNMNGTASRETEEAFAELLKERFNLPVVLVDE 92 (99)
T ss_pred HHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHHHHHHHHHHHhhCCcEEEEeC
Confidence 45556666666677888888654210 01001123444455567799998754
No 381
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=41.89 E-value=38 Score=21.55 Aligned_cols=46 Identities=17% Similarity=0.087 Sum_probs=25.4
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.+.+.++++++++|.|++.-.... ... .. ..-..+++.+|.|.++|
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~~-~~~--i~-~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWSE-EEQ--IK-RIIEELENHGVRVRVVP 175 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS--HHH--HH-HHHHHHHTTT-EEEE--
T ss_pred HHHHHHHHHhCCCCEEEEEcCccC-HHH--HH-HHHHHHHhCCCEEEEeC
Confidence 478899999999999999865422 111 11 22335667789999887
No 382
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=41.68 E-value=94 Score=22.10 Aligned_cols=52 Identities=15% Similarity=0.268 Sum_probs=33.5
Q ss_pred EecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 95 TEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 95 v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
+..| ...+...++..++.|+||... -+...-. .....+.+...+|..+++..
T Consensus 133 LvsG--~n~VtkaIekkKAkLVIIA~D-VsPie~v---k~LpaLCrk~~VPY~iVktK 184 (263)
T PTZ00222 133 VVTG--LQEVTRAIEKKQARMVVIANN-VDPVELV---LWMPNLCRANKIPYAIVKDM 184 (263)
T ss_pred eccC--HHHHHHHHHcCCceEEEEeCC-CCHHHHH---HHHHHHHHhcCCCEEEECCH
Confidence 4445 456667778889999999865 2333321 11255777888998888753
No 383
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=41.48 E-value=1.1e+02 Score=21.21 Aligned_cols=7 Identities=29% Similarity=0.453 Sum_probs=2.9
Q ss_pred CcEEEEc
Q 031713 144 CPVLVVR 150 (154)
Q Consensus 144 ~pvliv~ 150 (154)
.|+++||
T Consensus 63 ~pv~~V~ 69 (224)
T cd07388 63 LPTFYVP 69 (224)
T ss_pred CceEEEc
Confidence 3444443
No 384
>PRK06247 pyruvate kinase; Provisional
Probab=41.38 E-value=84 Score=24.55 Aligned_cols=44 Identities=14% Similarity=0.183 Sum_probs=32.5
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
.+....+.|...++.+||+-++ .|+++..+.+.-| |||+.+-+.
T Consensus 357 ia~sa~~~A~~l~a~~Iv~~T~---------sG~ta~~isk~RP~~pI~a~t~~ 401 (476)
T PRK06247 357 ISYAARDIAERLDLAALVAYTS---------SGDTALRAARERPPLPILALTPN 401 (476)
T ss_pred HHHHHHHHHHhCCCCEEEEEcC---------CcHHHHHHHhhCCCCCEEEECCC
Confidence 4556667788899999998765 2566777776655 999998654
No 385
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=41.37 E-value=1.1e+02 Score=20.75 Aligned_cols=68 Identities=16% Similarity=0.137 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCC--hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGD--PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~--~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
..+++.+.+.+++.|..+......++ ..+.+.+.....++|-||+...... . ... ..+...+.|++++
T Consensus 19 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~--~-----~~~-~~~~~~~ipvV~~ 88 (268)
T cd06271 19 AEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPD--D-----PRV-ALLLERGFPFVTH 88 (268)
T ss_pred HHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCC--C-----hHH-HHHHhcCCCEEEE
Confidence 34555666666667777655443332 2344555555567888887543211 1 111 2344567787776
No 386
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=41.25 E-value=89 Score=19.55 Aligned_cols=43 Identities=16% Similarity=0.175 Sum_probs=24.3
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHh--cCCCEEEEec
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEK--HKIQLLIVGS 120 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~--~~~dlivlg~ 120 (154)
.-+...+++.|.++.......|-.+.|.+..++ .+.|+||..-
T Consensus 20 ~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~~~~~~D~VittG 64 (144)
T PF00994_consen 20 PFLAALLEELGIEVIRYGIVPDDPDAIKEALRRALDRADLVITTG 64 (144)
T ss_dssp HHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHHHHHTTSEEEEES
T ss_pred HHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHhhhccCCEEEEcC
Confidence 344556667888866554444444444443322 2669988853
No 387
>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=41.25 E-value=61 Score=17.67 Aligned_cols=28 Identities=32% Similarity=0.259 Sum_probs=21.5
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAI 31 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~ 31 (154)
++|.++.|++.....+...+.+.....+
T Consensus 44 ~~vii~~D~D~~G~~~~~~~~~~~~~~~ 71 (79)
T cd01029 44 RTVILAFDNDEAGKKAAARALELLLALG 71 (79)
T ss_pred CEEEEEECCCHHHHHHHHHHHHHHHHCC
Confidence 7899999999888777777766666533
No 388
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=41.23 E-value=48 Score=23.54 Aligned_cols=48 Identities=15% Similarity=0.278 Sum_probs=31.0
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
...+...++..++.|||+... -+..... ...-.+.+...+|..++...
T Consensus 137 in~VtklIekkKAkLVIIA~D-VsP~t~k---k~LP~LC~k~~VPY~iv~sK 184 (266)
T PTZ00365 137 LNHVTDLVEYKKAKLVVIAHD-VDPIELV---CFLPALCRKKEVPYCIIKGK 184 (266)
T ss_pred hHHHHHHHHhCCccEEEEeCC-CCHHHHH---HHHHHHHhccCCCEEEECCH
Confidence 456677788889999999864 2323221 11235677778888887643
No 389
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=41.13 E-value=1.4e+02 Score=21.72 Aligned_cols=67 Identities=13% Similarity=0.202 Sum_probs=34.2
Q ss_pred HHHHHHHHHhcCCeEEEEEec-CC----hhhHHHHHHHhcCCCEEE-EecCCCCCcccccccchhHHHhhc--CCCcEEE
Q 031713 77 LGRAKEICAKHGVVAETMTEM-GD----PKNVICEAAEKHKIQLLI-VGSHSRGPIQRAFLGSVSNYCVHN--AKCPVLV 148 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~-g~----~~~~i~~~a~~~~~dliv-lg~~~~~~~~~~~~gs~~~~l~~~--~~~pvli 148 (154)
.+++...+++. +.+...... ++ ..+.+.+.+++.++|.|| +|-..- . +++..+... ...|++.
T Consensus 39 ~~~v~~~l~~~-~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiGGGs~--~------D~aK~ia~~~~~~~p~i~ 109 (332)
T cd07766 39 GEKVADSLKKL-IAVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVGGGST--L------DTAKAVAALLNRGLPIII 109 (332)
T ss_pred HHHHHHHHHhc-CcEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeCCchH--H------HHHHHHHHHhcCCCCEEE
Confidence 34455555444 444333222 22 344566677788899987 553211 1 122222221 2689999
Q ss_pred EcCC
Q 031713 149 VRKP 152 (154)
Q Consensus 149 v~~~ 152 (154)
||-.
T Consensus 110 iPTt 113 (332)
T cd07766 110 VPTT 113 (332)
T ss_pred EeCC
Confidence 8854
No 390
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=41.10 E-value=1.3e+02 Score=21.22 Aligned_cols=45 Identities=18% Similarity=0.128 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
...++.+.+.+++.|+.+..-+ +|...-++.+++.++|.|=+-+.
T Consensus 112 ~~~l~~~i~~L~~~gIrVSLFi---dP~~~qi~~A~~~GAd~VELhTG 156 (239)
T PRK05265 112 FDKLKPAIARLKDAGIRVSLFI---DPDPEQIEAAAEVGADRIELHTG 156 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEe---CCCHHHHHHHHHhCcCEEEEech
Confidence 4667888888899998877655 67778889999999999888654
No 391
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=41.10 E-value=86 Score=21.25 Aligned_cols=36 Identities=8% Similarity=0.122 Sum_probs=27.0
Q ss_pred CCcEEEEEecCCchHHH-HHHHHHHHcccCCCCCeEEEEE
Q 031713 2 DKKKVMVAIDESECRHY-ALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~-~l~~a~~la~~~~~~~~l~~l~ 40 (154)
.-++|++++.++..+-+ +.+.+-.+.+. | .+++++-
T Consensus 4 ~~k~IllgVTGsiaa~k~a~~lir~L~k~-G--~~V~vv~ 40 (196)
T PRK08305 4 KGKRIGFGLTGSHCTYDEVMPEIEKLVDE-G--AEVTPIV 40 (196)
T ss_pred CCCEEEEEEcCHHHHHHHHHHHHHHHHhC-c--CEEEEEE
Confidence 35789999999999998 58777666553 5 6766554
No 392
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=41.05 E-value=1.2e+02 Score=20.90 Aligned_cols=54 Identities=19% Similarity=0.296 Sum_probs=35.5
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCccccccc
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLG 132 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~g 132 (154)
+.++.+.+++.|.+.-..+-.+.+.+.+..+.. ..|++.+=+-..++..+.|..
T Consensus 95 ~~~~l~~ik~~g~k~GlalnP~Tp~~~i~~~l~--~~D~vlvMtV~PGfgGq~fi~ 148 (220)
T PRK08883 95 VDRTLQLIKEHGCQAGVVLNPATPLHHLEYIMD--KVDLILLMSVNPGFGGQSFIP 148 (220)
T ss_pred HHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHH--hCCeEEEEEecCCCCCceecH
Confidence 455666777788888777777789999999998 777665544333333333433
No 393
>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=40.66 E-value=56 Score=25.03 Aligned_cols=48 Identities=8% Similarity=0.080 Sum_probs=33.7
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 102 NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+.|+..+++.++|++|.|--=....-..--|.++..+-.+..+|++.-
T Consensus 66 ~~i~~mv~k~~pDv~iaGPaFNagrYG~acg~va~aV~e~~~IP~vta 113 (431)
T TIGR01917 66 AKVLEMIKGANPDIFIAGPAFNAGRYGMAAGAITKAVQDELGIKAFTA 113 (431)
T ss_pred HHHHHHHHhcCCCEEEEcCccCCccHHHHHHHHHHHHHHhhCCCeEEE
Confidence 568889999999999999531111222345667777777888998754
No 394
>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=40.61 E-value=56 Score=25.02 Aligned_cols=48 Identities=10% Similarity=0.162 Sum_probs=33.7
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 102 NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+.|+..+++.++|++|.|--=....-..--|.++..+-.+..+|++.-
T Consensus 66 ~~i~~mv~k~~pDv~iaGPaFNagrYG~acg~va~aV~e~~~IP~vt~ 113 (431)
T TIGR01918 66 ARVLEMLKDKEPDIFIAGPAFNAGRYGVACGEICKVVQDKLNVPAVTS 113 (431)
T ss_pred HHHHHHHHhcCCCEEEEcCccCCccHHHHHHHHHHHHHHhhCCCeEEE
Confidence 568889999999999999532111222345667777777888998754
No 395
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=40.57 E-value=30 Score=26.36 Aligned_cols=23 Identities=17% Similarity=0.455 Sum_probs=20.5
Q ss_pred ChhhHHHHHHHhcCCCEEEEecC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.-.+.|+++|++.++||+|+|..
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCc
Confidence 45789999999999999999975
No 396
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=40.49 E-value=1.3e+02 Score=21.34 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
++-+..+.+.+++.|+.+-+.+..-.-.+.+ .+. +|++=+|+..
T Consensus 75 ~~gl~~l~~~~~~~Gl~~~t~~~d~~~~~~l----~~~-~d~lkI~s~~ 118 (260)
T TIGR01361 75 EEGLKLLRRAADEHGLPVVTEVMDPRDVEIV----AEY-ADILQIGARN 118 (260)
T ss_pred HHHHHHHHHHHHHhCCCEEEeeCChhhHHHH----Hhh-CCEEEECccc
Confidence 4445566667788899987776554444433 333 6888888764
No 397
>PRK00509 argininosuccinate synthase; Provisional
Probab=40.41 E-value=1.7e+02 Score=22.40 Aligned_cols=38 Identities=29% Similarity=0.313 Sum_probs=28.5
Q ss_pred CCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 2 DKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 2 ~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
+.++++|++.+.-.|..++.++.+ ..| .+++.+++.-.
T Consensus 1 ~~~kVvva~SGGlDSsvla~~l~e---~lG--~eViavt~d~G 38 (399)
T PRK00509 1 MKKKVVLAYSGGLDTSVIIKWLKE---TYG--CEVIAFTADVG 38 (399)
T ss_pred CCCeEEEEEcCCHHHHHHHHHHHH---hhC--CeEEEEEEecC
Confidence 457999999998888777766654 235 68999998655
No 398
>PRK09222 isocitrate dehydrogenase; Validated
Probab=40.32 E-value=1.8e+02 Score=22.85 Aligned_cols=27 Identities=11% Similarity=0.090 Sum_probs=21.0
Q ss_pred chHHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 14 ECRHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 14 ~~~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
+.++..+++|+++|+..+- .+|+++|=
T Consensus 149 ~~~eRI~r~AFe~A~~r~r-kkVt~v~K 175 (482)
T PRK09222 149 PGSEKIIRYAFEYARANGR-KKVTCLTK 175 (482)
T ss_pred HHHHHHHHHHHHHHHhcCC-CeEEEEEC
Confidence 5688999999999998751 35877764
No 399
>COG0482 TrmU Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]
Probab=40.26 E-value=1.6e+02 Score=22.13 Aligned_cols=111 Identities=14% Similarity=0.014 Sum_probs=55.4
Q ss_pred CCCcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHH------------
Q 031713 1 MDKKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQEN------------ 68 (154)
Q Consensus 1 m~~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~------------ 68 (154)
|+.++|+|++.+.-.|.-+ +.+.+..| -+|..+|..--..... . .-.+.+......+-
T Consensus 1 ~~~~kV~v~mSGGVDSSVa----A~lLk~QG--yeViGl~m~~~~~~~~---~-~C~s~~d~~da~~va~~LGIp~~~vd 70 (356)
T COG0482 1 MKKKKVLVGMSGGVDSSVA----AYLLKEQG--YEVIGLFMKNWDEDGG---G-GCCSEEDLRDAERVADQLGIPLYVVD 70 (356)
T ss_pred CCCcEEEEEccCCHHHHHH----HHHHHHcC--CeEEEEEEEeeccCCC---C-cCCchhHHHHHHHHHHHhCCceEEEc
Confidence 6788999999987666533 33445546 6888888743321000 0 00011111111111
Q ss_pred -HHHHHHHHHHHHHHHHHhcCCeEEEEEecC--ChhhHHHHHHHhcCCCEEEEecCC
Q 031713 69 -QKKAALALLGRAKEICAKHGVVAETMTEMG--DPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 69 -~~~~~~~~l~~~~~~~~~~~~~~~~~v~~g--~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
.++..++..+-+...+.. |-...+-+.=. --...+++++.+.++|.|+.|+.-
T Consensus 71 f~~~y~~~V~~~f~~~Y~~-G~TPNPci~CN~~iKF~~~l~~a~~lgad~iATGHYa 126 (356)
T COG0482 71 FEKEFWNKVFEYFLAEYKA-GKTPNPCILCNKEIKFKALLDYAKELGADYIATGHYA 126 (356)
T ss_pred hHHHHHHHHHHHHHHHHhC-CCCCCcchhcCHHHHHHHHHHHHHHcCCCeEEEeeeE
Confidence 111122223333333322 32222222111 236678889999999999999853
No 400
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=40.07 E-value=1.2e+02 Score=20.78 Aligned_cols=71 Identities=14% Similarity=0.087 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
....+.+...+++.|.++...-..+++.+ ..++.+...++|-||++........ ..-..+...++|++++-
T Consensus 15 ~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~------~~l~~~~~~~ipvV~~~ 87 (277)
T cd06319 15 QIMGRGVKSKAKALGYDAVELSAENSAKKELENLRTAIDKGVSGIIISPTNSSAAV------TLLKLAAQAKIPVVIAD 87 (277)
T ss_pred HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhH------HHHHHHHHCCCCEEEEe
Confidence 34566666777777877644333334432 3333444578999988653211111 11234556778988773
No 401
>TIGR03183 DNA_S_dndC putative sulfurtransferase DndC. Members of this protein family are the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulfur-containing modification to DNA. This operon is sparsely and sporadically distributed among bactera; among the first eight examples are members from the Actinobacteria, Firmicutes, Gammaproteobacteria, Cyanobacteria. DndC is suggested to be a sulfurtransferase.
Probab=39.94 E-value=1.8e+02 Score=22.63 Aligned_cols=72 Identities=14% Similarity=0.038 Sum_probs=39.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccC---CCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDA---ISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAK 81 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~---~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 81 (154)
.+.|+..+...|..++..+..-.... +....+++++..-..... ......++.++++.
T Consensus 15 p~vV~fSGGKDSta~L~Lv~~Al~~lp~e~~~k~v~VI~~DTgvE~P-------------------e~~~~v~~~l~~i~ 75 (447)
T TIGR03183 15 PWVVGYSGGKDSTAVLQLIWNALAALPAEQRTKKIHVISTDTLVENP-------------------IVAAWVNASLERMQ 75 (447)
T ss_pred ceEEEeCCCHHHHHHHHHHHHHHHhccccccCcceEEEECcCCCccH-------------------HHHHHHHHHHHHHH
Confidence 36899999999998887666543321 111245555553322211 23444555555666
Q ss_pred HHHHhcCCeEEEEE
Q 031713 82 EICAKHGVVAETMT 95 (154)
Q Consensus 82 ~~~~~~~~~~~~~v 95 (154)
..+.+.|+++.+++
T Consensus 76 ~~a~~~~lpi~~~~ 89 (447)
T TIGR03183 76 EAAQDQGLPIEPHR 89 (447)
T ss_pred HHHHHcCCCeEEEe
Confidence 66666666655443
No 402
>KOG2310 consensus DNA repair exonuclease MRE11 [Replication, recombination and repair]
Probab=39.86 E-value=28 Score=27.50 Aligned_cols=21 Identities=19% Similarity=0.466 Sum_probs=19.6
Q ss_pred hhhHHHHHHHhcCCCEEEEec
Q 031713 100 PKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~ 120 (154)
..++|+..|++.+.|||++|.
T Consensus 40 tFeEIl~iA~e~~VDmiLlGG 60 (646)
T KOG2310|consen 40 TFEEILEIAQENDVDMILLGG 60 (646)
T ss_pred HHHHHHHHHHhcCCcEEEecC
Confidence 578999999999999999996
No 403
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=39.77 E-value=1.1e+02 Score=19.95 Aligned_cols=40 Identities=13% Similarity=0.101 Sum_probs=23.4
Q ss_pred HHHHHHhcCCeEEEEEecCChhhHHHHHHH----hcCCCEEEEe
Q 031713 80 AKEICAKHGVVAETMTEMGDPKNVICEAAE----KHKIQLLIVG 119 (154)
Q Consensus 80 ~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~----~~~~dlivlg 119 (154)
+...+++.|.++.......|-.+.|.+..+ ..++|+||..
T Consensus 27 l~~~L~~~G~~v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVItt 70 (163)
T TIGR02667 27 LVERLTEAGHRLADRAIVKDDIYQIRAQVSAWIADPDVQVILIT 70 (163)
T ss_pred HHHHHHHCCCeEEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEEC
Confidence 344556678876655545544444444332 3579998885
No 404
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=39.75 E-value=1.2e+02 Score=20.67 Aligned_cols=67 Identities=18% Similarity=0.233 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
.+...+.+.+++.|..+......+++. ..+++.....++|-||+....... ..-.-+...++||+++
T Consensus 16 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~--------~~~~~~~~~~ipvV~~ 84 (264)
T cd06274 16 RIAKRLEALARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGSLPPD--------DPYYLCQKAGLPVVAL 84 (264)
T ss_pred HHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCCCCch--------HHHHHHHhcCCCEEEe
Confidence 444555566667787765554444443 355666677889988876532211 1122345566888877
No 405
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=39.49 E-value=87 Score=18.91 Aligned_cols=39 Identities=15% Similarity=0.101 Sum_probs=29.3
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPT 44 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~ 44 (154)
-+.+++.+..+.++...++ +++.|+..| +++..+.-.+.
T Consensus 47 ~~dl~I~iS~SG~t~~~~~-~~~~a~~~g--~~vi~iT~~~~ 85 (120)
T cd05710 47 EKSVVILASHSGNTKETVA-AAKFAKEKG--ATVIGLTDDED 85 (120)
T ss_pred CCcEEEEEeCCCCChHHHH-HHHHHHHcC--CeEEEEECCCC
Confidence 3568999999998888885 667888877 77777665444
No 406
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=39.44 E-value=1.6e+02 Score=22.06 Aligned_cols=27 Identities=11% Similarity=-0.082 Sum_probs=21.5
Q ss_pred chHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 14 ECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 14 ~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
..++..+++|+++|+..+ .+|+++|=.
T Consensus 166 ~~~~Ri~r~Af~~A~~r~--~~Vt~v~Ka 192 (358)
T PRK00772 166 EEIERIARVAFELARKRR--KKVTSVDKA 192 (358)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEECc
Confidence 568889999999998875 678777643
No 407
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=39.31 E-value=1.4e+02 Score=21.41 Aligned_cols=76 Identities=13% Similarity=0.046 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEEec-C-------------ChhhHHHHHHHhcCCCEEEE--ecCCCCCccc-ccccchhHH
Q 031713 75 ALLGRAKEICAKHGVVAETMTEM-G-------------DPKNVICEAAEKHKIQLLIV--GSHSRGPIQR-AFLGSVSNY 137 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~-g-------------~~~~~i~~~a~~~~~dlivl--g~~~~~~~~~-~~~gs~~~~ 137 (154)
+.-.++.+.++.+|+.++..... | .-.++..+++++.++|.|-+ |+-....... .+-=....+
T Consensus 115 ~~t~~v~~~a~~~gv~veaE~ghlG~~d~~~~~~g~s~t~~eea~~f~~~tg~DyLAvaiG~~hg~~~~~~~l~~~~L~~ 194 (281)
T PRK06806 115 QKTKEIVELAKQYGATVEAEIGRVGGSEDGSEDIEMLLTSTTEAKRFAEETDVDALAVAIGNAHGMYNGDPNLRFDRLQE 194 (281)
T ss_pred HHHHHHHHHHHHcCCeEEEEeeeECCccCCcccccceeCCHHHHHHHHHhhCCCEEEEccCCCCCCCCCCCccCHHHHHH
Confidence 33456677777778776543321 2 12344566677789999999 7642221111 111123456
Q ss_pred HhhcCCCcEEEEc
Q 031713 138 CVHNAKCPVLVVR 150 (154)
Q Consensus 138 l~~~~~~pvliv~ 150 (154)
+.+..++|+...-
T Consensus 195 i~~~~~iPlV~hG 207 (281)
T PRK06806 195 INDVVHIPLVLHG 207 (281)
T ss_pred HHHhcCCCEEEEC
Confidence 7777789987653
No 408
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=39.21 E-value=1.9e+02 Score=22.64 Aligned_cols=49 Identities=16% Similarity=0.100 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhc--CCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCC
Q 031713 74 LALLGRAKEICAKH--GVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRG 124 (154)
Q Consensus 74 ~~~l~~~~~~~~~~--~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~ 124 (154)
+++.+.+.+.+++. |++++..-........|+..+. ++|.|++|+...+
T Consensus 266 e~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~--~ad~vilGspT~~ 316 (479)
T PRK05452 266 RMMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVF--RSKGVLVGSSTMN 316 (479)
T ss_pred HHHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHh--hCCEEEEECCccC
Confidence 45556666666655 5555544444434455555444 8999999987643
No 409
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=39.15 E-value=1.2e+02 Score=20.56 Aligned_cols=71 Identities=13% Similarity=0.125 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+..+.+.+++.|..+......+++. ...++.....++|-+|++..... .. ... -..+...++|++.+-
T Consensus 15 ~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~-~~----~~~-l~~l~~~~ipvv~~~ 87 (268)
T cd06323 15 VTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSD-AV----VPA-VKAANEAGIPVFTID 87 (268)
T ss_pred HHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChH-HH----HHH-HHHHHHCCCcEEEEc
Confidence 4455556666666776665433233443 24555556678999888643211 00 011 123456678888773
No 410
>PF10649 DUF2478: Protein of unknown function (DUF2478); InterPro: IPR018912 This is a family of hypothetical bacterial proteins encoded in the vicinity of molybdenum ABC transporter gene-products MobA, MobB and MobC. However the function could not be confirmed.
Probab=39.13 E-value=65 Score=21.02 Aligned_cols=45 Identities=22% Similarity=0.136 Sum_probs=24.6
Q ss_pred HHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 104 ICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 104 i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
.++.+-+..+||+|++.-++-.-.+.-+.+.... .-...+||++.
T Consensus 85 ~l~~al~~~~DLlivNkFGk~Ea~G~Glr~~i~~-A~~~giPVLt~ 129 (159)
T PF10649_consen 85 ALRRALAEGADLLIVNKFGKQEAEGRGLRDEIAA-ALAAGIPVLTA 129 (159)
T ss_pred HHHHHHhcCCCEEEEcccHHhhhcCCCHHHHHHH-HHHCCCCEEEE
Confidence 3344455689999999866444443322222221 22345787764
No 411
>cd00019 AP2Ec AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-hexulose 3-phosphate to D-fructose 6-phosphate, via cleaving the phosphoesterbond with the sugar.
Probab=39.09 E-value=1.4e+02 Score=21.04 Aligned_cols=78 Identities=18% Similarity=0.102 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEE
Q 031713 16 RHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAETMT 95 (154)
Q Consensus 16 ~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v 95 (154)
+...+..++++|+..| ++...+|.-..... ..+...+...+.+.++.+.++..|+.+..+.
T Consensus 83 ~~~~~~~~i~~A~~lG--~~~v~~~~g~~~~~-----------------~~~~~~~~~~~~l~~l~~~a~~~gi~l~lEn 143 (279)
T cd00019 83 SIERLKDEIERCEELG--IRLLVFHPGSYLGQ-----------------SKEEGLKRVIEALNELIDKAETKGVVIALET 143 (279)
T ss_pred HHHHHHHHHHHHHHcC--CCEEEECCCCCCCC-----------------CHHHHHHHHHHHHHHHHHhccCCCCEEEEeC
Confidence 4456788889999988 77666654322110 0123344555667777777777888866655
Q ss_pred ecCC------hhhHHHHHHHhcC
Q 031713 96 EMGD------PKNVICEAAEKHK 112 (154)
Q Consensus 96 ~~g~------~~~~i~~~a~~~~ 112 (154)
..+. ......++.++.+
T Consensus 144 ~~~~~~~~~~t~~~~~~li~~v~ 166 (279)
T cd00019 144 MAGQGNEIGSSFEELKEIIDLIK 166 (279)
T ss_pred CCCCCCCCCCCHHHHHHHHHhcC
Confidence 4332 3455666777544
No 412
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=39.07 E-value=1.4e+02 Score=21.23 Aligned_cols=79 Identities=11% Similarity=-0.004 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
+..+.++.+.+... ..+++-..+...+.. .++.+.+++.++|-+++..........--+-..-..|...++.|+++.
T Consensus 55 Er~~l~~~~~~~~~-~~~~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~~~~pi~iY 133 (289)
T PF00701_consen 55 ERKELLEIVVEAAA-GRVPVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIADATDLPIIIY 133 (289)
T ss_dssp HHHHHHHHHHHHHT-TSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHHHHSSSEEEEE
T ss_pred HHHHHHHHHHHHcc-CceEEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHHhhcCCCEEEE
Confidence 33445555555443 245554444443444 444567899999988877654333332222234467888888999987
Q ss_pred cC
Q 031713 150 RK 151 (154)
Q Consensus 150 ~~ 151 (154)
..
T Consensus 134 n~ 135 (289)
T PF00701_consen 134 NN 135 (289)
T ss_dssp EB
T ss_pred EC
Confidence 43
No 413
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=39.07 E-value=94 Score=19.21 Aligned_cols=41 Identities=12% Similarity=0.096 Sum_probs=22.7
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHh--cCCCEEEEe
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEK--HKIQLLIVG 119 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~--~~~dlivlg 119 (154)
-+...+++.|.++......++-.+.|.+..++ .++|+||..
T Consensus 23 ~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~Dlvitt 65 (133)
T cd00758 23 ALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLTT 65 (133)
T ss_pred HHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEEC
Confidence 33444566787766654445444444443322 248988885
No 414
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=39.00 E-value=69 Score=24.84 Aligned_cols=27 Identities=4% Similarity=0.026 Sum_probs=18.7
Q ss_pred CChhhHHHHH-HHhcCCCEEEEecCCCC
Q 031713 98 GDPKNVICEA-AEKHKIQLLIVGSHSRG 124 (154)
Q Consensus 98 g~~~~~i~~~-a~~~~~dlivlg~~~~~ 124 (154)
|+-.+.++.. .++.++.+|.+-+.|..
T Consensus 113 GdDle~va~~~~~~~gipVV~v~~~Gf~ 140 (457)
T CHL00073 113 KMDLEGMAPKLEAEIGIPIVVARANGLD 140 (457)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCcc
Confidence 6656666554 44789999999886643
No 415
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=38.94 E-value=73 Score=17.87 Aligned_cols=39 Identities=15% Similarity=0.218 Sum_probs=23.0
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.++.+.+++.|+++...... ......... ++|+|+++..
T Consensus 18 ~~i~~~~~~~gi~~~~~~~~---~~~~~~~~~--~~D~il~~~~ 56 (90)
T PF02302_consen 18 NKIKKALKELGIEVEVSAGS---ILEVEEIAD--DADLILLTPQ 56 (90)
T ss_dssp HHHHHHHHHTTECEEEEEEE---TTTHHHHHT--T-SEEEEEES
T ss_pred HHHHHHHHhccCceEEEEec---ccccccccC--CCcEEEEcCc
Confidence 56677777778554443322 233333444 8999999976
No 416
>COG0069 GltB Glutamate synthase domain 2 [Amino acid transport and metabolism]
Probab=38.92 E-value=1.8e+02 Score=22.92 Aligned_cols=32 Identities=6% Similarity=0.028 Sum_probs=25.8
Q ss_pred eEEEEEecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 90 VAETMTEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 90 ~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+.+++..+.....+.--+.+-++|+|++.-.
T Consensus 305 ~I~VKlva~~~v~~iaagvakA~AD~I~IdG~ 336 (485)
T COG0069 305 KISVKLVAEHGVGTIAAGVAKAGADVITIDGA 336 (485)
T ss_pred eEEEEEecccchHHHHhhhhhccCCEEEEcCC
Confidence 37778888888888887788889999999654
No 417
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=38.81 E-value=69 Score=17.57 Aligned_cols=26 Identities=4% Similarity=-0.027 Sum_probs=19.0
Q ss_pred HHHHHHHHHcccCCCCCeEEEEEeccCCc
Q 031713 18 YALQWALENLGDAISKSDLIIFTARPTEF 46 (154)
Q Consensus 18 ~~l~~a~~la~~~~~~~~l~~l~v~~~~~ 46 (154)
-++++|..+++ .+ .++++++-.+...
T Consensus 10 ig~E~A~~l~~-~g--~~vtli~~~~~~~ 35 (80)
T PF00070_consen 10 IGIELAEALAE-LG--KEVTLIERSDRLL 35 (80)
T ss_dssp HHHHHHHHHHH-TT--SEEEEEESSSSSS
T ss_pred HHHHHHHHHHH-hC--cEEEEEeccchhh
Confidence 35677777766 45 7999999877755
No 418
>PRK02551 flavoprotein NrdI; Provisional
Probab=38.59 E-value=18 Score=23.43 Aligned_cols=46 Identities=17% Similarity=0.130 Sum_probs=29.9
Q ss_pred hhHHHHHH---HhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 101 KNVICEAA---EKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 101 ~~~i~~~a---~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
.+.+.++. ...+.-.=|+|+..+++.. -++-.+..+.+++.+|+|-
T Consensus 80 p~~v~dFL~~~~N~~~~~gVigsGNrNfg~--~F~~aa~~ia~~~~vP~L~ 128 (154)
T PRK02551 80 TTPLGDFIAYHDNAKRCLGIIGSGNRNFNN--QYCLTAKQYAKRFGFPMLA 128 (154)
T ss_pred hHHHHHHHcchhhhhheEEEEeecccHHHH--HHHHHHHHHHHHcCCCEEE
Confidence 45566654 2223334466766566544 3778999999999999985
No 419
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=38.58 E-value=1.4e+02 Score=21.18 Aligned_cols=45 Identities=13% Similarity=0.027 Sum_probs=25.7
Q ss_pred HHHHHHHHHhcCCeEEEEEec--C-ChhhHHHHHHHhcCCCEEEEecC
Q 031713 77 LGRAKEICAKHGVVAETMTEM--G-DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~--g-~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
.+.+...+++.|+++...... + .....++..++..++|.|++...
T Consensus 154 ~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~v~~l~~~~pd~v~~~~~ 201 (312)
T cd06346 154 ADAFTKAFEALGGTVTNVVAHEEGKSSYSSEVAAAAAGGPDALVVIGY 201 (312)
T ss_pred HHHHHHHHHHcCCEEEEEEeeCCCCCCHHHHHHHHHhcCCCEEEEecc
Confidence 445555555667775433322 3 23445555566678888887754
No 420
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=38.49 E-value=1.2e+02 Score=22.67 Aligned_cols=43 Identities=14% Similarity=0.189 Sum_probs=27.1
Q ss_pred HHHHHHHHHHhcCCeEEEEEecCCh----hhHHHHHHHhcCCCEEEE
Q 031713 76 LLGRAKEICAKHGVVAETMTEMGDP----KNVICEAAEKHKIQLLIV 118 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g~~----~~~i~~~a~~~~~dlivl 118 (154)
..+++...+++.|+++......+++ .+.+.+.+++.++|.||-
T Consensus 35 ~~~~v~~~L~~~g~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIa 81 (374)
T cd08183 35 RAAWLIEALRAAGIEVTHVVVAGEPSVELVDAAVAEARNAGCDVVIA 81 (374)
T ss_pred HHHHHHHHHHHcCCeEEEecCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 3455666667778876554334444 334556678889998664
No 421
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=38.14 E-value=65 Score=25.34 Aligned_cols=25 Identities=4% Similarity=0.153 Sum_probs=13.7
Q ss_pred CChhhHHHHHHH-hcCCCEEEEecCC
Q 031713 98 GDPKNVICEAAE-KHKIQLLIVGSHS 122 (154)
Q Consensus 98 g~~~~~i~~~a~-~~~~dlivlg~~~ 122 (154)
|+-.+.+++.++ +.++.+|.+.+.+
T Consensus 101 GDDi~~v~~~~~~~~~~pVi~v~t~~ 126 (513)
T CHL00076 101 QEDLQNFVDRASIESDSDVILADVNH 126 (513)
T ss_pred hcCHHHHHHHhhcccCCCEEEeCCCC
Confidence 544455555443 4566666666654
No 422
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=37.97 E-value=51 Score=21.85 Aligned_cols=26 Identities=19% Similarity=0.287 Sum_probs=14.2
Q ss_pred HHHHHHHhcCCCEEEEecCCCCCccc
Q 031713 103 VICEAAEKHKIQLLIVGSHSRGPIQR 128 (154)
Q Consensus 103 ~i~~~a~~~~~dlivlg~~~~~~~~~ 128 (154)
.-.+.++..++..|++...+.+...+
T Consensus 120 ~n~dia~~L~a~vIlV~~~~~g~i~~ 145 (199)
T PF13500_consen 120 LNADIAKALGAPVILVASGRLGTINH 145 (199)
T ss_dssp EHHHHHHHHT-EEEEEEESSTTHHHH
T ss_pred HHHHHHHHcCCCEEEEeCCCCCCHHH
Confidence 34566666666666666655444433
No 423
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=37.81 E-value=1.8e+02 Score=22.02 Aligned_cols=29 Identities=3% Similarity=-0.031 Sum_probs=21.4
Q ss_pred CchHHHHHHHHHHHcccCCCCCeEEEEEec
Q 031713 13 SECRHYALQWALENLGDAISKSDLIIFTAR 42 (154)
Q Consensus 13 ~~~~~~~l~~a~~la~~~~~~~~l~~l~v~ 42 (154)
...++..+++|+++|+..+- .+|+++|=.
T Consensus 183 r~~~eRIar~AF~~A~~r~~-k~Vt~v~Ka 211 (372)
T PLN00118 183 RQASLRVAEYAFHYAKTHGR-KRVSAIHKA 211 (372)
T ss_pred HHHHHHHHHHHHHHHHHcCC-CeEEEEECC
Confidence 35688899999999988741 357777643
No 424
>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=37.80 E-value=1.6e+02 Score=21.42 Aligned_cols=72 Identities=10% Similarity=0.057 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEecCCh-----hhHHHHHHHhcCCCEEEEecCCCCCccc--ccccchhHHHhhcCCCc
Q 031713 73 ALALLGRAKEICAKHGVVAETMTEMGDP-----KNVICEAAEKHKIQLLIVGSHSRGPIQR--AFLGSVSNYCVHNAKCP 145 (154)
Q Consensus 73 ~~~~l~~~~~~~~~~~~~~~~~v~~g~~-----~~~i~~~a~~~~~dlivlg~~~~~~~~~--~~~gs~~~~l~~~~~~p 145 (154)
..+.+..+.+. .++++..+++.|.. ...+++...+.+++.|.+-.+.+....+ .-+. ....+....++|
T Consensus 110 ~~~iv~~~~~~---~~~pvsvKiR~g~~~~~~~~~~~~~~l~~~G~~~i~vH~Rt~~q~~~~~a~w~-~i~~i~~~~~ip 185 (309)
T PF01207_consen 110 LAEIVKAVRKA---VPIPVSVKIRLGWDDSPEETIEFARILEDAGVSAITVHGRTRKQRYKGPADWE-AIAEIKEALPIP 185 (309)
T ss_dssp HHHHHHHHHHH----SSEEEEEEESECT--CHHHHHHHHHHHHTT--EEEEECS-TTCCCTS---HH-HHHHCHHC-TSE
T ss_pred hhHHHHhhhcc---cccceEEecccccccchhHHHHHHHHhhhcccceEEEecCchhhcCCcccchH-HHHHHhhcccce
Confidence 33444444443 35788888877632 4566777888999999887653221111 1122 234566777788
Q ss_pred EEE
Q 031713 146 VLV 148 (154)
Q Consensus 146 vli 148 (154)
|+.
T Consensus 186 vi~ 188 (309)
T PF01207_consen 186 VIA 188 (309)
T ss_dssp EEE
T ss_pred eEE
Confidence 765
No 425
>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=37.71 E-value=1.4e+02 Score=20.70 Aligned_cols=70 Identities=14% Similarity=0.043 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+.+.+.+++.|..+.+....+++.. ..++.+...++|-||+......... .... -+...++||+++-
T Consensus 16 ~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~-----~~i~-~~~~~~iPvV~~~ 87 (272)
T cd06313 16 QGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLT-----EAVQ-KAIARGIPVIDMG 87 (272)
T ss_pred HHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhH-----HHHH-HHHHCCCcEEEeC
Confidence 4555666666677877766544444433 3445556788999999643211111 1112 2345578888873
No 426
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=37.69 E-value=90 Score=20.30 Aligned_cols=40 Identities=15% Similarity=0.172 Sum_probs=30.6
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
-+.+++.++.+.++...++. ++.|+..| +++.++.-.+..
T Consensus 72 ~~Dv~I~iS~sG~t~~~i~~-~~~ak~~g--~~ii~IT~~~~s 111 (179)
T TIGR03127 72 KGDLLIAISGSGETESLVTV-AKKAKEIG--ATVAAITTNPES 111 (179)
T ss_pred CCCEEEEEeCCCCcHHHHHH-HHHHHHCC--CeEEEEECCCCC
Confidence 46789999999999888864 46788877 788877665543
No 427
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=37.59 E-value=1e+02 Score=23.34 Aligned_cols=43 Identities=12% Similarity=0.146 Sum_probs=27.5
Q ss_pred HHHHHHHHHHhcCCeEEEE-EecCCh----hhHHHHHHHhcCCCEEEE
Q 031713 76 LLGRAKEICAKHGVVAETM-TEMGDP----KNVICEAAEKHKIQLLIV 118 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~-v~~g~~----~~~i~~~a~~~~~dlivl 118 (154)
.++++.+.+++.|+.+... -..++| .+...+.+++.++|.||-
T Consensus 65 ~~~~v~~~L~~~gi~~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~Iia 112 (395)
T PRK15454 65 MTAGLTRSLAVKGIAMTLWPCPVGEPCITDVCAAVAQLRESGCDGVIA 112 (395)
T ss_pred cHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEE
Confidence 3456667777778775443 123333 445666788999998875
No 428
>PRK10481 hypothetical protein; Provisional
Probab=37.44 E-value=1.4e+02 Score=20.73 Aligned_cols=59 Identities=7% Similarity=0.047 Sum_probs=36.7
Q ss_pred HHHhcCCeEEEEEec--CChhhHHHHHHH---hcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 83 ICAKHGVVAETMTEM--GDPKNVICEAAE---KHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 83 ~~~~~~~~~~~~v~~--g~~~~~i~~~a~---~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
.+...|.++...... ....+.+.+.++ +.++|+||++--+.+. .....+-+..++||+.
T Consensus 148 kw~~~G~~v~~~~aspy~~~~~~l~~aa~~L~~~gaD~Ivl~C~G~~~-------~~~~~le~~lg~PVI~ 211 (224)
T PRK10481 148 KWQVLQKPPVFALASPYHGSEEELIDAGKELLDQGADVIVLDCLGYHQ-------RHRDLLQKALDVPVLL 211 (224)
T ss_pred HHHhcCCceeEeecCCCCCCHHHHHHHHHHhhcCCCCEEEEeCCCcCH-------HHHHHHHHHHCcCEEc
Confidence 333447665543322 134456666666 5789999999766442 2346677888888874
No 429
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=37.22 E-value=69 Score=20.84 Aligned_cols=40 Identities=25% Similarity=0.240 Sum_probs=30.9
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
-+.+++.+..+.++...++ +++.|+..| +++..+.-.+..
T Consensus 101 ~~Dv~I~iS~SG~t~~~i~-~~~~ak~~G--a~vI~IT~~~~s 140 (177)
T cd05006 101 PGDVLIGISTSGNSPNVLK-ALEAAKERG--MKTIALTGRDGG 140 (177)
T ss_pred CCCEEEEEeCCCCCHHHHH-HHHHHHHCC--CEEEEEeCCCCC
Confidence 3569999999999998886 556888877 788777665443
No 430
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=37.03 E-value=1.4e+02 Score=20.44 Aligned_cols=68 Identities=13% Similarity=0.088 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
..+.+.+.+.+++.|..+......++. ....++.....++|-||+...... . .. -.-+...+.||+.+
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~--~-----~~-~~~~~~~~ipvV~i 84 (270)
T cd06296 15 SEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVERLSARRTDGVILVTPELT--S-----AQ-RAALRRTGIPFVVV 84 (270)
T ss_pred HHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHHHHHcCCCEEEEecCCCC--h-----HH-HHHHhcCCCCEEEE
Confidence 344555566666677766554444433 234455566678998887643211 1 11 22344557788777
No 431
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=37.03 E-value=75 Score=17.43 Aligned_cols=35 Identities=29% Similarity=0.201 Sum_probs=24.7
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
-+.+++.++.+.++...++ +++.++..| +++..+.
T Consensus 47 ~~d~~i~iS~sg~t~~~~~-~~~~a~~~g--~~ii~it 81 (87)
T cd04795 47 KGDVVIALSYSGRTEELLA-ALEIAKELG--IPVIAIT 81 (87)
T ss_pred CCCEEEEEECCCCCHHHHH-HHHHHHHcC--CeEEEEe
Confidence 3568888988888877665 556777766 6666554
No 432
>cd06365 PBP1_Pheromone_receptor Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily. Ligand-binding domain of the V2R phermone receptor, a member of the family C receptors within the G-protein coupled receptor superfamily, which also includes the metabotropic glutamate receptor, the GABAb receptor, the calcium-sensing receptor (CaSR), the T1R taste receptor, and a small group of uncharacterized orphan receptors.
Probab=36.90 E-value=2e+02 Score=22.23 Aligned_cols=19 Identities=5% Similarity=-0.120 Sum_probs=11.4
Q ss_pred HHHHHHhcCCCEEEEecCC
Q 031713 104 ICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 104 i~~~a~~~~~dlivlg~~~ 122 (154)
+.+.++....+...+|+.+
T Consensus 248 ~~~~~~~~~~~~~wi~s~~ 266 (469)
T cd06365 248 SFRLWQYLLIGKVWITTSQ 266 (469)
T ss_pred HHHHHHhccCceEEEeecc
Confidence 4555666666666666543
No 433
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=36.86 E-value=1.2e+02 Score=21.09 Aligned_cols=52 Identities=17% Similarity=0.150 Sum_probs=31.6
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHH-----HhhcCCCcEEEEcCCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNY-----CVHNAKCPVLVVRKPV 153 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~-----l~~~~~~pvliv~~~~ 153 (154)
..+.+...+.+.++|++|++-. -+ .-++--+..+.. -++....||+.||...
T Consensus 18 ~~~k~~~~~~~~~~D~lviaGD-lt-~~~~~~~~~~~~~~~~e~l~~~~~~v~avpGNc 74 (226)
T COG2129 18 SLKKLLNAAADIRADLLVIAGD-LT-YFHFGPKEVAEELNKLEALKELGIPVLAVPGNC 74 (226)
T ss_pred HHHHHHHHHhhccCCEEEEecc-ee-hhhcCchHHHHhhhHHHHHHhcCCeEEEEcCCC
Confidence 4578888888889999998843 22 001111122222 3455679999998653
No 434
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=36.72 E-value=54 Score=24.66 Aligned_cols=55 Identities=18% Similarity=0.271 Sum_probs=32.7
Q ss_pred EEecC-ChhhHHHHH-HHhcCCCEEEEecCCCCCcccccccchhHHHhhcC---CCcEEEEc
Q 031713 94 MTEMG-DPKNVICEA-AEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNA---KCPVLVVR 150 (154)
Q Consensus 94 ~v~~g-~~~~~i~~~-a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~---~~pvliv~ 150 (154)
.+..| +..-.+..+ .+-.++|+||.|-. +-. ...+.|.+...|.+.+ .+||+++-
T Consensus 263 ~l~~G~d~v~~~~~l~~~l~~ADlVITGEG-~~D-~Qtl~GK~p~~Va~~A~~~~vPviai~ 322 (375)
T TIGR00045 263 RLKPGIDLVLELLDLEQKIKDADLVITGEG-RLD-RQSLMGKAPVGVAKRAKKYGVPVIAIA 322 (375)
T ss_pred EEccHHHHHHHhhCHHHHhcCCCEEEECCC-ccc-ccccCCchHHHHHHHHHHhCCeEEEEe
Confidence 44445 433333333 23358999999853 322 3346677777666655 59999884
No 435
>PRK08649 inosine 5-monophosphate dehydrogenase; Validated
Probab=36.70 E-value=1.8e+02 Score=21.85 Aligned_cols=67 Identities=9% Similarity=0.045 Sum_probs=36.7
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCC----CCcccccccchhHHHhhcCCCcEEE
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSR----GPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~----~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
++.+.+.+.++.+.+.+ ......++.+.+.+.++|+|++..+.. ..... ... ...++++..++||+.
T Consensus 122 ~iv~~~~~~~V~v~vr~-~~~~~~e~a~~l~eaGvd~I~vhgrt~~~~h~~~~~-~~~-~i~~~ik~~~ipVIa 192 (368)
T PRK08649 122 ERIAEIRDAGVIVAVSL-SPQRAQELAPTVVEAGVDLFVIQGTVVSAEHVSKEG-EPL-NLKEFIYELDVPVIV 192 (368)
T ss_pred HHHHHHHhCeEEEEEec-CCcCHHHHHHHHHHCCCCEEEEeccchhhhccCCcC-CHH-HHHHHHHHCCCCEEE
Confidence 33344444455554333 123577888889999999999954311 00010 011 124466666788865
No 436
>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=36.63 E-value=1.4e+02 Score=20.29 Aligned_cols=60 Identities=15% Similarity=0.085 Sum_probs=33.0
Q ss_pred CeEEEEEecCC----hhhHHHHHHHhcCCCEEEEecCCCCC-cc-cccccchhHHHhhcCCCcEEEE
Q 031713 89 VVAETMTEMGD----PKNVICEAAEKHKIQLLIVGSHSRGP-IQ-RAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 89 ~~~~~~v~~g~----~~~~i~~~a~~~~~dlivlg~~~~~~-~~-~~~~gs~~~~l~~~~~~pvliv 149 (154)
+.+...+..|. ....+++...+.++|.|.+..+.... .. ...+ .....+.+..++||+..
T Consensus 124 ~~v~vk~r~~~~~~~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~-~~~~~i~~~~~ipvi~~ 189 (231)
T cd02801 124 IPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSGPADW-DYIAEIKEAVSIPVIAN 189 (231)
T ss_pred CCEEEEEeeccCCchHHHHHHHHHHHhCCCEEEECCCCHHHcCCCCCCH-HHHHHHHhCCCCeEEEe
Confidence 45555555542 34556667777889999886542211 11 1111 12245556667898875
No 437
>PF02610 Arabinose_Isome: L-arabinose isomerase; InterPro: IPR003762 The Escherichia coli araBAD operon consists of three genes encoding three enzymes that convert L-arabinose to D-xylulose-5 phosphate. L-arabinose isomerase (AraA) 5.3.1.4 from EC catalyses the conversion of L-arabinose to L-ribulose as the first step in the pathway of L-arabinose utilization as a carbon source [].; GO: 0008733 L-arabinose isomerase activity, 0008152 metabolic process; PDB: 4F2D_A 2AJT_C 2HXG_C.
Probab=36.20 E-value=1.4e+02 Score=22.36 Aligned_cols=44 Identities=16% Similarity=0.226 Sum_probs=23.4
Q ss_pred hHHHHHHH-hcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 102 NVICEAAE-KHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 102 ~~i~~~a~-~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..++..+. ..+++.||+=-+..++-+. --..++..++|++.+.-
T Consensus 61 ~~~~~~an~~~~c~gvi~wMhTfSpakm------wI~gl~~l~kPllhl~t 105 (359)
T PF02610_consen 61 TRVCKEANADEDCDGVITWMHTFSPAKM------WIPGLQRLQKPLLHLHT 105 (359)
T ss_dssp HHHHHHHHH-TTEEEEEEEESS---THH------HHHHHHH--S-EEEEE-
T ss_pred HHHHHHhhccCCccEEeehhhhhccHHH------HHHHHHHhCCCeEEeec
Confidence 33434443 3578888877776554443 34678899999998853
No 438
>cd01981 Pchlide_reductase_B Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=36.19 E-value=89 Score=23.78 Aligned_cols=26 Identities=15% Similarity=0.095 Sum_probs=14.0
Q ss_pred CChhhHHHHHHH-hcCCCEEEEecCCC
Q 031713 98 GDPKNVICEAAE-KHKIQLLIVGSHSR 123 (154)
Q Consensus 98 g~~~~~i~~~a~-~~~~dlivlg~~~~ 123 (154)
|+-.+.+++.++ +.++.++.+.+.+.
T Consensus 101 GdDi~~v~~~~~~~~~~~vi~v~t~gf 127 (430)
T cd01981 101 QEDLQNFVRAAGLSSKSPVLPLDVNHY 127 (430)
T ss_pred hhCHHHHHHHhhhccCCCeEEecCCCc
Confidence 544455554443 45666666666553
No 439
>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=36.15 E-value=1.3e+02 Score=20.02 Aligned_cols=21 Identities=19% Similarity=0.229 Sum_probs=17.1
Q ss_pred hHHHHHHHhcCCCEEEEecCC
Q 031713 102 NVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~ 122 (154)
..+..+|++.+++.|++|.+.
T Consensus 101 ~~a~~~A~~~g~~~v~~G~~~ 121 (201)
T TIGR00364 101 SIAASYAEALGAEAVITGVCE 121 (201)
T ss_pred HHHHHHHHHCCCCEEEEEecc
Confidence 335578999999999999864
No 440
>KOG1288 consensus Amino acid transporters [Amino acid transport and metabolism]
Probab=36.12 E-value=2.6e+02 Score=23.45 Aligned_cols=104 Identities=9% Similarity=0.000 Sum_probs=65.2
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
.||.-|+....+...+++.-++-+. .-..+-||.-.+.... ..++.++....+....
T Consensus 562 QILLlV~nPrss~~Lirf~N~LKKg----gLYilGHV~~gd~~~~-------------------~~d~l~~q~~~W~s~v 618 (945)
T KOG1288|consen 562 QILLLVSNPRSSCNLIRFCNDLKKG----GLYILGHVIVGDDFSA-------------------SMDELQQQQRAWLSFV 618 (945)
T ss_pred eEEEEecCCcccchHHHHHHhhccc----ceEEEEEEEecccccc-------------------ccchhhHHHHHHHHHH
Confidence 5899999999999999988766553 2455568866543221 0111112222333344
Q ss_pred HhcCCeEEEEEecC-ChhhHHHHHHHh-----cCCCEEEEecCCCCCcccccc
Q 031713 85 AKHGVVAETMTEMG-DPKNVICEAAEK-----HKIQLLIVGSHSRGPIQRAFL 131 (154)
Q Consensus 85 ~~~~~~~~~~v~~g-~~~~~i~~~a~~-----~~~dlivlg~~~~~~~~~~~~ 131 (154)
...+++.-+.+..+ +....|.+..+- .+.+.+|+|-......+..+.
T Consensus 619 d~~~iKAFvelt~spsir~Giq~Lir~SGLGgMKPNt~VlgF~d~~~pq~~~q 671 (945)
T KOG1288|consen 619 DDAGIKAFVELTISPSIRWGIQHLIRLSGLGGMKPNTAVLGFYDLEPPQDRFQ 671 (945)
T ss_pred HHhhhhhheeeccChhHHHHHHHHhhhcccCCcCCceEEEEeecCCCchhhhh
Confidence 44577766666666 678888887663 578899999876555444443
No 441
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=36.11 E-value=1.8e+02 Score=21.60 Aligned_cols=28 Identities=7% Similarity=0.004 Sum_probs=20.9
Q ss_pred CchHHHHHHHHHHHcccCCCCCeEEEEEe
Q 031713 13 SECRHYALQWALENLGDAISKSDLIIFTA 41 (154)
Q Consensus 13 ~~~~~~~l~~a~~la~~~~~~~~l~~l~v 41 (154)
...++..+++|+++|+..+- .+|+++|=
T Consensus 146 r~~~eRi~r~Af~~A~~r~~-~~Vt~v~K 173 (334)
T PRK08997 146 RKGAERIVRFAYELARKEGR-KKVTAVHK 173 (334)
T ss_pred HHHHHHHHHHHHHHHHhcCC-CeEEEEeC
Confidence 35588899999999988741 35777764
No 442
>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.
Probab=36.09 E-value=1.7e+02 Score=21.27 Aligned_cols=62 Identities=13% Similarity=0.102 Sum_probs=35.3
Q ss_pred CCeEEEEEecC-C----hhhHHHHHHHhcCCCEEEEecCCCC-CcccccccchhHHHhhcCCCcEEEE
Q 031713 88 GVVAETMTEMG-D----PKNVICEAAEKHKIQLLIVGSHSRG-PIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 88 ~~~~~~~v~~g-~----~~~~i~~~a~~~~~dlivlg~~~~~-~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
++++..+++.| + ....+++.+++.++|.|.+..+... ...+...=..+..+.+..++||+..
T Consensus 131 ~~pv~vKir~g~~~~~~~~~~~a~~l~~~G~d~i~vh~r~~~~~~~~~~~~~~i~~i~~~~~ipvi~n 198 (319)
T TIGR00737 131 DIPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVTLHGRTRAQGYSGEANWDIIARVKQAVRIPVIGN 198 (319)
T ss_pred CCCEEEEEEcccCCCcchHHHHHHHHHHhCCCEEEEEcccccccCCCchhHHHHHHHHHcCCCcEEEe
Confidence 46666666544 1 2346666777889999988543211 1111111123455666778898765
No 443
>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=36.07 E-value=1.9e+02 Score=21.73 Aligned_cols=36 Identities=31% Similarity=0.210 Sum_probs=20.5
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
++|+|++++.-.|.-+ +.+.+..| -+++.+|..--.
T Consensus 1 ~kV~vamSGGVDSsva----A~LLk~~G--~~V~Gv~m~~~~ 36 (356)
T PF03054_consen 1 KKVLVAMSGGVDSSVA----AALLKEQG--YDVIGVTMRNWD 36 (356)
T ss_dssp -EEEEE--SSHHHHHH----HHHHHHCT---EEEEEEEE-SS
T ss_pred CeEEEEccCCHHHHHH----HHHHHhhc--ccceEEEEEEec
Confidence 5899999887666433 33445555 688888885543
No 444
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=35.89 E-value=85 Score=18.87 Aligned_cols=35 Identities=20% Similarity=0.303 Sum_probs=26.6
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEE
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFT 40 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~ 40 (154)
-+.+++.+..+.++...++ +++.|+..| +++..+.
T Consensus 43 ~~dl~I~iS~SG~t~e~i~-~~~~a~~~g--~~iI~IT 77 (119)
T cd05017 43 RKTLVIAVSYSGNTEETLS-AVEQAKERG--AKIVAIT 77 (119)
T ss_pred CCCEEEEEECCCCCHHHHH-HHHHHHHCC--CEEEEEe
Confidence 3568999999988888886 556778777 6776665
No 445
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=35.84 E-value=1.8e+02 Score=21.60 Aligned_cols=67 Identities=15% Similarity=0.238 Sum_probs=36.1
Q ss_pred HHHHHHHHhcCCeEEEEEecC-C------hhhHHHHHHHhcCC----CEEE-EecCCCCCcccccccchhHHHh--hcCC
Q 031713 78 GRAKEICAKHGVVAETMTEMG-D------PKNVICEAAEKHKI----QLLI-VGSHSRGPIQRAFLGSVSNYCV--HNAK 143 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g-~------~~~~i~~~a~~~~~----dliv-lg~~~~~~~~~~~~gs~~~~l~--~~~~ 143 (154)
+.+.+.++..|+.+...+..+ . ..+.+.+.+.+.++ |+|| +|-.. .+.++..+. ....
T Consensus 43 ~~v~~~l~~~g~~~~~~v~~~~e~~~s~~~v~~~~~~l~~~~~~r~~d~IVaiGGG~--------v~D~ak~~A~~~~rg 114 (354)
T cd08199 43 KKLREYFAHHNIPLTILVLRAGEAAKTMDTVLKIVDALDAFGISRRREPVLAIGGGV--------LTDVAGLAASLYRRG 114 (354)
T ss_pred HHHHHHHHhcCCceEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCCEEEEECCcH--------HHHHHHHHHHHhcCC
Confidence 556666666777776544432 1 23444445556666 8888 55321 122222222 3446
Q ss_pred CcEEEEcCC
Q 031713 144 CPVLVVRKP 152 (154)
Q Consensus 144 ~pvliv~~~ 152 (154)
+|++.||-.
T Consensus 115 ~p~i~VPTT 123 (354)
T cd08199 115 TPYVRIPTT 123 (354)
T ss_pred CCEEEEcCc
Confidence 888888753
No 446
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=35.81 E-value=1.3e+02 Score=20.03 Aligned_cols=48 Identities=10% Similarity=0.082 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHh-cCCeEEEEEecCChhhHH----------------HHHHHhcCCCEEEEecCCC
Q 031713 74 LALLGRAKEICAK-HGVVAETMTEMGDPKNVI----------------CEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 74 ~~~l~~~~~~~~~-~~~~~~~~v~~g~~~~~i----------------~~~a~~~~~dlivlg~~~~ 123 (154)
+++.+.+.+.+++ .|++++..-+.......+ .+.. ..+|.||+|+...
T Consensus 16 ~~lA~~ia~g~~~~~G~ev~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l--~~aD~ii~gsPty 80 (200)
T PRK03767 16 ETMAEAVAEGAREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAPVATPDEL--ADYDAIIFGTPTR 80 (200)
T ss_pred HHHHHHHHHHHhhcCCcEEEEEeccccCCHHHHHhcCCCcccCCCccCHHHH--HhCCEEEEEeccc
Confidence 4555666666665 677766544432211111 2333 3899999999753
No 447
>TIGR01064 pyruv_kin pyruvate kinase. This enzyme is a homotetramer. Some forms are active only in the presence of fructose-1,6-bisphosphate or similar phosphorylated sugars.
Probab=35.75 E-value=1.1e+02 Score=23.95 Aligned_cols=45 Identities=22% Similarity=0.248 Sum_probs=33.2
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
..+....+.+...+++.||+-+.. |.++..+.+.-| |||+++-+.
T Consensus 360 ~ia~~a~~~a~~~~akaIVv~T~S---------G~TA~~vSr~rp~~PIiAvT~~ 405 (473)
T TIGR01064 360 AIALSAVEAAEKLDAKAIVVLTES---------GRTARLLSKYRPNAPIIAVTPN 405 (473)
T ss_pred HHHHHHHHHHhhcCCCEEEEEcCC---------hHHHHHHHhhCCCCCEEEEcCC
Confidence 355666778888999999998752 556677776655 999998654
No 448
>PF07972 Flavodoxin_NdrI: NrdI Flavodoxin like ; InterPro: IPR004465 Ribonucleotide reductases (RNRs) are enzymes that provide the precursors of DNA synthesis. The three characterised classes of RNRs differ by their metal cofactor and their stable organic radical. Class Ib RNR is encoded in four different genes: nrdH, nrdI, nrdE and nrdF []. The exact function of NrdI within the ribonucleotide reductases has not yet been fully characterised.; PDB: 1RLJ_A 3N39_C 3N3B_D 3N3A_C 2XOE_A 2XOD_A 2X2P_A 2X2O_A.
Probab=35.69 E-value=21 Score=22.09 Aligned_cols=47 Identities=15% Similarity=0.148 Sum_probs=29.5
Q ss_pred hhhHHHHHHH--hcCCCE-EEEecCCCCCcccccccchhHHHhhcCCCcEEE
Q 031713 100 PKNVICEAAE--KHKIQL-LIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLV 148 (154)
Q Consensus 100 ~~~~i~~~a~--~~~~dl-ivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvli 148 (154)
..+.+.++.+ ++..-+ =|+|+..+++... ++-.+..+..+..+|+|.
T Consensus 57 vp~~v~~FL~~~~N~~~l~GVigSGNrNfg~~--f~~aa~~ia~ky~VPll~ 106 (122)
T PF07972_consen 57 VPKQVIRFLENPDNRKLLRGVIGSGNRNFGDN--FCLAADKIAEKYGVPLLY 106 (122)
T ss_dssp S-HHHHHHHHSHHHGGGEEEEEEEE-GGGGGG--TTHHHHHHHHHHT--EEE
T ss_pred CCHHHHHHHHHHHHHhhheeEEecCCcHHHHH--HHHHHHHHHHHcCCCEEE
Confidence 6777777766 333333 3566665665443 788899999999999985
No 449
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=35.45 E-value=1.5e+02 Score=20.48 Aligned_cols=67 Identities=15% Similarity=0.151 Sum_probs=37.8
Q ss_pred HHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHh--hcCCCcEEEEcCC
Q 031713 77 LGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCV--HNAKCPVLVVRKP 152 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~--~~~~~pvliv~~~ 152 (154)
.+.+...+...|..+.+.- .| ++....++.. +|++++...-. ...++- +...+- .....||+++-..
T Consensus 13 ~~~l~~~L~~~g~~v~~~~-~~---~~a~~~~~~~-~dlviLD~~lP-~~dG~~---~~~~iR~~~~~~~PIi~Lta~ 81 (229)
T COG0745 13 AELLKEYLEEEGYEVDVAA-DG---EEALEAAREQ-PDLVLLDLMLP-DLDGLE---LCRRLRAKKGSGPPIIVLTAR 81 (229)
T ss_pred HHHHHHHHHHCCCEEEEEC-CH---HHHHHHHhcC-CCEEEEECCCC-CCCHHH---HHHHHHhhcCCCCcEEEEECC
Confidence 3455566666776654422 23 5556666666 99999997532 222211 223333 3456889988544
No 450
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=35.43 E-value=1.1e+02 Score=20.39 Aligned_cols=26 Identities=15% Similarity=0.162 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEecCC
Q 031713 72 AALALLGRAKEICAKHGVVAETMTEMGD 99 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~~v~~g~ 99 (154)
.....++++.+.+.+.++. ..+..||
T Consensus 25 ~~~~~~~~~~~~~~~~~~d--~i~~~GD 50 (223)
T cd00840 25 DQFEAFEEIVELAIEEKVD--FVLIAGD 50 (223)
T ss_pred HHHHHHHHHHHHHHhcCCC--EEEECCc
Confidence 3445556666666555544 3444554
No 451
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=35.38 E-value=1.9e+02 Score=21.67 Aligned_cols=84 Identities=13% Similarity=-0.012 Sum_probs=46.3
Q ss_pred chHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEE
Q 031713 14 ECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVAET 93 (154)
Q Consensus 14 ~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 93 (154)
+..+.++++|..+.+. + +++.--..+.+....+ ++ +.-.++-++.+.+..++.|+.+-+
T Consensus 112 Es~eq~l~~A~~lk~~-g--~~~~r~g~~kpRtsp~---sf---------------~G~g~~gl~~L~~~~~e~Gl~~~t 170 (352)
T PRK13396 112 ENEEMIVETAKRVKAA-G--AKFLRGGAYKPRTSPY---AF---------------QGHGESALELLAAAREATGLGIIT 170 (352)
T ss_pred cCHHHHHHHHHHHHHc-C--CCEEEeeeecCCCCCc---cc---------------CCchHHHHHHHHHHHHHcCCcEEE
Confidence 4456677777766554 4 5665544444322211 11 111233344455556677999877
Q ss_pred EEecCChhhHHHHHHHhcCCCEEEEecCCC
Q 031713 94 MTEMGDPKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 94 ~v~~g~~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
.+..-.-.+.+.+ . +|++=+|++.-
T Consensus 171 ev~d~~~v~~~~~----~-~d~lqIga~~~ 195 (352)
T PRK13396 171 EVMDAADLEKIAE----V-ADVIQVGARNM 195 (352)
T ss_pred eeCCHHHHHHHHh----h-CCeEEECcccc
Confidence 7755444444433 3 68888888753
No 452
>PRK00766 hypothetical protein; Provisional
Probab=35.32 E-value=1.4e+02 Score=20.19 Aligned_cols=58 Identities=21% Similarity=0.332 Sum_probs=36.9
Q ss_pred CCeEEEEEecC-ChhhHHHHHHHh----cCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 88 GVVAETMTEMG-DPKNVICEAAEK----HKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 88 ~~~~~~~v~~g-~~~~~i~~~a~~----~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
|+-+....+.| |..+.|++..+. .+..+|++..=.-+++- . --.+.|-+....||++|
T Consensus 42 Gv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFN--v--vD~~~l~~~tg~PVI~V 104 (194)
T PRK00766 42 GVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFN--V--VDIEELYRETGLPVIVV 104 (194)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeE--E--ecHHHHHHHHCCCEEEE
Confidence 44455556667 789999998876 34556666543322221 0 12367888888999999
No 453
>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=35.31 E-value=1.5e+02 Score=20.38 Aligned_cols=71 Identities=18% Similarity=0.125 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEec--CChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 74 LALLGRAKEICAKHGVVAETMTEM--GDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~--g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
....+.+.+.+++.|..+...... +++. ...++.....++|-||+........ .+.. ..+...++||+.+
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~-----~~~~-~~~~~~~iPvV~~ 88 (275)
T cd06320 15 RSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMINKGYKGLLFSPISDVNL-----VPAV-ERAKKKGIPVVNV 88 (275)
T ss_pred HHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHHhCCCEEEECCCChHHh-----HHHH-HHHHHCCCeEEEE
Confidence 344556666666678776554332 2332 3445555666899888764321111 1122 2345667888877
Q ss_pred c
Q 031713 150 R 150 (154)
Q Consensus 150 ~ 150 (154)
-
T Consensus 89 ~ 89 (275)
T cd06320 89 N 89 (275)
T ss_pred C
Confidence 4
No 454
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=35.12 E-value=1.6e+02 Score=20.62 Aligned_cols=71 Identities=13% Similarity=0.134 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...++.+.+.+++.|..+...-..+++. ..+++.+...++|-||+.......... ..+ .+...++||+.+-
T Consensus 15 ~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~-----~l~-~l~~~~ipvV~~~ 87 (288)
T cd01538 15 IRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMIAKGVDVLVIAPVDGEALAS-----AVE-KAADAGIPVIAYD 87 (288)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHH-----HHH-HHHHCCCCEEEEC
Confidence 4556666777777787765544333443 345555566789988886532111111 112 3445678888773
No 455
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=35.10 E-value=1.7e+02 Score=21.02 Aligned_cols=9 Identities=0% Similarity=-0.167 Sum_probs=5.3
Q ss_pred CeEEEEEec
Q 031713 34 SDLIIFTAR 42 (154)
Q Consensus 34 ~~l~~l~v~ 42 (154)
.++.+++..
T Consensus 161 ~~v~~l~~~ 169 (348)
T cd06350 161 TWVGLVYSD 169 (348)
T ss_pred eEEEEEEec
Confidence 466666653
No 456
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=35.09 E-value=1.5e+02 Score=22.21 Aligned_cols=44 Identities=11% Similarity=0.183 Sum_probs=27.0
Q ss_pred HHHHHHHHHhcCCeEEEEE-ecCC----hhhHHHHHHHhcCCCEEE-Eec
Q 031713 77 LGRAKEICAKHGVVAETMT-EMGD----PKNVICEAAEKHKIQLLI-VGS 120 (154)
Q Consensus 77 l~~~~~~~~~~~~~~~~~v-~~g~----~~~~i~~~a~~~~~dliv-lg~ 120 (154)
++++...++..|+++.+.. ...+ ..+.+.+.+++.++|+|| +|-
T Consensus 44 ~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 93 (383)
T cd08186 44 WDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIGG 93 (383)
T ss_pred HHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeCC
Confidence 4566666666777654332 1222 245667778889999987 553
No 457
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=35.04 E-value=1.4e+02 Score=20.03 Aligned_cols=68 Identities=16% Similarity=0.126 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...+.+.+.++..|+.+.......++ ....++.+...++|.||+.....+... -..+...++||+.+-
T Consensus 16 ~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~--------~~~~~~~~ipvv~~~ 85 (264)
T cd06267 16 ELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL--------LEELAALGIPVVLVD 85 (264)
T ss_pred HHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH--------HHHHHHcCCCEEEec
Confidence 33444555555567666544333343 234455566678998888754322111 234567778887763
No 458
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=34.88 E-value=2.7e+02 Score=23.21 Aligned_cols=101 Identities=14% Similarity=0.147 Sum_probs=67.3
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCC---------CCCeEEEEEeccCCch-hhcccCCCCCchHHHHHHHHHHHHH
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAI---------SKSDLIIFTARPTEFI-YVQASMFGAAPPDLLMSIQENQKKA 72 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~---------~~~~l~~l~v~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (154)
++.|=|+|.++.+...|+..|..+.+... .+.++.+.|-.+.... ..+ .. .+..+
T Consensus 577 ~~~v~vavEGNSsQdsaVaIa~~i~~~~~~~~~~~~~~~~~~~~F~H~~~~~~~v~~P--------~y-------ll~~~ 641 (738)
T PHA03368 577 FRSVRVAVEGNSSQDSAVAIATRIARELASLRASGVAPMPPSLLFYHCRPPGSAVAYP--------FF-------LLQKQ 641 (738)
T ss_pred ccEEEEEEecCccHHHHHHHHHHHHHHHhhhhhcccCCCCceeEEEeeCCCCCceeCc--------ch-------hhccc
Confidence 67788999999999999999988877642 0247888888877521 110 00 12223
Q ss_pred HHHHHHHHHHHHHhcCCeE-----EEEEe-cCChhhHHHHHHHhcCCCEEEEec
Q 031713 73 ALALLGRAKEICAKHGVVA-----ETMTE-MGDPKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 73 ~~~~l~~~~~~~~~~~~~~-----~~~v~-~g~~~~~i~~~a~~~~~dlivlg~ 120 (154)
.....+.+...+++-.+.. ...+. .-||.+-+++..+ ++.-+++|.
T Consensus 642 K~~Afe~Fi~~fNsg~i~aSQ~lvS~Ti~l~~DPv~YL~~Qi~--ni~~~~~~~ 693 (738)
T PHA03368 642 KTPAFDHFIKRFNSGRVMASQELVSNTVRLQTDPVEYLTKQLK--NLTEVVTGG 693 (738)
T ss_pred hhHHHHHHHHHhcCCceEeeeeeeeeeeeeccChHHHHHHHHh--hcEEEecCC
Confidence 3455667777777654542 22232 3489999999999 888899955
No 459
>PTZ00300 pyruvate kinase; Provisional
Probab=34.85 E-value=1.2e+02 Score=23.50 Aligned_cols=44 Identities=18% Similarity=0.303 Sum_probs=32.4
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
.+....+.+...++++||+-++. |.++..+.+.-| |||+.+-+.
T Consensus 336 ia~sa~~~a~~l~a~aIiv~T~s---------G~tA~~vs~~RP~~pIia~t~~ 380 (454)
T PTZ00300 336 VCSSAVNSVYETKAKALVVLSNT---------GRSARLVAKYRPNCPIVCVTTR 380 (454)
T ss_pred HHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 45566677889999999887652 556777777655 999988544
No 460
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=34.76 E-value=1.6e+02 Score=20.61 Aligned_cols=50 Identities=14% Similarity=0.031 Sum_probs=27.2
Q ss_pred ecCC---hhhHHHHHHHhcCCCE-EEEecCCCCCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 96 EMGD---PKNVICEAAEKHKIQL-LIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 96 ~~g~---~~~~i~~~a~~~~~dl-ivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
..|+ +.+.+.+.++ ++|+ ||||++..-.... +.. ...+....|+++|-..
T Consensus 155 ~FGE~~~~~~~~~~~~~--~~DlllviGTSl~V~pa~----~l~-~~a~~~g~~vi~IN~~ 208 (242)
T PTZ00408 155 WFGEMPLYMDEIESVMS--KTDLFVAVGTSGNVYPAA----GFV-GRAQFYGATTLELNLE 208 (242)
T ss_pred EcCCCCCcHHHHHHHHH--hCCEEEEEccCCccccHH----HHH-HHHHHcCCeEEEECCC
Confidence 3465 3455666666 6787 6677764322211 111 2345567888887544
No 461
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=34.37 E-value=1.6e+02 Score=20.35 Aligned_cols=49 Identities=10% Similarity=0.097 Sum_probs=30.2
Q ss_pred hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 101 KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 101 ~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
...+.+.+.+.++|.|++....+.....-..-....++...+++||+..
T Consensus 151 ~~~~~~~l~~~G~d~i~v~~i~~~g~~~g~~~~~i~~i~~~~~~pvia~ 199 (243)
T cd04731 151 AVEWAKEVEELGAGEILLTSMDRDGTKKGYDLELIRAVSSAVNIPVIAS 199 (243)
T ss_pred HHHHHHHHHHCCCCEEEEeccCCCCCCCCCCHHHHHHHHhhCCCCEEEe
Confidence 3455667778899988775543322111122245577777788998875
No 462
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=34.31 E-value=2.1e+02 Score=21.77 Aligned_cols=15 Identities=33% Similarity=0.525 Sum_probs=11.0
Q ss_pred ChhhHHHHHHHhcCC
Q 031713 99 DPKNVICEAAEKHKI 113 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~ 113 (154)
++.++|.+.+++++.
T Consensus 148 npl~~I~~~~k~~g~ 162 (383)
T COG0075 148 NPLKEIAKAAKEHGA 162 (383)
T ss_pred CcHHHHHHHHHHcCC
Confidence 677888888877754
No 463
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=34.18 E-value=1.6e+02 Score=20.40 Aligned_cols=90 Identities=17% Similarity=0.101 Sum_probs=52.7
Q ss_pred EEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031713 5 KVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEIC 84 (154)
Q Consensus 5 ~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 84 (154)
++++...+...|.-|+..+.+- .. -+.++.+.+...... .+. ..-++.+...+
T Consensus 2 kv~vl~SGGKDS~lAl~~~~~~---~~---V~~L~~~~~~~~~s~---~~h------------------~~~~~~~~~qA 54 (222)
T TIGR00289 2 KVAVLYSGGKDSILALYKALEE---HE---VISLVGVFSENEESY---MFH------------------SPNLHLTDLVA 54 (222)
T ss_pred eEEEEecCcHHHHHHHHHHHHc---Ce---eEEEEEEcCCCCCcc---ccc------------------cCCHHHHHHHH
Confidence 5888889988888777777652 22 456666655532111 000 00123334445
Q ss_pred HhcCCeEEEEEecC---ChhhHHHHHHHhcCCCEEEEecC
Q 031713 85 AKHGVVAETMTEMG---DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 85 ~~~~~~~~~~v~~g---~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+..|++.......| +..+.+.+..++.+++-+|.|.=
T Consensus 55 ~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI 94 (222)
T TIGR00289 55 EAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAI 94 (222)
T ss_pred HHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCEEEECcc
Confidence 55688765444444 34556666677778999999874
No 464
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=34.18 E-value=93 Score=21.10 Aligned_cols=60 Identities=10% Similarity=0.037 Sum_probs=29.8
Q ss_pred HHHHHHHHHhc-CCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhh
Q 031713 77 LGRAKEICAKH-GVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVH 140 (154)
Q Consensus 77 l~~~~~~~~~~-~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~ 140 (154)
...+.+.+... |.++....... .....+... ++|.|+++-.......+.+.++-...+++
T Consensus 48 ~~~~~~a~~~l~G~~~~~~~~~~--~~~~~~~l~--~ad~I~l~GG~~~~~~~~l~~~~l~~~l~ 108 (212)
T cd03146 48 TARFYAAFESLRGVEVSHLHLFD--TEDPLDALL--EADVIYVGGGNTFNLLAQWREHGLDAILK 108 (212)
T ss_pred HHHHHHHHhhccCcEEEEEeccC--cccHHHHHh--cCCEEEECCchHHHHHHHHHHcCHHHHHH
Confidence 33445555555 66654433222 344455555 89999998632222223333333344444
No 465
>COG1830 FbaB DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]
Probab=34.01 E-value=1.8e+02 Score=20.87 Aligned_cols=71 Identities=10% Similarity=0.054 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHhcCCeEEE-EEecCC-h----------hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHh
Q 031713 72 AALALLGRAKEICAKHGVVAET-MTEMGD-P----------KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCV 139 (154)
Q Consensus 72 ~~~~~l~~~~~~~~~~~~~~~~-~v~~g~-~----------~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~ 139 (154)
+.-+.+.++...+.++|.++-. ....|+ . .....+.+.+.++|+|=....+.. ..-+.++
T Consensus 127 ~~i~~~~~v~~~a~~~Gmp~v~~~YpRg~~~~~~~~~d~~~v~~aaRlaaelGADIiK~~ytg~~--------e~F~~vv 198 (265)
T COG1830 127 EMIENISQVVEDAHELGMPLVAWAYPRGPAIKDEYHRDADLVGYAARLAAELGADIIKTKYTGDP--------ESFRRVV 198 (265)
T ss_pred HHHHHHHHHHHHHHHcCCceEEEEeccCCcccccccccHHHHHHHHHHHHHhcCCeEeecCCCCh--------HHHHHHH
Confidence 3445567788888889988433 333342 2 112234677899998876654322 1227799
Q ss_pred hcCCCcEEEEc
Q 031713 140 HNAKCPVLVVR 150 (154)
Q Consensus 140 ~~~~~pvliv~ 150 (154)
..|++||++--
T Consensus 199 ~~~~vpVviaG 209 (265)
T COG1830 199 AACGVPVVIAG 209 (265)
T ss_pred HhCCCCEEEeC
Confidence 99999999863
No 466
>PRK08005 epimerase; Validated
Probab=33.92 E-value=1.6e+02 Score=20.23 Aligned_cols=27 Identities=15% Similarity=0.051 Sum_probs=20.2
Q ss_pred EecCChhhHHHHHHHhcCCCEEEEecC
Q 031713 95 TEMGDPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 95 v~~g~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
-..|.....-+..+.+.++|.+|+|+.
T Consensus 167 ~VDGGI~~~~i~~l~~aGad~~V~Gsa 193 (210)
T PRK08005 167 WADGGITLRAARLLAAAGAQHLVIGRA 193 (210)
T ss_pred EEECCCCHHHHHHHHHCCCCEEEEChH
Confidence 345766666666777789999999953
No 467
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=33.79 E-value=94 Score=18.69 Aligned_cols=39 Identities=23% Similarity=0.258 Sum_probs=29.0
Q ss_pred cEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCC
Q 031713 4 KKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTE 45 (154)
Q Consensus 4 ~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~ 45 (154)
+.+++.+..+.++...++.+ +.|+..| +++..+.-.+..
T Consensus 48 ~d~vi~iS~sG~t~~~~~~~-~~a~~~g--~~vi~iT~~~~s 86 (128)
T cd05014 48 GDVVIAISNSGETDELLNLL-PHLKRRG--APIIAITGNPNS 86 (128)
T ss_pred CCEEEEEeCCCCCHHHHHHH-HHHHHCC--CeEEEEeCCCCC
Confidence 56889999998888888654 5678766 777777665543
No 468
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=33.77 E-value=69 Score=20.37 Aligned_cols=55 Identities=15% Similarity=0.207 Sum_probs=27.1
Q ss_pred CChhhHHHHHHHhcCCCEEEEecCCC----------CCcccccccchhHHHhhcCCCcEEEEcCC
Q 031713 98 GDPKNVICEAAEKHKIQLLIVGSHSR----------GPIQRAFLGSVSNYCVHNAKCPVLVVRKP 152 (154)
Q Consensus 98 g~~~~~i~~~a~~~~~dlivlg~~~~----------~~~~~~~~gs~~~~l~~~~~~pvliv~~~ 152 (154)
++....+.+.++...+|++++-.... +.-.+.-+......++...+.|+++++..
T Consensus 94 ~~~~~~l~~~~~~~~yd~v~~l~~~~~~~~D~~R~~~~~~r~~~~~~~~~~l~~~~~~~~~v~~g 158 (163)
T PF13521_consen 94 GDYPEELEREARLSRYDLVFLLPPDPPWEQDGVRPEDPEERERIDELLKELLERHGIPYIIVPSG 158 (163)
T ss_dssp S---HHHHHHHHHS--SEEEEEE----------------SHHHHHHHHHHHHHGGG---EEEE-S
T ss_pred CcchHHHHHHHHhCCCCEEEEeCCccccCCCCCCCCCHHHHHHHHHHHHHHHHHCCCeEEEeCCC
Confidence 34455677777788899988854321 11122234445567888889999999643
No 469
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=33.68 E-value=1.8e+02 Score=20.74 Aligned_cols=41 Identities=10% Similarity=0.043 Sum_probs=25.5
Q ss_pred HHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCC
Q 031713 78 GRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHS 122 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~ 122 (154)
..+.+.+++.|+++...... +.+.+..++.++|+++...++
T Consensus 26 ~~i~~al~~~g~~v~~i~~~----~~~~~~~~~~~~D~v~~~~~g 66 (304)
T PRK01372 26 AAVLAALREAGYDAHPIDPG----EDIAAQLKELGFDRVFNALHG 66 (304)
T ss_pred HHHHHHHHHCCCEEEEEecC----cchHHHhccCCCCEEEEecCC
Confidence 45555556678776554322 234555566789999987554
No 470
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=33.54 E-value=1.2e+02 Score=20.54 Aligned_cols=41 Identities=15% Similarity=0.044 Sum_probs=32.1
Q ss_pred CcEEEEEecCCchHHHHHHHHHHHcccCCCCCeEEEEEeccCCc
Q 031713 3 KKKVMVAIDESECRHYALQWALENLGDAISKSDLIIFTARPTEF 46 (154)
Q Consensus 3 ~~~iLv~vd~~~~~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~ 46 (154)
-..+++.+..|..+..++ .+++.|+..| .++..+.-.+...
T Consensus 109 ~gDvli~iS~SG~s~~v~-~a~~~Ak~~G--~~vI~IT~~~~s~ 149 (196)
T PRK10886 109 AGDVLLAISTRGNSRDIV-KAVEAAVTRD--MTIVALTGYDGGE 149 (196)
T ss_pred CCCEEEEEeCCCCCHHHH-HHHHHHHHCC--CEEEEEeCCCCCh
Confidence 357899999998888766 4778999988 7888887765544
No 471
>PF12048 DUF3530: Protein of unknown function (DUF3530); InterPro: IPR022529 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 272 to 336 amino acids in length. These proteins are distantly related to alpa/beta hydrolases so they may act as enzymes.
Probab=33.26 E-value=1.9e+02 Score=21.04 Aligned_cols=81 Identities=14% Similarity=0.115 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcC---CC-EEEEecCCCCCcccccccchhHHHh
Q 031713 64 SIQENQKKAALALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHK---IQ-LLIVGSHSRGPIQRAFLGSVSNYCV 139 (154)
Q Consensus 64 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~---~d-livlg~~~~~~~~~~~~gs~~~~l~ 139 (154)
+.....+......++.+...+++.|..-.+.+..|.-+..+.++..+.. +| ||+++.+...... .......+
T Consensus 167 ~~~~~~~~~~~ari~Aa~~~~~~~~~~~ivlIg~G~gA~~~~~~la~~~~~~~daLV~I~a~~p~~~~----n~~l~~~l 242 (310)
T PF12048_consen 167 EAREAYEERLFARIEAAIAFAQQQGGKNIVLIGHGTGAGWAARYLAEKPPPMPDALVLINAYWPQPDR----NPALAEQL 242 (310)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeChhHHHHHHHHhcCCCcccCeEEEEeCCCCcchh----hhhHHHHh
Confidence 4555566677777788888888888775566778988888888766655 34 4555554333222 12224456
Q ss_pred hcCCCcEEE
Q 031713 140 HNAKCPVLV 148 (154)
Q Consensus 140 ~~~~~pvli 148 (154)
...+.|||=
T Consensus 243 a~l~iPvLD 251 (310)
T PF12048_consen 243 AQLKIPVLD 251 (310)
T ss_pred hccCCCEEE
Confidence 668888873
No 472
>PF00496 SBP_bac_5: Bacterial extracellular solute-binding proteins, family 5 Middle; InterPro: IPR000914 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins and a high affinity periplasmic solute-binding protein. The latter are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into Gram-positive bacteria which are surrounded by a single membrane and therefore have no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homologue proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute throught the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped [] into eight families of clusters, which generally correlate with the nature of the solute bound. Family 5 currently includes periplasmic oligopeptide-binding proteins (oppA) of Gram-negative bacteria and homologous lipoproteins in Gram-positive bacteria (oppA, amiA or appA); periplasmic dipeptide-binding proteins of Escherichia coli (dppA) and Bacillus subtilis (dppE); periplasmic murein peptide-binding protein of E. coli (mppA); periplasmic peptide-binding proteins sapA of E. coli, Salmonella typhimurium and Haemophilus influenzae; periplasmic nickel-binding protein (nikA) of E. coli; haem-binding lipoprotein (hbpA or dppA) from H. influenzae; lipoprotein xP55 from Streptomyces lividans; and hypothetical proteins from H. influenzae (HI0213) and Rhizobium sp. (strain NGR234) symbiotic plasmid (y4tO and y4wM).; GO: 0005215 transporter activity, 0006810 transport; PDB: 1B51_A 1B0H_A 1QKA_A 1B9J_A 1B6H_A 1OLA_A 1B3L_C 1JEV_A 1B5H_A 1JET_A ....
Probab=33.17 E-value=1.7e+02 Score=21.32 Aligned_cols=48 Identities=13% Similarity=0.054 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
....+.+.+.+++.|++++...... ...........++|+.+.|..+.
T Consensus 308 ~~~a~~l~~~l~~~Gi~v~i~~~~~--~~~~~~~~~~~~~d~~~~~~~~~ 355 (374)
T PF00496_consen 308 KAIAEALQEQLKKIGIKVEIKPVDF--NDTYDKRLRAGDFDMALSGWSGD 355 (374)
T ss_dssp HHHHHHHHHHHHHTTEEEEEEEESH--HHHHHHHHHCTSESEEEEEEESS
T ss_pred HHHHHHHHHHHhhcceeEEEEEeCh--HHHHHHHhhCCCcCEEEEecCCC
Confidence 4566777777778898887777632 25566678889999999987643
No 473
>TIGR03572 WbuZ glycosyl amidation-associated protein WbuZ. This clade of sequences is highly similar to the HisF protein, but generally represents the second HisF homolog in the genome where the other is an authentic HisF observed in the context of a complete histidine biosynthesis operon. The similarity between these WbuZ sequences and true HisFs is such that often the closest match by BLAST of a WbuZ is a HisF. Only by making a multiple sequence alignment is the homology relationship among the WbuZ sequences made apparent. WbuZ genes are invariably observed in the presence of a homolog of the HisH protein (designated WbuY) and a proposed N-acetyl sugar amidotransferase designated in WbuX in E. coli, IfnA in P. aeriginosa and PseA in C. jejuni. Similarly, this trio of genes is invariably found in the context of saccharide biosynthesis loci. It has been shown that the WbuYZ homologs are not essential components of the activity expressed by WbuX, leading to the proposal that these to pr
Probab=33.07 E-value=1.6e+02 Score=20.11 Aligned_cols=47 Identities=13% Similarity=0.086 Sum_probs=30.2
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCC-cccccccchhHHHhhcCCCcEEEE
Q 031713 102 NVICEAAEKHKIQLLIVGSHSRGP-IQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~~~~-~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
..+.+...+.++|.|++....+.. ..+. .=....++...++.||+..
T Consensus 156 ~~~~~~~~~~G~d~i~i~~i~~~g~~~g~-~~~~~~~i~~~~~ipvia~ 203 (232)
T TIGR03572 156 VEWAREAEQLGAGEILLNSIDRDGTMKGY-DLELIKTVSDAVSIPVIAL 203 (232)
T ss_pred HHHHHHHHHcCCCEEEEeCCCccCCcCCC-CHHHHHHHHhhCCCCEEEE
Confidence 456677778899988887643322 2222 2235577778888998875
No 474
>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=32.94 E-value=61 Score=22.85 Aligned_cols=46 Identities=13% Similarity=0.150 Sum_probs=27.6
Q ss_pred hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 102 NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 102 ~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
.......++.+.|++|+.+...... -..-+..++....+|.+|+-+
T Consensus 49 ~~~~~~~~~~~pdf~I~isPN~~~P----GP~~ARE~l~~~~iP~IvI~D 94 (276)
T PF01993_consen 49 EVVTKMLKEWDPDFVIVISPNAAAP----GPTKAREMLSAKGIPCIVISD 94 (276)
T ss_dssp HHHHHHHHHH--SEEEEE-S-TTSH----HHHHHHHHHHHSSS-EEEEEE
T ss_pred HHHHHHHHhhCCCEEEEECCCCCCC----CcHHHHHHHHhCCCCEEEEcC
Confidence 3344456788999999987643322 234567888889999998854
No 475
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=32.84 E-value=1.4e+02 Score=22.30 Aligned_cols=45 Identities=16% Similarity=0.265 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhcCCeEEEEE-ecCCh----hhHHHHHHHhcCCCEEE-Eec
Q 031713 76 LLGRAKEICAKHGVVAETMT-EMGDP----KNVICEAAEKHKIQLLI-VGS 120 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v-~~g~~----~~~i~~~a~~~~~dliv-lg~ 120 (154)
..+++...+++.|+.+...- ...++ ...+.+.+++.++|.|| +|-
T Consensus 46 ~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGG 96 (382)
T PRK10624 46 VVAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIGG 96 (382)
T ss_pred chHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCC
Confidence 34566667777787654431 12232 23455677889999887 553
No 476
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=32.79 E-value=1e+02 Score=23.09 Aligned_cols=26 Identities=19% Similarity=0.302 Sum_probs=15.6
Q ss_pred CChhhHHHHHH-HhcCCCEEEEecCCC
Q 031713 98 GDPKNVICEAA-EKHKIQLLIVGSHSR 123 (154)
Q Consensus 98 g~~~~~i~~~a-~~~~~dlivlg~~~~ 123 (154)
|+-.+.+++.+ ++.++.+|.+.+.+.
T Consensus 103 GdDi~~v~~~~~~~~~~~vi~v~t~gf 129 (406)
T cd01967 103 GDDIEAVAKEASKELGIPVIPVNCEGF 129 (406)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCCe
Confidence 65555555544 356677777776653
No 477
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=32.79 E-value=1.2e+02 Score=23.10 Aligned_cols=50 Identities=8% Similarity=-0.063 Sum_probs=32.5
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
..+.|.+.+++.++|-+|.-....=.....-...+-..+.....+|++.+
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~~~~~l~e~~GIP~L~i 387 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSAGQLLMMREIEKRTGKPAAFI 387 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchhhhHHHHHHHHHHcCCCEEEE
Confidence 46678889999999999987654221111112223355556689999988
No 478
>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=32.73 E-value=1.4e+02 Score=19.25 Aligned_cols=22 Identities=9% Similarity=-0.003 Sum_probs=16.3
Q ss_pred ChhhHHHHHHHhcCCCEEEEec
Q 031713 99 DPKNVICEAAEKHKIQLLIVGS 120 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~ 120 (154)
-..+.+.++.++.++|+||--.
T Consensus 76 ~~~~~l~~~l~~~~PD~IIsTh 97 (169)
T PF06925_consen 76 LFARRLIRLLREFQPDLIISTH 97 (169)
T ss_pred HHHHHHHHHHhhcCCCEEEECC
Confidence 3456788888899999777554
No 479
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=32.69 E-value=1.6e+02 Score=20.04 Aligned_cols=71 Identities=13% Similarity=0.201 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCChhh--HHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEcC
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDPKN--VICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVRK 151 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~~~--~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~~ 151 (154)
..+++.+.+.+++.|..+.......++.+ ..++.....++|-||+-...... . ....+....++||+.+-.
T Consensus 15 ~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~-~------~~~~l~~~~~ipvV~i~~ 87 (269)
T cd06275 15 AEVVRGVEQYCYRQGYNLILCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYDQ-P------LLAMLERYRHIPMVVMDW 87 (269)
T ss_pred HHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCCh-H------HHHHHHhcCCCCEEEEec
Confidence 34556666667777877654332334433 44455666788988885432111 0 112233345788888743
No 480
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=32.67 E-value=1e+02 Score=23.32 Aligned_cols=25 Identities=32% Similarity=0.549 Sum_probs=15.0
Q ss_pred CChhhHHHHHHH-hcCCCEEEEecCC
Q 031713 98 GDPKNVICEAAE-KHKIQLLIVGSHS 122 (154)
Q Consensus 98 g~~~~~i~~~a~-~~~~dlivlg~~~ 122 (154)
|+-.+.+++.++ +.++.++.+.+.+
T Consensus 102 GdDi~~v~~~~~~~~~~~vi~v~t~g 127 (410)
T cd01968 102 GDDIDAVCKTASEKFGIPVIPVHSPG 127 (410)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEECCC
Confidence 655555555443 4566777776655
No 481
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=32.66 E-value=1.4e+02 Score=22.62 Aligned_cols=54 Identities=19% Similarity=0.172 Sum_probs=29.3
Q ss_pred HhcCCe-EEEEEecCChh----------hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC
Q 031713 85 AKHGVV-AETMTEMGDPK----------NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK 143 (154)
Q Consensus 85 ~~~~~~-~~~~v~~g~~~----------~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~ 143 (154)
+.++.+ +..+...+++. +.+-+.++..+.-+++.|+.....-.. +.+..+..+.
T Consensus 150 ~~~~aD~Ialr~~S~DP~~~d~~~~e~a~~vk~V~~av~vPLIL~gsg~~~kD~e-----VLeaaLe~~~ 214 (389)
T TIGR00381 150 KEFGADMVTIHLISTDPKLDDKSPSEAAKVLEDVLQAVDVPIVIGGSGNPEKDPL-----VLEKAAEVAE 214 (389)
T ss_pred HHhCCCEEEEEecCCCccccccCHHHHHHHHHHHHHhCCCCEEEeCCCCCcCCHH-----HHHHHHHHhC
Confidence 445666 44445455443 333444566788888887754332222 4455565554
No 482
>PLN02461 Probable pyruvate kinase
Probab=32.60 E-value=1.4e+02 Score=23.69 Aligned_cols=42 Identities=21% Similarity=0.270 Sum_probs=31.9
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEc
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVR 150 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~ 150 (154)
.+....+.|...++++||+-++ .|.++..+.+.-| |||+.+-
T Consensus 383 ia~sav~~A~~l~a~aIiv~T~---------sG~tA~~iSk~RP~~pIia~t 425 (511)
T PLN02461 383 LASSAVRTANKVKASLIVVLTR---------GGTTARLVAKYRPAVPILSVV 425 (511)
T ss_pred HHHHHHHHHHhCCCCEEEEECC---------CcHHHHHHHhhCCCCCEEEEe
Confidence 5556667788999999998865 2557777777766 9999984
No 483
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=32.59 E-value=1.4e+02 Score=19.10 Aligned_cols=56 Identities=11% Similarity=0.001 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHcccCCCCCeEEEEEeccCCchhhcccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCeE
Q 031713 16 RHYALQWALENLGDAISKSDLIIFTARPTEFIYVQASMFGAAPPDLLMSIQENQKKAALALLGRAKEICAKHGVVA 91 (154)
Q Consensus 16 ~~~~l~~a~~la~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 91 (154)
...+++-..++|++.+ ++-.++|=+.--.... ..=..+.+.++.+.+.+.+.|.++
T Consensus 56 v~~av~eI~~~a~kv~--~~~ivlyPyAHLSs~L------------------a~P~~A~~iL~~le~~L~~~g~eV 111 (138)
T PF08915_consen 56 VEKAVEEIKWVAKKVK--AKRIVLYPYAHLSSSL------------------ASPDVAVEILKKLEERLKSRGFEV 111 (138)
T ss_dssp HHHHHHHHHHHHHHTT---SEEEEEE-GGGSSSB--------------------HHHHHHHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHHHHHHhcC--CCEEEEeCcccccCCc------------------CChHHHHHHHHHHHHHHHhCCCeE
Confidence 4577777888999977 7778887655433222 122345677788888887777764
No 484
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=32.58 E-value=81 Score=24.02 Aligned_cols=26 Identities=19% Similarity=0.265 Sum_probs=14.7
Q ss_pred CChhhHHHHHHH-hcCCCEEEEecCCC
Q 031713 98 GDPKNVICEAAE-KHKIQLLIVGSHSR 123 (154)
Q Consensus 98 g~~~~~i~~~a~-~~~~dlivlg~~~~ 123 (154)
|+-.+.+++.++ +.++.+|.+.+.+.
T Consensus 105 GdDi~~v~~~~~~~~~~pvi~v~t~gf 131 (426)
T cd01972 105 GDDVESVVEELEDEIGIPVVALHCEGF 131 (426)
T ss_pred ccCHHHHHHHHHHhhCCCEEEEeCCcc
Confidence 554555555443 55677777766543
No 485
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=32.56 E-value=48 Score=21.15 Aligned_cols=36 Identities=17% Similarity=0.312 Sum_probs=29.6
Q ss_pred CCeEEEEEecCChhhHHHHHHHhcCCCEEEEecCCC
Q 031713 88 GVVAETMTEMGDPKNVICEAAEKHKIQLLIVGSHSR 123 (154)
Q Consensus 88 ~~~~~~~v~~g~~~~~i~~~a~~~~~dlivlg~~~~ 123 (154)
.+.+.-.++.|.+...=.+..++.++|.+++|.-..
T Consensus 62 s~ryVD~vi~~~p~~~~~~~i~~~k~Div~lG~D~~ 97 (140)
T COG0615 62 SLRYVDEVILGAPWDIKFEDIEEYKPDIVVLGDDQK 97 (140)
T ss_pred cCcchheeeeCCccccChHHHHHhCCCEEEECCCCc
Confidence 455666788898888878999999999999997654
No 486
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=32.52 E-value=1.8e+02 Score=20.63 Aligned_cols=44 Identities=11% Similarity=0.050 Sum_probs=22.9
Q ss_pred HHHHHHHHhcCCeEEEEEec--C-ChhhHHHHHHHhcCCCEEEEecC
Q 031713 78 GRAKEICAKHGVVAETMTEM--G-DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 78 ~~~~~~~~~~~~~~~~~v~~--g-~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+.+.+.++..|+++...... + .....++..++..++|.|++...
T Consensus 153 ~~~~~~~~~~g~~v~~~~~~~~~~~d~~~~l~~i~~~~~~~vi~~~~ 199 (334)
T cd06342 153 DEFKKALKAAGGKVVAREGTTDGATDFSAILTKIKAANPDAVFFGGY 199 (334)
T ss_pred HHHHHHHHHcCCEEEEEecCCCCCccHHHHHHHHHhcCCCEEEEcCc
Confidence 34444444556665443322 2 23444555556667777776543
No 487
>PF02514 CobN-Mg_chel: CobN/Magnesium Chelatase; InterPro: IPR003672 This family contains a domain common to the cobN protein and to magnesium protoporphyrin chelatase. CobN may play a role in cobalt insertion reactions and is implicated in the conversion of precorrin-2 to cobyrinic acid in cobalamin biosynthesis []. Magnesium protoporphyrin chelatase is involved in chlorophyll biosynthesis as the third subunit of light-independent protochlorophyllide reductase in bacteria and plants [].; GO: 0009058 biosynthetic process
Probab=32.50 E-value=3.5e+02 Score=23.89 Aligned_cols=72 Identities=13% Similarity=0.042 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecC--ChhhHHHHHHHh---cCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMG--DPKNVICEAAEK---HKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g--~~~~~i~~~a~~---~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
...+.+.+.+++.|+++-.....+ +..+.+.++... ..+|+||--..-...... .+ -...++...++||+-.
T Consensus 89 ~~vdaLI~~LE~~G~nvipvf~~~~~~~~~~i~~~f~~~g~~~vDaIIn~~~f~l~~~~--~~-~~~~~L~~LnVPVlq~ 165 (1098)
T PF02514_consen 89 AVVDALIRALEERGLNVIPVFCSSGPDSQEAIEDYFMDDGKPRVDAIINLTGFSLGGGP--AG-GAIELLKELNVPVLQA 165 (1098)
T ss_pred HHHHHHHHHHHHCCCeEEEEEecCccchHHHHHHHHhhcCCCCceEEEEcCccccCCCC--cc-hhHHHHHHCCCCEEEe
Confidence 456777788888899876666554 466677787776 789988776542111110 01 1678999999999753
No 488
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=32.45 E-value=69 Score=19.34 Aligned_cols=19 Identities=21% Similarity=0.324 Sum_probs=10.2
Q ss_pred HHHHHHHhcCCCEEEEecC
Q 031713 103 VICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 103 ~i~~~a~~~~~dlivlg~~ 121 (154)
.++...+..++-+||+...
T Consensus 32 ~vlkalk~gkaklViiA~D 50 (108)
T PTZ00106 32 STLKALRNGKAKLVIISNN 50 (108)
T ss_pred HHHHHHHcCCeeEEEEeCC
Confidence 3444445556666666554
No 489
>PRK01215 competence damage-inducible protein A; Provisional
Probab=32.41 E-value=1.9e+02 Score=20.63 Aligned_cols=41 Identities=12% Similarity=0.099 Sum_probs=25.6
Q ss_pred HHHHHHHhcCCeEEEEEecCChhhHHHHHHHh--cCCCEEEEe
Q 031713 79 RAKEICAKHGVVAETMTEMGDPKNVICEAAEK--HKIQLLIVG 119 (154)
Q Consensus 79 ~~~~~~~~~~~~~~~~v~~g~~~~~i~~~a~~--~~~dlivlg 119 (154)
.+.+.+.+.|+++......+|-.+.|.+..++ .++|+||+.
T Consensus 27 ~l~~~L~~~G~~v~~~~~v~Dd~~~I~~~l~~a~~~~DlVItt 69 (264)
T PRK01215 27 WIARRLTYLGYTVRRITVVMDDIEEIVSAFREAIDRADVVVST 69 (264)
T ss_pred HHHHHHHHCCCeEEEEEEeCCCHHHHHHHHHHHhcCCCEEEEe
Confidence 44555677899887766666554444444322 257988886
No 490
>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=32.28 E-value=1.7e+02 Score=20.11 Aligned_cols=71 Identities=14% Similarity=0.088 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEecCCh--hhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 74 LALLGRAKEICAKHGVVAETMTEMGDP--KNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v~~g~~--~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
...++.+.+.+++.|.++...-..++. ...+++.+...++|-||+.......... . -+.+...+.||+.+-
T Consensus 15 ~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~-----~-i~~~~~~~iPvV~~~ 87 (273)
T cd06309 15 TAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDP-----V-LKEAKAAGIPVILVD 87 (273)
T ss_pred HHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchH-----H-HHHHHHCCCCEEEEe
Confidence 456667777777788776554333333 2244555666789999886532111111 1 123456678888774
No 491
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=32.28 E-value=2.3e+02 Score=21.68 Aligned_cols=61 Identities=15% Similarity=0.181 Sum_probs=44.0
Q ss_pred EEEEEecC--ChhhHHHHHHHhcCCCEEEEecCCCCCcc--cccccchhHHHhhcC---CCcEEEEcC
Q 031713 91 AETMTEMG--DPKNVICEAAEKHKIQLLIVGSHSRGPIQ--RAFLGSVSNYCVHNA---KCPVLVVRK 151 (154)
Q Consensus 91 ~~~~v~~g--~~~~~i~~~a~~~~~dlivlg~~~~~~~~--~~~~gs~~~~l~~~~---~~pvliv~~ 151 (154)
++.+++-. ..-+++..++++.++..+|+|..=.+.-+ ..+..+++.++.++- +.|++++-.
T Consensus 248 v~~~iIasn~~sleaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~g~Pf~~P~~llsG 315 (422)
T COG2379 248 VENRIIASNRLSLEAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARRGRPFKKPVVLLSG 315 (422)
T ss_pred ceeEEEechHHHHHHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHcCCCCCCCEEEEEC
Confidence 44555443 57888889999999999999985433333 357778888888766 588888743
No 492
>cd00288 Pyruvate_Kinase Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low affinity T state. PK exists as several different isozymes, depending on organism and tissue type. In mammals, there are four PK isozymes: R, found in red blood cells, L, found in liver, M1, found in skeletal muscle, and M2, found in kidney, adipose tissue, and lung. PK forms a homotetramer, with each subunit containing three domains. The T state to R state transition of PK is more complex than in most allosteric enzymes, involving a concerted rotation of all 3 domains of each monomer in the homotetramer.
Probab=32.17 E-value=1.4e+02 Score=23.37 Aligned_cols=44 Identities=16% Similarity=0.191 Sum_probs=31.3
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
.+....+.+++.+++.||+-+.. |.++..+.+.-| +||+.+.+.
T Consensus 363 ia~sAv~~A~~l~akaIVv~T~S---------G~TA~~lS~~RP~~pIiavT~~ 407 (480)
T cd00288 363 VAMSAVRAAFELGAKAIVVLTTS---------GRTARLVSKYRPNAPIIAVTRN 407 (480)
T ss_pred HHHHHHHHHHhcCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEEcCC
Confidence 45556677888899989888752 456666776544 999998654
No 493
>COG2201 CheB Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]
Probab=32.11 E-value=2.2e+02 Score=21.36 Aligned_cols=50 Identities=10% Similarity=0.060 Sum_probs=35.1
Q ss_pred cCChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 97 MGDPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 97 ~g~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
.......-++.+++.+.|.|.|.-.-.. ... -.....+++..++||+++-
T Consensus 32 ~a~ng~~a~~~~~~~~PDVi~ld~emp~-mdg---l~~l~~im~~~p~pVimvs 81 (350)
T COG2201 32 TARNGREAIDKVKKLKPDVITLDVEMPV-MDG---LEALRKIMRLRPLPVIMVS 81 (350)
T ss_pred ecCCHHHHHHHHHhcCCCEEEEeccccc-ccH---HHHHHHHhcCCCCcEEEEe
Confidence 3444556677888899999999975321 221 1255789999999999984
No 494
>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=32.07 E-value=1.9e+02 Score=20.55 Aligned_cols=69 Identities=7% Similarity=0.000 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEEecCChh--hHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCCCcEEEE
Q 031713 75 ALLGRAKEICAKHGVVAETMTEMGDPK--NVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVV 149 (154)
Q Consensus 75 ~~l~~~~~~~~~~~~~~~~~v~~g~~~--~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv 149 (154)
...+.+.+.+++.|..+...-..++.. ..+++.....++|-||+........ .+... .+...++||+++
T Consensus 15 ~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~-----~~~l~-~~~~~~iPvV~~ 85 (302)
T TIGR02634 15 KDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIARGVDVLVIIPQNGQVL-----SNAVQ-EAKDEGIKVVAY 85 (302)
T ss_pred HHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhHH-----HHHHH-HHHHCCCeEEEe
Confidence 344455666666676654432223433 3455666667888888865321111 11222 234566788776
No 495
>PRK06354 pyruvate kinase; Provisional
Probab=32.07 E-value=1.3e+02 Score=24.32 Aligned_cols=44 Identities=11% Similarity=0.160 Sum_probs=32.3
Q ss_pred hhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 100 PKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 100 ~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
.+....+.|...++++||+-++ .|.++..+.+.-| |||+.+-+.
T Consensus 365 ia~aa~~~a~~~~a~~Iv~~T~---------sG~ta~~vsk~Rp~~pI~a~t~~ 409 (590)
T PRK06354 365 ISQAVSHIALQLDAAAIVTLTK---------SGATARNVSKYRPKTPILAVTPN 409 (590)
T ss_pred HHHHHHHHHhhcCCCEEEEECC---------ChHHHHHHHhhCCCCCEEEECCC
Confidence 4455556788899999999765 2567777777655 999988654
No 496
>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=32.02 E-value=1.9e+02 Score=20.70 Aligned_cols=74 Identities=14% Similarity=0.156 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHhcCCe------EEEEEecCC--hhhHHHH----HHHhcCCCEEEEecCCCCCcccccccchhHH
Q 031713 70 KKAALALLGRAKEICAKHGVV------AETMTEMGD--PKNVICE----AAEKHKIQLLIVGSHSRGPIQRAFLGSVSNY 137 (154)
Q Consensus 70 ~~~~~~~l~~~~~~~~~~~~~------~~~~v~~g~--~~~~i~~----~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~ 137 (154)
+++++++++++.+.+.+.+.- ..+.+ .++ ..+.+.+ .....++|.| +|...++ +. .+..
T Consensus 75 ~~~~~~~~~~l~~~l~~~~rilpgg~~~~s~l-l~~P~~l~~ig~~la~~~~~~~iD~V-vgvetkG----Ip---LA~a 145 (268)
T TIGR01743 75 QAEAEEFVEELCQSLSEPERILPGGYLYLTDI-LGKPSILSKIGKILASVFAEREIDAV-MTVATKG----IP---LAYA 145 (268)
T ss_pred HHHHHHHHHHHHHHHHHCCCcccCCeEEechh-hcCHHHHHHHHHHHHHHhcCCCCCEE-EEEccch----HH---HHHH
Confidence 445677778888877766432 11222 233 3444443 3334478854 4544332 12 4455
Q ss_pred HhhcCCCcEEEEcCC
Q 031713 138 CVHNAKCPVLVVRKP 152 (154)
Q Consensus 138 l~~~~~~pvliv~~~ 152 (154)
+....++|+.++++.
T Consensus 146 vA~~L~vp~vivRK~ 160 (268)
T TIGR01743 146 VASVLNVPLVIVRKD 160 (268)
T ss_pred HHHHHCCCEEEEEEC
Confidence 667788999999765
No 497
>cd08172 GlyDH-like1 Glycerol dehydrogenases-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=31.98 E-value=2.1e+02 Score=21.08 Aligned_cols=67 Identities=13% Similarity=0.076 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhcCCeEEEEEecC-C---hhhHHHHHHHhcCCCEEE-EecCCCCCcccccccchhHHHhhcCCCcEEEEc
Q 031713 76 LLGRAKEICAKHGVVAETMTEMG-D---PKNVICEAAEKHKIQLLI-VGSHSRGPIQRAFLGSVSNYCVHNAKCPVLVVR 150 (154)
Q Consensus 76 ~l~~~~~~~~~~~~~~~~~v~~g-~---~~~~i~~~a~~~~~dliv-lg~~~~~~~~~~~~gs~~~~l~~~~~~pvliv~ 150 (154)
..+++.+.++..++ ...+..| . ..+.+.+.+++.++|.|| +|-. +. ..++..+....+.|++.||
T Consensus 38 ~~~~l~~~L~~~~~--~~~~~~~~p~~~~v~~~~~~~~~~~~D~iIavGGG--s~------~D~aK~ia~~~~~p~i~VP 107 (347)
T cd08172 38 AKPYLPESLAAGEA--FVLRYDGECSEENIERLAAQAKENGADVIIGIGGG--KV------LDTAKAVADRLGVPVITVP 107 (347)
T ss_pred HHHHHHHHHhcCeE--EEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEeCCc--HH------HHHHHHHHHHhCCCEEEec
Confidence 34445554433343 3333333 2 344556667788999766 4421 11 1233333333368888888
Q ss_pred CC
Q 031713 151 KP 152 (154)
Q Consensus 151 ~~ 152 (154)
-.
T Consensus 108 TT 109 (347)
T cd08172 108 TL 109 (347)
T ss_pred Cc
Confidence 54
No 498
>COG2262 HflX GTPases [General function prediction only]
Probab=31.97 E-value=2.3e+02 Score=21.73 Aligned_cols=48 Identities=21% Similarity=0.236 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEE-----------ecC-ChhhHHHHHHHhcCCCEEEEecC
Q 031713 74 LALLGRAKEICAKHGVVAETMT-----------EMG-DPKNVICEAAEKHKIQLLIVGSH 121 (154)
Q Consensus 74 ~~~l~~~~~~~~~~~~~~~~~v-----------~~g-~~~~~i~~~a~~~~~dlivlg~~ 121 (154)
+..++++...++..|.++-..+ ..| .-.++|...+++.++|++|+...
T Consensus 19 ~~~leEl~~La~tag~~v~~~~~q~r~~pdp~~~iG~GK~eEi~~~v~~~~ad~VIf~~~ 78 (411)
T COG2262 19 EESLEELAELAETAGYEVVEVVTQKRERPDPKTYIGSGKLEEIAEAVEETGADLVIFDHE 78 (411)
T ss_pred hhhHHHHHHHHHHcCCeEeeeEEEeccCCCcceecCcchHHHHHHHHHhcCCCEEEECCc
Confidence 4556777777777777632221 224 25788999999999999999865
No 499
>PTZ00066 pyruvate kinase; Provisional
Probab=31.96 E-value=1.4e+02 Score=23.57 Aligned_cols=45 Identities=18% Similarity=0.306 Sum_probs=34.2
Q ss_pred ChhhHHHHHHHhcCCCEEEEecCCCCCcccccccchhHHHhhcCC-CcEEEEcCC
Q 031713 99 DPKNVICEAAEKHKIQLLIVGSHSRGPIQRAFLGSVSNYCVHNAK-CPVLVVRKP 152 (154)
Q Consensus 99 ~~~~~i~~~a~~~~~dlivlg~~~~~~~~~~~~gs~~~~l~~~~~-~pvliv~~~ 152 (154)
..+....+.|.+.++..||+-+.. |.++..+.+.-| |||+.+-+.
T Consensus 398 ~ia~aa~~~A~~l~a~aIv~~T~S---------G~TAr~iSk~RP~~pIia~t~~ 443 (513)
T PTZ00066 398 AVARSAVETAEDINAKLIIALTET---------GNTARLISKYRPSCTILALSAS 443 (513)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCC---------cHHHHHHHhhCCCCCEEEECCC
Confidence 366677788899999999988752 557777777655 999988654
No 500
>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=31.95 E-value=1.4e+02 Score=19.07 Aligned_cols=82 Identities=7% Similarity=0.012 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEecC--ChhhHHHHHHHhcCCCEEEEecCC-CCCcccccccchhHHHhhcCCCcEE
Q 031713 71 KAALALLGRAKEICAKHGVVAETMTEMG--DPKNVICEAAEKHKIQLLIVGSHS-RGPIQRAFLGSVSNYCVHNAKCPVL 147 (154)
Q Consensus 71 ~~~~~~l~~~~~~~~~~~~~~~~~v~~g--~~~~~i~~~a~~~~~dlivlg~~~-~~~~~~~~~gs~~~~l~~~~~~pvl 147 (154)
+...+.++...+..+..|.++...+.-+ ...+.+.+.....++|-++.-... .....-.-+.....++++..+..++
T Consensus 15 ~~~~e~l~~A~~La~~~g~~v~av~~G~~~~~~~~l~~~l~~~G~d~v~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lV 94 (164)
T PF01012_consen 15 PVSLEALEAARRLAEALGGEVTAVVLGPAEEAAEALRKALAKYGADKVYHIDDPALAEYDPEAYADALAELIKEEGPDLV 94 (164)
T ss_dssp HHHHHHHHHHHHHHHCTTSEEEEEEEETCCCHHHHHHHHHHSTTESEEEEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEE
T ss_pred HHHHHHHHHHHHHHhhcCCeEEEEEEecchhhHHHHhhhhhhcCCcEEEEecCccccccCHHHHHHHHHHHHHhcCCCEE
Confidence 3445677777777777777776655443 345566666666899877775543 2212222344566677887777788
Q ss_pred EEcCC
Q 031713 148 VVRKP 152 (154)
Q Consensus 148 iv~~~ 152 (154)
+++..
T Consensus 95 l~~~t 99 (164)
T PF01012_consen 95 LFGST 99 (164)
T ss_dssp EEESS
T ss_pred EEcCc
Confidence 87754
Done!